diff --git a/FGM/Forschungsgruppenmodul_Adrien_Klose_akxeq_218236035.pdf b/FGM/Forschungsgruppenmodul_Adrien_Klose_akxeq_218236035.pdf
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diff --git a/FGM/fgm_pres.pdf b/FGM/fgm_pres.pdf
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index 0000000000000000000000000000000000000000..61554e27df665e1e76451575105e0aca19231291
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diff --git a/ideas_practice/code/.~lock.bioasq_yesno_handpicked.csv# b/ideas_practice/code/.~lock.bioasq_yesno_handpicked.csv#
new file mode 100644
index 0000000000000000000000000000000000000000..a4ebf32385e76ee94d94c20b32d95279d44aa084
--- /dev/null
+++ b/ideas_practice/code/.~lock.bioasq_yesno_handpicked.csv#
@@ -0,0 +1 @@
+,ikene,ikene-ASUS-TUF-Gaming-F15-FX506HEB-FX506HEB,16.10.2024 21:50,file:///home/ikene/.config/libreoffice/4;
\ No newline at end of file
diff --git a/ideas_practice/code/fgm_pipeline_redone.ipynb b/ideas_practice/code/fgm_pipeline_redone.ipynb
new file mode 100644
index 0000000000000000000000000000000000000000..0c8a098dc937de5b2e4b9a3d2f47d2d64bca3e92
--- /dev/null
+++ b/ideas_practice/code/fgm_pipeline_redone.ipynb
@@ -0,0 +1,8520 @@
+{
+ "cells": [
+ {
+ "cell_type": "code",
+ "execution_count": 1,
+ "id": "176d4462-2abb-4eeb-b566-68ec006f8c79",
+ "metadata": {},
+ "outputs": [
+ {
+ "name": "stderr",
+ "output_type": "stream",
+ "text": [
+ "/home/ikene/.local/lib/python3.10/site-packages/tqdm/auto.py:21: TqdmWarning: IProgress not found. Please update jupyter and ipywidgets. See https://ipywidgets.readthedocs.io/en/stable/user_install.html\n",
+ " from .autonotebook import tqdm as notebook_tqdm\n",
+ "2024-10-20 11:19:05.171057: I tensorflow/core/util/port.cc:113] oneDNN custom operations are on. You may see slightly different numerical results due to floating-point round-off errors from different computation orders. To turn them off, set the environment variable `TF_ENABLE_ONEDNN_OPTS=0`.\n",
+ "2024-10-20 11:19:05.359902: I tensorflow/core/platform/cpu_feature_guard.cc:210] This TensorFlow binary is optimized to use available CPU instructions in performance-critical operations.\n",
+ "To enable the following instructions: AVX2 AVX512F AVX512_VNNI FMA, in other operations, rebuild TensorFlow with the appropriate compiler flags.\n",
+ "2024-10-20 11:19:06.134417: W tensorflow/compiler/tf2tensorrt/utils/py_utils.cc:38] TF-TRT Warning: Could not find TensorRT\n"
+ ]
+ }
+ ],
+ "source": [
+ "# all the imports in one\n",
+ "import csv\n",
+ "import scispacy\n",
+ "import spacy\n",
+ "import sqlite3\n",
+ "import json\n",
+ "import copy\n",
+ "import random\n",
+ "from openai import OpenAI\n",
+ "import os\n",
+ "import dotenv\n",
+ "from groq import Groq\n",
+ "from transformers import AutoTokenizer\n",
+ "import time\n",
+ "import datetime\n",
+ "import instructor\n",
+ "from pydantic import BaseModel\n",
+ "from typing import List, Literal\n",
+ "import mysql.connector\n",
+ "from sentence_transformers import SentenceTransformer\n",
+ "from sklearn.metrics.pairwise import cosine_similarity"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 2,
+ "id": "7785e419-b38c-40a0-86b6-c7c52bb236a8",
+ "metadata": {},
+ "outputs": [],
+ "source": [
+ "# create connection to UMLS2024AA\n",
+ "mydb = mysql.connector.connect(\n",
+ " host=\"localhost\",\n",
+ " user=\"ikene\",\n",
+ " password=\"12345\",\n",
+ " database=\"umls2024aa\"\n",
+ ")\n",
+ "mycursor = mydb.cursor()"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": null,
+ "id": "ec44f7b2-c80a-43d8-8c5d-e44e728e88cb",
+ "metadata": {},
+ "outputs": [],
+ "source": [
+ "# load previous result for the entity extraction\n",
+ "final_questions =[]\n",
+ "with open('../data/ques_enti_cuis_100each.json', 'r') as fin:\n",
+ " final_questions = json.load(fin)"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 30,
+ "id": "1d32e96c-7229-4909-8631-515a71428367",
+ "metadata": {},
+ "outputs": [
+ {
+ "name": "stdout",
+ "output_type": "stream",
+ "text": [
+ "Finished 0 questions.\n",
+ "Finished 10 questions.\n",
+ "Finished 20 questions.\n",
+ "Finished 30 questions.\n",
+ "Finished 40 questions.\n",
+ "Finished 50 questions.\n",
+ "Finished 60 questions.\n",
+ "Finished 70 questions.\n",
+ "Finished 80 questions.\n",
+ "Finished 90 questions.\n",
+ "Finished 100 questions.\n",
+ "Finished 110 questions.\n",
+ "Finished 120 questions.\n",
+ "Finished 130 questions.\n",
+ "Finished 140 questions.\n",
+ "Finished 150 questions.\n",
+ "Finished 160 questions.\n",
+ "Finished 170 questions.\n",
+ "Finished 180 questions.\n",
+ "Finished 190 questions.\n"
+ ]
+ }
+ ],
+ "source": [
+ "# find the cui to the entity; have to update due to new dataset with possibly new CUIs\n",
+ "for index,question in enumerate(final_questions):\n",
+ " question[\"cuis\"] = set()\n",
+ " #create the query for each query, since looking through takes longest \n",
+ " sqlquery = \"select distinct CUI from MRCONSO where 0\"\n",
+ " for entity in question[\"entities\"]:\n",
+ " sqlquery = sqlquery + \" or lower(STR)=lower('{}')\".format(str(entity))\n",
+ " #execute query\n",
+ " mycursor.execute(sqlquery)\n",
+ " rows = mycursor.fetchall()\n",
+ " if rows == []:\n",
+ " print(\"Unexpectedly didnt find a CUI for a question.\")\n",
+ " continue\n",
+ " for row in rows:\n",
+ " question[\"cuis\"].add(row[0]) # idk where the second element comes from, probably a sql thing\n",
+ " if index % 10 == 0:\n",
+ " print(f\"Finished {index} questions.\")"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 33,
+ "id": "64ca0762-8146-48a7-980a-7c096b738bd2",
+ "metadata": {},
+ "outputs": [
+ {
+ "name": "stdout",
+ "output_type": "stream",
+ "text": [
+ "['C1548578', 'C0442805', 'C0453996', 'C0017636', 'C1621958', 'C0035647', 'C0037369']\n",
+ "['C0318798', 'C0206539', 'C0086418']\n",
+ "['C0274281', 'C1140091', 'C0332239', 'C1866503', 'C1547295', 'C2681903', 'C0728853', 'C0001861', 'C1547229', 'C3536832', 'C3898900', 'C0332157', 'C0205178']\n",
+ "['C0036396', 'C0657912', 'C1280519', 'C1831458', 'C1704419']\n",
+ "['C3538902', 'C1442161', 'C1511760', 'C1880274', 'C1292286', 'C0011848', 'C1420193']\n",
+ "['C1280519', 'C0017636', 'C1621958', 'C1704419', 'C4053698']\n",
+ "['C0033325', 'C1138235', 'C3854082']\n",
+ "['C0872252', 'C0149575', 'C0018790']\n",
+ "['C0038454', 'C1258935']\n",
+ "['C0205251', 'C1611820', 'C1948062', 'C4522223', 'C0333668', 'C1619811', 'C4048187', 'C1550472', 'C5203106', 'C1883725']\n",
+ "['C0030705', 'C3887704', 'C0087111', 'C2987430', 'C1705169', 'C0017636', 'C1621958', 'C1522326', 'C0039798', 'C1533734']\n",
+ "['C0538927', 'C1280519', 'C1704419']\n",
+ "['C1655731', 'C0012854']\n",
+ "['C1173919', 'C1706224', 'C1420138', 'C0013963', 'C1837820', 'C3812262', 'C1367389', 'C1523298', 'C1567665', 'C3811688']\n",
+ "['C0032343', 'C0032344', 'C0549206', 'C0006057', 'C0043210', 'C0015965', 'C4281745']\n",
+ "['C0439825', 'C0234512']\n",
+ "['C4519222', 'C0011581', 'C0011570', 'C0344315', 'C1280519', 'C4085311', 'C0812393', 'C1704419']\n",
+ "['C1444754', 'C0085187', 'C0449770', 'C0444706']\n",
+ "['C2700217', 'C0205245', 'C5574965', 'C5780769', 'C1537048', 'C1412372', 'C0542341']\n",
+ "['C0439095', 'C0017337', 'C5400714', 'C0332281', 'C1511760', 'C0919279', 'C2350010', 'C0026882', 'C0005283', 'C1880274', 'C1442161', 'C1705285', 'C5849123']\n",
+ "['C1280519', 'C1704419', 'C0242422', 'C5418330']\n",
+ "['C0073432']\n",
+ "['C1446409', 'C4727483', 'C1704735', 'C1514241', 'C2699078', 'C0439662', 'C0220905', 'C3812269', 'C2825490']\n",
+ "['C0013138', 'C4082312', 'C0333668', 'C0057150', 'C1504613', 'C4554050', 'C0280090']\n",
+ "['C1521746', 'C0033684']\n",
+ "['C1167622', 'C1145667', 'C2980061']\n",
+ "['C0484930', 'C0060926', 'C1555457', 'C1280519', 'C0205191', 'C1547296', 'C1704419']\n",
+ "['C0030705', 'C0030274', 'C1700874', 'C0030292', 'C0038952', 'C0220921']\n",
+ "['C1510439', 'C0009054', 'C0004611', 'C1522384', 'C1708235']\n",
+ "['C2939425', 'C1825598', 'C0032961', 'C4049986', 'C0726639', 'C0678723', 'C1527148', 'C0021289', 'C0243107']\n",
+ "['C0025646', 'C0033684']\n",
+ "['C0030705', 'C3887704', 'C0087111', 'C2698328', 'C1280519', 'C1705169', 'C1522326', 'C0039798', 'C1533734', 'C1704419']\n",
+ "['C0030705', 'C1327830', 'C0017636', 'C1621958', 'C0038952', 'C0220921']\n",
+ "['C2347080', 'C0040165', 'C2347023', 'C0025598', 'C2825050', 'C0000854']\n",
+ "['C1609165']\n",
+ "['C0033382']\n",
+ "['C1456335', 'C1422163', 'C1137457', 'C1947962', 'C0027581']\n",
+ "['C1881707', 'C0035541', 'C0035542', 'C0014241', 'C0231204', 'C0243125', 'C0699900', 'C0220898', 'C0073432']\n",
+ "['C4266527', 'C0199176', 'C2700409', 'C0074302', 'C0033572', 'C0521939', 'C0036581']\n",
+ "['C1547225', 'C2945599', 'C1563320', 'C0026187']\n",
+ "['C1280519', 'C3853822', 'C0017636', 'C1621958', 'C1704419']\n",
+ "['C1705610', 'C0014819', 'C0108801', 'C1420708']\n",
+ "['C4696049', 'C2698764']\n",
+ "['C3887704', 'C0087111', 'C1280519', 'C2713560', 'C1705169', 'C1522326', 'C0039798', 'C1533734', 'C1704419']\n",
+ "['C4049926', 'C1414207', 'C1416378', 'C1260956', 'C0041014']\n",
+ "['C0521346', 'C5442009', 'C0231832', 'C1314992', 'C0021403', 'C1546767', 'C5203670', 'C0021400']\n",
+ "['C1533734', 'C3887704', 'C0087111', 'C1280519', 'C1704419', 'C0001675', 'C1706450', 'C1705169', 'C1522326', 'C0039798', 'C0038454', 'C0870134']\n",
+ "['C3854082', 'C0332281', 'C0030705', 'C0033325', 'C4699378', 'C1514559']\n",
+ "['C5200928', 'C5202936', 'C1561957', 'C1299351', 'C3887512', 'C1522326', 'C4522209', 'C1292734', 'C1414273', 'C0205250', 'C0968242', 'C1561958', 'C0360714']\n",
+ "['C2742797', 'C3887704', 'C0006141', 'C0302350', 'C0087111', 'C1547427', 'C0006147', 'C0333348', 'C0723712', 'C1705169', 'C1522326', 'C0039798', 'C1533734', 'C0028678', 'C0028677']\n",
+ "['C1522326', 'C3887704', 'C0087111', 'C0245179', 'C1705169', 'C0475224', 'C0039798', 'C1533734']\n",
+ "['C1280519', 'C0338344', 'C1704419']\n",
+ "['C0003732', 'C0012854']\n",
+ "['C1705313', 'C1510458', 'C0018019']\n",
+ "['C1315013', 'C3245479', 'C3714741', 'C0205421', 'C0027361', 'C0035647', 'C1511726', 'C0205210', 'C0071097']\n",
+ "['C0205217', 'C1704735', 'C0442805', 'C0871208', 'C0220905', 'C0086418', 'C0034865', 'C5236002', 'C1521828', 'C1549480']\n",
+ "['C0907709', 'C3244310', 'C1701901', 'C0851827']\n",
+ "['C0006141', 'C0242781', 'C1521797', 'C5203676', 'C0332289']\n",
+ "['C0027651', 'C1578706', 'C1609165', 'C3273930']\n",
+ "['C1332830', 'C0004147', 'C0057223', 'C3887685', 'C1524026']\n",
+ "['C1414905', 'C1710252', 'C4519135', 'C1417701', 'C1709127', 'C2954564', 'C1565078']\n",
+ "['C2987634', 'C1152393', 'C2606556', 'C1418398']\n",
+ "['C2933874', 'C0037354', 'C0037356', 'C0020964', 'C0037355', 'C5234945']\n",
+ "['C2752508']\n",
+ "['C4266527', 'C0033572']\n",
+ "['C0041037', 'C0522523', 'C1522243', 'C1522564']\n",
+ "['C0015392', 'C0029144', 'C1366564', 'C0376541', 'C1280519', 'C0357126', 'C0014822', 'C1755594', 'C1704419', 'C2976467']\n",
+ "['C0205183', 'C0002448', 'C1549495', 'C2003901', 'C0003241']\n",
+ "['C0243041', 'C0019652', 'C5785394', 'C1291847']\n",
+ "['C0030705', 'C0038454', 'C0907380']\n",
+ "['C0314603', 'C1300203', 'C2828361', 'C1512020', 'C4761597', 'C0086418', 'C1825087', 'C1292294']\n",
+ "['C1718621', 'C0038435', 'C0723460']\n",
+ "['C0002598', 'C0003195', 'C0456387', 'C1705943', 'C0489477', 'C1547013', 'C3537142']\n",
+ "['C0675907', 'C0019682', 'C0199176', 'C2700409', 'C0019693', 'C1280519', 'C0086413', 'C1704419']\n",
+ "['C4547456', 'C1879547', 'C3853838', 'C1515877']\n",
+ "['C0006826', 'C1547140', 'C2707253', 'C0596142', 'C1420713', 'C0998265', 'C0439660', 'C4761672', 'C0521114', 'C0007294', 'C0522498']\n",
+ "['C0332183', 'C1646181', 'C1548221', 'C1546781', 'C1123023', 'C0205409', 'C0010415', 'C0444099', 'C4520765', 'C0085393']\n",
+ "['C0332597', 'C0205122']\n",
+ "['C1825702', 'C2700399']\n",
+ "['C0449719', 'C0031525', 'C1293131', 'C0332466']\n",
+ "['C0596263', 'C2828242', 'C0007621', 'C1875701', 'C0033414']\n",
+ "['C1136359', 'C0007634', 'C1442459', 'C1413337', 'C1704653', 'C1413336', 'C0017428', 'C1948049', 'C2338314']\n",
+ "['C1412268', 'C0205087']\n",
+ "['C0017262', 'C5444885', 'C1171362', 'C0033603', 'C1515670']\n",
+ "['C1280519', 'C1704419', 'C0242422', 'C5139914']\n",
+ "['C0025914', 'C1420418', 'C1455722', 'C1566703', 'C1708726', 'C0025929', 'C0026809']\n",
+ "['C1412268', 'C0205087']\n",
+ "['C3541959', 'C0017337', 'C1416572', 'C1521746', 'C3714642', 'C0037473', 'C0337443', 'C0033684', 'C5849123']\n",
+ "['C0078839', 'C0003232']\n",
+ "['C0442805', 'C0314603']\n",
+ "['C0008976', 'C1512888', 'C1533734', 'C1547295', 'C3887704', 'C1547229', 'C0087111', 'C1280519', 'C0010725', 'C1705169', 'C1522326', 'C0039798', 'C0038454', 'C0205178']\n",
+ "['C0032952', 'C0441987', 'C0057258']\n",
+ "['C1547231', 'C1547227', 'C1561581', 'C0442805', 'C0205082', 'C0243077', 'C0003018', 'C0033204', 'C5203119', 'C5203670', 'C4521302']\n",
+ "['C1706817', 'C0030705', 'C1704632', 'C2930789', 'C0005682', 'C2911692', 'C0871261']\n",
+ "['C4764258']\n",
+ "['C0917801', 'C1701455', 'C3887704', 'C0087111', 'C1705169', 'C1522326', 'C0039798', 'C1533734']\n",
+ "['C0003295', 'C2348066']\n",
+ "['C0008633', 'C0017337', 'C0332281', 'C4722015', 'C1704519', 'C1826843', 'C5849123']\n",
+ "['C0001483']\n",
+ "['C1711351', 'C0598463', 'C1705273', 'C0542341', 'C0027303', 'C0031843', 'C0599220']\n",
+ "['C0205217', 'C0025286', 'C0442805', 'C0035647', 'C5236002']\n",
+ "['C0804628', 'C0019564', 'C0949582', 'C0025914', 'C1418662', 'C3887642', 'C0009253', 'C1455722', 'C3178810', 'C1522384', 'C0025929', 'C0036864', 'C0026809', 'C0079399']\n",
+ "['C0033684']\n",
+ "['C0947912', 'C2911643', 'C0029456', 'C0332281']\n",
+ "['C1704892', 'C0853073', 'C0013595', 'C1363945', 'C3887704', 'C0087111', 'C1705169', 'C1522326', 'C0039798', 'C1533734']\n",
+ "['C0439634', 'C1522492', 'C0220781', 'C5197762', 'C1511790']\n",
+ "['C1522449', 'C0560559', 'C0205263', 'C0085203', 'C1524021', 'C0025286', 'C0034519', 'C1522326', 'C1524020', 'C0851346']\n",
+ "['C0389252', 'C0017337', 'C0694890', 'C0543431', 'C1704885', 'C0813143', 'C5849123']\n",
+ "['C0220825', 'C0205210', 'C4508906', 'C1315013']\n",
+ "['C1513143', 'C1431322', 'C0074299', 'C1334531']\n",
+ "['C0178719', 'C4477028', 'C0175996', 'C0002794']\n",
+ "['C2346845', 'C0205540', 'C0031268', 'C0335343']\n",
+ "['C0205280', 'C0041427']\n",
+ "['C1529564', 'C1865068', 'C1419771', 'C1521840']\n",
+ "['C1551338']\n",
+ "['C0220901', 'C1705601', 'C0022646', 'C0365197', 'C0030705', 'C1235740', 'C1335834', 'C1442882', 'C2936843', 'C0041014', 'C0475374']\n",
+ "['C0185125', 'C0162648', 'C1555457', 'C0205191', 'C1547296']\n",
+ "['C0033666', 'C0596043']\n",
+ "['C0006104', 'C1101610', 'C4266577']\n",
+ "['C0020053', 'C1830413', 'C0056912', 'C1548220']\n",
+ "['C0056912', 'C0017428', 'C1567995', 'C0032098']\n",
+ "['C5781115', 'C2980074', 'C0040134', 'C3540038', 'C1280519', 'C0040132', 'C1704419']\n",
+ "['C1280519', 'C0040845', 'C1704419', 'C0263415']\n",
+ "['C0323350', 'C0017428', 'C2338314']\n",
+ "['C2827401', 'C0521097']\n",
+ "['C0205217', 'C5236002', 'C0025286', 'C0206194', 'C0442805', 'C0035647', 'C0231335']\n",
+ "['C0349506', 'C0013090']\n",
+ "['C0031809', 'C0332281', 'C1509143', 'C0023980', 'C0205485']\n",
+ "['C1332105', 'C0597767']\n",
+ "['C0293227', 'C0030956']\n",
+ "['C0262201', 'C0332281', 'C0239971', 'C5552667', 'C0439122', 'C3890197']\n",
+ "['C0012086', 'C1280519', 'C0332182', 'C1704419', 'C0522224']\n",
+ "['C0039593', 'C3887704', 'C0087111', 'C0205219', 'C1705169', 'C1522326', 'C0039798', 'C0392366', 'C1533734', 'C4721942']\n",
+ "['C0028066']\n",
+ "['C4266577', 'C2828361', 'C1512020', 'C0006104', 'C4761597', 'C1825087', 'C1292294']\n",
+ "['C0185125', 'C0887950', 'C0205125', 'C4318566']\n",
+ "['C0001299', 'C0521329', 'C0394664']\n",
+ "['C0332281', 'C1836110', 'C0014442', 'C5399708', 'C0012634']\n",
+ "['C0034802', 'C1150617', 'C0175630', 'C1414313', 'C0026882', 'C1739039', 'C1368111', 'C0596611', 'C1511790']\n",
+ "['C0332281', 'C0030705', 'C1511760', 'C1880274', 'C1442161', 'C0038952', 'C0220921']\n",
+ "['C0036690', 'C1090821', 'C0243026']\n",
+ "['C3887704', 'C0205225', 'C0087111', 'C1705169', 'C1522326', 'C0039798', 'C1533734']\n",
+ "['C0016055', 'C1550100', 'C1546774', 'C0229671', 'C1570610', 'C5575602', 'C0364415']\n",
+ "['C0001613', 'C0011581', 'C0011570', 'C0344315', 'C1823520', 'C4085311', 'C0022655', 'C0812393', 'C0475224', 'C0007776']\n",
+ "['C1718621', 'C1825325', 'C0038435', 'C0723460']\n",
+ "['C1418768', 'C1420322', 'C0069304', 'C1568630']\n",
+ "['C0332281', 'C0027530', 'C0033684', 'C0205064', 'C1521746']\n",
+ "['C0907709', 'C0439677']\n",
+ "['C0006675', 'C0006826', 'C0050385', 'C1706373', 'C0070876', 'C2314861', 'C0006754', 'C0001473', 'C1418650']\n",
+ "['C0008555', 'C0205251', 'C5202936', 'C1550472', 'C3537453', 'C5200928', 'C4522209', 'C4048187', 'C0035668', 'C1704663', 'C4281799', 'C1611820', 'C0012854', 'C1561957', 'C1299351', 'C4522223', 'C1561958', 'C1367452', 'C3887512', 'C1619811', 'C5203106', 'C0205250']\n",
+ "['C0054015', 'C1114721', 'C3714533', 'C0442805', 'C2982014', 'C1417808', 'C0238703', 'C5442037']\n",
+ "['C0017428', 'C0024660']\n",
+ "['C1280519', 'C4044947', 'C0002170', 'C1704419']\n",
+ "['C5399710', 'C0042210', 'C0035869', 'C0035870', 'C3536964']\n",
+ "['C0002792', 'C5445960', 'C0752270', 'C1095869', 'C4316895', 'C0442805', 'C0035647', 'C1017603']\n",
+ "['C1522601', 'C1314974', 'C0073096', 'C0018787']\n",
+ "['C0699819', 'C0021853', 'C0017189', 'C0004651']\n",
+ "['C1513183', 'C2699153', 'C4255448', 'C1269955', 'C0027627']\n",
+ "['C0006826', 'C1547140', 'C2707253', 'C3659783', 'C0998265']\n",
+ "['C5781115', 'C0040134', 'C0018787', 'C3540038', 'C1314974', 'C1522601', 'C0040132', 'C0001721']\n",
+ "['C0577749', 'C0010467']\n",
+ "['C2347080', 'C0033727', 'C0040165', 'C2347023', 'C2825050', 'C0000854']\n",
+ "['C1136359', 'C0026237', 'C0007634', 'C1704653', 'C1413337', 'C1413336', 'C1948049']\n",
+ "['C0263630', 'C0333959', 'C0014806', 'C0020564', 'C0801912', 'C0442805', 'C0035647']\n",
+ "['C1426344', 'C0285890', 'C0031715', 'C1158886', 'C0599851', 'C1420276', 'C1311196', 'C0027769']\n",
+ "['C0021359', 'C4074771', 'C1521970']\n",
+ "['C0332281']\n",
+ "['C4082312', 'C0057150', 'C0332453', 'C0012634', 'C0280090']\n",
+ "['C0034865', 'C0243067', 'C0596263']\n",
+ "['C0027651', 'C1578706', 'C0010803', 'C3273930']\n",
+ "['C1426859', 'C1547965', 'C0017262', 'C1550680', 'C5444885', 'C1171362', 'C0043250', 'C1549529', 'C3263723', 'C1515670']\n",
+ "['C1879547', 'C0768857', 'C1826448', 'C0021368']\n",
+ "['C1705316', 'C0699792', 'C1367342', 'C0439849', 'C0030705', 'C0004083', 'C0754515', 'C0086860', 'C0017636', 'C1621958', 'C1704770', 'C1704771', 'C0596306', 'C0038952', 'C0220921']\n",
+ "['C1419822', 'C1514714', 'C2699550', 'C1419248', 'C0085218']\n",
+ "['C0018787', 'C0332281', 'C0037384', 'C1314974', 'C1522601', 'C0037313']\n",
+ "['C2987151', 'C0012854']\n",
+ "['C0796561', 'C1259929', 'C0025202', 'C0812241']\n",
+ "['C0006826', 'C1547140', 'C0001554', 'C0015672', 'C0030705', 'C2707253', 'C0998265', 'C3540791', 'C1533734', 'C0040160', 'C1535531']\n",
+ "['C0733470', 'C0971207', 'C0205263', 'C3652465', 'C1336639', 'C0021747', 'C0205250', 'C0857127', 'C0086582', 'C1705008']\n",
+ "['C0522512', 'C4724253', 'C1552078', 'C0086860', 'C0032659', 'C0332479', 'C0348078', 'C1547043']\n",
+ "['C0012854', 'C1426670']\n",
+ "['C1706817', 'C0392920', 'C0013216', 'C1704632', 'C3665472', 'C0871261', 'C0013217', 'C2911692', 'C1327616', 'C4554416']\n",
+ "['C0026046']\n",
+ "['C0591467', 'C1446561', 'C0001554', 'C1521746', 'C0442805', 'C0086045', 'C1533734', 'C0033684']\n",
+ "['C1280519', 'C2744440', 'C0205065', 'C1704419']\n",
+ "['C0334607', 'C0025286']\n",
+ "['C1522447', 'C0221912', 'C3887704', 'C0087111', 'C1705169', 'C2987603', 'C1522326', 'C0039798', 'C1533734']\n",
+ "['C0205263']\n",
+ "['C0205166', 'C3714533', 'C1706317', 'C5201090', 'C0238703']\n",
+ "['C1280519', 'C4726721', 'C0006141', 'C1704419']\n",
+ "['C0001811', 'C0035417', 'C2348382', 'C1280500']\n",
+ "['C1330957', 'C1144026', 'C0010813', 'C1414333']\n",
+ "['C3273507', 'C1705467', 'C0254121', 'C1825534', 'C5197349', 'C3541334', 'C0085114', 'C1447765', 'C0254123', 'C1420783', 'C1333352', 'C0033684']\n",
+ "['C0042567', 'C0011198', 'C3887511', 'C2984892', 'C4255166', 'C1414672', 'C4761468']\n",
+ "['C0870809', 'C0036024', 'C1136177', 'C0023980', 'C0442805', 'C1155616', 'C4699378', 'C1514559']\n",
+ "['C1291847', 'C1378566', 'C1550141', 'C1882979', 'C3274648', 'C0009932', 'C2587213', 'C0019652', 'C0243077', 'C0308718', 'C0243148', 'C0205208', 'C1547100']\n",
+ "['C0442726', 'C0041621', 'C1414950', 'C2266618', 'C0017110', 'C1540252', 'C0596601', 'C3812826', 'C1704673', 'C1546643', 'C1315081', 'C1439341', 'C1456803', 'C1875843', 'C1550641', 'C0220934', 'C2986619', 'C1511790', 'C0041618']\n",
+ "['C1519595', 'C0936012', 'C1524024']\n",
+ "['C0030705', 'C1621958', 'C0017636', 'C0038952', 'C0220921']\n",
+ "['C0008059', 'C0680063', 'C0876134']\n"
+ ]
+ }
+ ],
+ "source": [
+ "# check for empty cui\n",
+ "for question in final_questions:\n",
+ " question[\"cuis\"] = list(question[\"cuis\"]) \n",
+ " print(question[\"cuis\"], end='\\n')"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 35,
+ "id": "b878d576-f3f1-4f6d-a581-d6e6bd705833",
+ "metadata": {},
+ "outputs": [],
+ "source": [
+ "with open('../data/ques_enti_cuis_100each_redone.json', 'w') as fout:\n",
+ " json.dump(final_questions, fout)"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 3,
+ "id": "44816586-e417-467f-a4b1-a7984d40c382",
+ "metadata": {},
+ "outputs": [],
+ "source": [
+ "# load previous results\n",
+ "final_questions =[]\n",
+ "with open('../data/ques_enti_cuis_100each_redone.json', 'r') as fin:\n",
+ " final_questions = json.load(fin)"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 4,
+ "id": "5c80e43c-b450-405b-aa3d-63e34023a66c",
+ "metadata": {},
+ "outputs": [
+ {
+ "name": "stdout",
+ "output_type": "stream",
+ "text": [
+ "Finished 0 questions:\n",
+ "Finished 10 questions:\n",
+ "Finished 20 questions:\n",
+ "Finished 30 questions:\n",
+ "Finished 40 questions:\n",
+ "Finished 50 questions:\n",
+ "Finished 60 questions:\n",
+ "Finished 70 questions:\n",
+ "Finished 80 questions:\n",
+ "Finished 90 questions:\n",
+ "Finished 100 questions:\n",
+ "Finished 110 questions:\n",
+ "Finished 120 questions:\n",
+ "Finished 130 questions:\n",
+ "Finished 140 questions:\n",
+ "Finished 150 questions:\n",
+ "Finished 160 questions:\n",
+ "Finished 170 questions:\n",
+ "Finished 180 questions:\n",
+ "Finished 190 questions:\n"
+ ]
+ }
+ ],
+ "source": [
+ "# prepare a dictionary to replace REL entries with more \"verbose\" descriptions\n",
+ "rel_dict = {\n",
+ " \"AQ\" : \"allowed qualifier\",\n",
+ " \"CHD\" : \"has child relationship in a Metathesaurus source vocabulary\",\n",
+ " \"DEL\" : \"deleted concept\",\n",
+ " \"PAR\" : \"has parent relationship in a Metathesaurus source vocabulary\",\n",
+ " \"QB\" : \"can be qualified by\",\n",
+ " \"RB\" : \"has a broader relationship\",\n",
+ " \"RL\" : \"is similar or alike\",\n",
+ " \"RN\" : \"has a narrower relationship\",\n",
+ " \"RO\" : \"has relationship other than synonymous, narrower, or broader\",\n",
+ " \"RQ\" : \"related and possibly synonymous\",\n",
+ " \"RU\" : \"unspecified related\",\n",
+ " \"SY\" : \"source asserted synonymy\",\n",
+ " \"XR\" : \"not related and no mapping\",\n",
+ " #\"\" : \"\", # python does not allow for empyt string as key\n",
+ "}\n",
+ "\n",
+ "for index, question in enumerate(final_questions):\n",
+ " question[\"triples\"] = []\n",
+ " for cui in question[\"cuis\"]:\n",
+ " sqlquery = \"select CUI1, AUI1, CUI2, AUI2, REL, RELA from MRREL where cui2='{}'\".format(cui)\n",
+ " mycursor.execute(sqlquery)\n",
+ " rel_rows = mycursor.fetchall()\n",
+ " \n",
+ " for rel_row in rel_rows:\n",
+ " s = \"\"\n",
+ " p = \"\"\n",
+ " o = \"\"\n",
+ " cui1 = rel_row[0]\n",
+ " aui1 = rel_row[1]\n",
+ " cui2 = rel_row[2]\n",
+ " aui2 = rel_row[3]\n",
+ " rel = rel_row[4]\n",
+ " rela = rel_row[5]\n",
+ " \n",
+ " # resolve s\n",
+ " if aui2 is None: ## means AUI2 does not exist\n",
+ " # select count(*) from mrconso A where not exists(select* from mrconso B where A.cui=B.cui and B.tty=\"PN\") 5990275 means PN not usable\n",
+ " # select count(*) from mrconso A where not exists(select* from mrconso B where A.cui=B.cui and B.ispref=\"Y\") 0 means ispref is usable\n",
+ " # another option is to use the string that was originaly used in the query and was found in the umls\n",
+ " mycursor.execute('select STR from MRCONSO where cui=\"{}\" and ispref=\"Y\" Limit 1'.format(cui2))\n",
+ " s_rows = mycursor.fetchall()\n",
+ " s = s_rows[0][0]\n",
+ " else: ##means AUI2 does exist\n",
+ " mycursor.execute('select STR from MRCONSO where aui=\"{}\"'.format(aui2))\n",
+ " s_rows = mycursor.fetchall()\n",
+ " s = s_rows[0][0]\n",
+ "\n",
+ " # resolve o, same logic as s\n",
+ " if aui1 is None: ## means AUI1 does not exist\n",
+ " mycursor.execute('select STR from MRCONSO where cui=\"{}\" and ispref=\"Y\" Limit 1'.format(cui1))\n",
+ " o_rows = mycursor.fetchall()\n",
+ " o = o_rows[0][0]\n",
+ " else: ##means AUI1 does exist\n",
+ " mycursor.execute('select STR from MRCONSO where aui=\"{}\"'.format(aui1))\n",
+ " o_rows = mycursor.fetchall()\n",
+ " o = o_rows[0][0]\n",
+ " \n",
+ " # resolve p\n",
+ " if rela is None: ## means the relation has no better specification\n",
+ " p = rel_dict[str(rel)]\n",
+ " else:\n",
+ " p = rela.replace(\"_\", \" \")\n",
+ " question[\"triples\"].append({\"s\":s, \"p\":p, \"o\":o})\n",
+ " if index % 10 == 0:\n",
+ " print(f\"Finished {index} questions:\")"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 5,
+ "id": "4a95abb6-ccb8-43bc-b9bb-e1aec1405515",
+ "metadata": {},
+ "outputs": [
+ {
+ "name": "stderr",
+ "output_type": "stream",
+ "text": [
+ "Some weights of the model checkpoint at dunzhang/stella_en_400M_v5 were not used when initializing NewModel: ['new.pooler.dense.bias', 'new.pooler.dense.weight']\n",
+ "- This IS expected if you are initializing NewModel from the checkpoint of a model trained on another task or with another architecture (e.g. initializing a BertForSequenceClassification model from a BertForPreTraining model).\n",
+ "- This IS NOT expected if you are initializing NewModel from the checkpoint of a model that you expect to be exactly identical (initializing a BertForSequenceClassification model from a BertForSequenceClassification model).\n"
+ ]
+ }
+ ],
+ "source": [
+ "model = SentenceTransformer(\"dunzhang/stella_en_400M_v5\", trust_remote_code=True).cuda()"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 6,
+ "id": "8cf1bfad-08e5-4e57-8794-7da399893d22",
+ "metadata": {},
+ "outputs": [
+ {
+ "name": "stdout",
+ "output_type": "stream",
+ "text": [
+ "tensor([[0.4064, 0.3864, 0.4694]])\n"
+ ]
+ }
+ ],
+ "source": [
+ "# example of how to use the encoder, the similarity used is cosinus similarity\n",
+ "query_prompt_name = \"s2s_query\"\n",
+ "queries = [\"What are some ways to reduce stress?\"]\n",
+ "docs = [\"stress is a symptom\", \"green gras counteracts stress\", \"sleep reduces the amount of stress\"]\n",
+ "\n",
+ "query_embeddings = model.encode(queries, prompt_name=query_prompt_name)\n",
+ "doc_embeddings = model.encode(docs)\n",
+ "similarities = model.similarity(query_embeddings, doc_embeddings)\n",
+ "print(similarities)"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 14,
+ "id": "b8183ab1-c3c0-4a2b-95e5-32f3bb6fac62",
+ "metadata": {},
+ "outputs": [
+ {
+ "name": "stdout",
+ "output_type": "stream",
+ "text": [
+ "Finished 0 questions.\n",
+ "Finished 1 questions.\n",
+ "Finished 2 questions.\n",
+ "Finished 3 questions.\n",
+ "Finished 4 questions.\n",
+ "Finished 5 questions.\n",
+ "Finished 6 questions.\n",
+ "Finished 7 questions.\n",
+ "Finished 8 questions.\n",
+ "Finished 9 questions.\n",
+ "Finished 10 questions.\n",
+ "Finished 11 questions.\n",
+ "Finished 12 questions.\n",
+ "Finished 13 questions.\n",
+ "Finished 14 questions.\n",
+ "Finished 15 questions.\n",
+ "Finished 16 questions.\n",
+ "Finished 17 questions.\n",
+ "Finished 18 questions.\n",
+ "Finished 19 questions.\n",
+ "Finished 20 questions.\n",
+ "Finished 21 questions.\n",
+ "Finished 22 questions.\n",
+ "Finished 23 questions.\n",
+ "Finished 24 questions.\n",
+ "Finished 25 questions.\n",
+ "Finished 26 questions.\n",
+ "Finished 27 questions.\n",
+ "Finished 28 questions.\n",
+ "Finished 29 questions.\n",
+ "Finished 30 questions.\n",
+ "Finished 31 questions.\n",
+ "Finished 32 questions.\n",
+ "Finished 33 questions.\n",
+ "Finished 34 questions.\n",
+ "Finished 35 questions.\n",
+ "Finished 36 questions.\n",
+ "Finished 37 questions.\n",
+ "Finished 38 questions.\n",
+ "Finished 39 questions.\n",
+ "Finished 40 questions.\n",
+ "Finished 41 questions.\n",
+ "Finished 42 questions.\n",
+ "Finished 43 questions.\n",
+ "Finished 44 questions.\n",
+ "Finished 45 questions.\n",
+ "Finished 46 questions.\n",
+ "Finished 47 questions.\n",
+ "Finished 48 questions.\n",
+ "Finished 49 questions.\n",
+ "Finished 50 questions.\n",
+ "Finished 51 questions.\n",
+ "Finished 52 questions.\n",
+ "Finished 53 questions.\n",
+ "Finished 54 questions.\n",
+ "Finished 55 questions.\n",
+ "Finished 56 questions.\n",
+ "Finished 57 questions.\n",
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+ "Finished 59 questions.\n",
+ "Finished 60 questions.\n",
+ "Finished 61 questions.\n",
+ "Finished 62 questions.\n",
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+ "Finished 65 questions.\n",
+ "Finished 66 questions.\n",
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+ "Finished 69 questions.\n",
+ "Finished 70 questions.\n",
+ "Finished 71 questions.\n",
+ "Finished 72 questions.\n",
+ "Finished 73 questions.\n",
+ "Finished 74 questions.\n",
+ "Finished 75 questions.\n",
+ "Finished 76 questions.\n",
+ "Finished 77 questions.\n",
+ "Finished 78 questions.\n",
+ "Finished 79 questions.\n",
+ "Finished 80 questions.\n",
+ "Finished 81 questions.\n",
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+ "Finished 84 questions.\n",
+ "Finished 85 questions.\n",
+ "Finished 86 questions.\n",
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+ "Finished 88 questions.\n",
+ "Finished 89 questions.\n",
+ "Finished 90 questions.\n",
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+ "Finished 92 questions.\n",
+ "Finished 93 questions.\n",
+ "Finished 94 questions.\n",
+ "Finished 95 questions.\n",
+ "Finished 96 questions.\n",
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+ "Finished 98 questions.\n",
+ "Finished 99 questions.\n",
+ "Finished 100 questions.\n",
+ "Finished 101 questions.\n",
+ "Finished 102 questions.\n",
+ "Finished 103 questions.\n",
+ "Finished 104 questions.\n",
+ "Finished 105 questions.\n",
+ "Finished 106 questions.\n",
+ "Finished 107 questions.\n",
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+ "Finished 110 questions.\n",
+ "Finished 111 questions.\n",
+ "Finished 112 questions.\n",
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+ "Finished 115 questions.\n",
+ "Finished 116 questions.\n",
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+ "Finished 118 questions.\n",
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+ "Finished 120 questions.\n",
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+ "Finished 122 questions.\n",
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+ "Finished 140 questions.\n",
+ "Finished 141 questions.\n",
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+ "Finished 143 questions.\n",
+ "Finished 144 questions.\n",
+ "Finished 145 questions.\n",
+ "Finished 146 questions.\n",
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+ "Finished 149 questions.\n",
+ "Finished 150 questions.\n",
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+ "Finished 152 questions.\n",
+ "Finished 153 questions.\n",
+ "Finished 154 questions.\n",
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+ "Finished 156 questions.\n",
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+ "Finished 160 questions.\n",
+ "Finished 161 questions.\n",
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+ "Finished 165 questions.\n",
+ "Finished 166 questions.\n",
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+ "Finished 169 questions.\n",
+ "Finished 170 questions.\n",
+ "Finished 171 questions.\n",
+ "Finished 172 questions.\n",
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+ "Finished 174 questions.\n",
+ "Finished 175 questions.\n",
+ "Finished 176 questions.\n",
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+ "Finished 179 questions.\n",
+ "Finished 180 questions.\n",
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+ "Finished 182 questions.\n",
+ "Finished 183 questions.\n",
+ "Finished 184 questions.\n",
+ "Finished 185 questions.\n",
+ "Finished 186 questions.\n",
+ "Finished 187 questions.\n",
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+ "Finished 189 questions.\n",
+ "Finished 190 questions.\n",
+ "Finished 191 questions.\n",
+ "Finished 192 questions.\n",
+ "Finished 193 questions.\n",
+ "Finished 194 questions.\n",
+ "Finished 195 questions.\n",
+ "Finished 196 questions.\n",
+ "Finished 197 questions.\n",
+ "Finished 198 questions.\n",
+ "Finished 199 questions.\n"
+ ]
+ }
+ ],
+ "source": [
+ "#compute and sort the triples by similarity to question and save it to file\n",
+ "for index,question in enumerate(final_questions):\n",
+ " q_embed = model.encode([question[\"question\"]], \"s2s_query\")\n",
+ " triples = []\n",
+ " for index2, triple in enumerate(question[\"triples\"]):\n",
+ " t_text = triple[\"s\"] + \" \" + triple[\"p\"] + \" \" + triple[\"o\"]\n",
+ " triples.append(t_text)\n",
+ " t_embed = model.encode(triples)\n",
+ " similarities = model.similarity(q_embed, t_embed)[0]\n",
+ " for index2, triple in enumerate(question[\"triples\"]):\n",
+ " final_questions[index][\"triples\"][index2][\"similarity\"] = similarities[index2]\n",
+ " final_questions[index][\"triples\"] = sorted(final_questions[index][\"triples\"], key=lambda d: d[\"similarity\"], reverse=True)\n",
+ " print(f\"Finished {index} questions.\")\n",
+ "#newlist = sorted(list_to_be_sorted, key=lambda d: d['name'])"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 15,
+ "id": "d714155f-d26f-4ab1-8fe9-0369ab369e22",
+ "metadata": {},
+ "outputs": [],
+ "source": [
+ "for i in range(0,len(final_questions)):\n",
+ " for j in range(0,len(final_questions[i][\"triples\"])):\n",
+ " final_questions[i][\"triples\"][j][\"similarity\"] = str(final_questions[i][\"triples\"][j][\"similarity\"])\n",
+ "with open('../data/100each_sorted_triples_redone.json', 'w') as fout:\n",
+ " json.dump(final_questions, fout)"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 3,
+ "id": "f85ad464-4661-4d25-8bc9-ad2cf61bca86",
+ "metadata": {},
+ "outputs": [],
+ "source": [
+ "# load previous results\n",
+ "final_questions =[]\n",
+ "with open('../data/100each_sorted_triples_redone.json', 'r') as fin:\n",
+ " final_questions = json.load(fin)"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 4,
+ "id": "2cc16d4c-e6fe-4428-b40c-cbc3599c1864",
+ "metadata": {},
+ "outputs": [],
+ "source": [
+ "# set up environment\n",
+ "from openai import OpenAI\n",
+ "import os\n",
+ "import dotenv\n",
+ "from groq import Groq\n",
+ "dotenv.load_dotenv()\n",
+ "client = Groq(api_key=os.environ.get(\"GROQ_API_KEY\"))\n",
+ "models = [{\"name\":\"llama3-8b-8192\", \"rpm\":\"30\", \"rpd\":\"14400\", \"tpm\":\"30000\"},\n",
+ " {\"name\":\"llama3-70b-8192\", \"rpm\":\"30\", \"rpd\":\"14400\", \"tpm\":\"6000\"}, \n",
+ " # {\"name\":\"mixtral-8x7b-32768\", \"rpm\":\"30\", \"rpd\":\"14400\", \"tpm\":\"5000\"}, ### has some problems with generating just yes or no as output when using function calling; removed after baseline is not too good\n",
+ " {\"name\":\"gemma-7b-it\", \"rpm\":\"30\", \"rpd\":\"14400\", \"tpm\":\"15000\"}, ### has some problems with generating just yes or no as output when using function calling\n",
+ " ]\n",
+ "# llama has context window of 8192 and mixtral 32768"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 6,
+ "id": "60353a04-9e60-4b11-90e0-c5e323d2369f",
+ "metadata": {},
+ "outputs": [
+ {
+ "name": "stdout",
+ "output_type": "stream",
+ "text": [
+ "Finished 10 questions.\n",
+ "Finished 20 questions.\n",
+ "Finished 30 questions.\n",
+ "Finished 40 questions.\n",
+ "Finished 50 questions.\n",
+ "Finished 60 questions.\n",
+ "Finished 70 questions.\n",
+ "Finished 80 questions.\n",
+ "Finished 90 questions.\n",
+ "Finished 100 questions.\n",
+ "Finished 110 questions.\n",
+ "Finished 120 questions.\n",
+ "Finished 130 questions.\n",
+ "Finished 140 questions.\n",
+ "Finished 150 questions.\n",
+ "Finished 160 questions.\n",
+ "Finished 170 questions.\n",
+ "Finished 180 questions.\n",
+ "Finished 190 questions.\n",
+ "Finished 200 questions.\n",
+ "Finished 10 questions.\n",
+ "Finished 20 questions.\n",
+ "Finished 30 questions.\n",
+ "Finished 40 questions.\n",
+ "Finished 50 questions.\n",
+ "Finished 60 questions.\n",
+ "Finished 70 questions.\n",
+ "Finished 80 questions.\n",
+ "Finished 90 questions.\n",
+ "Finished 100 questions.\n",
+ "Finished 110 questions.\n",
+ "Finished 120 questions.\n",
+ "Finished 130 questions.\n",
+ "Finished 140 questions.\n",
+ "Finished 150 questions.\n",
+ "Finished 160 questions.\n",
+ "Finished 170 questions.\n",
+ "Finished 180 questions.\n",
+ "Finished 190 questions.\n",
+ "Finished 200 questions.\n",
+ "Finished 10 questions.\n",
+ "Finished 20 questions.\n",
+ "Finished 30 questions.\n",
+ "Finished 40 questions.\n",
+ "Finished 50 questions.\n",
+ "Finished 60 questions.\n",
+ "Finished 70 questions.\n",
+ "Finished 80 questions.\n",
+ "Finished 90 questions.\n",
+ "Finished 100 questions.\n",
+ "Finished 110 questions.\n",
+ "Finished 120 questions.\n",
+ "Finished 130 questions.\n",
+ "Finished 140 questions.\n",
+ "Finished 150 questions.\n",
+ "Finished 160 questions.\n",
+ "Finished 170 questions.\n",
+ "Finished 180 questions.\n",
+ "Finished 190 questions.\n",
+ "Finished 200 questions.\n"
+ ]
+ }
+ ],
+ "source": [
+ "# send requests/do the experiment for the baseline model\n",
+ "# muss gelten context_window>= inputtoken+maxtokens ;; by limiting the amount of relations to top 50 this is semi automatically adhered too\n",
+ "client = Groq(api_key=os.environ.get(\"GROQ_API_KEY\"))\n",
+ "#client = instructor.from_groq(client, mode=instructor.Mode.TOOLS)\n",
+ "#class YesNoQuestion(BaseModel):\n",
+ "# answer: Literal[\"Yes\",\"No\",\"yes\",\"no\"]\n",
+ "system_message = {\n",
+ " \"role\" : \"system\",\n",
+ " \"content\" : \"You are a helpful medical expert who must answer with either yes or no.\",\n",
+ "}\n",
+ "question_message = {\n",
+ " \"role\" : \"user\",\n",
+ " \"content\" : \"\"\n",
+ "}\n",
+ "baseline_responses = []\n",
+ "random.shuffle(final_questions)\n",
+ "for mod in models:\n",
+ " model_responses = []\n",
+ " index = 0\n",
+ " while index < len(final_questions):\n",
+ " question = final_questions[index]\n",
+ " question_message[\"content\"] = question[\"question\"]\n",
+ " try:\n",
+ " chat_completion = client.chat.completions.create(\n",
+ " messages=[\n",
+ " system_message,\n",
+ " question_message\n",
+ " ],\n",
+ " model=mod[\"name\"],\n",
+ " temperature=0,\n",
+ " #response_model=YesNoQuestion,\n",
+ " #max_tokens=16, ----> seems to conflict with the function calling but not yet sure why\n",
+ " )\n",
+ " model_responses.append(chat_completion.choices[0].message.content)\n",
+ " #model_responses.append(chat_completion.answer)\n",
+ " index += 1\n",
+ " if index % 10 == 0:\n",
+ " print(f\"Finished {index} questions.\")\n",
+ " \n",
+ " except Exception as e:\n",
+ " print(e)\n",
+ " time.sleep(60)\n",
+ " baseline_responses.append(model_responses)\n"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 9,
+ "id": "2272483b-4155-491d-b971-5c2d0566fd63",
+ "metadata": {},
+ "outputs": [],
+ "source": [
+ "index = 0\n",
+ "while index < len(final_questions):\n",
+ " final_questions[index][\"llama8bBaseline\"] = baseline_responses[0][index]\n",
+ " final_questions[index][\"llama70bBaseline\"] = baseline_responses[1][index]\n",
+ " final_questions[index][\"gemmaBaseline\"] = baseline_responses[2][index]\n",
+ " index = index+1"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 10,
+ "id": "637c09c0-0be5-47ce-bb6e-f2030345156e",
+ "metadata": {},
+ "outputs": [
+ {
+ "data": {
+ "text/plain": [
+ "{'id': '293',\n",
+ " 'question': 'Should perampanel be used for amyotrophic lateral sclerosis?',\n",
+ " 'gt': 'no',\n",
+ " 'entities': ['perampanel', 'amyotrophic'],\n",
+ " 'cuis': ['C4696049', 'C2698764'],\n",
+ " 'triples': [{'s': 'perampanel',\n",
+ " 'p': 'may treat',\n",
+ " 'o': 'Epilepsies, Partial',\n",
+ " 'similarity': 'tensor(0.4550)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'may treat',\n",
+ " 'o': 'Epilepsy, Tonic-Clonic',\n",
+ " 'similarity': 'tensor(0.4505)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'may treat',\n",
+ " 'o': 'Seizures',\n",
+ " 'similarity': 'tensor(0.4465)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'has mechanism of action',\n",
+ " 'o': 'AMPA Receptor Antagonists',\n",
+ " 'similarity': 'tensor(0.4434)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'member of',\n",
+ " 'o': 'Other antiepileptics in ATC',\n",
+ " 'similarity': 'tensor(0.4340)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'has therapeutic class',\n",
+ " 'o': 'Anticonvulsants',\n",
+ " 'similarity': 'tensor(0.4250)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'has physiologic effect',\n",
+ " 'o': 'Decreased Central Nervous System Glutamate Activity',\n",
+ " 'similarity': 'tensor(0.4249)'},\n",
+ " {'s': 'PERAMPANEL',\n",
+ " 'p': 'ingredient of',\n",
+ " 'o': 'PERAMPANEL 0.5MG/ML SUSP,ORAL',\n",
+ " 'similarity': 'tensor(0.4232)'},\n",
+ " {'s': 'Perampanel',\n",
+ " 'p': 'isa',\n",
+ " 'o': 'CNS Stimulant',\n",
+ " 'similarity': 'tensor(0.4232)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'has parent',\n",
+ " 'o': 'Noncompetitive AMPA Glutamate Receptor Antagonist',\n",
+ " 'similarity': 'tensor(0.4213)'},\n",
+ " {'s': 'PERAMPANEL',\n",
+ " 'p': 'ingredient of',\n",
+ " 'o': 'PERAMPANEL 6MG TAB',\n",
+ " 'similarity': 'tensor(0.4109)'},\n",
+ " {'s': 'PERAMPANEL',\n",
+ " 'p': 'ingredient of',\n",
+ " 'o': 'PERAMPANEL 8MG TAB',\n",
+ " 'similarity': 'tensor(0.4104)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'ingredient of',\n",
+ " 'o': 'perampanel 0.5 MG/ML',\n",
+ " 'similarity': 'tensor(0.4096)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'ingredient of',\n",
+ " 'o': 'perampanel 10 MG',\n",
+ " 'similarity': 'tensor(0.4092)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'ingredient of',\n",
+ " 'o': 'perampanel 8 MG',\n",
+ " 'similarity': 'tensor(0.4085)'},\n",
+ " {'s': 'PERAMPANEL',\n",
+ " 'p': 'active ingredient of',\n",
+ " 'o': 'PERAMPANEL 0.5 mg in 1 mL ORAL SUSPENSION [Fycompa]',\n",
+ " 'similarity': 'tensor(0.4084)'},\n",
+ " {'s': 'PERAMPANEL',\n",
+ " 'p': 'active ingredient of',\n",
+ " 'o': 'PERAMPANEL 0.5 mg in 1 mL ORAL SUSPENSION [Fycompa]',\n",
+ " 'similarity': 'tensor(0.4084)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'ingredient of',\n",
+ " 'o': 'perampanel 6 MG',\n",
+ " 'similarity': 'tensor(0.4079)'},\n",
+ " {'s': 'PERAMPANEL',\n",
+ " 'p': 'ingredient of',\n",
+ " 'o': 'PERAMPANEL 10MG TAB',\n",
+ " 'similarity': 'tensor(0.4072)'},\n",
+ " {'s': 'PERAMPANEL',\n",
+ " 'p': 'ingredient of',\n",
+ " 'o': 'PERAMPANEL 4MG TAB',\n",
+ " 'similarity': 'tensor(0.4065)'},\n",
+ " {'s': 'PERAMPANEL',\n",
+ " 'p': 'ingredient of',\n",
+ " 'o': 'PERAMPANEL 12MG TAB',\n",
+ " 'similarity': 'tensor(0.4061)'},\n",
+ " {'s': 'Perampanel',\n",
+ " 'p': 'has child relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Anticonvulsants',\n",
+ " 'similarity': 'tensor(0.4060)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'ingredient of',\n",
+ " 'o': 'perampanel 4 MG',\n",
+ " 'similarity': 'tensor(0.4052)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'ingredient of',\n",
+ " 'o': 'perampanel 2 MG',\n",
+ " 'similarity': 'tensor(0.4048)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'ingredient of',\n",
+ " 'o': 'perampanel 12 MG',\n",
+ " 'similarity': 'tensor(0.4047)'},\n",
+ " {'s': 'PERAMPANEL',\n",
+ " 'p': 'ingredient of',\n",
+ " 'o': 'PERAMPANEL 2MG TAB',\n",
+ " 'similarity': 'tensor(0.4043)'},\n",
+ " {'s': 'PERAMPANEL',\n",
+ " 'p': 'active moiety of',\n",
+ " 'o': 'PERAMPANEL 0.5 mg in 1 mL ORAL SUSPENSION [Fycompa]',\n",
+ " 'similarity': 'tensor(0.4017)'},\n",
+ " {'s': 'PERAMPANEL',\n",
+ " 'p': 'active moiety of',\n",
+ " 'o': 'PERAMPANEL 0.5 mg in 1 mL ORAL SUSPENSION [Fycompa]',\n",
+ " 'similarity': 'tensor(0.4017)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'ingredient of',\n",
+ " 'o': 'perampanel Pill',\n",
+ " 'similarity': 'tensor(0.4001)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'has parent',\n",
+ " 'o': 'P [Preparations]',\n",
+ " 'similarity': 'tensor(0.3999)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'ingredient of',\n",
+ " 'o': 'perampanel Oral Suspension',\n",
+ " 'similarity': 'tensor(0.3974)'},\n",
+ " {'s': 'Perampanel',\n",
+ " 'p': 'has child relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Anticonvulsants, Other',\n",
+ " 'similarity': 'tensor(0.3948)'},\n",
+ " {'s': 'Perampanel',\n",
+ " 'p': 'concept in subset',\n",
+ " 'o': 'NCI Drug Dictionary Terminology',\n",
+ " 'similarity': 'tensor(0.3924)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'has mechanism of action',\n",
+ " 'o': 'Cytochrome P450 3A4 Inhibitors',\n",
+ " 'similarity': 'tensor(0.3908)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'ingredient of',\n",
+ " 'o': 'perampanel Oral Tablet',\n",
+ " 'similarity': 'tensor(0.3905)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'source asserted synonymy',\n",
+ " 'o': 'Perampanelum',\n",
+ " 'similarity': 'tensor(0.3898)'},\n",
+ " {'s': 'PERAMPANEL',\n",
+ " 'p': 'active ingredient of',\n",
+ " 'o': 'PERAMPANEL 8 mg ORAL TABLET [Fycompa]',\n",
+ " 'similarity': 'tensor(0.3896)'},\n",
+ " {'s': 'PERAMPANEL',\n",
+ " 'p': 'active ingredient of',\n",
+ " 'o': 'PERAMPANEL 8 mg ORAL TABLET [Fycompa]',\n",
+ " 'similarity': 'tensor(0.3896)'},\n",
+ " {'s': 'PERAMPANEL',\n",
+ " 'p': 'active ingredient of',\n",
+ " 'o': 'PERAMPANEL 6 mg ORAL TABLET [Fycompa]',\n",
+ " 'similarity': 'tensor(0.3887)'},\n",
+ " {'s': 'PERAMPANEL',\n",
+ " 'p': 'active ingredient of',\n",
+ " 'o': 'PERAMPANEL 6 mg ORAL TABLET [Fycompa]',\n",
+ " 'similarity': 'tensor(0.3887)'},\n",
+ " {'s': 'PERAMPANEL',\n",
+ " 'p': 'active ingredient of',\n",
+ " 'o': 'PERAMPANEL 10 mg ORAL TABLET [Fycompa]',\n",
+ " 'similarity': 'tensor(0.3883)'},\n",
+ " {'s': 'PERAMPANEL',\n",
+ " 'p': 'active ingredient of',\n",
+ " 'o': 'PERAMPANEL 10 mg ORAL TABLET [Fycompa]',\n",
+ " 'similarity': 'tensor(0.3883)'},\n",
+ " {'s': 'PERAMPANEL',\n",
+ " 'p': 'active ingredient of',\n",
+ " 'o': 'PERAMPANEL 12 mg ORAL TABLET [Fycompa]',\n",
+ " 'similarity': 'tensor(0.3871)'},\n",
+ " {'s': 'PERAMPANEL',\n",
+ " 'p': 'active ingredient of',\n",
+ " 'o': 'PERAMPANEL 12 mg ORAL TABLET [Fycompa]',\n",
+ " 'similarity': 'tensor(0.3871)'},\n",
+ " {'s': 'PERAMPANEL',\n",
+ " 'p': 'active ingredient of',\n",
+ " 'o': 'PERAMPANEL 4 mg ORAL TABLET [Fycompa]',\n",
+ " 'similarity': 'tensor(0.3863)'},\n",
+ " {'s': 'PERAMPANEL',\n",
+ " 'p': 'active ingredient of',\n",
+ " 'o': 'PERAMPANEL 4 mg ORAL TABLET [Fycompa]',\n",
+ " 'similarity': 'tensor(0.3863)'},\n",
+ " {'s': 'PERAMPANEL',\n",
+ " 'p': 'active ingredient of',\n",
+ " 'o': 'PERAMPANEL 2 mg ORAL TABLET [Fycompa]',\n",
+ " 'similarity': 'tensor(0.3860)'},\n",
+ " {'s': 'PERAMPANEL',\n",
+ " 'p': 'active ingredient of',\n",
+ " 'o': 'PERAMPANEL 2 mg ORAL TABLET [Fycompa]',\n",
+ " 'similarity': 'tensor(0.3860)'},\n",
+ " {'s': 'Perampanelum',\n",
+ " 'p': 'source asserted synonymy',\n",
+ " 'o': 'perampanel',\n",
+ " 'similarity': 'tensor(0.3838)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'ingredient of',\n",
+ " 'o': 'perampanel Oral Product',\n",
+ " 'similarity': 'tensor(0.3832)'},\n",
+ " {'s': 'PERAMPANEL',\n",
+ " 'p': 'active ingredient of',\n",
+ " 'o': 'PERAMPANEL 2 mg ORAL TABLET [Fycompa]_#1',\n",
+ " 'similarity': 'tensor(0.3827)'},\n",
+ " {'s': 'Perampanel',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Perampanel | Serum or Plasma | Drug toxicology',\n",
+ " 'similarity': 'tensor(0.3823)'},\n",
+ " {'s': 'PERAMPANEL',\n",
+ " 'p': 'source asserted synonymy',\n",
+ " 'o': 'perampanel',\n",
+ " 'similarity': 'tensor(0.3819)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'source asserted synonymy',\n",
+ " 'o': 'PERAMPANEL',\n",
+ " 'similarity': 'tensor(0.3819)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'source asserted synonymy',\n",
+ " 'o': 'perampanel',\n",
+ " 'similarity': 'tensor(0.3819)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'source asserted synonymy',\n",
+ " 'o': 'perampanel',\n",
+ " 'similarity': 'tensor(0.3819)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'source asserted synonymy',\n",
+ " 'o': 'PERAMPANEL',\n",
+ " 'similarity': 'tensor(0.3819)'},\n",
+ " {'s': 'PERAMPANEL',\n",
+ " 'p': 'source asserted synonymy',\n",
+ " 'o': 'perampanel',\n",
+ " 'similarity': 'tensor(0.3819)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'source asserted synonymy',\n",
+ " 'o': 'Perampanel',\n",
+ " 'similarity': 'tensor(0.3819)'},\n",
+ " {'s': 'Perampanel',\n",
+ " 'p': 'source asserted synonymy',\n",
+ " 'o': 'perampanel',\n",
+ " 'similarity': 'tensor(0.3819)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'source asserted synonymy',\n",
+ " 'o': 'perampanel',\n",
+ " 'similarity': 'tensor(0.3819)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'source asserted synonymy',\n",
+ " 'o': 'perampanel',\n",
+ " 'similarity': 'tensor(0.3819)'},\n",
+ " {'s': 'Perampanel',\n",
+ " 'p': 'source asserted synonymy',\n",
+ " 'o': 'perampanel',\n",
+ " 'similarity': 'tensor(0.3819)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'source asserted synonymy',\n",
+ " 'o': 'Perampanel',\n",
+ " 'similarity': 'tensor(0.3819)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'source asserted synonymy',\n",
+ " 'o': 'Pérampanel',\n",
+ " 'similarity': 'tensor(0.3819)'},\n",
+ " {'s': 'Pérampanel',\n",
+ " 'p': 'source asserted synonymy',\n",
+ " 'o': 'perampanel',\n",
+ " 'similarity': 'tensor(0.3819)'},\n",
+ " {'s': 'PERAMPANEL',\n",
+ " 'p': 'active ingredient of',\n",
+ " 'o': 'PERAMPANEL 2 mg ORAL TABLET [Fycompa]_#2',\n",
+ " 'similarity': 'tensor(0.3809)'},\n",
+ " {'s': 'PERAMPANEL',\n",
+ " 'p': 'active moiety of',\n",
+ " 'o': 'PERAMPANEL 6 mg ORAL TABLET [Fycompa]',\n",
+ " 'similarity': 'tensor(0.3787)'},\n",
+ " {'s': 'PERAMPANEL',\n",
+ " 'p': 'active moiety of',\n",
+ " 'o': 'PERAMPANEL 6 mg ORAL TABLET [Fycompa]',\n",
+ " 'similarity': 'tensor(0.3787)'},\n",
+ " {'s': 'PERAMPANEL',\n",
+ " 'p': 'active moiety of',\n",
+ " 'o': 'PERAMPANEL 8 mg ORAL TABLET [Fycompa]',\n",
+ " 'similarity': 'tensor(0.3786)'},\n",
+ " {'s': 'PERAMPANEL',\n",
+ " 'p': 'active moiety of',\n",
+ " 'o': 'PERAMPANEL 8 mg ORAL TABLET [Fycompa]',\n",
+ " 'similarity': 'tensor(0.3786)'},\n",
+ " {'s': 'PERAMPANEL',\n",
+ " 'p': 'active moiety of',\n",
+ " 'o': 'PERAMPANEL 10 mg ORAL TABLET [Fycompa]',\n",
+ " 'similarity': 'tensor(0.3784)'},\n",
+ " {'s': 'PERAMPANEL',\n",
+ " 'p': 'active moiety of',\n",
+ " 'o': 'PERAMPANEL 10 mg ORAL TABLET [Fycompa]',\n",
+ " 'similarity': 'tensor(0.3784)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'has mechanism of action',\n",
+ " 'o': 'Cytochrome P450 2C8 Inhibitors',\n",
+ " 'similarity': 'tensor(0.3769)'},\n",
+ " {'s': 'PERAMPANEL',\n",
+ " 'p': 'active moiety of',\n",
+ " 'o': 'PERAMPANEL 12 mg ORAL TABLET [Fycompa]',\n",
+ " 'similarity': 'tensor(0.3768)'},\n",
+ " {'s': 'PERAMPANEL',\n",
+ " 'p': 'active moiety of',\n",
+ " 'o': 'PERAMPANEL 12 mg ORAL TABLET [Fycompa]',\n",
+ " 'similarity': 'tensor(0.3768)'},\n",
+ " {'s': 'PERAMPANEL',\n",
+ " 'p': 'active moiety of',\n",
+ " 'o': 'PERAMPANEL 2 mg ORAL TABLET [Fycompa]',\n",
+ " 'similarity': 'tensor(0.3764)'},\n",
+ " {'s': 'PERAMPANEL',\n",
+ " 'p': 'active moiety of',\n",
+ " 'o': 'PERAMPANEL 2 mg ORAL TABLET [Fycompa]',\n",
+ " 'similarity': 'tensor(0.3764)'},\n",
+ " {'s': 'PERAMPANEL',\n",
+ " 'p': 'active moiety of',\n",
+ " 'o': 'PERAMPANEL 2 mg ORAL TABLET [Fycompa]_#1',\n",
+ " 'similarity': 'tensor(0.3760)'},\n",
+ " {'s': 'PERAMPANEL',\n",
+ " 'p': 'active moiety of',\n",
+ " 'o': 'PERAMPANEL 4 mg ORAL TABLET [Fycompa]',\n",
+ " 'similarity': 'tensor(0.3757)'},\n",
+ " {'s': 'PERAMPANEL',\n",
+ " 'p': 'active moiety of',\n",
+ " 'o': 'PERAMPANEL 4 mg ORAL TABLET [Fycompa]',\n",
+ " 'similarity': 'tensor(0.3757)'},\n",
+ " {'s': 'Perampanel:MCnc:Pt:Ser/Plas:Qn',\n",
+ " 'p': 'expanded form of',\n",
+ " 'o': 'Perampanel SerPl-mCnc',\n",
+ " 'similarity': 'tensor(0.3726)'},\n",
+ " {'s': 'PERAMPANEL',\n",
+ " 'p': 'active moiety of',\n",
+ " 'o': 'PERAMPANEL 2 mg ORAL TABLET [Fycompa]_#2',\n",
+ " 'similarity': 'tensor(0.3725)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'ingredient of',\n",
+ " 'o': 'perampanel Oral Liquid Product',\n",
+ " 'similarity': 'tensor(0.3722)'},\n",
+ " {'s': 'Perampanel:MCnc:Pt:Ser/Plas:Qn',\n",
+ " 'p': 'has scale',\n",
+ " 'o': 'Qn',\n",
+ " 'similarity': 'tensor(0.3684)'},\n",
+ " {'s': 'Perampanel:MCnc:Pt:Ser/Plas:Qn',\n",
+ " 'p': 'has child relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Drug levels & Toxicology',\n",
+ " 'similarity': 'tensor(0.3662)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'has mechanism of action',\n",
+ " 'o': 'UGT1A9 Inhibitors',\n",
+ " 'similarity': 'tensor(0.3658)'},\n",
+ " {'s': 'Perampanel:MCnc:Pt:Ser/Plas:Qn',\n",
+ " 'p': 'has child relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Perampanel | Serum or Plasma | Drug toxicology',\n",
+ " 'similarity': 'tensor(0.3645)'},\n",
+ " {'s': 'Perampanel:MCnc:Pt:Ser/Plas:Qn',\n",
+ " 'p': 'has system',\n",
+ " 'o': 'Serum',\n",
+ " 'similarity': 'tensor(0.3630)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'has mechanism of action',\n",
+ " 'o': 'UGT2B7 Inhibitors',\n",
+ " 'similarity': 'tensor(0.3625)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'perampanel hydrate',\n",
+ " 'similarity': 'tensor(0.3574)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Fycompa',\n",
+ " 'similarity': 'tensor(0.3556)'},\n",
+ " {'s': 'Perampanel:MCnc:Pt:Ser/Plas:Qn',\n",
+ " 'p': 'has class',\n",
+ " 'o': 'Drug toxicology',\n",
+ " 'similarity': 'tensor(0.3530)'},\n",
+ " {'s': 'Perampanel:MCnc:Pt:Ser/Plas:Qn',\n",
+ " 'p': 'has component',\n",
+ " 'o': 'Perampanel',\n",
+ " 'similarity': 'tensor(0.3520)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'has lab number',\n",
+ " 'o': 'E2007',\n",
+ " 'similarity': 'tensor(0.3516)'},\n",
+ " {'s': 'Perampanel:MCnc:Pt:Ser/Plas:Qn',\n",
+ " 'p': 'has system',\n",
+ " 'o': 'Serum or Plasma',\n",
+ " 'similarity': 'tensor(0.3491)'},\n",
+ " {'s': 'Perampanel [Mass/volume] - Serum or Plasma',\n",
+ " 'p': 'common name of',\n",
+ " 'o': 'Perampanel:MCnc:Pt:Ser/Plas:Qn',\n",
+ " 'similarity': 'tensor(0.3479)'},\n",
+ " {'s': 'Perampanel',\n",
+ " 'p': 'component of',\n",
+ " 'o': 'Perampanel:MCnc:Pt:Ser/Plas:Qn',\n",
+ " 'similarity': 'tensor(0.3456)'},\n",
+ " {'s': 'Perampanel SerPl-mCnc',\n",
+ " 'p': 'has expanded form',\n",
+ " 'o': 'Perampanel:MCnc:Pt:Ser/Plas:Qn',\n",
+ " 'similarity': 'tensor(0.3443)'},\n",
+ " {'s': 'Perampanel:MCnc:Pt:Ser/Plas:Qn',\n",
+ " 'p': 'has common name',\n",
+ " 'o': 'Perampanel [Mass/volume] - Serum or Plasma',\n",
+ " 'similarity': 'tensor(0.3442)'},\n",
+ " {'s': 'Perampanel:MCnc:Pt:Ser/Plas:Qn',\n",
+ " 'p': 'has property',\n",
+ " 'o': 'Mass Concentration',\n",
+ " 'similarity': 'tensor(0.3410)'},\n",
+ " {'s': 'Perampanel:MCnc:Pt:Ser/Plas:Qn',\n",
+ " 'p': 'has class',\n",
+ " 'o': 'Laboratory',\n",
+ " 'similarity': 'tensor(0.3396)'},\n",
+ " {'s': 'Perampanel',\n",
+ " 'p': 'concept in subset',\n",
+ " 'o': 'FDA Established Names and Unique Ingredient Identifier Codes Terminology',\n",
+ " 'similarity': 'tensor(0.3391)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'E-2007',\n",
+ " 'similarity': 'tensor(0.3384)'},\n",
+ " {'s': 'Perampanel:MCnc:Pt:Ser/Plas:Qn',\n",
+ " 'p': 'has system',\n",
+ " 'o': 'Plasma',\n",
+ " 'similarity': 'tensor(0.3370)'},\n",
+ " {'s': 'Perampanel:MCnc:Pt:Ser/Plas:Qn',\n",
+ " 'p': 'measures',\n",
+ " 'o': 'Perampanel',\n",
+ " 'similarity': 'tensor(0.3369)'},\n",
+ " {'s': 'Perampanel:Mass Concentration:To identify measures at a point in time:Serum/Plasma:Quantitative',\n",
+ " 'p': 'mth expanded form of',\n",
+ " 'o': 'Perampanel:MCnc:Pt:Ser/Plas:Qn',\n",
+ " 'similarity': 'tensor(0.3361)'},\n",
+ " {'s': 'Perampanel',\n",
+ " 'p': 'measured by',\n",
+ " 'o': 'Perampanel:MCnc:Pt:Ser/Plas:Qn',\n",
+ " 'similarity': 'tensor(0.3307)'},\n",
+ " {'s': 'Perampanel:MCnc:Pt:Ser/Plas:Qn',\n",
+ " 'p': 'mth has expanded form',\n",
+ " 'o': 'Perampanel:Mass Concentration:To identify measures at a point in time:Serum/Plasma:Quantitative',\n",
+ " 'similarity': 'tensor(0.3295)'},\n",
+ " {'s': 'Perampanel',\n",
+ " 'p': 'concept in subset',\n",
+ " 'o': 'CTRP Agent Terminology',\n",
+ " 'similarity': 'tensor(0.3274)'},\n",
+ " {'s': 'Perampanel',\n",
+ " 'p': 'concept in subset',\n",
+ " 'o': 'CTRP Terminology',\n",
+ " 'similarity': 'tensor(0.3204)'},\n",
+ " {'s': 'Perampanel:MCnc:Pt:Ser/Plas:Qn',\n",
+ " 'p': 'has time aspect',\n",
+ " 'o': 'Point in time (spot)',\n",
+ " 'similarity': 'tensor(0.3188)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'mapped to',\n",
+ " 'o': 'Pyridones',\n",
+ " 'similarity': 'tensor(0.3170)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'has tradename',\n",
+ " 'o': 'FYCOMPA',\n",
+ " 'similarity': 'tensor(0.3153)'},\n",
+ " {'s': 'Perampanel',\n",
+ " 'p': 'has tradename',\n",
+ " 'o': 'Fycompa',\n",
+ " 'similarity': 'tensor(0.3153)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'has tradename',\n",
+ " 'o': 'Fycompa',\n",
+ " 'similarity': 'tensor(0.3153)'},\n",
+ " {'s': 'Perampanel:MCnc:Pt:Ser/Plas:Qn',\n",
+ " 'p': 'analyzes',\n",
+ " 'o': 'Serum/Plasma',\n",
+ " 'similarity': 'tensor(0.3153)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'source asserted synonymy',\n",
+ " 'o': '3-(2-Cyanophenyl)-5-(2-pyridyl)-1-phenyl-1,2-dihydropyridin-2-one',\n",
+ " 'similarity': 'tensor(0.3061)'},\n",
+ " {'s': 'perampanel',\n",
+ " 'p': 'mapped to',\n",
+ " 'o': 'Nitriles',\n",
+ " 'similarity': 'tensor(0.3037)'},\n",
+ " {'s': '3-(2-Cyanophenyl)-5-(2-pyridyl)-1-phenyl-1,2-dihydropyridin-2-one',\n",
+ " 'p': 'source asserted synonymy',\n",
+ " 'o': 'perampanel',\n",
+ " 'similarity': 'tensor(0.2867)'},\n",
+ " {'s': '3-(2-cyanophenyl)-5-(2-pyridyl)-1-phenyl-1,2-dihydropyridin-2-one',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'E-2007',\n",
+ " 'similarity': 'tensor(0.2210)'},\n",
+ " {'s': '3-(2-cyanophenyl)-5-(2-pyridyl)-1-phenyl-1,2-dihydropyridin-2-one',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'ER-155055-90',\n",
+ " 'similarity': 'tensor(0.2022)'}],\n",
+ " 'llama8bBaseline': 'No',\n",
+ " 'llama70bBaseline': 'No.',\n",
+ " 'gemmaBaseline': 'No.\\n\\nPerampanel is not currently approved for the treatment of amyotrophic lateral sclerosis (ALS).'}"
+ ]
+ },
+ "execution_count": 10,
+ "metadata": {},
+ "output_type": "execute_result"
+ }
+ ],
+ "source": [
+ "final_questions[0]"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 11,
+ "id": "2e25de41-1011-4ac9-96be-7fbf0e0274dc",
+ "metadata": {},
+ "outputs": [],
+ "source": [
+ "with open('../data/100each_results_redone.json', 'w') as fout:\n",
+ " json.dump(final_questions, fout)"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 3,
+ "id": "64caf70e-7630-43a6-a801-2884216da7e1",
+ "metadata": {},
+ "outputs": [],
+ "source": [
+ "# load previous results\n",
+ "final_questions =[]\n",
+ "with open('../data/100each_results_redone.json', 'r') as fin:\n",
+ " final_questions = json.load(fin)"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 6,
+ "id": "aca8f596-0512-48a4-92dc-19e1b6cd9b9c",
+ "metadata": {},
+ "outputs": [
+ {
+ "name": "stdout",
+ "output_type": "stream",
+ "text": [
+ "Finished 10 questions.\n",
+ "Finished 20 questions.\n",
+ "Finished 30 questions.\n",
+ "Finished 40 questions.\n",
+ "Finished 50 questions.\n",
+ "Finished 60 questions.\n",
+ "Finished 70 questions.\n",
+ "Finished 80 questions.\n",
+ "Finished 90 questions.\n",
+ "Finished 100 questions.\n",
+ "Finished 110 questions.\n",
+ "Finished 120 questions.\n",
+ "Finished 130 questions.\n",
+ "Finished 140 questions.\n",
+ "Finished 150 questions.\n",
+ "Finished 160 questions.\n",
+ "Finished 170 questions.\n",
+ "Finished 180 questions.\n",
+ "Finished 190 questions.\n",
+ "Finished 200 questions.\n",
+ "Finished 10 questions.\n",
+ "Finished 20 questions.\n",
+ "Finished 30 questions.\n",
+ "Finished 40 questions.\n",
+ "Finished 50 questions.\n",
+ "Finished 60 questions.\n",
+ "Finished 70 questions.\n",
+ "Finished 80 questions.\n",
+ "Finished 90 questions.\n",
+ "Finished 100 questions.\n",
+ "Finished 110 questions.\n",
+ "Finished 120 questions.\n",
+ "Finished 130 questions.\n",
+ "Finished 140 questions.\n",
+ "Finished 150 questions.\n",
+ "Finished 160 questions.\n",
+ "Finished 170 questions.\n",
+ "Finished 180 questions.\n",
+ "Finished 190 questions.\n",
+ "Finished 200 questions.\n",
+ "Finished 10 questions.\n",
+ "Finished 20 questions.\n",
+ "Finished 30 questions.\n",
+ "Finished 40 questions.\n",
+ "Finished 50 questions.\n",
+ "Finished 60 questions.\n",
+ "Finished 70 questions.\n",
+ "Finished 80 questions.\n",
+ "Finished 90 questions.\n",
+ "Finished 100 questions.\n",
+ "Finished 110 questions.\n",
+ "Finished 120 questions.\n",
+ "Finished 130 questions.\n",
+ "Finished 140 questions.\n",
+ "Finished 150 questions.\n",
+ "Finished 160 questions.\n",
+ "Finished 170 questions.\n",
+ "Finished 180 questions.\n",
+ "Finished 190 questions.\n",
+ "Finished 200 questions.\n"
+ ]
+ }
+ ],
+ "source": [
+ "# send requests/do the experiment for the not nl resolved model; aionr\n",
+ "# muss gelten context_window>= inputtoken+maxtokens ;; by limiting the amount of relations to top 50 this is semi automatically adhered too\n",
+ "client = Groq(api_key=os.environ.get(\"GROQ_API_KEY\"))\n",
+ "#client = instructor.from_groq(client, mode=instructor.Mode.TOOLS)\n",
+ "#class YesNoQuestion(BaseModel):\n",
+ "# answer: Literal[\"Yes\",\"No\",\"yes\",\"no\"]\n",
+ "system_message = {\n",
+ " \"role\" : \"system\",\n",
+ " \"content\" : \"You are a helpful medical expert who must answer with either yes or no.\",\n",
+ "}\n",
+ "aionr_responses = []\n",
+ "random.shuffle(final_questions)\n",
+ "for mod in models:\n",
+ " model_responses = []\n",
+ " index = 0\n",
+ " while index < len(final_questions):\n",
+ " question = final_questions[index]\n",
+ " triples_text = \"\"\n",
+ " question_message = {\n",
+ " \"role\" : \"user\",\n",
+ " \"content\" : (question[\"question\"] + \" Consider the following information:\\n\")\n",
+ " }\n",
+ " for ind, triple in enumerate(question[\"triples\"]):\n",
+ " if ind == 10:\n",
+ " triples_text.rstrip()\n",
+ " break\n",
+ " else:\n",
+ " triples_text = triples_text + triple[\"s\"] + \" has relationship \" + triple[\"p\"] + \" to \" + triple[\"o\"] + \".\\n\"\n",
+ " question_message[\"content\"] = question_message[\"content\"] + triples_text\n",
+ " final_questions[index][\"aionr_request\"] = question_message[\"content\"]\n",
+ " try:\n",
+ " chat_completion = client.chat.completions.create(\n",
+ " messages=[\n",
+ " system_message,\n",
+ " question_message\n",
+ " ],\n",
+ " model=mod[\"name\"],\n",
+ " temperature=0, )\n",
+ " model_responses.append(chat_completion.choices[0].message.content)\n",
+ " #model_responses.append(chat_completion.answer)\n",
+ " index += 1\n",
+ " if index % 10 == 0:\n",
+ " print(f\"Finished {index} questions.\")\n",
+ " \n",
+ " except Exception as e:\n",
+ " print(e)\n",
+ " time.sleep(60)\n",
+ " aionr_responses.append(model_responses)"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 7,
+ "id": "5aee6c44-a7e2-4d8f-a09f-73e4f890c8b1",
+ "metadata": {},
+ "outputs": [],
+ "source": [
+ "index = 0\n",
+ "while index < len(final_questions):\n",
+ " final_questions[index][\"llama8bAIONR\"] = aionr_responses[0][index]\n",
+ " final_questions[index][\"llama70bAIONR\"] = aionr_responses[1][index]\n",
+ " final_questions[index][\"gemmaAIONR\"] = aionr_responses[2][index]\n",
+ " index = index+1"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 10,
+ "id": "37d5a19f-ab8b-4224-b0a3-55b7b5446e7d",
+ "metadata": {},
+ "outputs": [
+ {
+ "data": {
+ "text/plain": [
+ "{'id': '1228',\n",
+ " 'question': 'Is SMOC2 expressed during wound healing?',\n",
+ " 'gt': 'yes',\n",
+ " 'entities': ['SMOC2', 'expressed', 'wound'],\n",
+ " 'cuis': ['C1426859',\n",
+ " 'C1547965',\n",
+ " 'C0017262',\n",
+ " 'C1550680',\n",
+ " 'C5444885',\n",
+ " 'C1171362',\n",
+ " 'C0043250',\n",
+ " 'C1549529',\n",
+ " 'C3263723',\n",
+ " 'C1515670'],\n",
+ " 'triples': [{'s': 'Wound',\n",
+ " 'p': 'analyzed by',\n",
+ " 'o': 'Wound healing stage:Find:Pt:Wound:Nom',\n",
+ " 'similarity': 'tensor(0.4604)'},\n",
+ " {'s': 'WOUND',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Gram Stn Wnd',\n",
+ " 'similarity': 'tensor(0.4491)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'analyzed by',\n",
+ " 'o': 'Undermining:Find:Pt:Wound:Ord',\n",
+ " 'similarity': 'tensor(0.4474)'},\n",
+ " {'s': 'SMOC2',\n",
+ " 'p': 'has expanded form',\n",
+ " 'o': 'SMOC2 gene',\n",
+ " 'similarity': 'tensor(0.4471)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'has a narrower relationship',\n",
+ " 'o': 'Specimen Source Codes',\n",
+ " 'similarity': 'tensor(0.4469)'},\n",
+ " {'s': 'Wounds',\n",
+ " 'p': 'has permuted term',\n",
+ " 'o': 'Wound',\n",
+ " 'similarity': 'tensor(0.4443)'},\n",
+ " {'s': 'WOUND',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'WOUND SEROSANGUINOUS DISCHARGE',\n",
+ " 'similarity': 'tensor(0.4430)'},\n",
+ " {'s': 'wound',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'surgical wound',\n",
+ " 'similarity': 'tensor(0.4421)'},\n",
+ " {'s': 'WOUND',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'surgical wound',\n",
+ " 'similarity': 'tensor(0.4421)'},\n",
+ " {'s': 'WOUND',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'WOUND, FOUL SMELLING',\n",
+ " 'similarity': 'tensor(0.4417)'},\n",
+ " {'s': 'Injuries',\n",
+ " 'p': 'has a narrower relationship',\n",
+ " 'o': 'Wounds and Injuries',\n",
+ " 'similarity': 'tensor(0.4408)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'wound',\n",
+ " 'similarity': 'tensor(0.4408)'},\n",
+ " {'s': 'WOUND',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Incisional',\n",
+ " 'similarity': 'tensor(0.4405)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'analyzed by',\n",
+ " 'o': 'Trajectory deviation.anterior-posterior:Find:Pt:Wound:Nom',\n",
+ " 'similarity': 'tensor(0.4403)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'analyzed by',\n",
+ " 'o': 'Tunneling:Find:Pt:Wound:Ord',\n",
+ " 'similarity': 'tensor(0.4376)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'system of',\n",
+ " 'o': 'Wound healing stage:Find:Pt:Wound:Nom',\n",
+ " 'similarity': 'tensor(0.4372)'},\n",
+ " {'s': 'WOUND',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Mutilation, Self',\n",
+ " 'similarity': 'tensor(0.4364)'},\n",
+ " {'s': 'WOUND',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Trauma assessment and care',\n",
+ " 'similarity': 'tensor(0.4361)'},\n",
+ " {'s': 'WOUND',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'WOUND BLEEDING',\n",
+ " 'similarity': 'tensor(0.4348)'},\n",
+ " {'s': 'wound',\n",
+ " 'p': 'has a narrower relationship',\n",
+ " 'o': 'injury',\n",
+ " 'similarity': 'tensor(0.4338)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Injury and Wounds',\n",
+ " 'similarity': 'tensor(0.4323)'},\n",
+ " {'s': 'WOUND',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Injury and Wounds',\n",
+ " 'similarity': 'tensor(0.4323)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'analyzed by',\n",
+ " 'o': 'Wound status:Find:Pt:Wound:Nom',\n",
+ " 'similarity': 'tensor(0.4275)'},\n",
+ " {'s': 'WOUND',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'physical trauma',\n",
+ " 'similarity': 'tensor(0.4269)'},\n",
+ " {'s': 'WOUND',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'traumatic disorders',\n",
+ " 'similarity': 'tensor(0.4268)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'analyzed by',\n",
+ " 'o': 'Trajectory deviation.lateral:Find:Pt:Wound:Nom',\n",
+ " 'similarity': 'tensor(0.4263)'},\n",
+ " {'s': 'SMOC2',\n",
+ " 'p': 'has expanded form',\n",
+ " 'o': 'SPARC-RELATED MODULAR CALCIUM-BINDING PROTEIN 2',\n",
+ " 'similarity': 'tensor(0.4261)'},\n",
+ " {'s': 'WOUND',\n",
+ " 'p': 'has a narrower relationship',\n",
+ " 'o': 'Visible Lesion',\n",
+ " 'similarity': 'tensor(0.4257)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'analyzed by',\n",
+ " 'o': 'Undermining:Len:Pt:Wound:Qn',\n",
+ " 'similarity': 'tensor(0.4257)'},\n",
+ " {'s': 'SMOC2 gene',\n",
+ " 'p': 'expanded form of',\n",
+ " 'o': 'SMOC2',\n",
+ " 'similarity': 'tensor(0.4253)'},\n",
+ " {'s': 'WOUND',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'WOUND DISCHARGE, SEROUS',\n",
+ " 'similarity': 'tensor(0.4251)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'analyzed by',\n",
+ " 'o': 'Clinical trend:Find:Pt:Wound:Nom:Observed',\n",
+ " 'similarity': 'tensor(0.4250)'},\n",
+ " {'s': 'WOUND',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Open wound(s) (multiple) of unspecified site(s), without mention of complication',\n",
+ " 'similarity': 'tensor(0.4239)'},\n",
+ " {'s': 'WOUND',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'WOUND PAIN',\n",
+ " 'similarity': 'tensor(0.4218)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'system of',\n",
+ " 'o': 'Undermining:Find:Pt:Wound:Ord',\n",
+ " 'similarity': 'tensor(0.4217)'},\n",
+ " {'s': 'SMAP2',\n",
+ " 'p': 'has expanded form',\n",
+ " 'o': 'SMOOTH MUSCLE-ASSOCIATED PROTEIN 2',\n",
+ " 'similarity': 'tensor(0.4215)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'has child relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Specimen Source Codes',\n",
+ " 'similarity': 'tensor(0.4212)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'analyzed by',\n",
+ " 'o': 'Trajectory deviation.vertical:Find:Pt:Wound:Nom',\n",
+ " 'similarity': 'tensor(0.4211)'},\n",
+ " {'s': 'Wounds',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Wounds and Injuries',\n",
+ " 'similarity': 'tensor(0.4205)'},\n",
+ " {'s': 'WOUND',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'INJURY',\n",
+ " 'similarity': 'tensor(0.4204)'},\n",
+ " {'s': 'wound',\n",
+ " 'p': 'has child relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'injury',\n",
+ " 'similarity': 'tensor(0.4201)'},\n",
+ " {'s': 'WOUND',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'injuries',\n",
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+ " 'o': 'Staphylococcus aureus enterotoxin A and Staphylococcus aureus enterotoxin B DNA:PrThr:Pt:Wound:Ord:Probe.amp.tar',\n",
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+ " {'s': 'INJURY',\n",
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+ " 'o': 'Escherichia coli enterotoxigenic DNA:PrThr:Pt:Wound:Ord:Probe.amp.tar',\n",
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+ " {'s': 'injury',\n",
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+ " 'similarity': 'tensor(0.3580)'},\n",
+ " {'s': 'INJURY',\n",
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+ " 'o': 'Mycobacterium abscessus DNA:PrThr:Pt:Wound:Ord:Probe.amp.tar',\n",
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+ " {'s': 'INJURY',\n",
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+ " {'s': 'Wound',\n",
+ " 'p': 'system of',\n",
+ " 'o': 'Color:Type:Pt:Wound.exudate:Nom',\n",
+ " 'similarity': 'tensor(0.3559)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Surgical avulsion',\n",
+ " 'similarity': 'tensor(0.3558)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to pulmonary blood vessels',\n",
+ " 'similarity': 'tensor(0.3557)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'system of',\n",
+ " 'o': 'Mycobacterium kansasii DNA:PrThr:Pt:Wound:Ord:Probe.amp.tar',\n",
+ " 'similarity': 'tensor(0.3554)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'system of',\n",
+ " 'o': 'Fungus identified:Prid:Pt:Wound:Nom:Culture',\n",
+ " 'similarity': 'tensor(0.3553)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'system of',\n",
+ " 'o': 'Bacteria identified:Prid:Pt:Wound.deep:Nom:Anaerobic culture',\n",
+ " 'similarity': 'tensor(0.3552)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'analyzed by',\n",
+ " 'o': 'Bacteria identified:Prid:Pt:Wound:Nom:Anaerobic culture',\n",
+ " 'similarity': 'tensor(0.3550)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to blood vessels of upper extremity',\n",
+ " 'similarity': 'tensor(0.3546)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'analyzed by',\n",
+ " 'o': 'Mycobacterium sp identified:Prid:Pt:Wound:Nom:Organism specific culture',\n",
+ " 'similarity': 'tensor(0.3543)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'heat injury',\n",
+ " 'similarity': 'tensor(0.3541)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'heat injury',\n",
+ " 'similarity': 'tensor(0.3541)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has child relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'trauma',\n",
+ " 'similarity': 'tensor(0.3539)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Homicidal injury NOS',\n",
+ " 'similarity': 'tensor(0.3533)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'injuries skeletal',\n",
+ " 'similarity': 'tensor(0.3531)'},\n",
+ " {'s': 'Expression, Gene',\n",
+ " 'p': 'has a narrower relationship',\n",
+ " 'o': 'Genetic, Molecular',\n",
+ " 'similarity': 'tensor(0.3531)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Trauma assessment and care',\n",
+ " 'similarity': 'tensor(0.3530)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Perforation',\n",
+ " 'similarity': 'tensor(0.3529)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Open wound of elbow, with tendon involvement',\n",
+ " 'similarity': 'tensor(0.3529)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'system of',\n",
+ " 'o': 'Area of identified wound bed color/Area of wound bed:ArArea:Pt:Wound.base:Qn',\n",
+ " 'similarity': 'tensor(0.3529)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'system of',\n",
+ " 'o': 'Clostridium botulinum DNA:PrThr:Pt:Wound:Ord:Probe.amp.tar',\n",
+ " 'similarity': 'tensor(0.3523)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Open wound of shoulder region, with tendon involvement',\n",
+ " 'similarity': 'tensor(0.3521)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'analyzed by',\n",
+ " 'o': 'Microscopic observation:Prid:Pt:Wound:Nom:Acid fast stain.Kinyoun modified',\n",
+ " 'similarity': 'tensor(0.3519)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Open wound of forearm, with tendon involvement',\n",
+ " 'similarity': 'tensor(0.3518)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'system of',\n",
+ " 'o': 'Citrobacter freundii DNA:PrThr:Pt:Wound:Ord:Probe.amp.tar',\n",
+ " 'similarity': 'tensor(0.3514)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'system of',\n",
+ " 'o': 'Dressing:Type:Pt:Wound:Nom',\n",
+ " 'similarity': 'tensor(0.3508)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'system of',\n",
+ " 'o': 'Length:Len:Pt:Wound:Qn',\n",
+ " 'similarity': 'tensor(0.3501)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to blood vessels of abdomen and pelvis',\n",
+ " 'similarity': 'tensor(0.3500)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Barotraumas',\n",
+ " 'similarity': 'tensor(0.3500)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Gingival Injury',\n",
+ " 'similarity': 'tensor(0.3498)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Tissue Damage',\n",
+ " 'similarity': 'tensor(0.3497)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'system of',\n",
+ " 'o': 'Clostridioides difficile toxin A+B DNA:PrThr:Pt:Wound:Ord:Probe.amp.tar',\n",
+ " 'similarity': 'tensor(0.3496)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'arterial injury',\n",
+ " 'similarity': 'tensor(0.3495)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'system of',\n",
+ " 'o': 'Yersinia enterocolitica DNA:PrThr:Pt:Wound:Ord:Probe.amp.tar',\n",
+ " 'similarity': 'tensor(0.3493)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'trauma',\n",
+ " 'similarity': 'tensor(0.3491)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Parenteral Dosage Form',\n",
+ " 'similarity': 'tensor(0.3490)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'system of',\n",
+ " 'o': 'Saturated 4x4 gauze dressings:Num:Pt:Wound:Qn',\n",
+ " 'similarity': 'tensor(0.3488)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to blood vessels of head and neck',\n",
+ " 'similarity': 'tensor(0.3484)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to saphenous veins',\n",
+ " 'similarity': 'tensor(0.3483)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'trauma',\n",
+ " 'similarity': 'tensor(0.3480)'},\n",
+ " {'s': 'SPARC-RELATED MODULAR CALCIUM-BINDING PROTEIN 2',\n",
+ " 'p': 'has allelic variant',\n",
+ " 'o': 'SMOC2, IVS1DS, G-T, 84+1',\n",
+ " 'similarity': 'tensor(0.3480)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to deep plantar blood vessels',\n",
+ " 'similarity': 'tensor(0.3478)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Bruise',\n",
+ " 'similarity': 'tensor(0.3476)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'system of',\n",
+ " 'o': 'Microscopic observation:Prid:Pt:Wound:Nom:Acid fast stain',\n",
+ " 'similarity': 'tensor(0.3476)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injuries, Olfactory Nerve',\n",
+ " 'similarity': 'tensor(0.3472)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'system of',\n",
+ " 'o': 'Dressing purpose:Type:Pt:Wound:Nom',\n",
+ " 'similarity': 'tensor(0.3471)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Ruptures',\n",
+ " 'similarity': 'tensor(0.3470)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'system of',\n",
+ " 'o': 'Debridement method:Type:Pt:Wound:Nom',\n",
+ " 'similarity': 'tensor(0.3467)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to radial blood vessels',\n",
+ " 'similarity': 'tensor(0.3467)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Actinic Damage',\n",
+ " 'similarity': 'tensor(0.3464)'},\n",
+ " {'s': 'Expression, Gene',\n",
+ " 'p': 'has a narrower relationship',\n",
+ " 'o': 'genetic regulation',\n",
+ " 'similarity': 'tensor(0.3462)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to axillary blood vessels',\n",
+ " 'similarity': 'tensor(0.3461)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'analyzed by',\n",
+ " 'o': 'Fluid output.wound drain:Vol:Pt:Wound:Qn:Estimated',\n",
+ " 'similarity': 'tensor(0.3455)'},\n",
+ " {'s': 'Injuries',\n",
+ " 'p': 'has permuted term',\n",
+ " 'o': 'Injury',\n",
+ " 'similarity': 'tensor(0.3454)'},\n",
+ " {'s': 'Expression, Gene',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Modification, Post-Translational Protein',\n",
+ " 'similarity': 'tensor(0.3452)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Open wound of toe(s), with tendon involvement',\n",
+ " 'similarity': 'tensor(0.3447)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to brachial blood vessels',\n",
+ " 'similarity': 'tensor(0.3444)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Urologic injuries',\n",
+ " 'similarity': 'tensor(0.3443)'},\n",
+ " {'s': 'Expression, Gene',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'genetic transcription',\n",
+ " 'similarity': 'tensor(0.3438)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Subdural hemorrhage following injury with open intracranial wound, with concussion, unspecified',\n",
+ " 'similarity': 'tensor(0.3438)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'system of',\n",
+ " 'o': 'Saturated 4x8 gauze dressings:Num:Pt:Wound:Qn',\n",
+ " 'similarity': 'tensor(0.3428)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to blood vessels of thorax',\n",
+ " 'similarity': 'tensor(0.3423)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Traumatic abnormality',\n",
+ " 'similarity': 'tensor(0.3422)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'system of',\n",
+ " 'o': 'Color:Type:Pt:Wound.edge:Nom',\n",
+ " 'similarity': 'tensor(0.3417)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'system of',\n",
+ " 'o': 'Microscopic observation:Prid:Pt:Wound:Nom:Acid fast stain.Kinyoun modified',\n",
+ " 'similarity': 'tensor(0.3417)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'shock',\n",
+ " 'similarity': 'tensor(0.3416)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Shock',\n",
+ " 'similarity': 'tensor(0.3416)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'thermal energy',\n",
+ " 'similarity': 'tensor(0.3411)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury, Teeth',\n",
+ " 'similarity': 'tensor(0.3409)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'dysbarism',\n",
+ " 'similarity': 'tensor(0.3408)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'AODR injury prevention',\n",
+ " 'similarity': 'tensor(0.3406)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'traumatic',\n",
+ " 'similarity': 'tensor(0.3405)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'system of',\n",
+ " 'o': 'Depth:Len:Pt:Wound:Qn',\n",
+ " 'similarity': 'tensor(0.3405)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to ulnar blood vessels',\n",
+ " 'similarity': 'tensor(0.3403)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury of vagina',\n",
+ " 'similarity': 'tensor(0.3400)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'system of',\n",
+ " 'o': 'Drainage description:Aper:Pt:Wound:Nar',\n",
+ " 'similarity': 'tensor(0.3397)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'limb injury',\n",
+ " 'similarity': 'tensor(0.3393)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'limb injury',\n",
+ " 'similarity': 'tensor(0.3393)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'concept in subset',\n",
+ " 'o': 'mCode Terminology',\n",
+ " 'similarity': 'tensor(0.3391)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Cut',\n",
+ " 'similarity': 'tensor(0.3389)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Assault',\n",
+ " 'similarity': 'tensor(0.3388)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Closed fracture of thoracic region NOS with spinal cord injury NOS',\n",
+ " 'similarity': 'tensor(0.3388)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Open wound of finger(s), with tendon involvement',\n",
+ " 'similarity': 'tensor(0.3387)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'breast injury',\n",
+ " 'similarity': 'tensor(0.3382)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'injury mechanism',\n",
+ " 'similarity': 'tensor(0.3381)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Tissue Rarefaction',\n",
+ " 'similarity': 'tensor(0.3380)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Transport Injury',\n",
+ " 'similarity': 'tensor(0.3373)'},\n",
+ " {'s': 'Expression, Gene',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Modification, Post-Transcriptional RNA',\n",
+ " 'similarity': 'tensor(0.3373)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'isa',\n",
+ " 'o': 'Finding by Cause',\n",
+ " 'similarity': 'tensor(0.3372)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to multiple and unspecified intrathoracic organs, with open wound into cavity',\n",
+ " 'similarity': 'tensor(0.3370)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'musculoskeletal injury',\n",
+ " 'similarity': 'tensor(0.3369)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Other musculoskeletal injury',\n",
+ " 'similarity': 'tensor(0.3367)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to unspecified blood vessel of lower extremity',\n",
+ " 'similarity': 'tensor(0.3365)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Lung Injury',\n",
+ " 'similarity': 'tensor(0.3362)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has a narrower relationship',\n",
+ " 'o': 'disease/disorder',\n",
+ " 'similarity': 'tensor(0.3362)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Open wound of hip and thigh, with tendon involvement',\n",
+ " 'similarity': 'tensor(0.3361)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'lung injury',\n",
+ " 'similarity': 'tensor(0.3361)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to iliac blood vessels',\n",
+ " 'similarity': 'tensor(0.3358)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Cardiovascular Injury',\n",
+ " 'similarity': 'tensor(0.3356)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Bite Injury',\n",
+ " 'similarity': 'tensor(0.3353)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Survivin Positive',\n",
+ " 'similarity': 'tensor(0.3353)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'system of',\n",
+ " 'o': 'Color:Type:Pt:Wound.base:Nom',\n",
+ " 'similarity': 'tensor(0.3345)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to superior mesenteric vein and primary subdivisions',\n",
+ " 'similarity': 'tensor(0.3344)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Other and unspecified injury to unspecified site',\n",
+ " 'similarity': 'tensor(0.3344)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'FGFR2 Positive',\n",
+ " 'similarity': 'tensor(0.3343)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'injured',\n",
+ " 'similarity': 'tensor(0.3342)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has a narrower relationship',\n",
+ " 'o': 'trauma',\n",
+ " 'similarity': 'tensor(0.3338)'},\n",
+ " {'s': 'Expression, Gene',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'genetic translation',\n",
+ " 'similarity': 'tensor(0.3335)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'concept in subset',\n",
+ " 'o': 'mCode Genomic Specimen Type Value Set',\n",
+ " 'similarity': 'tensor(0.3332)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Thymic Damage',\n",
+ " 'similarity': 'tensor(0.3332)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Coma',\n",
+ " 'similarity': 'tensor(0.3332)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Wnt Positive',\n",
+ " 'similarity': 'tensor(0.3330)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'birth injury',\n",
+ " 'similarity': 'tensor(0.3329)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Radiation Damage',\n",
+ " 'similarity': 'tensor(0.3326)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to popliteal blood vessels',\n",
+ " 'similarity': 'tensor(0.3325)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'TREM2 Positive',\n",
+ " 'similarity': 'tensor(0.3321)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'heat injury',\n",
+ " 'similarity': 'tensor(0.3321)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'cold injury',\n",
+ " 'similarity': 'tensor(0.3320)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Closed fracture of cervical region NOS with spinal cord injury NOS',\n",
+ " 'similarity': 'tensor(0.3320)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'lung injury',\n",
+ " 'similarity': 'tensor(0.3313)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Lung Injury',\n",
+ " 'similarity': 'tensor(0.3313)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'CD27 Positive',\n",
+ " 'similarity': 'tensor(0.3305)'},\n",
+ " {'s': 'Expression, Gene',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Enzyme Induction',\n",
+ " 'similarity': 'tensor(0.3304)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury, Chest',\n",
+ " 'similarity': 'tensor(0.3302)'},\n",
+ " {'s': 'SPARC related modular calcium binding 2',\n",
+ " 'p': 'has alias',\n",
+ " 'o': 'SMAP2',\n",
+ " 'similarity': 'tensor(0.3302)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury of abdominal wall',\n",
+ " 'similarity': 'tensor(0.3301)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Preretinal haemorrhage',\n",
+ " 'similarity': 'tensor(0.3300)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'contusion',\n",
+ " 'similarity': 'tensor(0.3297)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'dysbarism',\n",
+ " 'similarity': 'tensor(0.3296)'},\n",
+ " {'s': 'Expressed',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'protein quantitation/detection',\n",
+ " 'similarity': 'tensor(0.3296)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Unspecified site of spinal cord injury without spinal bone injury',\n",
+ " 'similarity': 'tensor(0.3293)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Heregulin Positive',\n",
+ " 'similarity': 'tensor(0.3292)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'system of',\n",
+ " 'o': 'Drainage amount from device:Vol:Pt:Wound.exudate:Qn',\n",
+ " 'similarity': 'tensor(0.3291)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Traumatic AND/OR non-traumatic injury',\n",
+ " 'similarity': 'tensor(0.3286)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'injuries throat',\n",
+ " 'similarity': 'tensor(0.3286)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Serious Injury',\n",
+ " 'similarity': 'tensor(0.3283)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'ESO-1 Positive Cells Present',\n",
+ " 'similarity': 'tensor(0.3280)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'MDM2 Positive',\n",
+ " 'similarity': 'tensor(0.3276)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'sports injury',\n",
+ " 'similarity': 'tensor(0.3275)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'PDGFR Positive',\n",
+ " 'similarity': 'tensor(0.3275)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'contusion',\n",
+ " 'similarity': 'tensor(0.3272)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'physical insult',\n",
+ " 'similarity': 'tensor(0.3272)'},\n",
+ " {'s': 'gene expression',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'gene expression involved in extracellular matrix organization',\n",
+ " 'similarity': 'tensor(0.3271)'},\n",
+ " {'s': 'gene expression',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'gene expression involved in extracellular matrix organization',\n",
+ " 'similarity': 'tensor(0.3271)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'COX2 Positive',\n",
+ " 'similarity': 'tensor(0.3271)'},\n",
+ " {'s': 'Expressed',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Positive',\n",
+ " 'similarity': 'tensor(0.3270)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Laceration',\n",
+ " 'similarity': 'tensor(0.3267)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'body part',\n",
+ " 'similarity': 'tensor(0.3266)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Body part',\n",
+ " 'similarity': 'tensor(0.3266)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'injuries',\n",
+ " 'similarity': 'tensor(0.3265)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Safeties',\n",
+ " 'similarity': 'tensor(0.3261)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'CD20 Positive',\n",
+ " 'similarity': 'tensor(0.3261)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Male genital injuries',\n",
+ " 'similarity': 'tensor(0.3260)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'limb injury',\n",
+ " 'similarity': 'tensor(0.3257)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Closed fracture of T(7)-T(12) level with other specified spinal cord injury',\n",
+ " 'similarity': 'tensor(0.3257)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'HLA-A2 Positive Cells Present',\n",
+ " 'similarity': 'tensor(0.3256)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Congenital Disorder',\n",
+ " 'similarity': 'tensor(0.3255)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to pulmonary artery',\n",
+ " 'similarity': 'tensor(0.3253)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Connective and Soft Tissue Injury',\n",
+ " 'similarity': 'tensor(0.3252)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Criminal Injury',\n",
+ " 'similarity': 'tensor(0.3252)'},\n",
+ " {'s': 'Expression, Gene',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'gene induction/repression',\n",
+ " 'similarity': 'tensor(0.3246)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Closed fracture of sacrum and coccyx with spinal cord injury',\n",
+ " 'similarity': 'tensor(0.3243)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Crack',\n",
+ " 'similarity': 'tensor(0.3241)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'HLA-A24 Positive Cells Present',\n",
+ " 'similarity': 'tensor(0.3240)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'potential accident',\n",
+ " 'similarity': 'tensor(0.3240)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury of face and neck',\n",
+ " 'similarity': 'tensor(0.3235)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'IL2RA Positive',\n",
+ " 'similarity': 'tensor(0.3234)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'flank injury',\n",
+ " 'similarity': 'tensor(0.3234)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Other unspecified injury',\n",
+ " 'similarity': 'tensor(0.3233)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Closed fracture of axis without mention of spinal cord injury',\n",
+ " 'similarity': 'tensor(0.3232)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'bone fracture',\n",
+ " 'similarity': 'tensor(0.3231)'},\n",
+ " {'s': 'Expression, Gene',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'SYNUCLEIN, ALPHA',\n",
+ " 'similarity': 'tensor(0.3230)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Accident',\n",
+ " 'similarity': 'tensor(0.3229)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'cardiovascular injury',\n",
+ " 'similarity': 'tensor(0.3227)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'birth injury',\n",
+ " 'similarity': 'tensor(0.3226)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'injured person',\n",
+ " 'similarity': 'tensor(0.3225)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'system of',\n",
+ " 'o': 'Fluid output.wound drain:Vol:Pt:Wound:Qn:Estimated',\n",
+ " 'similarity': 'tensor(0.3221)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'injury of brachial artery',\n",
+ " 'similarity': 'tensor(0.3220)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'MUC1 Positive',\n",
+ " 'similarity': 'tensor(0.3218)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'repetitive motion injury',\n",
+ " 'similarity': 'tensor(0.3217)'},\n",
+ " {'s': 'SECRETED MODULAR CALCIUM-BINDING PROTEIN 2',\n",
+ " 'p': 'alias of',\n",
+ " 'o': 'SPARC-RELATED MODULAR CALCIUM-BINDING PROTEIN 2',\n",
+ " 'similarity': 'tensor(0.3215)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to primary branches of superior mesenteric artery',\n",
+ " 'similarity': 'tensor(0.3213)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'CD22 Positive',\n",
+ " 'similarity': 'tensor(0.3213)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'chest injury',\n",
+ " 'similarity': 'tensor(0.3211)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to hepatic veins',\n",
+ " 'similarity': 'tensor(0.3209)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Chemical Injury',\n",
+ " 'similarity': 'tensor(0.3204)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Closed fracture of sacrum and coccyx with other spinal cord injury',\n",
+ " 'similarity': 'tensor(0.3204)'},\n",
+ " {'s': 'Expressed',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Expression, Gene',\n",
+ " 'similarity': 'tensor(0.3201)'},\n",
+ " {'s': 'Expressed',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Expression, Gene',\n",
+ " 'similarity': 'tensor(0.3201)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to cystic vein',\n",
+ " 'similarity': 'tensor(0.3200)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'repetitive motion injury',\n",
+ " 'similarity': 'tensor(0.3199)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to splenic artery',\n",
+ " 'similarity': 'tensor(0.3193)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Toxicity',\n",
+ " 'similarity': 'tensor(0.3192)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'eye injury',\n",
+ " 'similarity': 'tensor(0.3190)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'EYE INJURY',\n",
+ " 'similarity': 'tensor(0.3190)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Tooth Abrasion',\n",
+ " 'similarity': 'tensor(0.3188)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'musculoskeletal injury',\n",
+ " 'similarity': 'tensor(0.3188)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Bronchial Injury',\n",
+ " 'similarity': 'tensor(0.3186)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Sprain',\n",
+ " 'similarity': 'tensor(0.3184)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Bladder Injury',\n",
+ " 'similarity': 'tensor(0.3183)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'MUC17 Positive',\n",
+ " 'similarity': 'tensor(0.3179)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Mesothelin Positive',\n",
+ " 'similarity': 'tensor(0.3178)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Female genital injuries',\n",
+ " 'similarity': 'tensor(0.3178)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'CD276 Antigen Positive',\n",
+ " 'similarity': 'tensor(0.3176)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'cardiovascular injury',\n",
+ " 'similarity': 'tensor(0.3176)'},\n",
+ " {'s': 'Expression, Gene',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'expression cloning',\n",
+ " 'similarity': 'tensor(0.3175)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Open fracture of sacrum and coccyx with spinal cord injury',\n",
+ " 'similarity': 'tensor(0.3175)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Cord Injuries, Spinal',\n",
+ " 'similarity': 'tensor(0.3174)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has child relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'disease/disorder',\n",
+ " 'similarity': 'tensor(0.3174)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to suprarenal arteries',\n",
+ " 'similarity': 'tensor(0.3173)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'CD28 Positive',\n",
+ " 'similarity': 'tensor(0.3172)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Frostbites',\n",
+ " 'similarity': 'tensor(0.3171)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Nerve Injury, Vagus',\n",
+ " 'similarity': 'tensor(0.3168)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to superficial femoral artery',\n",
+ " 'similarity': 'tensor(0.3168)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'chest injury',\n",
+ " 'similarity': 'tensor(0.3165)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Closed fracture of C(1)-C(4) level with other specified spinal cord injury',\n",
+ " 'similarity': 'tensor(0.3165)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to hepatic artery',\n",
+ " 'similarity': 'tensor(0.3164)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to hemiazygos vein',\n",
+ " 'similarity': 'tensor(0.3162)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Finger Injuries',\n",
+ " 'similarity': 'tensor(0.3159)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'chest wall injury',\n",
+ " 'similarity': 'tensor(0.3153)'},\n",
+ " {'s': 'Expressed',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Modification, Post-Translational Protein',\n",
+ " 'similarity': 'tensor(0.3153)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'EAR INJURY',\n",
+ " 'similarity': 'tensor(0.3147)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'NCAM1 Positive',\n",
+ " 'similarity': 'tensor(0.3145)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to splenic vein',\n",
+ " 'similarity': 'tensor(0.3145)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Closed fracture of T(7)-T(12) level with unspecified spinal cord injury',\n",
+ " 'similarity': 'tensor(0.3144)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'eye injury',\n",
+ " 'similarity': 'tensor(0.3143)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to portal and splenic veins',\n",
+ " 'similarity': 'tensor(0.3140)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Traumatic blindness NOS',\n",
+ " 'similarity': 'tensor(0.3139)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to uterine vein',\n",
+ " 'similarity': 'tensor(0.3139)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to celiac and mesenteric arteries',\n",
+ " 'similarity': 'tensor(0.3137)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'NECTIN2 Positive',\n",
+ " 'similarity': 'tensor(0.3133)'},\n",
+ " {'s': 'SPARC-RELATED MODULAR CALCIUM-BINDING PROTEIN 2',\n",
+ " 'p': 'has alias',\n",
+ " 'o': 'SECRETED MODULAR CALCIUM-BINDING PROTEIN 2',\n",
+ " 'similarity': 'tensor(0.3133)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Open fracture of sacrum and coccyx with other spinal cord injury',\n",
+ " 'similarity': 'tensor(0.3131)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'MUC16 Positive',\n",
+ " 'similarity': 'tensor(0.3129)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a narrower relationship',\n",
+ " 'o': 'traumatic disorders',\n",
+ " 'similarity': 'tensor(0.3127)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'CD52 Positive',\n",
+ " 'similarity': 'tensor(0.3122)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'system of',\n",
+ " 'o': 'Undermining clock position:Find:Pt:Wound:Nom',\n",
+ " 'similarity': 'tensor(0.3121)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Ocular Injury',\n",
+ " 'similarity': 'tensor(0.3121)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Ear Injury',\n",
+ " 'similarity': 'tensor(0.3119)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Domestic Injury',\n",
+ " 'similarity': 'tensor(0.3118)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'cold injury',\n",
+ " 'similarity': 'tensor(0.3118)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to cutaneous sensory nerve, upper limb',\n",
+ " 'similarity': 'tensor(0.3118)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Sports Injury',\n",
+ " 'similarity': 'tensor(0.3114)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'system of',\n",
+ " 'o': 'Class:Type:Pt:Wound drain device:Nom',\n",
+ " 'similarity': 'tensor(0.3113)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'CD34 Positive',\n",
+ " 'similarity': 'tensor(0.3112)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to uterine artery',\n",
+ " 'similarity': 'tensor(0.3110)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Other and unspecified injury to elbow, forearm, and wrist',\n",
+ " 'similarity': 'tensor(0.3110)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'type of injury',\n",
+ " 'similarity': 'tensor(0.3110)'},\n",
+ " {'s': 'Expressed',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Expressed',\n",
+ " 'similarity': 'tensor(0.3109)'},\n",
+ " {'s': 'Expressed',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Expressed',\n",
+ " 'similarity': 'tensor(0.3109)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'SCGB2A2 Positive',\n",
+ " 'similarity': 'tensor(0.3108)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to scapular region',\n",
+ " 'similarity': 'tensor(0.3108)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Crush Injury',\n",
+ " 'similarity': 'tensor(0.3108)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Athletic Injuries',\n",
+ " 'similarity': 'tensor(0.3107)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Closed fracture of T1-T6 level with other specified spinal cord injury',\n",
+ " 'similarity': 'tensor(0.3107)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Open fracture of C(5)-C(7) level with other specified spinal cord injury',\n",
+ " 'similarity': 'tensor(0.3105)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to anterior tibial artery',\n",
+ " 'similarity': 'tensor(0.3103)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to ileo-colic artery',\n",
+ " 'similarity': 'tensor(0.3103)'},\n",
+ " {'s': 'Expression, Gene',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Activation, Gene',\n",
+ " 'similarity': 'tensor(0.3102)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to posterior tibial artery',\n",
+ " 'similarity': 'tensor(0.3102)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to palmar artery',\n",
+ " 'similarity': 'tensor(0.3098)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'esophageal injury',\n",
+ " 'similarity': 'tensor(0.3096)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'IL2RB Positive',\n",
+ " 'similarity': 'tensor(0.3095)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to pulmonary vein',\n",
+ " 'similarity': 'tensor(0.3094)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to ileo-colic vein',\n",
+ " 'similarity': 'tensor(0.3094)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Repetition Strain Injuries',\n",
+ " 'similarity': 'tensor(0.3092)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injuries, Oculomotor Nerve',\n",
+ " 'similarity': 'tensor(0.3092)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'CEACAM6 Positive',\n",
+ " 'similarity': 'tensor(0.3086)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'CD44 Positive',\n",
+ " 'similarity': 'tensor(0.3086)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'FGFR1 Positive',\n",
+ " 'similarity': 'tensor(0.3085)'},\n",
+ " {'s': 'Expression, Gene',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Genetic Predispositions',\n",
+ " 'similarity': 'tensor(0.3081)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Heart Injuries',\n",
+ " 'similarity': 'tensor(0.3079)'},\n",
+ " {'s': 'Expression, Gene',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Expressed',\n",
+ " 'similarity': 'tensor(0.3079)'},\n",
+ " {'s': 'Expression, Gene',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Expressed',\n",
+ " 'similarity': 'tensor(0.3079)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to inferior mesenteric artery',\n",
+ " 'similarity': 'tensor(0.3079)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'injury by intent',\n",
+ " 'similarity': 'tensor(0.3078)'},\n",
+ " {'s': 'mRNA Expression',\n",
+ " 'p': 'process involves gene',\n",
+ " 'o': 'CTDSP2 wt Allele',\n",
+ " 'similarity': 'tensor(0.3078)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Open fracture of T(7)-T(12) level with unspecified spinal cord injury',\n",
+ " 'similarity': 'tensor(0.3077)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'HLA-A*26 Positive Cells Present',\n",
+ " 'similarity': 'tensor(0.3075)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Lumbar cord injury without spinal bone injury',\n",
+ " 'similarity': 'tensor(0.3075)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'sports injury',\n",
+ " 'similarity': 'tensor(0.3074)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Closed fracture of C(5)-C(7) level with unspecified spinal cord injury',\n",
+ " 'similarity': 'tensor(0.3073)'},\n",
+ " {'s': 'Expression, Gene',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Gene Targeting',\n",
+ " 'similarity': 'tensor(0.3072)'},\n",
+ " {'s': 'gene expression',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'production of molecular mediator of immune response',\n",
+ " 'similarity': 'tensor(0.3071)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Common femoral artery injury',\n",
+ " 'similarity': 'tensor(0.3070)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to musculocutaneous nerve',\n",
+ " 'similarity': 'tensor(0.3069)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'system of',\n",
+ " 'o': 'Vendor serial number:ID:Pt:Wound drain device:Nom',\n",
+ " 'similarity': 'tensor(0.3067)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'electrical shock injury',\n",
+ " 'similarity': 'tensor(0.3067)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'injury by intent',\n",
+ " 'similarity': 'tensor(0.3067)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'PDCD1 Positive',\n",
+ " 'similarity': 'tensor(0.3067)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'nerve injury',\n",
+ " 'similarity': 'tensor(0.3067)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'FGFR2IIIb Positive',\n",
+ " 'similarity': 'tensor(0.3066)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'process involves gene',\n",
+ " 'o': 'SETD2 wt Allele',\n",
+ " 'similarity': 'tensor(0.3065)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Open fracture of T7-T12 level with other specified spinal cord injury',\n",
+ " 'similarity': 'tensor(0.3063)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury due to war operations by unspecified explosion',\n",
+ " 'similarity': 'tensor(0.3063)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'accident',\n",
+ " 'similarity': 'tensor(0.3062)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'accident',\n",
+ " 'similarity': 'tensor(0.3062)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'ACCIDENT',\n",
+ " 'similarity': 'tensor(0.3062)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Intentional Trauma',\n",
+ " 'similarity': 'tensor(0.3062)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Closed fracture of sacrum and coccyx with other cauda equina injury',\n",
+ " 'similarity': 'tensor(0.3061)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Blast Injury',\n",
+ " 'similarity': 'tensor(0.3061)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to axillary artery',\n",
+ " 'similarity': 'tensor(0.3061)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Homicidal attempt, injury NOS',\n",
+ " 'similarity': 'tensor(0.3061)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Ovarian Injury',\n",
+ " 'similarity': 'tensor(0.3060)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Middle meningeal hemorrhage following injury',\n",
+ " 'similarity': 'tensor(0.3060)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to axilla',\n",
+ " 'similarity': 'tensor(0.3060)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to axillary vein',\n",
+ " 'similarity': 'tensor(0.3058)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'injury nerve trigeminal',\n",
+ " 'similarity': 'tensor(0.3057)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'process involves gene',\n",
+ " 'o': 'AR wt Allele',\n",
+ " 'similarity': 'tensor(0.3056)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'system of',\n",
+ " 'o': 'Tunneling clock position:Find:Pt:Wound:Nom',\n",
+ " 'similarity': 'tensor(0.3054)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'hip injury',\n",
+ " 'similarity': 'tensor(0.3054)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to renal artery',\n",
+ " 'similarity': 'tensor(0.3052)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Closed fracture of T7-T12 level with incomplete spinal cord lesion NOS',\n",
+ " 'similarity': 'tensor(0.3052)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to inferior mesenteric vein',\n",
+ " 'similarity': 'tensor(0.3050)'},\n",
+ " {'s': 'Expression, Gene',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Gene, Switch',\n",
+ " 'similarity': 'tensor(0.3050)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'spinal cord injury',\n",
+ " 'similarity': 'tensor(0.3049)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'system of',\n",
+ " 'o': 'Vendor model number:Prid:Pt:Wound drain device:Nom',\n",
+ " 'similarity': 'tensor(0.3049)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'buttocks trauma',\n",
+ " 'similarity': 'tensor(0.3048)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'CTAG2 Positive',\n",
+ " 'similarity': 'tensor(0.3046)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'concept in subset',\n",
+ " 'o': 'Neonatal Research Network Terminology',\n",
+ " 'similarity': 'tensor(0.3046)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Electric Shock',\n",
+ " 'similarity': 'tensor(0.3045)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'SDHA Positive',\n",
+ " 'similarity': 'tensor(0.3044)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Prostatic Injury',\n",
+ " 'similarity': 'tensor(0.3043)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Tooth Fracture',\n",
+ " 'similarity': 'tensor(0.3035)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'NOS2 Positive',\n",
+ " 'similarity': 'tensor(0.3034)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Firearm Injury',\n",
+ " 'similarity': 'tensor(0.3034)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'TNFRSF17 Positive',\n",
+ " 'similarity': 'tensor(0.3029)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'HLA-C*01:02 Positive Cells Present',\n",
+ " 'similarity': 'tensor(0.3028)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'IL13RA2 Positive',\n",
+ " 'similarity': 'tensor(0.3028)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to superior mesenteric artery (trunk)',\n",
+ " 'similarity': 'tensor(0.3028)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'CXCL13 Positive',\n",
+ " 'similarity': 'tensor(0.3027)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'HA-2 Genotype Positive',\n",
+ " 'similarity': 'tensor(0.3023)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'process involves gene',\n",
+ " 'o': 'UBC wt Allele',\n",
+ " 'similarity': 'tensor(0.3021)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to posterior tibial vein',\n",
+ " 'similarity': 'tensor(0.3020)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'CEACAM5 Positive',\n",
+ " 'similarity': 'tensor(0.3019)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Hand Injuries',\n",
+ " 'similarity': 'tensor(0.3019)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Open fracture of T1-T6 level with other specified spinal cord injury',\n",
+ " 'similarity': 'tensor(0.3018)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'TNFRSF8 Positive',\n",
+ " 'similarity': 'tensor(0.3016)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Closed fracture of T1-T6 level with incomplete spinal cord lesion NOS',\n",
+ " 'similarity': 'tensor(0.3015)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Intracranial injury',\n",
+ " 'similarity': 'tensor(0.3013)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'injuries nerve ulnar',\n",
+ " 'similarity': 'tensor(0.3011)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'WT1 Positive',\n",
+ " 'similarity': 'tensor(0.3009)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'SIRPA V2/V2 Genotype Positive',\n",
+ " 'similarity': 'tensor(0.3008)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to renal vein',\n",
+ " 'similarity': 'tensor(0.3008)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'isa',\n",
+ " 'o': 'Positive Laboratory Test Result',\n",
+ " 'similarity': 'tensor(0.3007)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Intraoperative Injury',\n",
+ " 'similarity': 'tensor(0.3006)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to anterior tibial vein',\n",
+ " 'similarity': 'tensor(0.3006)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'INTENTIONAL INJURY',\n",
+ " 'similarity': 'tensor(0.3006)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'accident proneness',\n",
+ " 'similarity': 'tensor(0.3005)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Accident Proneness',\n",
+ " 'similarity': 'tensor(0.3005)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Merkel Cell Polyomavirus T Antigen Positive',\n",
+ " 'similarity': 'tensor(0.3004)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Open fracture of C(5)-C(7) level with unspecified spinal cord injury',\n",
+ " 'similarity': 'tensor(0.3004)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'TNFRSF13C Positive',\n",
+ " 'similarity': 'tensor(0.3001)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to celiac ganglion or plexus',\n",
+ " 'similarity': 'tensor(0.3001)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'ACCIDENTAL INJURY',\n",
+ " 'similarity': 'tensor(0.3000)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'CCR5 Positive',\n",
+ " 'similarity': 'tensor(0.2998)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'back injury',\n",
+ " 'similarity': 'tensor(0.2998)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'HLA-C*07:02 Positive Cells Present',\n",
+ " 'similarity': 'tensor(0.2997)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'nerve injury',\n",
+ " 'similarity': 'tensor(0.2997)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Trunk Injury',\n",
+ " 'similarity': 'tensor(0.2997)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Thigh Injury',\n",
+ " 'similarity': 'tensor(0.2996)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to stellate ganglion',\n",
+ " 'similarity': 'tensor(0.2995)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Suicide and self-inflicted injury by unspecified means',\n",
+ " 'similarity': 'tensor(0.2995)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'KNEE INJURY',\n",
+ " 'similarity': 'tensor(0.2995)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'related and possibly synonymous',\n",
+ " 'o': 'physical trauma',\n",
+ " 'similarity': 'tensor(0.2995)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'isa',\n",
+ " 'o': 'Gene Expression Process',\n",
+ " 'similarity': 'tensor(0.2994)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Paraplegia',\n",
+ " 'similarity': 'tensor(0.2994)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Open fracture of T7-T12 level with incomplete spinal cord lesion NOS',\n",
+ " 'similarity': 'tensor(0.2992)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Injury to Diaphragm',\n",
+ " 'similarity': 'tensor(0.2992)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Dislocation',\n",
+ " 'similarity': 'tensor(0.2990)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'HEAD TRAUMA',\n",
+ " 'similarity': 'tensor(0.2988)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Acoustic Shock',\n",
+ " 'similarity': 'tensor(0.2987)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Somatostatin Receptor Positive',\n",
+ " 'similarity': 'tensor(0.2986)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Open fracture of sacrum and coccyx with other cauda equina injury',\n",
+ " 'similarity': 'tensor(0.2985)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Nerve Injury, Glossopharyngeal',\n",
+ " 'similarity': 'tensor(0.2984)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Closed fracture of T1-T6 level with unspecified spinal cord injury',\n",
+ " 'similarity': 'tensor(0.2983)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Injury to Kidney',\n",
+ " 'similarity': 'tensor(0.2982)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Quadriplegias',\n",
+ " 'similarity': 'tensor(0.2981)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to gastric vein',\n",
+ " 'similarity': 'tensor(0.2980)'},\n",
+ " {'s': 'Wound',\n",
+ " 'p': 'system of',\n",
+ " 'o': 'Institution inventory number:ID:Pt:Wound drain device:Nom',\n",
+ " 'similarity': 'tensor(0.2979)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'TCR Alpha-Beta Positive',\n",
+ " 'similarity': 'tensor(0.2978)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'JOINT DISLOCATION',\n",
+ " 'similarity': 'tensor(0.2978)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'CD1C Positive',\n",
+ " 'similarity': 'tensor(0.2977)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Road Injury',\n",
+ " 'similarity': 'tensor(0.2976)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'FGFR4 Positive',\n",
+ " 'similarity': 'tensor(0.2975)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to iliac artery',\n",
+ " 'similarity': 'tensor(0.2975)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'concept in subset',\n",
+ " 'o': 'National Health Interview Survey',\n",
+ " 'similarity': 'tensor(0.2974)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'back injury',\n",
+ " 'similarity': 'tensor(0.2974)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'BACK INJURY',\n",
+ " 'similarity': 'tensor(0.2974)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to Superior Vena Cava',\n",
+ " 'similarity': 'tensor(0.2974)'},\n",
+ " {'s': 'gene expression',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'receptor expression',\n",
+ " 'similarity': 'tensor(0.2974)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'FGF19 Positive',\n",
+ " 'similarity': 'tensor(0.2973)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'TNFRSF9 Positive',\n",
+ " 'similarity': 'tensor(0.2971)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to popliteal artery',\n",
+ " 'similarity': 'tensor(0.2969)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Digestive System Injury',\n",
+ " 'similarity': 'tensor(0.2969)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'HLA-A1 Positive Cells Present',\n",
+ " 'similarity': 'tensor(0.2969)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'BCL2 Positive',\n",
+ " 'similarity': 'tensor(0.2968)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'HLA-A3 Positive Cells Present',\n",
+ " 'similarity': 'tensor(0.2964)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Hemiplegia',\n",
+ " 'similarity': 'tensor(0.2962)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Accidental Injury',\n",
+ " 'similarity': 'tensor(0.2960)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Nervous System Injury',\n",
+ " 'similarity': 'tensor(0.2960)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Ankle Injuries',\n",
+ " 'similarity': 'tensor(0.2959)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Closed fracture of C5-C7 level with incomplete spinal cord lesion NOS',\n",
+ " 'similarity': 'tensor(0.2959)'},\n",
+ " {'s': 'Expression, Gene',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'gene interaction',\n",
+ " 'similarity': 'tensor(0.2957)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to thoracic aorta',\n",
+ " 'similarity': 'tensor(0.2956)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Rupture',\n",
+ " 'similarity': 'tensor(0.2955)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to azygos vein',\n",
+ " 'similarity': 'tensor(0.2955)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to gastric artery',\n",
+ " 'similarity': 'tensor(0.2953)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Contusion of esophagus',\n",
+ " 'similarity': 'tensor(0.2953)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'CD70 Positive',\n",
+ " 'similarity': 'tensor(0.2952)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Neonatal Injury Related to Birth',\n",
+ " 'similarity': 'tensor(0.2951)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Open fracture of T1-T6 level with incomplete spinal cord lesion NOS',\n",
+ " 'similarity': 'tensor(0.2951)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to optic pathways',\n",
+ " 'similarity': 'tensor(0.2950)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'groin injuries',\n",
+ " 'similarity': 'tensor(0.2950)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to iliac vein',\n",
+ " 'similarity': 'tensor(0.2950)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'answer to',\n",
+ " 'o': 'Procedure complication:Find:Pt:^Patient:Nom:NEMSIS',\n",
+ " 'similarity': 'tensor(0.2950)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'concept in subset',\n",
+ " 'o': 'NICHD Terminology',\n",
+ " 'similarity': 'tensor(0.2950)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'CD33 Positive',\n",
+ " 'similarity': 'tensor(0.2949)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'CD37 Positive',\n",
+ " 'similarity': 'tensor(0.2949)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'femoral vein injury',\n",
+ " 'similarity': 'tensor(0.2947)'},\n",
+ " {'s': 'SPARC-RELATED MODULAR CALCIUM-BINDING PROTEIN 2',\n",
+ " 'p': 'has a narrower relationship',\n",
+ " 'o': 'genes',\n",
+ " 'similarity': 'tensor(0.2944)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'NERVE DAMAGE',\n",
+ " 'similarity': 'tensor(0.2944)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'SHOULDER INJURY',\n",
+ " 'similarity': 'tensor(0.2941)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Injury to Retroperitoneum with Open Wound into Cavity',\n",
+ " 'similarity': 'tensor(0.2939)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to hypogastric artery',\n",
+ " 'similarity': 'tensor(0.2937)'},\n",
+ " {'s': 'Expression, Gene',\n",
+ " 'p': 'permuted term of',\n",
+ " 'o': 'Gene Expression',\n",
+ " 'similarity': 'tensor(0.2936)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to nerve roots and spinal plexus',\n",
+ " 'similarity': 'tensor(0.2936)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'TNFRSF18 Positive',\n",
+ " 'similarity': 'tensor(0.2931)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Choking',\n",
+ " 'similarity': 'tensor(0.2931)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Open fracture of C1-C4 level with incomplete spinal cord lesion NOS',\n",
+ " 'similarity': 'tensor(0.2930)'},\n",
+ " {'s': 'gene expression',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'cytokine production',\n",
+ " 'similarity': 'tensor(0.2930)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to abdominal aorta',\n",
+ " 'similarity': 'tensor(0.2928)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'LIVER INJURY',\n",
+ " 'similarity': 'tensor(0.2925)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to popliteal vein',\n",
+ " 'similarity': 'tensor(0.2925)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Open fracture of C1-C4 level with other specified spinal cord injury',\n",
+ " 'similarity': 'tensor(0.2924)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'HLA-A*0201 HA-1 Positive Cells Present',\n",
+ " 'similarity': 'tensor(0.2924)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'hip injury',\n",
+ " 'similarity': 'tensor(0.2923)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Hip Injury',\n",
+ " 'similarity': 'tensor(0.2923)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'HLA-B*44:02 Positive Cells Present',\n",
+ " 'similarity': 'tensor(0.2923)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'TCR Gamma-Delta Positive',\n",
+ " 'similarity': 'tensor(0.2922)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Closed fracture of atlas without mention of spinal cord injury',\n",
+ " 'similarity': 'tensor(0.2921)'},\n",
+ " {'s': 'Expression, Gene',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'brca genes',\n",
+ " 'similarity': 'tensor(0.2919)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to portal vein',\n",
+ " 'similarity': 'tensor(0.2919)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'FCGR1A Positive',\n",
+ " 'similarity': 'tensor(0.2916)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Head Injury',\n",
+ " 'similarity': 'tensor(0.2914)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury of nerves at shoulder and upper arm level',\n",
+ " 'similarity': 'tensor(0.2912)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to hypogastric vein',\n",
+ " 'similarity': 'tensor(0.2910)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'ESR2 Positive',\n",
+ " 'similarity': 'tensor(0.2909)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'used for',\n",
+ " 'o': 'rupture',\n",
+ " 'similarity': 'tensor(0.2909)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'ROS1 Positive',\n",
+ " 'similarity': 'tensor(0.2908)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'HLA-C*08 Positive Cells Present',\n",
+ " 'similarity': 'tensor(0.2906)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'MYC Positive',\n",
+ " 'similarity': 'tensor(0.2906)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Sprain of chondrocostal joint without injury to sternum',\n",
+ " 'similarity': 'tensor(0.2905)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to ovarian artery',\n",
+ " 'similarity': 'tensor(0.2904)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Open fracture of T1-T6 level with unspecified spinal cord injury',\n",
+ " 'similarity': 'tensor(0.2903)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'MYCN Positive',\n",
+ " 'similarity': 'tensor(0.2903)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'CD36 Positive',\n",
+ " 'similarity': 'tensor(0.2900)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Open fracture of C5-C7 level with incomplete spinal cord lesion NOS',\n",
+ " 'similarity': 'tensor(0.2899)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Hormone Receptor Positive',\n",
+ " 'similarity': 'tensor(0.2897)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to ovarian vein',\n",
+ " 'similarity': 'tensor(0.2897)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'HLA-B*13:02 Positive Cells Present',\n",
+ " 'similarity': 'tensor(0.2895)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'head/neck injury',\n",
+ " 'similarity': 'tensor(0.2894)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'process involves gene',\n",
+ " 'o': 'SETD2 Gene',\n",
+ " 'similarity': 'tensor(0.2894)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'HLA-DP4 Positive Cells Present',\n",
+ " 'similarity': 'tensor(0.2894)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Injury Asphyxation',\n",
+ " 'similarity': 'tensor(0.2891)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'head neck injury',\n",
+ " 'similarity': 'tensor(0.2891)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'CD3 Positive',\n",
+ " 'similarity': 'tensor(0.2890)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'CD57 Positive',\n",
+ " 'similarity': 'tensor(0.2890)'},\n",
+ " {'s': 'gene expression',\n",
+ " 'p': 'has child relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'gene regulation',\n",
+ " 'similarity': 'tensor(0.2889)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'SOX11 Positive',\n",
+ " 'similarity': 'tensor(0.2889)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to Inferior Vena Cava',\n",
+ " 'similarity': 'tensor(0.2888)'},\n",
+ " {'s': 'Expressions, Gene',\n",
+ " 'p': 'permuted term of',\n",
+ " 'o': 'Gene Expression',\n",
+ " 'similarity': 'tensor(0.2883)'},\n",
+ " {'s': 'gene expression',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'posttranslational modification',\n",
+ " 'similarity': 'tensor(0.2882)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'SLC45A2 Positive',\n",
+ " 'similarity': 'tensor(0.2882)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to external carotid artery',\n",
+ " 'similarity': 'tensor(0.2880)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'process involves gene',\n",
+ " 'o': 'SUV39H2 wt Allele',\n",
+ " 'similarity': 'tensor(0.2878)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'CD14 Positive',\n",
+ " 'similarity': 'tensor(0.2877)'},\n",
+ " {'s': 'Protein Expression',\n",
+ " 'p': 'isa',\n",
+ " 'o': 'Gene Expression Process',\n",
+ " 'similarity': 'tensor(0.2877)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'FCER2 Positive',\n",
+ " 'similarity': 'tensor(0.2877)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'HLA-A31 Positive Cells Present',\n",
+ " 'similarity': 'tensor(0.2876)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'IGF1 Positive',\n",
+ " 'similarity': 'tensor(0.2875)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Abdominal Injury',\n",
+ " 'similarity': 'tensor(0.2875)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to inferior mesenteric plexus',\n",
+ " 'similarity': 'tensor(0.2874)'},\n",
+ " {'s': 'Expression, Gene',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Phenotypes',\n",
+ " 'similarity': 'tensor(0.2874)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'CD11c Positive',\n",
+ " 'similarity': 'tensor(0.2873)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'IL1RL1 Positive',\n",
+ " 'similarity': 'tensor(0.2872)'},\n",
+ " {'s': 'gene expression',\n",
+ " 'p': 'has child relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'molecular genetics',\n",
+ " 'similarity': 'tensor(0.2872)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to splanchnic nerve',\n",
+ " 'similarity': 'tensor(0.2870)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'ERBB3 Positive',\n",
+ " 'similarity': 'tensor(0.2870)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'CD38 Positive',\n",
+ " 'similarity': 'tensor(0.2869)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'process involves gene',\n",
+ " 'o': 'EHMT1 wt Allele',\n",
+ " 'similarity': 'tensor(0.2869)'},\n",
+ " {'s': 'Expression, Gene',\n",
+ " 'p': 'measured by',\n",
+ " 'o': 'Gene Expression Level Analysis',\n",
+ " 'similarity': 'tensor(0.2868)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Fracture of vertebral column without spinal cord injury',\n",
+ " 'similarity': 'tensor(0.2867)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to internal carotid artery',\n",
+ " 'similarity': 'tensor(0.2865)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'PD-L1 Positive',\n",
+ " 'similarity': 'tensor(0.2865)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Electric Shock',\n",
+ " 'similarity': 'tensor(0.2863)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to lumbosacral plexus',\n",
+ " 'similarity': 'tensor(0.2862)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'CD8 Positive',\n",
+ " 'similarity': 'tensor(0.2860)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injuries, Accessory Nerve',\n",
+ " 'similarity': 'tensor(0.2859)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'process involves gene',\n",
+ " 'o': 'KMT5C wt Allele',\n",
+ " 'similarity': 'tensor(0.2859)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'hypoglossal nerve injury',\n",
+ " 'similarity': 'tensor(0.2857)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Pneumoperitoneum',\n",
+ " 'similarity': 'tensor(0.2857)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'HLA-B*07 Positive Cells Present',\n",
+ " 'similarity': 'tensor(0.2855)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injuries, Optic Nerve',\n",
+ " 'similarity': 'tensor(0.2853)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'GLI1 Positive',\n",
+ " 'similarity': 'tensor(0.2852)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'TP53 Positive',\n",
+ " 'similarity': 'tensor(0.2850)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to common carotid artery',\n",
+ " 'similarity': 'tensor(0.2850)'},\n",
+ " {'s': 'gene expression',\n",
+ " 'p': 'positively regulated by',\n",
+ " 'o': 'positive regulation of gene expression',\n",
+ " 'similarity': 'tensor(0.2849)'},\n",
+ " {'s': 'gene expression',\n",
+ " 'p': 'positively regulated by',\n",
+ " 'o': 'positive regulation of gene expression',\n",
+ " 'similarity': 'tensor(0.2849)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'KIR3DL2 Positive',\n",
+ " 'similarity': 'tensor(0.2842)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Ganglioside GD2 Negative',\n",
+ " 'similarity': 'tensor(0.2840)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'head/neck injury',\n",
+ " 'similarity': 'tensor(0.2840)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'HLA-C*0404 Positive Cells Present',\n",
+ " 'similarity': 'tensor(0.2840)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Facial Nerve Injuries',\n",
+ " 'similarity': 'tensor(0.2839)'},\n",
+ " {'s': 'gene expression',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'receptor expression',\n",
+ " 'similarity': 'tensor(0.2838)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'EGFR Positive',\n",
+ " 'similarity': 'tensor(0.2836)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Carotid Artery Injuries',\n",
+ " 'similarity': 'tensor(0.2835)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'has child relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Genetic Phenomena',\n",
+ " 'similarity': 'tensor(0.2834)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'sciatic nerve injury',\n",
+ " 'similarity': 'tensor(0.2833)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury by BB gun',\n",
+ " 'similarity': 'tensor(0.2832)'},\n",
+ " {'s': 'TRAUMATIC INJURY',\n",
+ " 'p': 'mapped to',\n",
+ " 'o': 'ACCIDENTAL INJURY',\n",
+ " 'similarity': 'tensor(0.2832)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'NR3C1 Positive',\n",
+ " 'similarity': 'tensor(0.2832)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a narrower relationship',\n",
+ " 'o': 'Injury and poisoning',\n",
+ " 'similarity': 'tensor(0.2831)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Pneumomediastinum',\n",
+ " 'similarity': 'tensor(0.2827)'},\n",
+ " {'s': 'gene expression',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'genetic transcription',\n",
+ " 'similarity': 'tensor(0.2826)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'CTLA4 Positive',\n",
+ " 'similarity': 'tensor(0.2826)'},\n",
+ " {'s': 'mRNA Expression',\n",
+ " 'p': 'process involves gene',\n",
+ " 'o': 'CTDSP2 Gene',\n",
+ " 'similarity': 'tensor(0.2825)'},\n",
+ " {'s': 'gene expression',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'posttranscriptional RNA processing',\n",
+ " 'similarity': 'tensor(0.2821)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'permuted term of',\n",
+ " 'o': 'Injuries',\n",
+ " 'similarity': 'tensor(0.2821)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'CD19 Positive',\n",
+ " 'similarity': 'tensor(0.2819)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'PTEN Positive',\n",
+ " 'similarity': 'tensor(0.2818)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'COCHLEAR NERVE DAMAGE',\n",
+ " 'similarity': 'tensor(0.2818)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'STEAP1 Positive',\n",
+ " 'similarity': 'tensor(0.2815)'},\n",
+ " {'s': 'gene expression',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'oxytocin production',\n",
+ " 'similarity': 'tensor(0.2815)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'HER2/Neu Positive',\n",
+ " 'similarity': 'tensor(0.2814)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'CDKN2A-p16 Positive',\n",
+ " 'similarity': 'tensor(0.2813)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Upper Respiratory Tract Injury',\n",
+ " 'similarity': 'tensor(0.2812)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'SARS Coronavirus 2 Spike Glycoprotein Variant Positive',\n",
+ " 'similarity': 'tensor(0.2811)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Ganglioside GD2 Positive',\n",
+ " 'similarity': 'tensor(0.2809)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'HLA-A11 Positive Cells Present',\n",
+ " 'similarity': 'tensor(0.2809)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'IGF1R Positive',\n",
+ " 'similarity': 'tensor(0.2807)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'CXCL8 Positive',\n",
+ " 'similarity': 'tensor(0.2805)'},\n",
+ " {'s': 'gene expression',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'genetic translation',\n",
+ " 'similarity': 'tensor(0.2805)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Interleukin-3 Receptor Subunit Alpha Positive',\n",
+ " 'similarity': 'tensor(0.2804)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'process involves gene',\n",
+ " 'o': 'UBB wt Allele',\n",
+ " 'similarity': 'tensor(0.2801)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'can be qualified by',\n",
+ " 'o': 'immunology',\n",
+ " 'similarity': 'tensor(0.2801)'},\n",
+ " {'s': 'Genexpression',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Gene Expression Profiling',\n",
+ " 'similarity': 'tensor(0.2801)'},\n",
+ " {'s': 'Genexpression',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Proteinbiosynthese',\n",
+ " 'similarity': 'tensor(0.2801)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'process involves gene',\n",
+ " 'o': 'SETD7 wt Allele',\n",
+ " 'similarity': 'tensor(0.2800)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to sacral nerve root',\n",
+ " 'similarity': 'tensor(0.2800)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Venomous Animal Contact',\n",
+ " 'similarity': 'tensor(0.2800)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'HOXA10 Positive',\n",
+ " 'similarity': 'tensor(0.2799)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Tyrosinase Positive',\n",
+ " 'similarity': 'tensor(0.2796)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'process involves gene',\n",
+ " 'o': 'CARM1 wt Allele',\n",
+ " 'similarity': 'tensor(0.2794)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'CD15 Positive',\n",
+ " 'similarity': 'tensor(0.2792)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'CD1A Positive',\n",
+ " 'similarity': 'tensor(0.2791)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'process involves gene',\n",
+ " 'o': 'SUV39H2 Gene',\n",
+ " 'similarity': 'tensor(0.2789)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'ALCAM Positive',\n",
+ " 'similarity': 'tensor(0.2786)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to visual cortex',\n",
+ " 'similarity': 'tensor(0.2784)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Tissue-Specific Gene Expression',\n",
+ " 'similarity': 'tensor(0.2783)'},\n",
+ " {'s': 'gene expression',\n",
+ " 'p': 'regulated by',\n",
+ " 'o': 'modulation by virus of host gene expression',\n",
+ " 'similarity': 'tensor(0.2783)'},\n",
+ " {'s': 'gene expression',\n",
+ " 'p': 'regulated by',\n",
+ " 'o': 'modulation by virus of host gene expression',\n",
+ " 'similarity': 'tensor(0.2783)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'process involves gene',\n",
+ " 'o': 'KMT5B wt Allele',\n",
+ " 'similarity': 'tensor(0.2783)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Poisoning',\n",
+ " 'similarity': 'tensor(0.2782)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Hormone Receptor/HER2 Positive',\n",
+ " 'similarity': 'tensor(0.2781)'},\n",
+ " {'s': 'mRNA Expression',\n",
+ " 'p': 'biological process is part of process',\n",
+ " 'o': 'Gene Expression',\n",
+ " 'similarity': 'tensor(0.2780)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'process involves gene',\n",
+ " 'o': 'KMT5A wt Allele',\n",
+ " 'similarity': 'tensor(0.2779)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'has translation',\n",
+ " 'o': 'Genexpression',\n",
+ " 'similarity': 'tensor(0.2774)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'CD79A Positive',\n",
+ " 'similarity': 'tensor(0.2770)'},\n",
+ " {'s': 'Traumatic injury',\n",
+ " 'p': 'answer to',\n",
+ " 'o': 'Chief complaint per dispatch:Find:Pt:^Patient:Nom:Reported.dispatch',\n",
+ " 'similarity': 'tensor(0.2770)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'CTAG1B Positive',\n",
+ " 'similarity': 'tensor(0.2770)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'answer to',\n",
+ " 'o': 'Medication complication:Find:Pt:^Patient:Nom:NEMSIS',\n",
+ " 'similarity': 'tensor(0.2769)'},\n",
+ " {'s': 'Protein Expression',\n",
+ " 'p': 'biological process is part of process',\n",
+ " 'o': 'Gene Expression',\n",
+ " 'similarity': 'tensor(0.2767)'},\n",
+ " {'s': 'Protein Expression',\n",
+ " 'p': 'biological process has initiator process',\n",
+ " 'o': 'mRNA Expression',\n",
+ " 'similarity': 'tensor(0.2766)'},\n",
+ " {'s': 'Genexpression',\n",
+ " 'p': 'translation of',\n",
+ " 'o': 'Gene Expression',\n",
+ " 'similarity': 'tensor(0.2765)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'NECK INJURY',\n",
+ " 'similarity': 'tensor(0.2765)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'CRANIAL NERVE INJURY',\n",
+ " 'similarity': 'tensor(0.2764)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'NUTM1 Positive',\n",
+ " 'similarity': 'tensor(0.2762)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'CD5 Positive',\n",
+ " 'similarity': 'tensor(0.2760)'},\n",
+ " {'s': 'mRNA Expression',\n",
+ " 'p': 'biological process is part of process',\n",
+ " 'o': 'Nucleotide Metabolic Process',\n",
+ " 'similarity': 'tensor(0.2760)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'FLT3 Positive',\n",
+ " 'similarity': 'tensor(0.2760)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'process involves gene',\n",
+ " 'o': 'UBC Gene',\n",
+ " 'similarity': 'tensor(0.2759)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'process initiates biological process',\n",
+ " 'o': 'Cell Fate Control',\n",
+ " 'similarity': 'tensor(0.2755)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'process involves gene',\n",
+ " 'o': 'SETDB1 wt Allele',\n",
+ " 'similarity': 'tensor(0.2753)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Protein Biosynthesis',\n",
+ " 'similarity': 'tensor(0.2750)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'BRACHIAL PLEXUS INJURY',\n",
+ " 'similarity': 'tensor(0.2748)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'HLA-B*4601 Positive Cells Present',\n",
+ " 'similarity': 'tensor(0.2747)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Closed fracture of T7-T12 level with posterior cord syndrome',\n",
+ " 'similarity': 'tensor(0.2745)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'process includes biological process',\n",
+ " 'o': 'Nucleocytoplasmic Transport',\n",
+ " 'similarity': 'tensor(0.2745)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Transcription, Genetic',\n",
+ " 'similarity': 'tensor(0.2738)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'GUCY2C Positive',\n",
+ " 'similarity': 'tensor(0.2738)'},\n",
+ " {'s': 'gene expression',\n",
+ " 'p': 'regulated by',\n",
+ " 'o': 'regulation of gene expression',\n",
+ " 'similarity': 'tensor(0.2735)'},\n",
+ " {'s': 'gene expression',\n",
+ " 'p': 'regulated by',\n",
+ " 'o': 'regulation of gene expression',\n",
+ " 'similarity': 'tensor(0.2735)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'TYRP1 Positive',\n",
+ " 'similarity': 'tensor(0.2734)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'used for',\n",
+ " 'o': 'hazard',\n",
+ " 'similarity': 'tensor(0.2734)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'HLA-C*04:01 Positive Cells Present',\n",
+ " 'similarity': 'tensor(0.2733)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Radiation-Induced Gene Expression',\n",
+ " 'similarity': 'tensor(0.2733)'},\n",
+ " {'s': 'gene expression',\n",
+ " 'p': 'isa',\n",
+ " 'o': 'macromolecule metabolic process',\n",
+ " 'similarity': 'tensor(0.2732)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Tumor-Associated Peptide Antigens Present',\n",
+ " 'similarity': 'tensor(0.2732)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'VTCN1 Positive',\n",
+ " 'similarity': 'tensor(0.2731)'},\n",
+ " {'s': 'protein expression',\n",
+ " 'p': 'see',\n",
+ " 'o': 'receptor expression',\n",
+ " 'similarity': 'tensor(0.2731)'},\n",
+ " {'s': 'gene expression',\n",
+ " 'p': 'has part',\n",
+ " 'o': 'protein maturation',\n",
+ " 'similarity': 'tensor(0.2730)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'process includes biological process',\n",
+ " 'o': 'Protein Expression',\n",
+ " 'similarity': 'tensor(0.2730)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'answer to',\n",
+ " 'o': 'Condition cause:Find:Pt:^Patient:Nom',\n",
+ " 'similarity': 'tensor(0.2729)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'HLA-DRB1*11:04 Positive Cells Present',\n",
+ " 'similarity': 'tensor(0.2725)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'HA-1(H) Genotype Positive',\n",
+ " 'similarity': 'tensor(0.2720)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Strangulation',\n",
+ " 'similarity': 'tensor(0.2719)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'CD2 Positive',\n",
+ " 'similarity': 'tensor(0.2715)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'SHH Positive',\n",
+ " 'similarity': 'tensor(0.2713)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'process involves gene',\n",
+ " 'o': 'SETD5 wt Allele',\n",
+ " 'similarity': 'tensor(0.2712)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to external jugular vein',\n",
+ " 'similarity': 'tensor(0.2711)'},\n",
+ " {'s': 'gene expression',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'gene interaction',\n",
+ " 'similarity': 'tensor(0.2711)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'process involves gene',\n",
+ " 'o': 'SUV39H1 wt Allele',\n",
+ " 'similarity': 'tensor(0.2710)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'LYPD3 Positive',\n",
+ " 'similarity': 'tensor(0.2709)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'has permuted term',\n",
+ " 'o': 'Expression, Gene',\n",
+ " 'similarity': 'tensor(0.2708)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury by pellet gun',\n",
+ " 'similarity': 'tensor(0.2708)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to optic chiasm',\n",
+ " 'similarity': 'tensor(0.2708)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'HLA-B*5103 Positive Cells Present',\n",
+ " 'similarity': 'tensor(0.2706)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'ARID1A Positive',\n",
+ " 'similarity': 'tensor(0.2704)'},\n",
+ " {'s': 'gene expression',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'expression cloning',\n",
+ " 'similarity': 'tensor(0.2703)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'HLA-B*44:03 Positive Cells Present',\n",
+ " 'similarity': 'tensor(0.2702)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'CD79B Positive',\n",
+ " 'similarity': 'tensor(0.2702)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'ROR1 Positive',\n",
+ " 'similarity': 'tensor(0.2699)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury of radial nerve',\n",
+ " 'similarity': 'tensor(0.2697)'},\n",
+ " {'s': 'gene expression',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'enzyme induction',\n",
+ " 'similarity': 'tensor(0.2696)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'axillary nerve injury',\n",
+ " 'similarity': 'tensor(0.2694)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'CD4 Positive',\n",
+ " 'similarity': 'tensor(0.2694)'},\n",
+ " {'s': 'mRNA Expression',\n",
+ " 'p': 'biological process is part of process',\n",
+ " 'o': 'Transcription',\n",
+ " 'similarity': 'tensor(0.2693)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'SEAT BELT INJURIES',\n",
+ " 'similarity': 'tensor(0.2693)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to peripheral nerve(s) of pelvic girdle and lower limb',\n",
+ " 'similarity': 'tensor(0.2692)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'process involves gene',\n",
+ " 'o': 'KMT5C Gene',\n",
+ " 'similarity': 'tensor(0.2692)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'HLA-DRB1*13:03 Positive Cells Present',\n",
+ " 'similarity': 'tensor(0.2689)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'process includes biological process',\n",
+ " 'o': 'Protein Overexpression',\n",
+ " 'similarity': 'tensor(0.2689)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'median nerve injury',\n",
+ " 'similarity': 'tensor(0.2688)'},\n",
+ " {'s': 'Gene expression',\n",
+ " 'p': 'mapped to',\n",
+ " 'o': 'Gene Expression',\n",
+ " 'similarity': 'tensor(0.2688)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'concept in subset',\n",
+ " 'o': 'CTRP Biomarker Terminology',\n",
+ " 'similarity': 'tensor(0.2688)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'SLC39A6 Positive',\n",
+ " 'similarity': 'tensor(0.2687)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'HLA-B*1501 Positive Cells Present',\n",
+ " 'similarity': 'tensor(0.2684)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'process involves gene',\n",
+ " 'o': 'EHMT1 Gene',\n",
+ " 'similarity': 'tensor(0.2683)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'HOXA9 Positive',\n",
+ " 'similarity': 'tensor(0.2683)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'CD65 Positive',\n",
+ " 'similarity': 'tensor(0.2683)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'HLA-B*35:08 Positive Cells Present',\n",
+ " 'similarity': 'tensor(0.2683)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'HLA-DPB1*04 Positive Cells Present',\n",
+ " 'similarity': 'tensor(0.2682)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'has permuted term',\n",
+ " 'o': 'Expressions, Gene',\n",
+ " 'similarity': 'tensor(0.2682)'},\n",
+ " {'s': 'gene expression',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'gene induction/repression',\n",
+ " 'similarity': 'tensor(0.2679)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Cancer Antigen 72-4 Positive',\n",
+ " 'similarity': 'tensor(0.2677)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Trochlear Nerve Injuries',\n",
+ " 'similarity': 'tensor(0.2677)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to other specified nerve(s) of pelvic girdle and lower limb',\n",
+ " 'similarity': 'tensor(0.2675)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'process involves gene',\n",
+ " 'o': 'SETD1B wt Allele',\n",
+ " 'similarity': 'tensor(0.2674)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'CTNNB1 Positive',\n",
+ " 'similarity': 'tensor(0.2673)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'process involves gene',\n",
+ " 'o': 'NSD1 wt Allele',\n",
+ " 'similarity': 'tensor(0.2673)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Latent Membrane Protein 1 Positive',\n",
+ " 'similarity': 'tensor(0.2672)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'CDH3 Positive',\n",
+ " 'similarity': 'tensor(0.2670)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'can be qualified by',\n",
+ " 'o': 'physiology',\n",
+ " 'similarity': 'tensor(0.2668)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'PTTG1 Positive',\n",
+ " 'similarity': 'tensor(0.2668)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'process involves gene',\n",
+ " 'o': 'AR Gene',\n",
+ " 'similarity': 'tensor(0.2665)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to posterior tibial nerve',\n",
+ " 'similarity': 'tensor(0.2664)'},\n",
+ " {'s': 'Protein Expression',\n",
+ " 'p': 'concept in subset',\n",
+ " 'o': 'CTRP Biomarker Terminology',\n",
+ " 'similarity': 'tensor(0.2663)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'process involves gene',\n",
+ " 'o': 'SETD1A wt Allele',\n",
+ " 'similarity': 'tensor(0.2661)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Closed fracture of C5-C7 level with posterior cord syndrome',\n",
+ " 'similarity': 'tensor(0.2661)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'KRAS Positive',\n",
+ " 'similarity': 'tensor(0.2660)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Open fracture of T7-T12 level with posterior cord syndrome',\n",
+ " 'similarity': 'tensor(0.2658)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'process includes biological process',\n",
+ " 'o': 'Protein Truncation',\n",
+ " 'similarity': 'tensor(0.2658)'},\n",
+ " {'s': 'mRNA Expression',\n",
+ " 'p': 'process initiates biological process',\n",
+ " 'o': 'Protein Overexpression',\n",
+ " 'similarity': 'tensor(0.2657)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'SDHB Positive',\n",
+ " 'similarity': 'tensor(0.2656)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'PRAME Positive',\n",
+ " 'similarity': 'tensor(0.2654)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'process includes biological process',\n",
+ " 'o': 'mRNA Expression',\n",
+ " 'similarity': 'tensor(0.2654)'},\n",
+ " {'s': 'mRNA Expression',\n",
+ " 'p': 'process initiates biological process',\n",
+ " 'o': 'Protein Expression',\n",
+ " 'similarity': 'tensor(0.2653)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'used for',\n",
+ " 'o': 'electrical injury',\n",
+ " 'similarity': 'tensor(0.2652)'},\n",
+ " {'s': 'gene expression',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'posttranslational modification',\n",
+ " 'similarity': 'tensor(0.2649)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'HLA-DR Positive',\n",
+ " 'similarity': 'tensor(0.2648)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Thoracic Injury',\n",
+ " 'similarity': 'tensor(0.2648)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Closed fracture of C1-C4 level with posterior cord syndrome',\n",
+ " 'similarity': 'tensor(0.2647)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'EGFRvIII Positive',\n",
+ " 'similarity': 'tensor(0.2645)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'mapped from',\n",
+ " 'o': 'Gene expression',\n",
+ " 'similarity': 'tensor(0.2645)'},\n",
+ " {'s': 'protein expression',\n",
+ " 'p': 'see',\n",
+ " 'o': 'gene expression',\n",
+ " 'similarity': 'tensor(0.2644)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'NTSR1 Positive',\n",
+ " 'similarity': 'tensor(0.2644)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'mapped to',\n",
+ " 'o': 'ACCIDENTAL INJURY',\n",
+ " 'similarity': 'tensor(0.2643)'},\n",
+ " {'s': 'gene expression',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'functional/structural genomics',\n",
+ " 'similarity': 'tensor(0.2643)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'process involves gene',\n",
+ " 'o': 'DOT1L wt Allele',\n",
+ " 'similarity': 'tensor(0.2643)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Injury to internal jugular vein',\n",
+ " 'similarity': 'tensor(0.2642)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Chromogranin Positive',\n",
+ " 'similarity': 'tensor(0.2641)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Closed fracture of T1-T6 level with posterior cord syndrome',\n",
+ " 'similarity': 'tensor(0.2641)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Peroneal nerve injury',\n",
+ " 'similarity': 'tensor(0.2640)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'CCND2 Positive',\n",
+ " 'similarity': 'tensor(0.2638)'},\n",
+ " {'s': 'Genexpression',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Phänotyp',\n",
+ " 'similarity': 'tensor(0.2636)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'ASPH Positive',\n",
+ " 'similarity': 'tensor(0.2632)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'HLA-DRB1*04:04 Positive Cells Present',\n",
+ " 'similarity': 'tensor(0.2630)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Tartrate Resistant Acid Phosphatase Positive Cells Present',\n",
+ " 'similarity': 'tensor(0.2629)'},\n",
+ " {'s': 'mRNA Expression',\n",
+ " 'p': 'process initiates biological process',\n",
+ " 'o': 'Translation Initiation',\n",
+ " 'similarity': 'tensor(0.2628)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'can be qualified by',\n",
+ " 'o': 'radiation effects',\n",
+ " 'similarity': 'tensor(0.2625)'},\n",
+ " {'s': 'gene expression',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'genetic transcription',\n",
+ " 'similarity': 'tensor(0.2625)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'CCND1 Positive',\n",
+ " 'similarity': 'tensor(0.2625)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'HLA-B*55:01 Positive Cells Present',\n",
+ " 'similarity': 'tensor(0.2625)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'AG7 Antigen Positive',\n",
+ " 'similarity': 'tensor(0.2624)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'HLA-DRB1*03:01 Positive Cells Present',\n",
+ " 'similarity': 'tensor(0.2624)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'process includes biological process',\n",
+ " 'o': 'Translational Regulation',\n",
+ " 'similarity': 'tensor(0.2623)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'process includes biological process',\n",
+ " 'o': 'mRNA Export',\n",
+ " 'similarity': 'tensor(0.2621)'},\n",
+ " {'s': 'Injury',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Electrocution',\n",
+ " 'similarity': 'tensor(0.2617)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'HLA Class I Histocompatibility Antigen, A-0201 Alpha Chain Positive',\n",
+ " 'similarity': 'tensor(0.2613)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'ROPN1 Positive',\n",
+ " 'similarity': 'tensor(0.2612)'},\n",
+ " {'s': 'gene expression',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'serial analysis of gene expression',\n",
+ " 'similarity': 'tensor(0.2611)'},\n",
+ " {'s': 'mRNA Expression',\n",
+ " 'p': 'biological process involves gene product',\n",
+ " 'o': 'Carboxy-Terminal Domain RNA Polymerase II Polypeptide A Small Phosphatase 2',\n",
+ " 'similarity': 'tensor(0.2611)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'SSX2 Positive',\n",
+ " 'similarity': 'tensor(0.2610)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'process involves gene',\n",
+ " 'o': 'KMT5B Gene',\n",
+ " 'similarity': 'tensor(0.2609)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'process includes biological process',\n",
+ " 'o': 'Transcription Process',\n",
+ " 'similarity': 'tensor(0.2609)'},\n",
+ " {'s': 'mRNA Expression',\n",
+ " 'p': 'process initiates biological process',\n",
+ " 'o': 'Translational Regulation',\n",
+ " 'similarity': 'tensor(0.2609)'},\n",
+ " {'s': 'gene expression',\n",
+ " 'p': 'has a narrower relationship',\n",
+ " 'o': 'molecular genetics',\n",
+ " 'similarity': 'tensor(0.2607)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'GPC3 Positive',\n",
+ " 'similarity': 'tensor(0.2606)'},\n",
+ " {'s': 'mRNA Expression',\n",
+ " 'p': 'process initiates biological process',\n",
+ " 'o': 'Translation Process',\n",
+ " 'similarity': 'tensor(0.2605)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Alcohol or Other Drug Related accident prevention',\n",
+ " 'similarity': 'tensor(0.2604)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'ITGAD Positive',\n",
+ " 'similarity': 'tensor(0.2604)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Open fracture of C(5)-C(7) level with central cord syndrome',\n",
+ " 'similarity': 'tensor(0.2597)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'EDNRB Positive',\n",
+ " 'similarity': 'tensor(0.2596)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'used for',\n",
+ " 'o': 'physical insult',\n",
+ " 'similarity': 'tensor(0.2590)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'ALK Positive',\n",
+ " 'similarity': 'tensor(0.2590)'},\n",
+ " {'s': 'gene expression',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'genetic screening',\n",
+ " 'similarity': 'tensor(0.2590)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'ENO2 Positive',\n",
+ " 'similarity': 'tensor(0.2590)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'KLRG1 Positive Lymphocyte',\n",
+ " 'similarity': 'tensor(0.2589)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'GNRHR Positive',\n",
+ " 'similarity': 'tensor(0.2589)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'concept in subset',\n",
+ " 'o': 'CTRP Terminology',\n",
+ " 'similarity': 'tensor(0.2586)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Open fracture of C5-C7 level with posterior cord syndrome',\n",
+ " 'similarity': 'tensor(0.2582)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'PAX5 Positive',\n",
+ " 'similarity': 'tensor(0.2581)'},\n",
+ " {'s': 'gene expression',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'genetic susceptibility',\n",
+ " 'similarity': 'tensor(0.2581)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'NECTIN4 Positive',\n",
+ " 'similarity': 'tensor(0.2581)'},\n",
+ " {'s': 'injury',\n",
+ " 'p': 'used for',\n",
+ " 'o': 'shock (electrical injury)',\n",
+ " 'similarity': 'tensor(0.2580)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'process involves gene',\n",
+ " 'o': 'SUV39H1 Gene',\n",
+ " 'similarity': 'tensor(0.2579)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'HLA-DRB1*04:01 Positive Cells Present',\n",
+ " 'similarity': 'tensor(0.2578)'},\n",
+ " {'s': 'gene expression',\n",
+ " 'p': 'see from',\n",
+ " 'o': 'protein expression',\n",
+ " 'similarity': 'tensor(0.2577)'},\n",
+ " {'s': 'INJURY',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Open fracture of C1-C4 level with posterior cord syndrome',\n",
+ " 'similarity': 'tensor(0.2577)'},\n",
+ " {'s': 'Genexpression',\n",
+ " 'p': 'has child relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Genetische Phänomene',\n",
+ " 'similarity': 'tensor(0.2577)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'process includes biological process',\n",
+ " 'o': 'Translation Process',\n",
+ " 'similarity': 'tensor(0.2576)'},\n",
+ " {'s': 'Gene Expression',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Gene Expression Profiling',\n",
+ " 'similarity': 'tensor(0.2576)'},\n",
+ " {'s': 'Expression Positive',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'S100B Positive',\n",
+ " 'similarity': 'tensor(0.2571)'},\n",
+ " ...],\n",
+ " 'llama8bBaseline': 'Yes.',\n",
+ " 'llama70bBaseline': 'YES',\n",
+ " 'gemmaBaseline': 'Yes.\\n\\nSMOC2 is expressed during wound healing, where it is involved in fibroblast migration, collagen deposition, and angiogenesis.',\n",
+ " 'aionr_request': 'Is SMOC2 expressed during wound healing? Consider the following information:\\nWound has relationship analyzed by to Wound healing stage:Find:Pt:Wound:Nom.\\nWOUND has relationship has relationship other than synonymous, narrower, or broader to Gram Stn Wnd.\\nWound has relationship analyzed by to Undermining:Find:Pt:Wound:Ord.\\nSMOC2 has relationship has expanded form to SMOC2 gene.\\nWound has relationship has a narrower relationship to Specimen Source Codes.\\nWounds has relationship has permuted term to Wound.\\nWOUND has relationship has a broader relationship to WOUND SEROSANGUINOUS DISCHARGE.\\nwound has relationship has a broader relationship to surgical wound.\\nWOUND has relationship has a broader relationship to surgical wound.\\nWOUND has relationship has a broader relationship to WOUND, FOUL SMELLING.\\n',\n",
+ " 'llama8bAIONR': 'Yes.',\n",
+ " 'llama70bAIONR': 'YES',\n",
+ " 'gemmaAIONR': 'The provided text does not contain any information regarding the expression of SMOC2 during wound healing, so I am unable to answer this question from the given context.'}"
+ ]
+ },
+ "execution_count": 10,
+ "metadata": {},
+ "output_type": "execute_result"
+ }
+ ],
+ "source": [
+ "final_questions[2]"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 15,
+ "id": "6a4644a3-2930-4915-9c44-da4624d1e711",
+ "metadata": {},
+ "outputs": [
+ {
+ "name": "stdout",
+ "output_type": "stream",
+ "text": [
+ "Finished question 0.\n",
+ "Finished question 1.\n",
+ "Finished question 2.\n",
+ "Finished question 3.\n",
+ "Finished question 4.\n",
+ "Finished question 5.\n",
+ "Finished question 6.\n",
+ "Finished question 7.\n",
+ "Finished question 8.\n",
+ "Finished question 9.\n",
+ "Finished question 10.\n",
+ "Finished question 11.\n",
+ "Finished question 12.\n",
+ "Finished question 13.\n",
+ "Finished question 14.\n",
+ "Finished question 15.\n",
+ "Finished question 16.\n",
+ "Finished question 17.\n",
+ "Finished question 18.\n",
+ "Finished question 19.\n",
+ "Finished question 20.\n",
+ "Finished question 21.\n",
+ "Finished question 22.\n",
+ "Finished question 23.\n",
+ "Finished question 24.\n",
+ "Finished question 25.\n",
+ "Finished question 26.\n",
+ "Finished question 27.\n",
+ "Finished question 28.\n",
+ "Finished question 29.\n",
+ "Finished question 30.\n",
+ "Finished question 31.\n",
+ "Finished question 32.\n",
+ "Finished question 33.\n",
+ "Finished question 34.\n",
+ "Finished question 35.\n",
+ "Finished question 36.\n",
+ "Finished question 37.\n",
+ "Finished question 38.\n",
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+ "Finished question 198.\n",
+ "Finished question 199.\n"
+ ]
+ }
+ ],
+ "source": [
+ "# send the request to resolve the top 10 together to one nl representation\n",
+ "system_message = {\n",
+ " \"role\" : \"system\",\n",
+ " \"content\" : \"You are a helpful writing assistant that can reformulate triples of subject, relationship and object into naturally sounding sentences. You only answer with the sentences.\",\n",
+ "}\n",
+ "\n",
+ "qindex = 0\n",
+ "client = Groq(api_key=os.environ.get(\"GROQ_API_KEY\"))\n",
+ "while qindex < len(final_questions):\n",
+ " question = final_questions[qindex]\n",
+ " triples_text = \"\"\n",
+ " question_message = {\n",
+ " \"role\" : \"user\",\n",
+ " \"content\" : \"Reformulate the following triples into one flowing text:\\n\"\n",
+ " }\n",
+ "\n",
+ " for index, triple in enumerate(question[\"triples\"]):\n",
+ " if index == 10:\n",
+ " break\n",
+ " else:\n",
+ " triples_text = triples_text + triple[\"s\"] + \" \" + triple[\"p\"] + \" \" + triple[\"o\"] + \"\\n\"\n",
+ "\n",
+ " triples_text=triples_text.rstrip()\n",
+ " question_message[\"content\"] = question_message[\"content\"] + triples_text\n",
+ " try:\n",
+ " chat_completion = client.chat.completions.create(\n",
+ " messages=[\n",
+ " system_message,\n",
+ " question_message\n",
+ " ],\n",
+ " model=\"llama3-8b-8192\",\n",
+ " temperature=0,\n",
+ " #max_tokens=6000,\n",
+ " )\n",
+ " final_questions[qindex][\"nl_sentences\"] = chat_completion.choices[0].message.content \n",
+ " except Exception as e:\n",
+ " print(e)\n",
+ " time.sleep(60)\n",
+ " continue\n",
+ " print(f\"Finished question {qindex}.\")\n",
+ " qindex += 1"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 22,
+ "id": "68881b1f-bb3d-4f90-bd0d-ccc7f09644fc",
+ "metadata": {},
+ "outputs": [
+ {
+ "name": "stdout",
+ "output_type": "stream",
+ "text": [
+ "Here is the reformulated text:\n",
+ "\n",
+ "The protein component of Phosphatidylinositol 3,4,5-trisphosphate 3-phosphatase and dual-specificity protein phosphatase PTEN is involved in cancer specimens and can be detected through immune staining. Additionally, proteins mapped from phosphoprotein phosphatase inhibitor 1 and protein phosphatase inhibitor-1, rat have been identified. These proteins have a broader relationship with TIMP3 Protein, phospholipase A2-activating protein, and AL 1 Protein, which are all related to phosphoprotein. Furthermore, the protein component of Tau protein, phosphorylated at position 181, has been detected in both cancerous and non-cancerous tissues, as well as in cerebrospinal fluid. This protein also has a broader relationship with phosphoprotein. Finally, proteins mapped from PMIS1 protein, mouse have been identified, highlighting the importance of this protein in various biological processes.\n"
+ ]
+ }
+ ],
+ "source": [
+ "print(final_questions[1][\"nl_sentences\"])"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 23,
+ "id": "43bdf404-a297-4b5c-9623-9090043ac805",
+ "metadata": {},
+ "outputs": [
+ {
+ "name": "stdout",
+ "output_type": "stream",
+ "text": [
+ "Finished 10 questions.\n",
+ "Finished 20 questions.\n",
+ "Finished 30 questions.\n",
+ "Finished 40 questions.\n",
+ "Finished 50 questions.\n",
+ "Finished 60 questions.\n",
+ "Finished 70 questions.\n",
+ "Finished 80 questions.\n",
+ "Finished 90 questions.\n",
+ "Finished 100 questions.\n",
+ "Finished 110 questions.\n",
+ "Finished 120 questions.\n",
+ "Finished 130 questions.\n",
+ "Finished 140 questions.\n",
+ "Finished 150 questions.\n",
+ "Finished 160 questions.\n",
+ "Finished 170 questions.\n",
+ "Finished 180 questions.\n",
+ "Finished 190 questions.\n",
+ "Finished 200 questions.\n",
+ "Finished 10 questions.\n",
+ "Finished 20 questions.\n",
+ "Finished 30 questions.\n",
+ "Finished 40 questions.\n",
+ "Finished 50 questions.\n",
+ "Finished 60 questions.\n",
+ "Finished 70 questions.\n",
+ "Finished 80 questions.\n",
+ "Finished 90 questions.\n",
+ "Finished 100 questions.\n",
+ "Finished 110 questions.\n",
+ "Finished 120 questions.\n",
+ "Finished 130 questions.\n",
+ "Finished 140 questions.\n",
+ "Finished 150 questions.\n",
+ "Finished 160 questions.\n",
+ "Finished 170 questions.\n",
+ "Finished 180 questions.\n",
+ "Finished 190 questions.\n",
+ "Finished 200 questions.\n",
+ "Finished 10 questions.\n",
+ "Finished 20 questions.\n",
+ "Finished 30 questions.\n",
+ "Finished 40 questions.\n",
+ "Finished 50 questions.\n",
+ "Finished 60 questions.\n",
+ "Finished 70 questions.\n",
+ "Finished 80 questions.\n",
+ "Finished 90 questions.\n",
+ "Finished 100 questions.\n",
+ "Finished 110 questions.\n",
+ "Finished 120 questions.\n",
+ "Finished 130 questions.\n",
+ "Finished 140 questions.\n",
+ "Finished 150 questions.\n",
+ "Finished 160 questions.\n",
+ "Finished 170 questions.\n",
+ "Finished 180 questions.\n",
+ "Finished 190 questions.\n",
+ "Finished 200 questions.\n"
+ ]
+ }
+ ],
+ "source": [
+ "# send requests/do the experiment for the aionlr model\n",
+ "# muss gelten context_window>= inputtoken+maxtokens ;; by limiting the amount of relations to top 50 this is semi automatically adhered too\n",
+ "client = Groq(api_key=os.environ.get(\"GROQ_API_KEY\"))\n",
+ "#client = instructor.from_groq(client, mode=instructor.Mode.TOOLS)\n",
+ "#class YesNoQuestion(BaseModel):\n",
+ "# answer: Literal[\"Yes\",\"No\",\"yes\",\"no\"]\n",
+ "system_message = {\n",
+ " \"role\" : \"system\",\n",
+ " \"content\" : \"You are a helpful medical expert who must answer with either yes or no.\",\n",
+ "}\n",
+ "aionlr_responses = []\n",
+ "random.shuffle(final_questions)\n",
+ "for mod in models:\n",
+ " model_responses = []\n",
+ " index = 0\n",
+ " while index < len(final_questions):\n",
+ " question = final_questions[index]\n",
+ " question_message = {\n",
+ " \"role\" : \"user\",\n",
+ " \"content\" : (question[\"question\"] + \" Consider the following information:\\n\" + question[\"nl_sentences\"])\n",
+ " }\n",
+ "\n",
+ " try:\n",
+ " chat_completion = client.chat.completions.create(\n",
+ " messages=[\n",
+ " system_message,\n",
+ " question_message\n",
+ " ],\n",
+ " model=mod[\"name\"],\n",
+ " temperature=0,\n",
+ " )\n",
+ " model_responses.append(chat_completion.choices[0].message.content)\n",
+ " #model_responses.append(chat_completion.answer)\n",
+ " index += 1\n",
+ " if index % 10 == 0:\n",
+ " print(f\"Finished {index} questions.\")\n",
+ " \n",
+ " except Exception as e:\n",
+ " print(e)\n",
+ " time.sleep(60)\n",
+ " aionlr_responses.append(model_responses)\n"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 24,
+ "id": "535ff07b-f428-4cea-8c7d-bf3b93715903",
+ "metadata": {},
+ "outputs": [],
+ "source": [
+ "index = 0\n",
+ "while index < len(final_questions):\n",
+ " final_questions[index][\"llama8bAIONLR\"] = aionlr_responses[0][index]\n",
+ " final_questions[index][\"llama70bAIONLR\"] = aionlr_responses[1][index]\n",
+ " final_questions[index][\"gemmaAIONLR\"] = aionlr_responses[2][index]\n",
+ " index = index+1"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 25,
+ "id": "becc19f9-acdb-4721-95d4-61be8e1b1b81",
+ "metadata": {},
+ "outputs": [
+ {
+ "data": {
+ "text/plain": [
+ "{'id': '841',\n",
+ " 'question': 'Can Pentraxin 3 predict outcomes of sepsis?',\n",
+ " 'gt': 'yes',\n",
+ " 'entities': ['Pentraxin', 'outcomes', 'sepsis'],\n",
+ " 'cuis': ['C0036690', 'C1090821', 'C0243026'],\n",
+ " 'triples': [{'s': 'Septicemia',\n",
+ " 'p': 'has evaluation',\n",
+ " 'o': 'Septicemia:Find:Pt:^Patient:Ord:MDS',\n",
+ " 'similarity': 'tensor(0.4643)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has translation',\n",
+ " 'o': 'Sepsis',\n",
+ " 'similarity': 'tensor(0.4628)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'can be qualified by',\n",
+ " 'o': 'psychology',\n",
+ " 'similarity': 'tensor(0.4496)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'component of',\n",
+ " 'o': 'Septicemia in last 7D:Find:7D:^Patient:Ord:MDSv3',\n",
+ " 'similarity': 'tensor(0.4469)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has child relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Infektion',\n",
+ " 'similarity': 'tensor(0.4447)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'can be qualified by',\n",
+ " 'o': 'epidemiology',\n",
+ " 'similarity': 'tensor(0.4444)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Sepsis punctum',\n",
+ " 'similarity': 'tensor(0.4434)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'concept in subset',\n",
+ " 'o': 'Pediatric Adverse Events Terminology',\n",
+ " 'similarity': 'tensor(0.4433)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'can be qualified by',\n",
+ " 'o': 'mortality',\n",
+ " 'similarity': 'tensor(0.4425)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'can be qualified by',\n",
+ " 'o': 'diagnosis',\n",
+ " 'similarity': 'tensor(0.4422)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has contraindicated drug',\n",
+ " 'o': 'etanercept-szzs',\n",
+ " 'similarity': 'tensor(0.4418)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'can be qualified by',\n",
+ " 'o': 'prevention & control',\n",
+ " 'similarity': 'tensor(0.4400)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'concept in subset',\n",
+ " 'o': 'Pediatric Adverse Events Terminology Mapped to MedDRA',\n",
+ " 'similarity': 'tensor(0.4389)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'mapped to',\n",
+ " 'o': 'Sepsis',\n",
+ " 'similarity': 'tensor(0.4387)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'concept in subset',\n",
+ " 'o': 'CPTAC Terminology',\n",
+ " 'similarity': 'tensor(0.4387)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'can be qualified by',\n",
+ " 'o': 'etiology',\n",
+ " 'similarity': 'tensor(0.4380)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Virämie',\n",
+ " 'similarity': 'tensor(0.4380)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'mapped from',\n",
+ " 'o': 'Sepsis',\n",
+ " 'similarity': 'tensor(0.4377)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Pyämie',\n",
+ " 'similarity': 'tensor(0.4376)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'ceftazidime pentahydrate',\n",
+ " 'similarity': 'tensor(0.4370)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has child relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Systemic Inflammatory Response Syndrome',\n",
+ " 'similarity': 'tensor(0.4364)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Neugeborenensepsis',\n",
+ " 'similarity': 'tensor(0.4361)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has child relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'IMMUNOLOGY',\n",
+ " 'similarity': 'tensor(0.4360)'},\n",
+ " {'s': 'SEPSIS',\n",
+ " 'p': 'mapped from',\n",
+ " 'o': 'SEPSIS POSTPARTUM',\n",
+ " 'similarity': 'tensor(0.4360)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'component of',\n",
+ " 'o': 'Septicemia:Find:Pt:^Patient:Ord:MDS',\n",
+ " 'similarity': 'tensor(0.4360)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'can be qualified by',\n",
+ " 'o': 'economics',\n",
+ " 'similarity': 'tensor(0.4358)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Sepsis fissa',\n",
+ " 'similarity': 'tensor(0.4356)'},\n",
+ " {'s': 'SEPSIS',\n",
+ " 'p': 'mapped from',\n",
+ " 'o': 'SEPSIS SECONDARY',\n",
+ " 'similarity': 'tensor(0.4353)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Sepsis sepsi',\n",
+ " 'similarity': 'tensor(0.4353)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'translation of',\n",
+ " 'o': 'Sepsis',\n",
+ " 'similarity': 'tensor(0.4351)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'manifestation of',\n",
+ " 'o': 'COMBINED OXIDATIVE PHOSPHORYLATION DEFICIENCY 53',\n",
+ " 'similarity': 'tensor(0.4350)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'can be qualified by',\n",
+ " 'o': 'physiopathology',\n",
+ " 'similarity': 'tensor(0.4346)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Severe Sepsis',\n",
+ " 'similarity': 'tensor(0.4345)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Sepsis secunda',\n",
+ " 'similarity': 'tensor(0.4337)'},\n",
+ " {'s': 'SEPSIS',\n",
+ " 'p': 'has child relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'INFECTION',\n",
+ " 'similarity': 'tensor(0.4337)'},\n",
+ " {'s': 'sepsis',\n",
+ " 'p': 'use',\n",
+ " 'o': 'septicemia',\n",
+ " 'similarity': 'tensor(0.4336)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'can be qualified by',\n",
+ " 'o': 'genetics',\n",
+ " 'similarity': 'tensor(0.4333)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Sepsis niveipennis',\n",
+ " 'similarity': 'tensor(0.4331)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Pneumococcal septicemia [Streptococcus pneumoniae septicemia]',\n",
+ " 'similarity': 'tensor(0.4327)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'can be qualified by',\n",
+ " 'o': 'history',\n",
+ " 'similarity': 'tensor(0.4326)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'can be qualified by',\n",
+ " 'o': 'ethnology',\n",
+ " 'similarity': 'tensor(0.4323)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Sepsis biflexuosa',\n",
+ " 'similarity': 'tensor(0.4323)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has child relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Infections',\n",
+ " 'similarity': 'tensor(0.4323)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has child relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Infections',\n",
+ " 'similarity': 'tensor(0.4323)'},\n",
+ " {'s': 'SEPSIS',\n",
+ " 'p': 'mapped from',\n",
+ " 'o': 'SEPTICEMIA',\n",
+ " 'similarity': 'tensor(0.4318)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'mapped from',\n",
+ " 'o': 'Septicemia',\n",
+ " 'similarity': 'tensor(0.4318)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'can be qualified by',\n",
+ " 'o': 'immunology',\n",
+ " 'similarity': 'tensor(0.4317)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Sepsis fulgens',\n",
+ " 'similarity': 'tensor(0.4316)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Schwere Sepsis',\n",
+ " 'similarity': 'tensor(0.4314)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'can be qualified by',\n",
+ " 'o': 'therapy',\n",
+ " 'similarity': 'tensor(0.4311)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Sepsis pyrrhosoma',\n",
+ " 'similarity': 'tensor(0.4309)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'can be qualified by',\n",
+ " 'o': 'pathology',\n",
+ " 'similarity': 'tensor(0.4299)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'penicillin V potassium',\n",
+ " 'similarity': 'tensor(0.4297)'},\n",
+ " {'s': 'Unspecified septicemia',\n",
+ " 'p': 'classifies',\n",
+ " 'o': 'Unspecified septicemia',\n",
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+ " {'s': 'SEPSIS',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'SEPSIS SECONDARY',\n",
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+ " {'s': 'Sepsis',\n",
+ " 'p': 'can be qualified by',\n",
+ " 'o': 'microbiology',\n",
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+ " {'s': 'Sepsis',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'ceftriaxone',\n",
+ " 'similarity': 'tensor(0.4296)'},\n",
+ " {'s': 'SEPSIS',\n",
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+ " 'o': 'blood toxicology',\n",
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+ " {'s': 'Sepsis',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Viremia',\n",
+ " 'similarity': 'tensor(0.4285)'},\n",
+ " {'s': 'SEPSIS',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Other bacterial infections',\n",
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+ " {'s': 'Sepsis',\n",
+ " 'p': 'can be qualified by',\n",
+ " 'o': 'classification',\n",
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+ " {'s': 'Sepsis',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Sepsis nigripes',\n",
+ " 'similarity': 'tensor(0.4277)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'can be qualified by',\n",
+ " 'o': 'drug therapy',\n",
+ " 'similarity': 'tensor(0.4275)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'can be qualified by',\n",
+ " 'o': 'blood',\n",
+ " 'similarity': 'tensor(0.4271)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'can be qualified by',\n",
+ " 'o': 'virology',\n",
+ " 'similarity': 'tensor(0.4269)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Sepsis cynipsea',\n",
+ " 'similarity': 'tensor(0.4268)'},\n",
+ " {'s': 'SEPSIS',\n",
+ " 'p': 'mapped from',\n",
+ " 'o': 'PYEMIA',\n",
+ " 'similarity': 'tensor(0.4268)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Sepsis thoracica',\n",
+ " 'similarity': 'tensor(0.4267)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Sepsis arotrolabis',\n",
+ " 'similarity': 'tensor(0.4264)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'can be qualified by',\n",
+ " 'o': 'enzymology',\n",
+ " 'similarity': 'tensor(0.4261)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'can be qualified by',\n",
+ " 'o': 'diagnostic imaging',\n",
+ " 'similarity': 'tensor(0.4257)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'related and possibly synonymous',\n",
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+ " 'similarity': 'tensor(0.4254)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Sepsis indica',\n",
+ " 'similarity': 'tensor(0.4252)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'source asserted synonymy',\n",
+ " 'o': 'Infection in blood stream',\n",
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+ " {'s': 'SEPSIS',\n",
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+ " 'o': 'PYEMIA',\n",
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+ " {'s': 'Sepsis',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Pyemia',\n",
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+ " {'s': 'Septicemia',\n",
+ " 'p': 'answer to',\n",
+ " 'o': 'Active diagnoses:Find:RptPeriod:^Patient:Nom:CMS Assessment',\n",
+ " 'similarity': 'tensor(0.4248)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
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+ " {'s': 'SEPSIS',\n",
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+ " 'o': 'Sepsis, CTCAE',\n",
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+ " {'s': 'Sepsis',\n",
+ " 'p': 'has child relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Systemisches inflammatorisches Response-Syndrom',\n",
+ " 'similarity': 'tensor(0.4246)'},\n",
+ " {'s': 'SEPTICEMIA',\n",
+ " 'p': 'mapped to',\n",
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+ " {'s': 'Septicemia',\n",
+ " 'p': 'mapped to',\n",
+ " 'o': 'Sepsis',\n",
+ " 'similarity': 'tensor(0.4243)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'concept in subset',\n",
+ " 'o': 'Pediatric Infectious Disease Terminology',\n",
+ " 'similarity': 'tensor(0.4241)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Severe Sepsis',\n",
+ " 'similarity': 'tensor(0.4235)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'related and possibly synonymous',\n",
+ " 'o': 'Sepsis',\n",
+ " 'similarity': 'tensor(0.4234)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'concept in subset',\n",
+ " 'o': 'CPTAC Causes of Death Codelist',\n",
+ " 'similarity': 'tensor(0.4231)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'related and possibly synonymous',\n",
+ " 'o': 'Systemic inflammatory response syndrome due to infectious process without acute organ dysfunction',\n",
+ " 'similarity': 'tensor(0.4229)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Fungämie',\n",
+ " 'similarity': 'tensor(0.4229)'},\n",
+ " {'s': 'SEPSIS',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Sepsis Syndromes',\n",
+ " 'similarity': 'tensor(0.4226)'},\n",
+ " {'s': 'SEPSIS',\n",
+ " 'p': 'mapped from',\n",
+ " 'o': 'INFECTION SYSTEMIC',\n",
+ " 'similarity': 'tensor(0.4226)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Sepsis orthocnemis',\n",
+ " 'similarity': 'tensor(0.4225)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Sepsis neglecta',\n",
+ " 'similarity': 'tensor(0.4220)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Bacteremia',\n",
+ " 'similarity': 'tensor(0.4219)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Bakteriämie',\n",
+ " 'similarity': 'tensor(0.4219)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Sepsis luteipes',\n",
+ " 'similarity': 'tensor(0.4219)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'ceftriaxone sodium',\n",
+ " 'similarity': 'tensor(0.4218)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'may be prevented by',\n",
+ " 'o': 'mafenide',\n",
+ " 'similarity': 'tensor(0.4218)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'related and possibly synonymous',\n",
+ " 'o': 'Septic Shock',\n",
+ " 'similarity': 'tensor(0.4214)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Sepsis lateralis',\n",
+ " 'similarity': 'tensor(0.4214)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Sepsis neocynipsea',\n",
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+ " {'s': 'Septicemias',\n",
+ " 'p': 'permuted term of',\n",
+ " 'o': 'Septicemia',\n",
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+ " {'s': 'Sepsis',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'drotrecogin alfa',\n",
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+ " {'s': 'SEPSIS',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'SEPTICEMIA STAPHYLOCOCCAL',\n",
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+ " {'s': 'Septicemia',\n",
+ " 'p': 'concept in subset',\n",
+ " 'o': 'CPTAC Codelists Terminology',\n",
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+ " {'s': 'septicemia',\n",
+ " 'p': 'has child relationship in a Metathesaurus source vocabulary',\n",
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+ " {'s': 'SEPSIS',\n",
+ " 'p': 'mapped from',\n",
+ " 'o': 'TOXEMIA BACTERIAL',\n",
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+ " {'s': 'Sepsis',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Septikämie',\n",
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+ " {'s': 'Unspecified septicemia',\n",
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+ " 'o': 'Unspecified septicemia',\n",
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+ " {'s': 'Sepsis',\n",
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+ " 'o': 'Systemic inflammatory response syndrome (SIRS)',\n",
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+ " {'s': 'Sepsis',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
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+ " 'p': 'can be qualified by',\n",
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+ " {'s': 'SEPSIS',\n",
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+ " {'s': 'SEPSIS',\n",
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+ " {'s': 'SEPSIS',\n",
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+ " {'s': 'Sepsis',\n",
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+ " {'s': 'Septicemia',\n",
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+ " {'s': 'Septicemia',\n",
+ " 'p': 'concept in subset',\n",
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+ " {'s': 'Sepsis',\n",
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+ " {'s': 'Sepsis',\n",
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+ " {'s': 'Sepsis',\n",
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+ " {'s': 'Sepsis',\n",
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+ " {'s': 'Sepsis',\n",
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+ " {'s': 'Septicemia',\n",
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+ " {'s': 'Sepsis',\n",
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+ " {'s': 'Septicemia',\n",
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+ " 'o': 'Neonatal Research Network Terminology',\n",
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+ " {'s': 'Unspecified septicemia',\n",
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+ " {'s': 'Sepsis',\n",
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+ " 'p': 'has contraindicated drug',\n",
+ " 'o': 'etanercept',\n",
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+ " {'s': 'Sepsis',\n",
+ " 'p': 'manifestation of',\n",
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+ " {'s': 'Sepsis',\n",
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+ " {'s': 'Sepsis',\n",
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+ " {'s': 'Septicemia',\n",
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+ " 'o': 'piperacillin sodium',\n",
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+ " {'s': 'Septicemia',\n",
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+ " 'o': 'NICHD Terminology',\n",
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+ " {'s': 'Sepsis',\n",
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+ " 'o': 'ceftizoxime',\n",
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+ " {'s': 'Sepsis',\n",
+ " 'p': 'can be qualified by',\n",
+ " 'o': 'metabolism',\n",
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+ " {'s': 'Septicemia NOS',\n",
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+ " 'o': 'Unspecified septicemia',\n",
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+ " {'s': 'Septicemia',\n",
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+ " 'o': 'endotoxemia',\n",
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+ " {'s': 'Sepsis',\n",
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+ " {'s': 'Sepsis',\n",
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+ " {'s': 'Sepsis',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Sepsis flavimana',\n",
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+ " {'s': 'Septicemia',\n",
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+ " {'s': 'Septicemia',\n",
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+ " 'o': 'penicillin G',\n",
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+ " {'s': 'Septicemia',\n",
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+ " {'s': 'Sepsis',\n",
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+ " 'o': 'Sepsis monostigma',\n",
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+ " {'s': 'Sepsis',\n",
+ " 'p': 'can be qualified by',\n",
+ " 'o': 'radiotherapy',\n",
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+ " {'s': 'Septicemia',\n",
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+ " 'o': 'Perinatal Terminology',\n",
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+ " {'s': 'Sepsis',\n",
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+ " 'o': 'Sepsis coprophila',\n",
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+ " {'s': 'Septicemia',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Streptococcal septicemia',\n",
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+ " {'s': 'septicemia',\n",
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+ " 'o': 'transmission',\n",
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+ " {'s': 'Sepsis',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'cefotaxime sodium',\n",
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+ " {'s': 'Sepsis',\n",
+ " 'p': 'can be qualified by',\n",
+ " 'o': 'rehabilitation',\n",
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+ " {'s': 'Unspecified septicemia',\n",
+ " 'p': 'has child relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Septicemia',\n",
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+ " {'s': 'Unspecified septicemia',\n",
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+ " {'s': 'Unspecified septicemia',\n",
+ " 'p': 'has child relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Septicemia (except in labor)',\n",
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+ " 'o': 'generalized infection',\n",
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+ " {'s': 'Unspecified septicemia',\n",
+ " 'p': 'classified as',\n",
+ " 'o': 'Septicemia (except in labor)',\n",
+ " 'similarity': 'tensor(0.4071)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'aztreonam',\n",
+ " 'similarity': 'tensor(0.4071)'},\n",
+ " {'s': 'Infection in blood stream',\n",
+ " 'p': 'source asserted synonymy',\n",
+ " 'o': 'Sepsis',\n",
+ " 'similarity': 'tensor(0.4066)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'ceftazidime',\n",
+ " 'similarity': 'tensor(0.4065)'},\n",
+ " {'s': 'BLOOD POISONING',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'pneumococcal sepsis',\n",
+ " 'similarity': 'tensor(0.4061)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'can be qualified by',\n",
+ " 'o': 'veterinary',\n",
+ " 'similarity': 'tensor(0.4060)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Neonatal sepsis',\n",
+ " 'similarity': 'tensor(0.4060)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'oxacillin',\n",
+ " 'similarity': 'tensor(0.4056)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'cefoxitin',\n",
+ " 'similarity': 'tensor(0.4051)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'ertapenem',\n",
+ " 'similarity': 'tensor(0.4050)'},\n",
+ " {'s': 'SEPSIS',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Joint Tuberculoses',\n",
+ " 'similarity': 'tensor(0.4048)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'manifestation of',\n",
+ " 'o': 'IMMUNODEFICIENCY 56',\n",
+ " 'similarity': 'tensor(0.4047)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has child relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Sepsidae',\n",
+ " 'similarity': 'tensor(0.4047)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'imipenem',\n",
+ " 'similarity': 'tensor(0.4046)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'cefuroxime axetil',\n",
+ " 'similarity': 'tensor(0.4045)'},\n",
+ " {'s': 'septicemia',\n",
+ " 'p': 'has child relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'bacterial disease',\n",
+ " 'similarity': 'tensor(0.4038)'},\n",
+ " {'s': 'SEPSIS',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'BLOOD POISONING',\n",
+ " 'similarity': 'tensor(0.4035)'},\n",
+ " {'s': 'SEPSIS',\n",
+ " 'p': 'has a narrower relationship',\n",
+ " 'o': 'Communicable Disease',\n",
+ " 'similarity': 'tensor(0.4035)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'manifestation of',\n",
+ " 'o': 'AUTOINFLAMMATORY DISEASE, MULTISYSTEM, WITH IMMUNE DYSREGULATION, X-LINKED',\n",
+ " 'similarity': 'tensor(0.4033)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'piperacillin anhydrous',\n",
+ " 'similarity': 'tensor(0.4033)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'may be prevented by',\n",
+ " 'o': 'nitrofurazone',\n",
+ " 'similarity': 'tensor(0.4021)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'ceftizoxime sodium',\n",
+ " 'similarity': 'tensor(0.4020)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'cefotetan',\n",
+ " 'similarity': 'tensor(0.4020)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'penicillin G potassium',\n",
+ " 'similarity': 'tensor(0.4017)'},\n",
+ " {'s': 'generalized infection',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'septicemia',\n",
+ " 'similarity': 'tensor(0.4012)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has a narrower relationship',\n",
+ " 'o': 'Sepsidae',\n",
+ " 'similarity': 'tensor(0.4006)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'ticarcillin',\n",
+ " 'similarity': 'tensor(0.4002)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Staphylococcal septicemia',\n",
+ " 'similarity': 'tensor(0.4002)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'drotrecogin alfa (activated), lyophilized',\n",
+ " 'similarity': 'tensor(0.4001)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'penicillin G procaine',\n",
+ " 'similarity': 'tensor(0.3997)'},\n",
+ " {'s': 'septicemia',\n",
+ " 'p': 'has a narrower relationship',\n",
+ " 'o': 'bacterial disease',\n",
+ " 'similarity': 'tensor(0.3994)'},\n",
+ " {'s': 'SEPSIS',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'BOTULISM',\n",
+ " 'similarity': 'tensor(0.3994)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'answer to',\n",
+ " 'o': 'History of diseases:Hx:Pt:^Family member:Nom:USSG-FHT',\n",
+ " 'similarity': 'tensor(0.3991)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'has child relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'OTHER BACTERIAL DISEASES',\n",
+ " 'similarity': 'tensor(0.3985)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'can be qualified by',\n",
+ " 'o': 'cerebrospinal fluid',\n",
+ " 'similarity': 'tensor(0.3981)'},\n",
+ " {'s': 'septicemia',\n",
+ " 'p': 'used for',\n",
+ " 'o': 'bacteremia',\n",
+ " 'similarity': 'tensor(0.3980)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Salmonella Septicemia',\n",
+ " 'similarity': 'tensor(0.3975)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'cefuroxime',\n",
+ " 'similarity': 'tensor(0.3973)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'penicillin G benzathine',\n",
+ " 'similarity': 'tensor(0.3973)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Other specified septicemias',\n",
+ " 'similarity': 'tensor(0.3973)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'ceftazidime sodium',\n",
+ " 'similarity': 'tensor(0.3973)'},\n",
+ " {'s': 'septicemia',\n",
+ " 'p': 'related and possibly synonymous',\n",
+ " 'o': 'blood poisoning',\n",
+ " 'similarity': 'tensor(0.3972)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'cefoxitin sodium',\n",
+ " 'similarity': 'tensor(0.3970)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'oxacillin sodium',\n",
+ " 'similarity': 'tensor(0.3969)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'isa',\n",
+ " 'o': 'Infectious Disorder by Site',\n",
+ " 'similarity': 'tensor(0.3968)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'can be qualified by',\n",
+ " 'o': 'nursing',\n",
+ " 'similarity': 'tensor(0.3963)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'penicillin G sodium',\n",
+ " 'similarity': 'tensor(0.3962)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'answer to',\n",
+ " 'o': 'Cause of death:Find:Pt:^Family member:Nom:USSG-FHT',\n",
+ " 'similarity': 'tensor(0.3961)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has contraindicated drug',\n",
+ " 'o': 'methysergide',\n",
+ " 'similarity': 'tensor(0.3960)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'ertapenem sodium',\n",
+ " 'similarity': 'tensor(0.3958)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Septicemia due to other gram-negative organisms',\n",
+ " 'similarity': 'tensor(0.3953)'},\n",
+ " {'s': 'Unspecified septicemia',\n",
+ " 'p': 'classifies',\n",
+ " 'o': 'Bacteremia',\n",
+ " 'similarity': 'tensor(0.3946)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has contraindicated drug',\n",
+ " 'o': 'methysergide maleate',\n",
+ " 'similarity': 'tensor(0.3945)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'related and possibly synonymous',\n",
+ " 'o': 'Blood Poisoning',\n",
+ " 'similarity': 'tensor(0.3943)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'cefepime hydrochloride',\n",
+ " 'similarity': 'tensor(0.3940)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'manifestation of',\n",
+ " 'o': 'DEVELOPMENTAL AND EPILEPTIC ENCEPHALOPATHY 111',\n",
+ " 'similarity': 'tensor(0.3933)'},\n",
+ " {'s': 'SEPSIS',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Fever, Animal Milk',\n",
+ " 'similarity': 'tensor(0.3924)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'ceftazidime anhydrous',\n",
+ " 'similarity': 'tensor(0.3922)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'imipenem anhydrous',\n",
+ " 'similarity': 'tensor(0.3921)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'imipenem monohydrate',\n",
+ " 'similarity': 'tensor(0.3921)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has contraindicated drug',\n",
+ " 'o': 'sodium tetradecyl sulfate',\n",
+ " 'similarity': 'tensor(0.3913)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'nafcillin',\n",
+ " 'similarity': 'tensor(0.3909)'},\n",
+ " {'s': 'INFECTION SYSTEMIC',\n",
+ " 'p': 'mapped to',\n",
+ " 'o': 'SEPSIS',\n",
+ " 'similarity': 'tensor(0.3905)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'cilastatin',\n",
+ " 'similarity': 'tensor(0.3903)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'cefuroxime sodium',\n",
+ " 'similarity': 'tensor(0.3899)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'inverse isa',\n",
+ " 'o': 'Maternal Sepsis',\n",
+ " 'similarity': 'tensor(0.3895)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'immunoglobulins, intravenous',\n",
+ " 'similarity': 'tensor(0.3895)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'mezlocillin',\n",
+ " 'similarity': 'tensor(0.3893)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'isa',\n",
+ " 'o': 'Abnormality of immune system physiology',\n",
+ " 'similarity': 'tensor(0.3885)'},\n",
+ " {'s': 'septicemia',\n",
+ " 'p': 'see from',\n",
+ " 'o': 'blood poisoning',\n",
+ " 'similarity': 'tensor(0.3881)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'concept in subset',\n",
+ " 'o': 'FDA Center For Devices and Radiological Health Terminology',\n",
+ " 'similarity': 'tensor(0.3875)'},\n",
+ " {'s': 'generalized infection',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'septicemia',\n",
+ " 'similarity': 'tensor(0.3871)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'cefotetan disodium',\n",
+ " 'similarity': 'tensor(0.3851)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'ticarcillin disodium',\n",
+ " 'similarity': 'tensor(0.3851)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has contraindicated drug',\n",
+ " 'o': 'dihydroergotamine tartrate',\n",
+ " 'similarity': 'tensor(0.3847)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'related and possibly synonymous',\n",
+ " 'o': 'Toxic Shock Syndrome',\n",
+ " 'similarity': 'tensor(0.3845)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'tobramycin',\n",
+ " 'similarity': 'tensor(0.3844)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has contraindicated drug',\n",
+ " 'o': 'ergotamine tartrate',\n",
+ " 'similarity': 'tensor(0.3836)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'cilastatin sodium',\n",
+ " 'similarity': 'tensor(0.3833)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'nafcillin sodium',\n",
+ " 'similarity': 'tensor(0.3829)'},\n",
+ " {'s': 'BLOOD POISONING',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'pseudomonas sepsis',\n",
+ " 'similarity': 'tensor(0.3821)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'mezlocillin sodium',\n",
+ " 'similarity': 'tensor(0.3819)'},\n",
+ " {'s': 'BLOOD POISONING',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'SEPSIS SECONDARY',\n",
+ " 'similarity': 'tensor(0.3814)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'manifestation of',\n",
+ " 'o': 'IMMUNODEFICIENCY 71 WITH INFLAMMATORY DISEASE AND CONGENITAL THROMBOCYTOPENIA',\n",
+ " 'similarity': 'tensor(0.3809)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'manifestation of',\n",
+ " 'o': 'MIRAGE SYNDROME',\n",
+ " 'similarity': 'tensor(0.3805)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has contraindicated drug',\n",
+ " 'o': 'dihydroergotamine',\n",
+ " 'similarity': 'tensor(0.3802)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'amikacin',\n",
+ " 'similarity': 'tensor(0.3791)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'related to',\n",
+ " 'o': 'Bacterial Infections',\n",
+ " 'similarity': 'tensor(0.3790)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'gentamicin',\n",
+ " 'similarity': 'tensor(0.3788)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has contraindicated drug',\n",
+ " 'o': 'ergotamine',\n",
+ " 'similarity': 'tensor(0.3781)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'tobramycin sulfate',\n",
+ " 'similarity': 'tensor(0.3777)'},\n",
+ " {'s': 'BLOOD POISONING',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'serratia sepsis',\n",
+ " 'similarity': 'tensor(0.3769)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'has contraindicated drug',\n",
+ " 'o': 'dihydroergotamine mesylate',\n",
+ " 'similarity': 'tensor(0.3767)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'manifestation of',\n",
+ " 'o': 'SPECIFIC GRANULE DEFICIENCY 2',\n",
+ " 'similarity': 'tensor(0.3747)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'Septicemia due to anaerobes',\n",
+ " 'similarity': 'tensor(0.3744)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'has contraindicated drug',\n",
+ " 'o': 'ropivacaine',\n",
+ " 'similarity': 'tensor(0.3740)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'nafcillin sodium monohydrate',\n",
+ " 'similarity': 'tensor(0.3730)'},\n",
+ " {'s': 'BLOOD POISONING',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'septicemia streptococcal',\n",
+ " 'similarity': 'tensor(0.3730)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'gentamicin sulfate',\n",
+ " 'similarity': 'tensor(0.3727)'},\n",
+ " {'s': 'BLOOD POISONING',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'gram negative sepsis',\n",
+ " 'similarity': 'tensor(0.3719)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'amikacin sulfate',\n",
+ " 'similarity': 'tensor(0.3696)'},\n",
+ " {'s': 'BLOOD POISONING',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Other gram negative septicemia',\n",
+ " 'similarity': 'tensor(0.3684)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'has contraindicated drug',\n",
+ " 'o': 'ropivacaine hydrochloride',\n",
+ " 'similarity': 'tensor(0.3669)'},\n",
+ " {'s': 'Sepsis',\n",
+ " 'p': 'manifestation of',\n",
+ " 'o': 'PRIMORDIAL DWARFISM-IMMUNODEFICIENCY-LIPODYSTROPHY SYNDROME',\n",
+ " 'similarity': 'tensor(0.3661)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'metronidazole',\n",
+ " 'similarity': 'tensor(0.3649)'},\n",
+ " {'s': 'blood poisoning',\n",
+ " 'p': 'related and possibly synonymous',\n",
+ " 'o': 'septicemia',\n",
+ " 'similarity': 'tensor(0.3632)'},\n",
+ " {'s': 'BLOOD POISONING',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'SEPTICEMIA STAPHYLOCOCCAL',\n",
+ " 'similarity': 'tensor(0.3624)'},\n",
+ " {'s': 'Blood Poisoning',\n",
+ " 'p': 'related and possibly synonymous',\n",
+ " 'o': 'Sepsis',\n",
+ " 'similarity': 'tensor(0.3620)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'has contraindicated drug',\n",
+ " 'o': 'ropivacaine hydrochloride anhydrous',\n",
+ " 'similarity': 'tensor(0.3612)'},\n",
+ " {'s': 'blood poisoning',\n",
+ " 'p': 'see',\n",
+ " 'o': 'septicemia',\n",
+ " 'similarity': 'tensor(0.3606)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'metronidazole benzoate',\n",
+ " 'similarity': 'tensor(0.3600)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'has contraindicated drug',\n",
+ " 'o': 'ropivacaine hydrochloride monohydrate',\n",
+ " 'similarity': 'tensor(0.3597)'},\n",
+ " {'s': 'BLOOD POISONING',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'SEPSIS, NEONATAL',\n",
+ " 'similarity': 'tensor(0.3574)'},\n",
+ " {'s': 'BLOOD POISONING',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'bacterial septicemia',\n",
+ " 'similarity': 'tensor(0.3557)'},\n",
+ " {'s': 'BLOOD POISONING',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Sepsis, Severe',\n",
+ " 'similarity': 'tensor(0.3551)'},\n",
+ " {'s': 'BLOOD POISONING',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Other specified septicemia',\n",
+ " 'similarity': 'tensor(0.3550)'},\n",
+ " {'s': 'BLOOD POISONING',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Sepsis Syndromes',\n",
+ " 'similarity': 'tensor(0.3540)'},\n",
+ " {'s': 'Infection, Bloodstream',\n",
+ " 'p': 'permuted term of',\n",
+ " 'o': 'Bloodstream Infection',\n",
+ " 'similarity': 'tensor(0.3531)'},\n",
+ " {'s': 'Septicemia',\n",
+ " 'p': 'may be treated by',\n",
+ " 'o': 'metronidazole hydrochloride',\n",
+ " 'similarity': 'tensor(0.3498)'},\n",
+ " {'s': 'BLOOD POISONING',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'SEPSIS',\n",
+ " 'similarity': 'tensor(0.3496)'},\n",
+ " {'s': 'BLOOD POISONING',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Sepsis, CTCAE',\n",
+ " 'similarity': 'tensor(0.3475)'},\n",
+ " {'s': 'BLOOD POISONING',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'salmonella septicemia',\n",
+ " 'similarity': 'tensor(0.3406)'},\n",
+ " {'s': 'BLOOD POISONING',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Escherichia coli septicemia',\n",
+ " 'similarity': 'tensor(0.3404)'},\n",
+ " {'s': 'BLOOD POISONING',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Septicemia in children',\n",
+ " 'similarity': 'tensor(0.3398)'},\n",
+ " {'s': 'Bloodstream Infection',\n",
+ " 'p': 'has permuted term',\n",
+ " 'o': 'Infection, Bloodstream',\n",
+ " 'similarity': 'tensor(0.3359)'},\n",
+ " {'s': 'BLOOD POISONING',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Shock, Septic',\n",
+ " 'similarity': 'tensor(0.3358)'},\n",
+ " {'s': 'Bloodstream Infections',\n",
+ " 'p': 'permuted term of',\n",
+ " 'o': 'Bloodstream Infection',\n",
+ " 'similarity': 'tensor(0.3353)'},\n",
+ " {'s': 'BLOOD POISONING',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Septicemia due to anaerobes',\n",
+ " 'similarity': 'tensor(0.3347)'},\n",
+ " {'s': 'BLOOD POISONING',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Septicemia due to hemophilus influenzae [H. influenzae]',\n",
+ " 'similarity': 'tensor(0.3335)'},\n",
+ " {'s': 'BLOOD POISONING',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Septicemia by Listeria monocytogenes',\n",
+ " 'similarity': 'tensor(0.3255)'},\n",
+ " {'s': 'Bloodstream Infection',\n",
+ " 'p': 'has permuted term',\n",
+ " 'o': 'Bloodstream Infections',\n",
+ " 'similarity': 'tensor(0.3244)'},\n",
+ " {'s': 'Systemic infections',\n",
+ " 'p': 'has child relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'IMMUNOLOGY',\n",
+ " 'similarity': 'tensor(0.3159)'},\n",
+ " {'s': 'BLOOD POISONING',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'UROSEPSIS',\n",
+ " 'similarity': 'tensor(0.3129)'},\n",
+ " {'s': 'Systemic infections',\n",
+ " 'p': 'manifestation of',\n",
+ " 'o': 'PULMONARY ALVEOLAR PROTEINOSIS, ACQUIRED',\n",
+ " 'similarity': 'tensor(0.3089)'},\n",
+ " {'s': 'BLOOD POISONING',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Endotoxemia',\n",
+ " 'similarity': 'tensor(0.3034)'},\n",
+ " {'s': 'BLOOD POISONING',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Bacteremias',\n",
+ " 'similarity': 'tensor(0.2997)'},\n",
+ " {'s': 'generalized infection',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'viremia',\n",
+ " 'similarity': 'tensor(0.2973)'},\n",
+ " {'s': 'generalized infection',\n",
+ " 'p': 'has parent relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'viremia',\n",
+ " 'similarity': 'tensor(0.2957)'},\n",
+ " {'s': 'BLOOD POISONING',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Bacterial infection, unspecified, in conditions classified elsewhere and of unspecified site',\n",
+ " 'similarity': 'tensor(0.2925)'},\n",
+ " {'s': 'generalized infection',\n",
+ " 'p': 'has a narrower relationship',\n",
+ " 'o': 'infection',\n",
+ " 'similarity': 'tensor(0.2893)'},\n",
+ " {'s': 'generalized infection',\n",
+ " 'p': 'has child relationship in a Metathesaurus source vocabulary',\n",
+ " 'o': 'infection',\n",
+ " 'similarity': 'tensor(0.2868)'},\n",
+ " {'s': 'blood poisoning',\n",
+ " 'p': 'see',\n",
+ " 'o': 'blood toxicology',\n",
+ " 'similarity': 'tensor(0.2791)'},\n",
+ " {'s': 'BLOOD POISONING',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'PYEMIA',\n",
+ " 'similarity': 'tensor(0.2784)'},\n",
+ " {'s': 'Systemic infections',\n",
+ " 'p': 'manifestation of',\n",
+ " 'o': 'MITOCHONDRIAL DNA DEPLETION SYNDROME 6 (HEPATOCEREBRAL TYPE)',\n",
+ " 'similarity': 'tensor(0.2783)'},\n",
+ " {'s': 'Blood Poisonings',\n",
+ " 'p': 'permuted term of',\n",
+ " 'o': 'Blood Poisoning',\n",
+ " 'similarity': 'tensor(0.2651)'},\n",
+ " {'s': 'Poisonings, Blood',\n",
+ " 'p': 'permuted term of',\n",
+ " 'o': 'Blood Poisoning',\n",
+ " 'similarity': 'tensor(0.2614)'},\n",
+ " {'s': 'BLOOD POISONING',\n",
+ " 'p': 'has a broader relationship',\n",
+ " 'o': 'Fever, Animal Milk',\n",
+ " 'similarity': 'tensor(0.2602)'},\n",
+ " {'s': 'BLOOD POISONING',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'blood toxicology',\n",
+ " 'similarity': 'tensor(0.2553)'},\n",
+ " {'s': 'BLOOD POISONING',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Toxemia',\n",
+ " 'similarity': 'tensor(0.2513)'},\n",
+ " {'s': 'BLOOD POISONING',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Toxemia',\n",
+ " 'similarity': 'tensor(0.2513)'},\n",
+ " {'s': 'BLOOD POISONING',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'Blood',\n",
+ " 'similarity': 'tensor(0.2505)'},\n",
+ " {'s': 'Blood Poisoning',\n",
+ " 'p': 'has permuted term',\n",
+ " 'o': 'Poisonings, Blood',\n",
+ " 'similarity': 'tensor(0.2499)'},\n",
+ " {'s': 'BLOOD POISONING',\n",
+ " 'p': 'has relationship other than synonymous, narrower, or broader',\n",
+ " 'o': 'MATERNAL TOXEMIA',\n",
+ " 'similarity': 'tensor(0.2461)'},\n",
+ " {'s': 'Blood Poisoning',\n",
+ " 'p': 'has permuted term',\n",
+ " 'o': 'Blood Poisonings',\n",
+ " 'similarity': 'tensor(0.2454)'}],\n",
+ " 'llama8bBaseline': 'Yes.',\n",
+ " 'llama70bBaseline': 'Yes.',\n",
+ " 'gemmaBaseline': 'Yes.\\n\\nPentraxin 3 has been shown to be a useful predictor of sepsis outcomes.',\n",
+ " 'aionr_request': 'Can Pentraxin 3 predict outcomes of sepsis? Consider the following information:\\nSepticemia has relationship has evaluation to Septicemia:Find:Pt:^Patient:Ord:MDS.\\nSepsis has relationship has translation to Sepsis.\\nSepsis has relationship can be qualified by to psychology.\\nSepticemia has relationship component of to Septicemia in last 7D:Find:7D:^Patient:Ord:MDSv3.\\nSepsis has relationship has child relationship in a Metathesaurus source vocabulary to Infektion.\\nSepsis has relationship can be qualified by to epidemiology.\\nSepsis has relationship has parent relationship in a Metathesaurus source vocabulary to Sepsis punctum.\\nSepticemia has relationship concept in subset to Pediatric Adverse Events Terminology.\\nSepsis has relationship can be qualified by to mortality.\\nSepsis has relationship can be qualified by to diagnosis.\\n',\n",
+ " 'llama8bAIONR': 'Yes.',\n",
+ " 'llama70bAIONR': 'Yes.',\n",
+ " 'gemmaAIONR': 'Yes. Pentraxin 3 has been shown to predict outcomes of sepsis.',\n",
+ " 'nl_sentences': 'Septicemia is a condition that requires evaluation, and it can be found in patients with a diagnosis of MDS. Sepsis is a related term that has been translated and can be qualified by various factors, including psychology and epidemiology. In fact, sepsis is a component of septicemia, particularly in the last 7 days. The term sepsis is also a child concept in the Metathesaurus source vocabulary Infektion, and it has a parent concept called Sepsis punctum. Furthermore, septicemia is a concept that is relevant to pediatric adverse events, and sepsis can be qualified by mortality and diagnosis.',\n",
+ " 'llama8bAIONLR': 'Yes.',\n",
+ " 'llama70bAIONLR': 'Yes.',\n",
+ " 'gemmaAIONLR': 'Yes. Pentraxin 3 can predict outcomes of sepsis.'}"
+ ]
+ },
+ "execution_count": 25,
+ "metadata": {},
+ "output_type": "execute_result"
+ }
+ ],
+ "source": [
+ "final_questions[3]"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 26,
+ "id": "5ba7ab2f-5a5a-4fe7-a6cc-b68eaef3208a",
+ "metadata": {},
+ "outputs": [],
+ "source": [
+ "with open('../data/100each_results_redone.json', 'w') as fout:\n",
+ " json.dump(final_questions, fout)"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 27,
+ "id": "ce6eba4c-ca60-4c88-bb82-8f538ffc267f",
+ "metadata": {},
+ "outputs": [],
+ "source": [
+ "# compute the accuracy for each model, prompting and whether its yes or no as gt\n",
+ "lama8base = []\n",
+ "lama8aionr = []\n",
+ "lama8ainlr = []\n",
+ "lama70base = []\n",
+ "lama70aionr = []\n",
+ "lama70ainlr = []\n",
+ "gemmabase = []\n",
+ "gemmaaionr = []\n",
+ "gemmaainlr = []\n",
+ "for question in final_questions:\n",
+ " lama8base.append(question[\"llama8bBaseline\"])\n",
+ " lama8aionr.append(question[\"llama8bAIONR\"])\n",
+ " lama8ainlr.append(question[\"llama8bAIONLR\"])\n",
+ " lama70base.append(question[\"llama70bBaseline\"])\n",
+ " lama70aionr.append(question[\"llama70bAIONR\"])\n",
+ " lama70ainlr.append(question[\"llama70bAIONLR\"])\n",
+ " gemmabase.append(question[\"gemmaBaseline\"])\n",
+ " gemmaaionr.append(question[\"gemmaAIONR\"])\n",
+ " gemmaainlr.append(question[\"gemmaAIONLR\"])"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 46,
+ "id": "38c1c404-52b9-4700-8aa6-ddd93fce2198",
+ "metadata": {},
+ "outputs": [
+ {
+ "name": "stdout",
+ "output_type": "stream",
+ "text": [
+ "['No.', 'Yes.', 'YES', 'Yes.', 'No.', 'YES', 'Yes.', 'No.', 'Yes', 'Yes.', 'Yes', 'Yes', 'Yes.', 'No', 'Yes.', 'No', 'No.', 'Yes', 'Yes.', 'Yes.', 'Yes.', 'Yes', 'No.', 'Yes.', 'No.', 'No', 'No', 'Yes.', 'No', 'No', 'Yes', 'No.', 'Yes.', 'Yes.', 'No.', 'No', 'No.', 'YES', 'Yes.', 'Yes.', 'Yes.', 'No.', 'Yes.', 'No.', 'Yes', 'No.', 'Yes.', 'Yes.', 'No', 'Yes.', 'Yes.', 'No', 'No', 'Yes.', 'Yes.', 'No.', 'Yes', 'No.', 'Yes.', 'No', 'YES', 'Yes.', 'Yes', 'Yes.', 'No', 'YES', 'Yes', 'Yes', 'No.', 'No.', 'Yes.', 'Yes', 'Yes.', 'Yes.', 'No', 'Yes', 'Yes.', 'YES', 'Yes.', 'Yes', 'No', 'No', 'Yes', 'Yes', 'No.', 'No', 'No.', 'Yes.', 'No', 'Yes', 'Yes', 'Yes', 'Yes', 'Yes.', 'No', 'Yes', 'No.', 'Yes.', 'No.', 'Yes', 'Yes', 'Yes.', 'Yes', 'Yes.', 'YES', 'No.', 'No.', 'No', 'Yes.', 'no', 'Yes', 'No', 'No.', 'Yes', 'No.', 'No.', 'No', 'No.', 'Yes.', 'Yes.', 'Yes.', 'No', 'Yes', 'No.', 'No', 'Yes.', 'Yes.', 'Yes.', 'Yes', 'No', 'Yes.', 'Yes', 'No.', 'Yes', 'Yes.', 'No.', 'Yes.', 'Yes.', 'No.', 'Yes', 'Yes.', 'Yes.', 'Yes', 'Yes', 'No', 'No.', 'No.', 'Yes', 'No.', 'No.', 'No', 'No', 'Yes.', 'No.', 'No', 'Yes.', 'Yes.', 'Yes.', 'No', 'Yes.', 'No', 'Yes', 'No', 'Yes.', 'Yes', 'Yes', 'No.', 'Yes.', 'Yes.', 'Yes.', 'Yes.', 'Yes', 'YES', 'No.', 'Yes', 'No', 'No', 'Yes.', 'Yes.', 'No.', 'No', 'No', 'No.', 'Yes.', 'No', 'Yes', 'Yes', 'No', 'Yes.', 'No', 'No.', 'No.', 'No', 'Yes', 'Yes', 'Yes', 'Yes.', 'No.', 'No.', 'Yes']\n",
+ "89\n",
+ "72\n",
+ "200\n"
+ ]
+ }
+ ],
+ "source": [
+ "print(lama8base)\n",
+ "trues = 0\n",
+ "falses = 0\n",
+ "valid = 0\n",
+ "for ind,question in enumerate(final_questions):\n",
+ " if question[\"gt\"] == \"yes\" and \"yes\" in lama8base[ind].lower():\n",
+ " trues = trues + 1\n",
+ " elif question[\"gt\"] == \"no\" and \"no\" in lama8base[ind].lower():\n",
+ " falses = falses + 1\n",
+ " if \"yes\" in lama8base[ind].lower() or \"no\" in lama8base[ind].lower():\n",
+ " valid += 1\n",
+ "print(trues)\n",
+ "print(falses)\n",
+ "print(valid)"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 49,
+ "id": "df8c5504-7b21-4a7d-b2cb-5e705db705d5",
+ "metadata": {},
+ "outputs": [
+ {
+ "name": "stdout",
+ "output_type": "stream",
+ "text": [
+ "['No.', 'Yes.', 'Yes.', 'Yes.', 'No.', 'Yes.', 'Yes.', 'No.', 'Yes.', 'Yes.', 'Yes.', 'Yes', 'No.', 'No.', 'No.', 'No.', 'No.', 'Yes.', 'Yes.', 'No.', 'Yes', 'Yes.', 'No.', 'Yes.', 'No.', 'No.', 'No.', 'No.', 'No.', 'No.', 'Yes.', 'No.', 'Yes.', 'Yes.', 'No.', 'No.', 'No.', 'Yes.', 'Yes', 'Yes.', 'Yes.', 'No.', 'Yes.', 'No.', 'Yes.', 'No', 'No', 'Yes.', 'No.', 'Yes.', 'Yes.', 'No.', 'No', 'Yes.', 'Yes.', 'No.', 'Yes.', 'No.', 'Yes.', 'No.', 'Yes.', 'No.', 'Yes.', 'Yes.', 'No.', 'Yes.', 'Yes.', 'Yes.', 'No.', 'Yes.', 'Yes.', 'Yes.', 'Yes.', 'No', 'No.', 'Yes.', 'Yes.', 'Yes.', 'Yes.', 'Yes.', 'No.', 'No.', 'Yes.', 'Yes.', 'No.', 'No', 'No.', 'No', 'No.', 'Yes.', 'Yes.', 'No.', 'No.', 'Yes.', 'No.', 'No.', 'No.', 'Yes.', 'Yes.', 'Yes.', 'Yes.', 'Yes.', 'Yes.', 'No.', 'Yes.', 'No.', 'No.', 'No.', 'Yes.', 'No.', 'Yes', 'No.', 'Yes.', 'Yes.', 'No.', 'No.', 'No.', 'No.', 'No.', 'Yes.', 'No.', 'No.', 'Yes.', 'No.', 'No.', 'Yes.', 'Yes.', 'Yes.', 'No.', 'No.', 'No.', 'No.', 'No.', 'Yes.', 'Yes.', 'No.', 'Yes.', 'Yes.', 'No.', 'Yes.', 'Yes.', 'Yes.', 'Yes.', 'Yes.', 'No.', 'No.', 'No', 'Yes.', 'No.', 'No.', 'No.', 'Yes.', 'Yes.', 'No.', 'Yes.', 'Yes.', 'No.', 'Yes.', 'No.', 'Yes.', 'No.', 'Yes.', 'No.', 'Yes.', 'Yes.', 'Yes.', 'Yes.', 'Yes.', 'Yes.', 'No.', 'Yes', 'Yes.', 'Yes.', 'Yes.', 'Yes.', 'No.', 'No.', 'Yes.', 'No.', 'No.', 'No.', 'No.', 'No.', 'Yes.', 'No', 'Yes.', 'No.', 'Yes.', 'Yes.', 'No.', 'Yes', 'No', 'No.', 'Yes.', 'Yes', 'Yes.', 'No.', 'No.', 'No.', 'Yes.']\n",
+ "82\n",
+ "78\n",
+ "200\n"
+ ]
+ }
+ ],
+ "source": [
+ "print(lama8aionr)\n",
+ "trues = 0\n",
+ "falses = 0\n",
+ "valid = 0\n",
+ "for ind,question in enumerate(final_questions):\n",
+ " if question[\"gt\"] == \"yes\" and \"yes\" in lama8aionr[ind].lower():\n",
+ " trues = trues + 1\n",
+ " elif question[\"gt\"] == \"no\" and \"no\" in lama8aionr[ind].lower():\n",
+ " falses = falses + 1\n",
+ " if \"yes\" in lama8aionr[ind].lower() or \"no\" in lama8aionr[ind].lower():\n",
+ " valid += 1\n",
+ "print(trues)\n",
+ "print(falses)\n",
+ "print(valid)"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 50,
+ "id": "66f67d29-4381-451b-a0eb-6d9119bc09e5",
+ "metadata": {},
+ "outputs": [
+ {
+ "name": "stdout",
+ "output_type": "stream",
+ "text": [
+ "['No.', 'Yes.', 'Yes.', 'Yes.', 'No.', 'Yes.', 'Yes.', 'No.', 'Yes.', 'Yes.', 'No.', 'Yes.', 'No.', 'Yes.', 'No.', 'No.', 'No.', 'No', 'No.', 'No.', 'Yes.', 'Yes.', 'No.', 'Yes', 'No.', 'No.', 'No.', 'No.', 'No.', 'No.', 'Yes.', 'No.', 'Yes.', 'Yes.', 'No.', 'Yes.', 'No.', 'Yes', 'Yes.', 'Yes.', 'Yes.', 'No.', 'No.', 'No.', 'Yes.', 'No.', 'No.', 'Yes.', 'No.', 'Yes.', 'Yes.', 'No.', 'No.', 'No.', 'Yes.', 'No.', 'Yes.', 'Yes.', 'No.', 'No', 'YES', 'No.', 'Yes.', 'Yes.', 'No.', 'Yes.', 'Yes.', 'No.', 'No.', 'No.', 'No.', 'Yes.', 'Yes.', 'No.', 'No.', 'Yes', 'Yes.', 'Yes.', 'Yes', 'Yes.', 'No.', 'No.', 'Yes.', 'Yes.', 'No.', 'No.', 'No.', 'No.', 'No.', 'Yes.', 'Yes.', 'No.', 'No.', 'No.', 'No.', 'No.', 'No', 'Yes.', 'No.', 'Yes.', 'Yes.', 'Yes.', 'Yes.', 'No.', 'Yes.', 'No.', 'No.', 'No.', 'Yes.', 'No.', 'Yes', 'No.', 'No.', 'Yes.', 'No', 'No.', 'No', 'No.', 'No.', 'Yes.', 'No.', 'No.', 'No.', 'No.', 'No.', 'Yes.', 'Yes.', 'No.', 'Yes.', 'No.', 'No.', 'No.', 'No', 'No.', 'No', 'No.', 'Yes.', 'No.', 'No', 'Yes.', 'Yes.', 'Yes.', 'No.', 'No.', 'No.', 'No.', 'No.', 'Yes.', 'No.', 'No', 'No.', 'No.', 'Yes.', 'No.', 'No.', 'Yes.', 'No.', 'Yes.', 'No.', 'No.', 'No.', 'Yes.', 'No', 'Yes', 'Yes.', 'No.', 'Yes.', 'Yes.', 'No.', 'No.', 'Yes.', 'Yes', 'No.', 'No.', 'Yes.', 'Yes.', 'No.', 'Yes.', 'No.', 'No', 'No', 'No.', 'No', 'Yes.', 'Yes.', 'Yes.', 'No', 'No.', 'Yes.', 'No.', 'No.', 'No.', 'No.', 'Yes.', 'No.', 'Yes.', 'No.', 'No.', 'No.', 'Yes.']\n",
+ "65\n",
+ "84\n",
+ "200\n"
+ ]
+ }
+ ],
+ "source": [
+ "print(lama8ainlr)\n",
+ "trues = 0\n",
+ "falses = 0\n",
+ "valid = 0\n",
+ "for ind,question in enumerate(final_questions):\n",
+ " if question[\"gt\"] == \"yes\" and \"yes\" in lama8ainlr[ind].lower():\n",
+ " trues = trues + 1\n",
+ " elif question[\"gt\"] == \"no\" and \"no\" in lama8ainlr[ind].lower():\n",
+ " falses = falses + 1\n",
+ " if \"yes\" in lama8ainlr[ind].lower() or \"no\" in lama8ainlr[ind].lower():\n",
+ " valid += 1\n",
+ "print(trues)\n",
+ "print(falses)\n",
+ "print(valid)"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 52,
+ "id": "d6417a04-2e72-4df2-899a-cb193d513ddb",
+ "metadata": {},
+ "outputs": [
+ {
+ "name": "stdout",
+ "output_type": "stream",
+ "text": [
+ "['No.', 'YES', 'YES', 'Yes.', 'No', 'Yes', 'Yes', 'No', 'YES', 'YES', 'No.', 'YES', 'No.', 'No', 'No', 'Yes.', 'No.', 'Yes', 'Yes', 'No', 'YES', 'YES', 'No.', 'YES', 'Yes', 'No.', 'YES', 'No', 'No.', 'No', 'Yes', 'No.', 'Yes', 'Yes', 'No.', 'No', 'No.', 'Yes', 'YES', 'Yes.', 'Yes', 'No.', 'Yes', 'No.', 'YES', 'No.', 'No', 'YES', 'No.', 'YES', 'Yes', 'No', 'Yes', 'Yes', 'YES', 'No', 'Yes', 'Yes.', 'YES', 'No', 'Yes', 'YES', 'No.', 'Yes.', 'No', 'YES', 'YES', 'YES', 'No.', 'No.', 'Yes', 'Yes', 'YES', 'Yes', 'Yes', 'YES', 'YES', 'YES', 'Yes', 'Yes', 'Yes', 'No.', 'Yes.', 'YES', 'No', 'Yes.', 'No.', 'YES', 'No', 'YES', 'YES', 'Yes.', 'Yes.', 'Yes.', 'Yes.', 'YES', 'Yes.', 'YES', 'YES', 'YES', 'YES', 'YES', 'Yes', 'Yes', 'Yes', 'No.', 'No.', 'Yes', 'Yes', 'No', 'YES', 'No', 'YES', 'YES', 'No.', 'Yes.', 'YES', 'No.', 'YES', 'YES', 'Yes.', 'No.', 'Yes.', 'No.', 'No.', 'Yes.', 'Yes', 'Yes', 'Yes.', 'No.', 'Yes', 'Yes.', 'No.', 'Yes', 'Yes', 'Yes.', 'No.', 'Yes.', 'No.', 'YES', 'Yes', 'YES', 'Yes', 'Yes', 'No.', 'Yes.', 'No', 'YES', 'No', 'Yes', 'Yes', 'YES', 'YES', 'Yes', 'No.', 'YES', 'Yes.', 'YES', 'No', 'No.', 'No', 'Yes', 'No.', 'YES', 'Yes.', 'Yes', 'No', 'YES', 'Yes.', 'No.', 'Yes.', 'No', 'YES', 'Yes', 'YES', 'No', 'No.', 'Yes.', 'No.', 'No.', 'No', 'No', 'No.', 'Yes', 'No', 'Yes.', 'Yes', 'YES', 'Yes', 'No', 'Yes.', 'No', 'No.', 'YES', 'YES', 'Yes', 'Yes', 'Yes.', 'Yes.', 'YES']\n",
+ "98\n",
+ "67\n",
+ "200\n"
+ ]
+ }
+ ],
+ "source": [
+ "print(lama70base)\n",
+ "trues = 0\n",
+ "falses = 0\n",
+ "valid = 0\n",
+ "for ind,question in enumerate(final_questions):\n",
+ " if question[\"gt\"] == \"yes\" and \"yes\" in lama70base[ind].lower():\n",
+ " trues = trues + 1\n",
+ " elif question[\"gt\"] == \"no\" and \"no\" in lama70base[ind].lower():\n",
+ " falses = falses + 1\n",
+ " if \"yes\" in lama70base[ind].lower() or \"no\" in lama70base[ind].lower():\n",
+ " valid += 1\n",
+ "print(trues)\n",
+ "print(falses)\n",
+ "print(valid)"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 53,
+ "id": "31324215-991d-4b20-84a8-8002090dc41f",
+ "metadata": {},
+ "outputs": [
+ {
+ "name": "stdout",
+ "output_type": "stream",
+ "text": [
+ "['No', 'Yes.', 'YES', 'Yes.', 'No', 'YES', 'Yes', 'No', 'YES', 'YES', 'YES', 'YES', 'YES', 'No', 'No', 'No', 'No', 'Yes', 'Yes', 'No', 'YES', 'YES', 'No', 'YES', 'No', 'No', 'Yes', 'No', 'No.', 'No', 'No', 'No', 'Yes', 'Yes.', 'No', 'No', 'No.', 'Yes.', 'Yes', 'YES', 'Yes.', 'No', 'Yes', 'No.', 'Yes.', 'No', 'No.', 'Yes', 'No.', 'Yes.', 'Yes', 'No', 'Yes', 'Yes', 'Yes', 'No', 'Yes', 'YES', 'YES', 'No', 'Yes', 'Yes.', 'Yes.', 'Yes', 'No', 'YES', 'YES', 'Yes.', 'No.', 'No.', 'Yes', 'Yes', 'Yes.', 'Yes', 'Yes.', 'Yes', 'YES', 'Yes.', 'YES', 'YES', 'No.', 'No', 'YES', 'Yes.', 'Yes', 'No', 'No', 'Yes', 'No', 'YES', 'YES', 'Yes', 'No', 'Yes', 'YES', 'YES', 'Yes.', 'YES', 'No.', 'Yes', 'Yes', 'Yes', 'Yes', 'Yes.', 'Yes', 'YES', 'No', 'No', 'Yes', 'No', 'Yes', 'No', 'Yes.', 'Yes.', 'No', 'No.', 'YES', 'No', 'YES', 'YES', 'Yes.', 'YES', 'Yes.', 'No.', 'No.', 'YES', 'Yes', 'Yes', 'Yes.', 'No', 'Yes', 'No.', 'No.', 'Yes', 'Yes.', 'Yes.', 'No', 'No.', 'No', 'YES', 'YES', 'Yes.', 'Yes', 'YES', 'No', 'Yes', 'No', 'Yes', 'No', 'Yes', 'Yes', 'No', 'YES', 'Yes.', 'No.', 'Yes', 'Yes.', 'Yes', 'No', 'No.', 'No', 'Yes', 'No', 'Yes', 'Yes', 'YES', 'Yes', 'YES', 'Yes', 'No.', 'Yes', 'No', 'YES', 'Yes', 'Yes', 'No', 'Yes', 'Yes', 'No', 'No.', 'No', 'No', 'No', 'Yes', 'YES', 'Yes.', 'Yes', 'Yes', 'Yes', 'No', 'YES', 'No.', 'No.', 'YES', 'Yes', 'YES', 'Yes.', 'Yes', 'No.', 'YES']\n",
+ "95\n",
+ "68\n",
+ "200\n"
+ ]
+ }
+ ],
+ "source": [
+ "print(lama70aionr)\n",
+ "trues = 0\n",
+ "falses = 0\n",
+ "valid = 0\n",
+ "for ind,question in enumerate(final_questions):\n",
+ " if question[\"gt\"] == \"yes\" and \"yes\" in lama70aionr[ind].lower():\n",
+ " trues = trues + 1\n",
+ " elif question[\"gt\"] == \"no\" and \"no\" in lama70aionr[ind].lower():\n",
+ " falses = falses + 1\n",
+ " if \"yes\" in lama70aionr[ind].lower() or \"no\" in lama70aionr[ind].lower():\n",
+ " valid += 1\n",
+ "print(trues)\n",
+ "print(falses)\n",
+ "print(valid)"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 54,
+ "id": "38ba434c-744c-448f-ac9d-284a89a01a8e",
+ "metadata": {},
+ "outputs": [
+ {
+ "name": "stdout",
+ "output_type": "stream",
+ "text": [
+ "['No', 'Yes.', 'YES', 'Yes.', 'No.', 'YES', 'Yes', 'No.', 'YES', 'YES', 'No', 'YES', 'YES', 'YES', 'No', 'No.', 'No.', 'No.', 'No', 'No', 'YES', 'YES', 'No.', 'YES', 'No', 'No.', 'Yes.', 'No.', 'No.', 'No', 'Yes.', 'No', 'Yes', 'Yes.', 'No.', 'YES', 'No.', 'Yes.', 'Yes.', 'Yes.', 'No', 'No.', 'Yes', 'No.', 'Yes.', 'No.', 'No.', 'YES', 'No.', 'Yes.', 'Yes.', 'No.', 'Yes', 'Yes', 'Yes.', 'No', 'Yes.', 'YES', 'YES', 'No', 'YES', 'No.', 'Yes.', 'No', 'No.', 'YES', 'YES', 'Yes.', 'No.', 'No.', 'No.', 'YES', 'Yes.', 'No.', 'No.', 'YES', 'Yes.', 'YES', 'YES', 'YES', 'No.', 'No.', 'Yes.', 'Yes.', 'Yes.', 'No', 'No.', 'Yes', 'No.', 'No.', 'YES', 'No.', 'No', 'YES', 'Yes.', 'Yes.', 'YES', 'YES', 'No.', 'Yes', 'Yes.', 'YES', 'Yes.', 'Yes.', 'Yes.', 'No', 'No.', 'No', 'YES', 'No.', 'YES', 'No', 'Yes.', 'Yes.', 'No.', 'No.', 'Yes', 'No', 'No', 'YES', 'No.', 'No', 'No.', 'No.', 'No.', 'YES', 'Yes.', 'Yes', 'No.', 'No.', 'Yes.', 'Yes.', 'No.', 'No.', 'No.', 'Yes.', 'No', 'No', 'No.', 'YES', 'Yes', 'YES', 'YES', 'No', 'No.', 'Yes.', 'No.', 'Yes.', 'No.', 'No.', 'No', 'No.', 'YES', 'Yes.', 'No.', 'YES', 'Yes.', 'YES', 'No.', 'No.', 'No.', 'No', 'YES', 'Yes.', 'Yes.', 'YES', 'YES', 'YES', 'Yes.', 'No.', 'YES', 'No.', 'YES', 'Yes', 'Yes.', 'YES', 'Yes', 'Yes.', 'No.', 'No.', 'No', 'No.', 'No', 'YES', 'YES', 'YES', 'Yes.', 'Yes.', 'Yes', 'No.', 'No.', 'No.', 'No.', 'YES', 'Yes.', 'YES', 'Yes.', 'No.', 'No.', 'YES']\n",
+ "82\n",
+ "74\n",
+ "200\n"
+ ]
+ }
+ ],
+ "source": [
+ "print(lama70ainlr)\n",
+ "trues = 0\n",
+ "falses = 0\n",
+ "valid = 0\n",
+ "for ind,question in enumerate(final_questions):\n",
+ " if question[\"gt\"] == \"yes\" and \"yes\" in lama70ainlr[ind].lower():\n",
+ " trues = trues + 1\n",
+ " elif question[\"gt\"] == \"no\" and \"no\" in lama70ainlr[ind].lower():\n",
+ " falses = falses + 1\n",
+ " if \"yes\" in lama70ainlr[ind].lower() or \"no\" in lama70ainlr[ind].lower():\n",
+ " valid += 1\n",
+ "print(trues)\n",
+ "print(falses)\n",
+ "print(valid)"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 59,
+ "id": "d6d0995d-e5cd-4ea3-8af6-4c5af085c55b",
+ "metadata": {},
+ "outputs": [
+ {
+ "name": "stdout",
+ "output_type": "stream",
+ "text": [
+ "94\n",
+ "40\n",
+ "200\n"
+ ]
+ }
+ ],
+ "source": [
+ "#for i,a in enumerate(gemmabase):\n",
+ "# print(str(i) + a)\n",
+ "trues = 0\n",
+ "falses = 0\n",
+ "valid = 0\n",
+ "\n",
+ "for ind,question in enumerate(final_questions):\n",
+ " ans = gemmabase[ind].split()[0].lower()\n",
+ " if question[\"gt\"] == \"yes\" and \"yes\" in ans:\n",
+ " trues = trues + 1\n",
+ " elif question[\"gt\"] == \"no\" and \"no\" in ans:\n",
+ " falses = falses + 1\n",
+ " if \"yes\" in ans or \"no\" in ans:\n",
+ " valid += 1\n",
+ "print(trues)\n",
+ "print(falses)\n",
+ "print(valid)"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 63,
+ "id": "05e8f3d4-2119-497a-b2cf-20dcd06e7375",
+ "metadata": {},
+ "outputs": [
+ {
+ "name": "stdout",
+ "output_type": "stream",
+ "text": [
+ "0Yes\n",
+ "1No. The provided text does not contain any information regarding the potential for acupuncture to cause spinal epidural hematoma.\n",
+ "2Yes.\n",
+ "\n",
+ "The given statements establish the relationship between invasion and metastasis in cancer. Invasion is a pathological process, while metastasis is a biological process that has invasion as an initiator process.\n",
+ "3Yes. Pentraxin 3 has been shown to predict outcomes of sepsis.\n",
+ "4Yes. The provided text mentions \"Views gated^W stress+W radionuclide IV\" and \"Views gated+wall motion^W stress+W radionuclide IV\", which suggests that stress granules are membraneous.\n",
+ "5Yes. The provided text suggests that chlorotoxin is related to other peptides, indicating that it is itself a peptide.\n",
+ "6No.\n",
+ "\n",
+ "The provided text suggests that circular RNAs have a relationship to translation.\n",
+ "7Yes. The given information suggests that the hERG gene codes for a protein that is part of a sodium channel, as it is related to potassium voltage-gated channel subfamily H member 2, which is known to be a sodium channel protein.\n",
+ "8No. The provided text does not contain any information regarding the relationship between erythromycin and hypertrophic pyloric stenosis.\n",
+ "9Yes.\n",
+ "\n",
+ "The provided text suggests that phospholamban is a regulatory/inhibitory protein of the Ca ATPase SERCA based on the following relationships:\n",
+ "\n",
+ "- Phospholamban has a narrower relationship to calcium binding protein.\n",
+ "- Phospholamban is mapped to Calcium-Binding Proteins.\n",
+ "- Calcium is a component of Calcium-calmodulin-dependent protein kinase II activity, which is involved in SERCA regulation.\n",
+ "10Yes\n",
+ "11Yes. The provided text suggests that microRNA 132 (miR-132) is involved in brain pathologies, as it has been mapped from multiple studies to various microRNAs associated with brain pathologies.\n",
+ "12No. The provided text does not contain any information indicating that omaveloxolone is a suppressor of Nrf2.\n",
+ "13Yes.\n",
+ "\n",
+ "Based on the provided information, armodafinil has a relationship to Wakefulness Promoting Agents, which is associated with Sleep Wake Disorders. Insomnia is a sleep disorder, so armodafinil may be used for treatment of insomnia.\n",
+ "14Yes. The provided information suggests that \"ovine\" and \"goats\" are related terms.\n",
+ "15Yes.\n",
+ "\n",
+ "The provided text suggests that ERAP2 is associated with birdshot chorioretinopathy as it has a relationship with ERAP2 gene, which has an expanded form to ENDOPLASMIC RETICULUM AMINOPEPTIDASE 2, which is associated with birdshot chorioretinopathy.\n",
+ "16No. The provided text suggests that GRG5 has relationships with genes and proteins involved in both early and late development.\n",
+ "17Yes. The provided text suggests that Hunter's disease is associated with the X Chromosome.\n",
+ "18Yes. The provided text suggests that microtubules can be marked by glutamylation.\n",
+ "19Yes. The provided text suggests that Pim-1 is a protein phosphatase based on its relationship to Phosphatidylinositol 3,4,5-trisphosphate 3-phosphatase and dual-specificity protein phosphatase PTEN.\n",
+ "20Yes. Overexpression of sirtuins has been reported to increase lifespan in budding yeast (Saccharomyces cerevisiae).\n",
+ "21Yes. The provided text suggests that G3BP1 is found in stress granules, as it is associated with the term \"stress granule assembly factor 1\".\n",
+ "22No, the provided text does not contain information regarding the effectiveness of ALVAC-HIV for HIV prevention in the HVTN 702 trial.\n",
+ "23Yes.\n",
+ "\n",
+ "The provided text suggests that selenium and selenoproteins play a role in prostate cancer prevention, as evidenced by their presence in various prostate-related formulations and their potential to prevent deficiency diseases.\n",
+ "24Yes. The provided information indicates that amiodarone is classified as a class I anti-arrhythmic drug.\n",
+ "25No.\n",
+ "\n",
+ "The provided text suggests that the physical organization of the genome can change during cell differentiation, as evidenced by changes in the spatial relationships between genomic regions and other cellular structures.\n",
+ "26No, the provided text does not contain any information regarding specific antidotes for dabigatran.\n",
+ "27Yes. The provided information indicates that macitentan is an Endothelin Receptor Antagonist, which is an ET agonist.\n",
+ "28No data is provided regarding the use of minocycline for mild Alzheimer disease, so I am unable to provide an answer.\n",
+ "29No. The provided text does not contain any information regarding the ability of MVA85A to confer immunity against smallpox.\n",
+ "30Yes. Marfan syndrome is associated with chordal rupture.\n",
+ "31No.\n",
+ "\n",
+ "The provided text suggests that the TFR1 gene plays a role in erythropoiesis.\n",
+ "32- **Yes,** there are interactomes available for POU5F1.\n",
+ "- **Yes,** there are interactomes available for SOX2.\n",
+ "33Yes. Cohesins are known to be involved in LDB1-mediated enhancer looping.\n",
+ "34Yes. The provided information suggests that NADPH oxidase 5 requires a subunit, as it has a relationship with the \"NF-kappa B p50 Subunit.\"\n",
+ "35Yes.\n",
+ "\n",
+ "The provided text suggests that atenolol is metabolized by CYP2D6 based on the statement \"Cytochrome P450 2D6 has relationship enzyme metabolizes chemical or drug to Metoprolol Tartrate\" and \"Cytochrome P450 2D6 has relationship enzyme metabolizes chemical or drug to Metoprolol Succinate\".\n",
+ "36No.\n",
+ "\n",
+ "The provided text suggests that COVID-19 infection has an inverse relationship with severe COVID-19 infection and that ACE inhibitors and ARBs may be associated with a reduced risk of severe COVID-19.\n",
+ "37No. The provided information does not contain any data regarding the FDA approval status of the HercepTest companion diagnostic.\n",
+ "38Yes\n",
+ "39No. The provided text does not contain any information indicating that trimetazidine protects from myocardial injury after percutaneous coronary intervention.\n",
+ "40Yes. The provided text suggests that proteomics has the potential for single-cell analysis.\n",
+ "41Yes\n",
+ "42Yes.\n",
+ "\n",
+ "The provided text suggests that promoter shape can vary across populations due to its relationship to population heterogeneity.\n",
+ "43The provided text does not contain any information regarding the effects of Enzastaurin on glioblastoma survival, so I am unable to answer this question from the given context.\n",
+ "44Yes. The provided text suggests that telemedicine has been used for chronic pain management.\n",
+ "45Yes. The provided text suggests that Cri Du Chat is associated with an expansion of a repeat with in the gene found on chromosome 5.\n",
+ "46No. The provided text does not contain any information regarding the apoptotic properties of Bcl-2-like protein 1, so I am unable to answer this question from the given context.\n",
+ "47Yes.\n",
+ "\n",
+ "The provided text suggests that tretinoin has been shown to be effective in treating photoaging due to its ability to inhibit cell proliferation, decrease epithelial proliferation, and promote cell turnover.\n",
+ "48No. The provided text does not contain any information to suggest that SARS-CoV-2 is transmitted through breast milk.\n",
+ "49Yes. The provided text suggests that there is increased recombination rate in human regulatory domains.\n",
+ "50Yes. The provided information suggests that royal jelly contains proteins, as it contains various types of proteins, including Thaumetopoein, Egg Proteins, f protein, intein, JOS protein, Iodoproteins, AL 1 Protein, cuticle proteins, Eye Proteins, and inturned protein.\n",
+ "51Yes. The provided information indicates that Clostridium bacteria are facultative anaerobes.\n",
+ "52No. The provided text does not contain any information regarding the detection of gas vesicles by ultrasound.\n",
+ "53Yes. CpG islands are typically located close to housekeeping genes.\n",
+ "54Yes.\n",
+ "\n",
+ "The provided text suggests that carcinogenesis is related to mutagenic disorders, which involve defects in recombination repair.\n",
+ "55Yes\n",
+ "56Yes.\n",
+ "\n",
+ "The provided text suggests that TAD disruption has a broader relationship to diseases such as Disease, Schaumann and TATSUMI FACTOR DEFICIENCY, indicating that TAD disruption can potentially lead to disease.\n",
+ "57Yes. The provided text suggests that fibronectin is a serum biomarker for Duchenne muscular dystrophy, as it is mentioned as a target of Dodekin and Daromun, and is analyzed in the context of serum biomarkers.\n",
+ "58Yes.\n",
+ "\n",
+ "The provided text suggests that SATB1 Gene has a relationship \"plays role in process to Transcriptional Regulation\" and RAG1 and RAG2 genes are mentioned in the context of transcriptional regulation.\n",
+ "59Yes. The provided text suggests that tocilizumab is a tumor necrosis factor inhibitor.\n",
+ "60Yes.\n",
+ "\n",
+ "The provided text suggests that infertility is characteristic of individuals with Fanconi anemia.\n",
+ "61No. The provided text does not contain any information regarding Wnt16b secretion in response to chemotherapy.\n",
+ "62Yes. The provided text does not contain any information regarding the existence or non-existence of transposon-free regions in mammalian genomes, so I am unable to answer this question from the given context.\n",
+ "63Yes.\n",
+ "\n",
+ "The provided text suggests that fatigue has an inverse relationship with cancer and that it is associated with various cancer types, including Thymic Lymphoepithelial Carcinoma, Thymic Squamous Cell Carcinoma, and Thymic Sarcomatoid Carcinoma. Therefore, administration of thyrotropin releasing hormone, which can modulate thyroid function, may potentially reduce fatigue in cancer patients.\n",
+ "64No. Zolpidem is not an antibiotic.\n",
+ "65Yes.\n",
+ "\n",
+ "The provided information indicates that Obeticholic Acid has a relationship allowed qualifier to Primary Biliary Cholangitis.\n",
+ "66Yes.\n",
+ "\n",
+ "The provided information suggests that mogamulizumab has been shown to be effective in treating cutaneous T-cell lymphoma.\n",
+ "67Yes. The provided text contains evidence suggesting de novo genesis of enhancers in vertebrates.\n",
+ "68No. The provided text does not contain any information suggesting that Acute Necrotizing Encephalopathy is typically triggered by exposure to air pollution.\n",
+ "69No, the provided text does not contain any information regarding the impact of bDMARDs during pregnancy on neonatal development, so I am unable to answer this question from the given context.\n",
+ "70Yes, based on the provided information, RG7112 could potentially be used as cancer therapy, considering the relationships between cancer and the derived pre-treatment values.\n",
+ "71Yes. The Apis mellifera genome is available as the Metathesaurus source vocabulary contains a relationship between Apis mellifera and Genome.\n",
+ "72Yes\n",
+ "73Yes. The provided text suggests that AGO2 is related to cytokinesis based on the following statements:\n",
+ "- Cytokinesis has a relationship source asserted synonymy to cytokinesis involved in cell cycle.\n",
+ "- Cytokinesis involved in cell cycle has relationship source asserted synonymy to cytokinesis.\n",
+ "74No.\n",
+ "\n",
+ "Monoallelic genes contribute only one allele to the offspring, limiting genetic diversity.\n",
+ "75Yes. The provided text suggests a relationship between meningiomas and childhood leukemia survivors, as meningioma is linked to both childhood meningioma and central nervous system neoplasms.\n",
+ "76Yes. The available information suggests that CRISPR/Cas12a can be used for the detection of EGFR mutations in circulating DNA, given its relationship to EGFR mutation analysis testing methods and EGFR gene mutations.\n",
+ "77Yes. Long QT syndrome is a known cause of sudden cardiac death in athletes.\n",
+ "78Yes. The provided text suggests that thyroid hormone affects cardiac remodeling, as it has a relationship with tachycardia, thinning of the myocardium, increased cardiac enzymes, and increased metabolic rate.\n",
+ "79Yes. The provided information suggests that Niraparib has been shown to be effective for treating ovarian cancer.\n",
+ "80Yes. The provided information suggests that lucatumumab is an anti-CD40 monoclonal antibody.\n",
+ "81Yes.\n",
+ "\n",
+ "The provided information suggests that Xaliproden has neuroprotective properties, and improving prognosis is related to prediction. Therefore, Xaliproden potentially improves the prognosis of amyotrophic lateral sclerosis.\n",
+ "82Yes. The provided text suggests that there is an association between TERT promoter mutation and survival of glioblastoma patients.\n",
+ "83Yes. The provided text suggests that there is a genome-wide technique for the detection of R-loop formation, as it mentions \"Detection has relationship isa to Diagnostic Procedure\".\n",
+ "84Yes. The provided text suggests that plant genomes contain CpG islands, as it states that CpG dinucleotides are found in CpG islands.\n",
+ "85No. The provided text suggests that the mouse Sry gene locus contains repetitive sequences, as it mentions \"SRY Gene has relationship genetic biomarker related to SRY Gene Deletion in Blood or Tissue by FISH\".\n",
+ "86Yes. The provided information suggests that FND is classified as a psychosomatic disorder, as it has a relationship to psychosomatic disorders and involves dysfunction related to neuro-musculo-skeletal function.\n",
+ "87Yes.\n",
+ "\n",
+ "The given text states that \"Twin has relationship inverse isa to Identical Twin\". This means that twin-twin transfusion syndrome occurs in identical twins.\n",
+ "88Yes. The Philadelphia chromosome is a fusion between parts of chromosomes 1 and 9.\n",
+ "89Yes\n",
+ "90Yes. The provided text suggests that intense physical activity is associated with longevity.\n",
+ "91Yes. The provided information suggests that metformin has a relationship to thyroxine absorption based on their connections in the Metathesaurus source vocabulary.\n",
+ "92Yes\n",
+ "93The provided text does not contain any information regarding whether thyroid hormone receptors change after brain injury, so I am unable to answer this question from the given context.\n",
+ "94Yes. Based on the provided information, CTCF is associated with nematodes, as evidenced by the relationship between CTCF and Nematoda and the presence of CTCF in nematodes.\n",
+ "95Yes\n",
+ "96Yes, Rhamnose may have an effect on aging based on the provided information.\n",
+ "97Yes\n",
+ "98No.\n",
+ "\n",
+ "The provided information indicates that breastfeeding is contraindicated for methotrexate, tinidazole, and nafarelin, but does not provide any information regarding the presence of therapeutic levels of vedolizumab in breast milk following treatment for Inflammatory bowel disease.\n",
+ "99Yes.\n",
+ "\n",
+ "The statement \"Toll-like receptors (TLRs) are induced by microbes\" is true as TLR induction has been shown to be part of the immune response to microbial components.\n",
+ "100Yes, sleep apnea and snoring are associated with cardiac arrhythmias.\n",
+ "101Yes.\n",
+ "\n",
+ "The provided text suggests that psammoma bodies are characteristic to meningiomas.\n",
+ "102Yes. The provided text suggests that ADP-ribosylation is a post-translational modification (PTM).\n",
+ "103Yes.\n",
+ "\n",
+ "The provided text suggests that proton pump inhibitors can affect thyroxine absorption, as they are listed as potential antagonists and inhibitors of thyroxine.\n",
+ "104Yes. The provided text suggests that curcumin is a phytochemical.\n",
+ "105No.\n",
+ "\n",
+ "The provided text suggests that overexpression of LY6K is associated with a worse prognosis for non-small cell lung cancer patients.\n",
+ "106The provided text does not contain any information regarding the effectiveness of Dexmecamylamine for depression, so I am unable to answer this question from the given context.\n",
+ "107No. The provided text does not contain any information indicating that ESN364 activates the hypothalamic-pituitary-gonadal axis.\n",
+ "108Yes.\n",
+ "\n",
+ "Based on the given information, PUVA therapy is indicated for eczema treatment.\n",
+ "109Yes. Velocardial facial syndrome is caused by a deletion in chromosome 21.\n",
+ "1101. Yes\n",
+ "2. No\n",
+ "3. No\n",
+ "4. Yes\n",
+ "5. Yes\n",
+ "6. Yes\n",
+ "7. Yes\n",
+ "8. Yes\n",
+ "111Yes. The provided text suggests that protamines are ubiquitously expressed.\n",
+ "112The provided text does not contain any information regarding whether pioglitazone can delay cognitive impairment for people at risk for Alzheimer's disease, so I am unable to answer this question from the given context.\n",
+ "113Yes.\n",
+ "\n",
+ "The provided text establishes a relationship between radiation and meningioma, suggesting an increased risk of meningiomas in atomic bomb survivors.\n",
+ "114Yes\n",
+ "115No. The provided text does not contain any information regarding the relationship between echinacea and anaphylaxis risk, so I am unable to answer this question from the given context.\n",
+ "116Yes\n",
+ "117The provided text does not contain any information regarding the impact of nintedanib on response rate in patients with bladder cancer, so I am unable to answer this question from the given context.\n",
+ "118The provided text does not contain any information regarding the association between deletion at 6q24.2-26 and survival outcomes in patients with HGSOCs, so I am unable to answer this question from the given context.\n",
+ "119The provided text does not contain any information regarding the expression of SMOC2 during wound healing, so I am unable to answer this question from the given context.\n",
+ "120The provided text does not contain any information regarding the relationship between induction of interferon by TLR7 and gender, so I am unable to answer this question from the given context.\n",
+ "121Yes. The provided text suggests that the histone chaperone ASF1 interacts with histones H1/H2.\n",
+ "122Yes. Athletes have been shown to exhibit increased levels of BNP after intensive exercise.\n",
+ "123The provided text does not contain any information regarding the effectiveness of celecoxib for amyotrophic lateral sclerosis, so I am unable to answer this question from the given context.\n",
+ "124Yes. RNase R is known to degrade circular RNAs.\n",
+ "125Yes. The provided information suggests a relationship between cohesins and myeloid differentiation, as cohesins has a child relationship to chromosomal proteins, which are involved in myeloid differentiation.\n",
+ "126The provided text does not contain any information regarding the effectiveness of selumetinib in thyroid cancer, so I am unable to answer this question from the given context.\n",
+ "127No.\n",
+ "\n",
+ "The provided text does not contain any information regarding RNA:DNA hybrids or their preference for high or low GC regions, so I am unable to answer this question from the given context.\n",
+ "128The provided text does not contain any information regarding the targeting of RUNX2 by miR-122, so I am unable to answer this question from the given context.\n",
+ "129No.\n",
+ "\n",
+ "The provided text suggests that PSA test is relevant not only for prostate cancer, but also for other conditions related to the prostate.\n",
+ "130No. The provided text does not contain any information regarding the use of petrous bone in ancient DNA sampling.\n",
+ "131No. The provided text does not contain any information regarding the side effects of deflazacort compared to prednisone.\n",
+ "132No. Adenylyl cyclases can also be cytoplasmic or nuclear.\n",
+ "133Yes. The provided information suggests that Mesenchymal stem cells (MSC) are multipotent cells due to their ability to differentiate into various cell types, as indicated by their relationship to MUSCULIN and other anatomical qualifiers.\n",
+ "134No. RNASeq is not suitable for the analysis of nascent transcripts as it primarily detects mature, capped, and polyadenylated transcripts.\n",
+ "135No. The provided text does not contain any information indicating a relationship between myasthenia gravis and osteoporosis.\n",
+ "136Yes. Pregabalin has been shown to be effective for treating sciatica.\n",
+ "137Yes. The provided text suggests that PDS5B has a relationship to PDS5 COHESIN-ASSOCIATED FACTOR B, which is involved in cohesion establishment.\n",
+ "138Yes.\n",
+ "\n",
+ "The provided text suggests that bapineuzumab has been shown to be effective in treating Alzheimer's disease, as it has been shown to have a relationship with plaque and amyloid, which are associated with the disease.\n",
+ "139No. The provided text does not contain any information regarding the effectiveness of dichlorphenamide for periodic paralysis.\n",
+ "140Yes. The provided text suggests that BRAF mutations are common in melanoma, as multiple relationships and annotations relate BRAF mutations to the disease.\n",
+ "141Yes.\n",
+ "\n",
+ "The provided text suggests that radiosurgery is a treatment option for radiation-induced meningiomas.\n",
+ "142Yes. Prevenar 13 can be used in children, considering the information provided.\n",
+ "143Yes. The provided text suggests that Ultra-conserved elements (UCEs) are enriched in segmental duplications, as several of the listed duplications involve UCEs.\n",
+ "144The provided text does not contain any information regarding the effectiveness of marimastat for small-cell lung cancer, so I am unable to answer this question from the given context.\n",
+ "145Yes. The provided information suggests that paramyxovirus has been associated with human subacute thyroiditis.\n",
+ "146No. The provided text does not contain any information indicating that epigenetic changes change the DNA sequence.\n",
+ "147Yes. The provided information suggests that histone deacetylase (HDAC) inhibitors could be good candidates to control metastasis of solid tumors, as they target histone genes and modulate their expression, potentially influencing tumor behavior.\n",
+ "148No. The provided text does not contain any information regarding whether all archaea possess multiple origins of DNA replication.\n",
+ "149No.\n",
+ "\n",
+ "The provided information indicates that Ameloblastoma has a relationship \"inverse isa\" to \"Metastasizing Ameloblastoma,\" suggesting that Ameloblastoma can potentially metastasize.\n",
+ "150No. The provided text does not contain any information regarding Cryptococcus neoformans causing isolated skin infections in immunocompromised individuals.\n",
+ "151Yes. The provided information suggests that adenovirus vector is synonymous with adenovirus.\n",
+ "152Yes.\n",
+ "153Yes.\n",
+ "\n",
+ "The length of telomeres has been shown to correlate with chronological age in humans and other mammals.\n",
+ "154Yes\n",
+ "155Yes.\n",
+ "\n",
+ "The MammaPrint test is cleared by the United States Food and Drug Administration (FDA) as a companion diagnostic for identifying high-risk patients with early-stage breast cancer.\n",
+ "156Yes. GRHL2 over-expression has been associated with EMT.\n",
+ "157Yes.\n",
+ "\n",
+ "The provided text suggests that the RET proto-oncogene is strongly associated with Hirschsprung disease, as evidenced by the multiple relationships between the gene and the disease.\n",
+ "158Yes.\n",
+ "\n",
+ "The provided text suggests that beta-Thalassemia is associated with a mutation or deletion of the gene that codes for alpha globin.\n",
+ "159Yes. The provided text suggests that there are clinical criteria and physiopathological considerations that can aid in distinguishing COVID-19 from other respiratory illnesses like influenza.\n",
+ "160No. The provided text does not contain any information regarding telomestatin.\n",
+ "161No. The provided text does not contain any information regarding the effect of silencing SRRM4 on microexon inclusion.\n",
+ "162No, the provided text does not contain any information regarding the effectiveness of palbociclib for glioblastoma, so I am unable to answer this question from the given context.\n",
+ "163Yes. The provided text suggests that there are applications of deep learning in genomics, as it mentions relationships between genomics and computational biology, functional genomics, and other related fields.\n",
+ "164Yes. Low T3 syndrome has been associated with poor prognosis in patients with renal insufficiency.\n",
+ "165Yes. The provided text suggests that DEAD-BOX HELICASE 54, of which DDX54 is an expanded form, plays a role in DNA damage response.\n",
+ "166Yes.\n",
+ "\n",
+ "The provided text suggests that Cinpanemab is an antiparkinsonian agent, and Parkinson's Disease can be treated by drug therapy.\n",
+ "167Yes.\n",
+ "\n",
+ "The provided text establishes that nifedipine has a relationship to Calcium Channel Antagonists and is classified as a Calcium Channel Blocker.\n",
+ "168The provided text does not contain any information regarding the effectiveness of multipotent adult progenitor cells for stroke treatment, so I am unable to answer this question from the given context.\n",
+ "169No.\n",
+ "\n",
+ "The provided information suggests that saracatinib has anti-oncogenic properties, as it inhibits cell proliferation, promotes cell migration inhibition, and targets proto-oncogene tyrosine-protein kinase Src.\n",
+ "170Yes. Resveratrol has been shown to reduce cardiac remodeling through its vasodilatory, anti-thrombotic, and anti-inflammatory effects.\n",
+ "171Yes. The provided information suggests that Tregs are positively associated with various immune responses, including lymphocyte crossmatch, B cell-T cell crossmatch, and Tacrolimus-induced antibody responses.\n",
+ "172Yes.\n",
+ "\n",
+ "The provided text mentions that Fanconi anemia is a genetically and clinically heterogeneous disease entity.\n",
+ "173Yes\n",
+ "174Yes. The provided text indicates that doxycycline has a relationship to Drug Hypersensitivity, which suggests a potential for photosensitivity.\n",
+ "175Yes\n",
+ "176Yes.\n",
+ "\n",
+ "**Prasinezumab is effective for Parkinson's Disease as it is an antiparkinsonian agent.**\n",
+ "177Yes.\n",
+ "\n",
+ "The provided text suggests that botulism poisoning can affect various hormonal systems, including those involved in pregnancy.\n",
+ "178No.\n",
+ "\n",
+ "The provided text suggests that GRG5 is involved in late embryonic mouse development, but it also mentions relationships with proteins and stages other than late embryonic development.\n",
+ "179No.\n",
+ "\n",
+ "The provided text suggests that REGN5458 is a bispecific antibody, not a single-targeted antibody.\n",
+ "180Yes. The provided text suggests that tocilizumab is a csDMARD.\n",
+ "181No. The provided text does not contain any information indicating that prosopagnosia is also known as lack of auditory recognition.\n",
+ "182No. The provided text does not contain any information regarding the use of dacomitinib for the treatment of glioblastoma patients.\n",
+ "183Yes. The provided text suggests that intepirdine has been evaluated in clinical trials, as it mentions \"Clinical evaluation has relationship has a broader relationship to trial study.\"\n",
+ "184Yes.\n",
+ "\n",
+ "The provided information suggests that tirilazad has been shown to have a relationship with various types of stroke, including ischemic stroke.\n",
+ "185The provided text does not contain any information regarding the effectiveness of gabapentin for chronic pelvic pain, so I am unable to answer this question from the given context.\n",
+ "186Yes.\n",
+ "\n",
+ "The provided text does not contain any information regarding the depletion of Copy Number Variants (CNVs) in regions of low mappability, so I am unable to answer this question from the given context.\n",
+ "187Yes. The provided text suggests that valproic acid may prolong survival of glioblastoma patients, as it is listed as a potential treatment for glioblastoma.\n",
+ "188Yes.\n",
+ "\n",
+ "The provided text suggests that NOD1 is activated in inflammation, as it has a relationship with inflammatory response and caspase activation, which is involved in inflammation.\n",
+ "189No.\n",
+ "\n",
+ "The provided text suggests that a selective sweep decreases genetic variation.\n",
+ "190Yes.\n",
+ "\n",
+ "The provided text suggests that Erbin (LAP2) and Merlin are cooperating, as they are both related to ERBB2 Interacting Protein Gene and its alias, erbb2 interacting protein.\n",
+ "191Yes. The provided information indicates that methionine is the starting amino acid for proteins.\n",
+ "192No. The provided information does not suggest that perampanel is indicated for the treatment of amyotrophic lateral sclerosis (ALS).\n",
+ "193Yes. The provided text suggests that PLK2 is involved in alpha-synuclein phosphorylation in the nervous system, as it is related to Parkinson's disease and associated proteins.\n",
+ "194No. The provided text does not contain any information regarding TAD boundaries in Drosophila or their depletion in highly-expressed genes.\n",
+ "195Yes. The provided text suggests that cytokeratin is a tumor marker, as it is listed as a component of various cancer-related concepts and relationships.\n",
+ "196Yes.\n",
+ "\n",
+ "The provided text suggests that triiodothyronine has a relationship to Liothyronine Sodium, which implies that it can stimulate the red blood cell sodium potassium pump.\n",
+ "197Yes\n",
+ "198The provided text does not contain any information regarding the effectiveness of erythropoietin for optic neuritis in the TONE trial, so I am unable to answer this question from the given context.\n",
+ "199Yes.\n",
+ "\n",
+ "The provided text suggests that sacituzumab govitecan is effective for treating Triple Negative Breast Neoplasms.\n",
+ "81\n",
+ "39\n",
+ "92\n",
+ "91\n"
+ ]
+ }
+ ],
+ "source": [
+ "for i,a in enumerate(gemmaaionr):\n",
+ " print(str(i) + a)\n",
+ "# 43 unable to answer from given context, 93 same, 110 is a list of yes and no, 112/117/118/119/120/123/126/128/168/185/198 unable, \n",
+ "\n",
+ "trues = 0\n",
+ "falses = 0\n",
+ "y_valid = 0\n",
+ "n_valid = 0\n",
+ "\n",
+ "for ind,question in enumerate(final_questions):\n",
+ " ans = gemmaaionr[ind].split()[0].lower()\n",
+ " if question[\"gt\"] == \"yes\" and \"yes\" in ans:\n",
+ " trues = trues + 1\n",
+ " elif question[\"gt\"] == \"no\" and \"no\" in ans:\n",
+ " falses = falses + 1\n",
+ " if \"yes\" in ans or \"no\" in ans:\n",
+ " if question[\"gt\"] == \"no\":\n",
+ " n_valid += 1\n",
+ " else:\n",
+ " y_valid += 1\n",
+ "print(trues)\n",
+ "print(falses)\n",
+ "print(y_valid)\n",
+ "print(n_valid)"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 64,
+ "id": "5299abe8-4c8c-42ab-8564-d11013493822",
+ "metadata": {},
+ "outputs": [
+ {
+ "name": "stdout",
+ "output_type": "stream",
+ "text": [
+ "0No. The provided text does not contain any information regarding the efficacy of gavestinel for stroke patients.\n",
+ "1No. There is no credible evidence to suggest that acupuncture can cause spinal epidural hematoma.\n",
+ "2Yes.\n",
+ "\n",
+ "The passage states that metastasis is a key aspect of tumor cell invasion, and that metastasis can be referred to as direct extension, distant metastasis, in-transit metastasis, or intravascular metastasis, all of which are different forms of tumor cell invasion.\n",
+ "3Yes. Pentraxin 3 can predict outcomes of sepsis.\n",
+ "4The provided text does not contain any information regarding whether stress granules are membraneous, so I am unable to answer this question from the given context.\n",
+ "5Yes. The provided text suggests that chlorotoxin is a peptide based on its relationship with other peptides and its classification as a neurotoxin.\n",
+ "6No.\n",
+ "\n",
+ "The provided text explicitly states that Circular RNA is not translated into protein.\n",
+ "7Yes.\n",
+ "\n",
+ "The hERG gene codes for a protein that is part of a sodium channel, as it is mentioned in the given text: \"This protein, also known as POTASSIUM CHANNEL, VOLTAGE-GATED, SUBFAMILY H, MEMBER 2, has several aliases, including ETHER-A-GO-GO-RELATED GENE, HUMAN.\"\n",
+ "8The provided text does not contain any information regarding the effect of erythromycin on the risk of hypertrophic pyloric stenosis, so I am unable to answer this question from the given context.\n",
+ "9Yes.\n",
+ "\n",
+ "The provided text mentions that phospholamban is known as a calcium binding protein and its gene product is Sarcoplasmic/Endoplasmic Reticulum Calcium ATPase 2, which is a calcium ATPase.\n",
+ "10Yes.\n",
+ "\n",
+ "The provided text explicitly states that tobacco smoking is a significant risk factor for glioblastoma.\n",
+ "11Yes.\n",
+ "\n",
+ "The provided text suggests that miR-132 is among the microRNAs identified in humans, rats, and mice, and has been implicated in brain pathologies.\n",
+ "12No.\n",
+ "\n",
+ "The provided text suggests that omaveloxolone induces Cytochrome P450 enzymes, not suppresses Nrf2.\n",
+ "13Yes\n",
+ "14Yes. The provided text establishes that the term \"Goats\" and \"Goat\" are synonymous.\n",
+ "15Yes.\n",
+ "\n",
+ "The provided text suggests that ERAP2 is associated with eye diseases, including birdshot chorioretinopathy.\n",
+ "16No. The provided text does not contain any information regarding GRG5's role being limited to late development.\n",
+ "17The provided text does not contain any information regarding Hunter's disease, so I am unable to answer this question from the given context.\n",
+ "18No. The provided text does not contain any information regarding microtubules being marked by glutamylation.\n",
+ "19Yes. The provided text suggests that Pim-1 is a protein phosphatase based on the mention of \"protein phosphatase inhibitor 1 and protein phosphatase inhibitor-1, rat\" and their relationship with Pim-1.\n",
+ "20Yes.\n",
+ "\n",
+ "The provided text mentions that overexpression of sirtuins has been reported to increase lifespan in budding yeast (Saccharomyces cerevisiae).\n",
+ "21Yes.\n",
+ "\n",
+ "The provided text mentions that G3BP is an assembly factor for stress granules.\n",
+ "22No, the provided text does not contain information regarding the effectiveness of ALVAC-HIV for HIV prevention in the HVTN 702 trial.\n",
+ "23Yes.\n",
+ "\n",
+ "The provided text suggests that selenium and selenoproteins play a role in prostate cancer prevention, as it mentions their presence in prostate health formulas and their use in chemotherapy regimens for prostate cancer.\n",
+ "24Yes.\n",
+ "\n",
+ "The provided text explicitly states that amiodarone is a class I anti-arrhythmic drug.\n",
+ "25No.\n",
+ "\n",
+ "The 3D structure of the genome is highly dynamic and undergoes significant changes during cell differentiation.\n",
+ "26Yes. The provided text suggests that there are antidotes with an inverse relationship to dabigatran.\n",
+ "27Yes.\n",
+ "\n",
+ "Macitentan is an Endothelin A Receptor Antagonist and an Endothelin B Receptor Antagonist.\n",
+ "28No. The provided text does not contain any information regarding the use of minocycline for mild Alzheimer's disease, so I am unable to answer this question from the given context.\n",
+ "29No, the provided text does not contain any information regarding the ability of MVA85A to confer immunity against smallpox.\n",
+ "30Yes. Marfan syndrome has been associated with chordal rupture.\n",
+ "31No.\n",
+ "\n",
+ "The provided text suggests that the TFR1 gene plays a crucial role in erythropoiesis, and its gene product is involved in the process.\n",
+ "32Yes, there are interactomes available for both POU5F1 and SOX2.\n",
+ "33Yes.\n",
+ "\n",
+ "The provided text suggests that cohesins can influence LDB1-mediated enhancer looping, indicating their dependence on cohesins.\n",
+ "34Yes.\n",
+ "\n",
+ "The provided text suggests that NADPH oxidase 5 requires a subunit for function, as it is part of a larger entity.\n",
+ "35Yes.\n",
+ "\n",
+ "Atenolol is metabolized by CYP2D6.\n",
+ "36The provided text does not contain any information regarding the impact of ACE inhibitors or ARBs on the likelihood of severe COVID-19, so I am unable to answer this question from the given context.\n",
+ "37No. The provided text does not contain any information regarding the FDA approval of the companion diagnostic HercepTest.\n",
+ "38Yes.\n",
+ "\n",
+ "The provided text explicitly states that bacteriophages can be found in the gut.\n",
+ "39The provided text does not contain any information regarding the protective effects of trimetazidine on myocardial injury after percutaneous coronary intervention, so I am unable to answer this question from the given context.\n",
+ "40Yes. The provided text suggests that proteomics methods can be used for single-cell analysis.\n",
+ "41Yes.\n",
+ "\n",
+ "Semagacestat is effective for the treatment of Alzheimer's disease, as it is indicated for the treatment of various forms of amyloid-related disorders, including Alzheimer's disease.\n",
+ "42Yes\n",
+ "43The provided text does not contain any information regarding the efficacy of Enzastaurin in improving the survival of glioblastoma patients, so I am unable to answer this question from the given context.\n",
+ "44Yes. The provided text suggests that there are telemedicine applications for chronic pain management.\n",
+ "45Yes.\n",
+ "\n",
+ "The provided text mentions an expansion of a repeat in the gene found on chromosome 5, which is associated with Cri Du Chat.\n",
+ "46The provided text does not contain any information regarding Bcl-2-like protein 1 or its pro apoptotic properties, so I am unable to answer this question from the given context.\n",
+ "47Yes.\n",
+ "\n",
+ "The provided text suggests that tretinoin is effective for photoaging due to its ability to inhibit cell proliferation and its retinoic acid-like effect.\n",
+ "48No.\n",
+ "\n",
+ "The provided text does not contain any information to suggest that SARS-CoV-2 is transmitted through breast milk.\n",
+ "49Yes.\n",
+ "\n",
+ "The provided text suggests that DNA recombination is regulated, and this process is influenced by both positive and negative regulation of DNA recombination. This implies that there can be increased recombination rate in human regulatory domains.\n",
+ "50Yes. The provided information suggests that royal jelly contains proteins, as it includes various proteins such as Thaumetopoein, Egg Proteins, f protein, intein, JOS protein, and others.\n",
+ "51Yes.\n",
+ "\n",
+ "The provided text states that Clostridium is an anaerobic bacterium, and anaerobes are organisms that can grow in the absence of oxygen.\n",
+ "52Yes. Ultrasound can be used to visualize multiple sections of vessels, which includes gas vesicles.\n",
+ "53No, the provided text does not contain any information regarding the location of CpG islands in relation to housekeeping genes, so I am unable to answer this question from the given context.\n",
+ "54Yes.\n",
+ "\n",
+ "The provided text does not contain any information regarding the specific role of recombination repair defects in carcinogenesis, but it does suggest that carcinogenesis is a type of mutagenic disorder.\n",
+ "55Yes.\n",
+ "\n",
+ "The provided text mentions that Li–Fraumeni syndrome is a hereditary disorder that predisposes carriers to cancer development.\n",
+ "56Yes\n",
+ "57Yes.\n",
+ "\n",
+ "The provided text suggests that fibronectin is a serum biomarker for Duchenne muscular dystrophy.\n",
+ "58The provided text does not contain any information regarding SATB1 regulating the RAG1 and RAG2 genes, so I cannot answer this question from the given context.\n",
+ "59No. The provided statement is inaccurate. Tocilizumab is not a synonym for tocilizumab.\n",
+ "60Yes.\n",
+ "\n",
+ "The provided text states that \"FANCONI ANEMIA, COMPLEMENTATION GROUP A is a manifestation of infertility, also known as Infertilität\".\n",
+ "61The provided text does not contain any information regarding the secretion of Wnt16b in response to chemotherapy, so I am unable to answer this question from the given context.\n",
+ "62The provided text does not contain any information regarding the existence of transposon-free regions in mammalian genomes, so I am unable to answer this question from the given context.\n",
+ "63Yes.\n",
+ "\n",
+ "Thyrotropin releasing hormone can potentially reduce fatigue in cancer patients by regulating thyroid hormone levels, which can impact energy levels and mood.\n",
+ "64No. Zolpidem is not an antibiotic.\n",
+ "65Yes.\n",
+ "\n",
+ "The provided text suggests that Obeticholic Acid is effective in treating Primary Biliary Cholangitis.\n",
+ "66Yes.\n",
+ "\n",
+ "Mogamulizumab is used to treat Mycosis Fungoides, Sezary Syndrome, and Primary Cutaneous Anaplastic Large Cell Lymphoma, which are types of cutaneous T-cell lymphoma.\n",
+ "67The provided text does not contain any information regarding de novo genesis of enhancers in vertebrates, so I am unable to answer this question from the given context.\n",
+ "68No. The provided text does not contain any information suggesting that ANE is typically triggered by exposure to air pollution.\n",
+ "69Yes\n",
+ "70The provided text does not contain any information regarding the use of RG7112 as cancer therapy, so I am unable to answer this question from the given context.\n",
+ "71Yes. The Apis mellifera genome is available.\n",
+ "72Yes.\n",
+ "73Yes.\n",
+ "\n",
+ "The provided text suggests that cytokinesis is related to cell cycle, which is a broader term that encompasses the process of cell division.\n",
+ "74No.\n",
+ "\n",
+ "Monoallelic genes contribute only one allele to the offspring, limiting genetic diversity.\n",
+ "75Yes.\n",
+ "\n",
+ "The provided text suggests that meningiomas are considered a type of childhood meningioma, indicating an increased risk for meningiomas in childhood leukemia survivors.\n",
+ "76Yes. CRISPR/Cas12a can be used for the detection of EGFR mutations in circulating DNA, considering the established relationship between the EGFR gene and EGFR mutations.\n",
+ "77Yes. Long QT syndrome can be a cause for sudden cardiac death in athletes.\n",
+ "78Yes\n",
+ "79Yes.\n",
+ "\n",
+ "The provided text states that Niraparib is effective in treating Ovarian Neoplasms.\n",
+ "80Yes. The provided text states that lucatumumab is an Anti-CD40 Monoclonal Antibody.\n",
+ "81Yes\n",
+ "82Yes.\n",
+ "\n",
+ "The provided text suggests that TERT promoter mutation is associated with survival of glioblastoma patients.\n",
+ "83Yes.\n",
+ "\n",
+ "The provided text suggests the existence of a genome-wide technique for the detection of R-loop formation.\n",
+ "84Yes. The provided text explicitly states that plants, including genetically modified plants, have a broader relationship with CpG islands.\n",
+ "85No. The provided text suggests that the mouse Sry gene locus contains repetitive sequences, as it mentions the presence of SRY gene deletions and targeted mutation analysis.\n",
+ "86Yes.\n",
+ "\n",
+ "The definition of a psychosomatic disorder includes the influence of mental or emotional factors on neuro-musculo-skeletal function. FND meets this criteria as its symptoms are influenced by psychological factors.\n",
+ "87Yes.\n",
+ "\n",
+ "Twin-twin transfusion syndrome occurs in identical twins, who share the same genetic makeup.\n",
+ "88No. The provided text does not contain any information regarding whether the Philadelphia chromosome is a fusion between parts of chromosomes 1 and 9.\n",
+ "89Yes.\n",
+ "\n",
+ "The provided text suggests that cortical spreading depression appears in ischemic penumbra following ischemic stroke.\n",
+ "90Yes. The provided text suggests that intense physical activity is associated with longevity.\n",
+ "91The provided text does not contain any information regarding the interaction between metformin and thyroxine absorption, so I am unable to answer this question from the given context.\n",
+ "92The provided text does not contain any information regarding the association between SIRT2 protein and cervical cancer, so I am unable to answer this question from the given context.\n",
+ "93The provided text does not contain any information regarding changes in thyroid hormone receptors after brain injury, so I am unable to answer this question from the given context.\n",
+ "94No. The provided text does not contain any information regarding nematodes containing architectural proteins like CTCF.\n",
+ "95No. The provided text does not contain any information regarding the effect of amifostine on the concentration of protein HIF-1α.\n",
+ "96Yes\n",
+ "97Yes\n",
+ "98No. Therapeutic levels of vedolizumab are not found in the breast milk of nursing mothers following treatment for Inflammatory bowel disease.\n",
+ "99Yes.\n",
+ "\n",
+ "The induction of TLRs by microbes is an example of non-synonymous induction, which involves unique relationships with other forms of induction.\n",
+ "100Yes, sleep apnea and snoring are associated with cardiac arrhythmias.\n",
+ "101Yes.\n",
+ "\n",
+ "Psammomatous Meningioma is characterized by the presence of Psammoma bodies.\n",
+ "102Yes.\n",
+ "\n",
+ "The provided text explicitly states that ADP-Ribosylation is a post-translational modification (PTM).\n",
+ "103Yes.\n",
+ "\n",
+ "**Proton pump inhibitors can affect thyroxine absorption due to their impact on Levothyroxine absorption.**\n",
+ "104Yes. The provided text mentions that Curcumin is a phytochemical.\n",
+ "105The provided text does not contain any information regarding the association between LY6K overexpression and prognosis in non-small cell lung cancer patients, so I am unable to answer this question from the given context.\n",
+ "106The provided text does not contain any information regarding the effectiveness of Dexmecamylamine for depression, so I am unable to answer this question from the given context.\n",
+ "107The provided text does not contain any information regarding ESN364 and its effect on the hypothalamic-pituitary-gonadal axis, so I am unable to answer this question from the given context.\n",
+ "108Yes.\n",
+ "\n",
+ "PUVA therapy is indicated for eczema treatment, as it has been found to be effective in treating the condition.\n",
+ "109Yes. The provided text states that Velocardial facial syndrome, also known as Di George syndrome, is caused by a deletion in chromosome 21.\n",
+ "110Yes\n",
+ "111No. The provided text does not contain any information regarding the ubiquitous expression of protamines.\n",
+ "112The provided text does not contain any information regarding the effects of pioglitazone on cognitive impairment in people at risk for Alzheimer's disease, so I am unable to answer this question from the given context.\n",
+ "113Yes.\n",
+ "\n",
+ "**Meningioma is a type of radiation-induced brain tumor, suggesting an increased risk of meningiomas in atomic bomb survivors.**\n",
+ "114Yes.\n",
+ "\n",
+ "The provided text suggests that Axitinib can prolong survival in Pancreatic Cancer patients.\n",
+ "115The provided text does not contain any information regarding the effect of echinacea on anaphylaxis risk, so I am unable to answer this question from the given context.\n",
+ "116Yes.\n",
+ "\n",
+ "The provided text states that Baricitinib has been authorized by the ACC-AHA SARS2 with a value of \"Yes\", indicating its effectiveness for Alopecia Areata.\n",
+ "117The provided text does not contain any information regarding the impact of nintedanib on response rate in patients with bladder cancer, so I am unable to answer this question from the given context.\n",
+ "118The provided text does not contain any information regarding deletion at 6q24.2-26 and its association with survival in patients with HGSOCs, so I am unable to answer this question from the given context.\n",
+ "119Yes. The provided text suggests that SMOC2 is expressed during wound healing, as it is related to the wound healing process.\n",
+ "120The provided text does not contain any information regarding the comparison of induction of interferon by TLR7 in males, so I am unable to answer this question from the given context.\n",
+ "121Yes\n",
+ "122The provided text does not contain any information regarding whether BNP increases after intensive exercise in athletes, so I am unable to answer this question from the given context.\n",
+ "123The provided text does not contain any information regarding the effectiveness of celecoxib for amyotrophic lateral sclerosis, so I am unable to answer this question from the given context.\n",
+ "124Yes.\n",
+ "\n",
+ "The text mentions that circular RNAs can be susceptible to degradation by RNase R, implying that they are vulnerable to this enzymatic degradation mechanism.\n",
+ "125Yes.\n",
+ "\n",
+ "The provided text suggests that Cohesins has a relationship with Myeloid, indicating a potential link to myeloid differentiation.\n",
+ "126Yes. Selumetinib has been shown to be effective in treating thyroid cancer.\n",
+ "127No.\n",
+ "\n",
+ "RNA-DNA hybrids are more likely to form in low GC regions due to increased stability and specificity.\n",
+ "128The provided text does not contain any information regarding the targeting of RUNX2 by miR-122, so I am unable to answer this question from the given context.\n",
+ "129No.\n",
+ "\n",
+ "The provided text suggests that the PSA test has applications beyond prostate cancer screening and is relevant to various aspects related to the prostate, including incidental tumors and imaging studies.\n",
+ "130The provided text does not contain any information regarding the use of the petrous bone in ancient DNA sampling, so I cannot answer this question from the given context.\n",
+ "131No. The provided text does not contain any information regarding the relative side effects of deflazacort compared to prednisone.\n",
+ "132No.\n",
+ "\n",
+ "Adenylyl cyclases can be either transmembrane or soluble proteins.\n",
+ "133Yes.\n",
+ "\n",
+ "The provided text suggests that MSC (mesenchymal stem cells) are multipotent cells, as they can give rise to various cell types, indicated by the expansion of MSC to MUSCULIN and further to MUSCULIN.\n",
+ "134Yes. RNASeq can be used for the analysis of nascent transcripts, as it captures RNA molecules that are actively being transcribed, including nascent transcripts.\n",
+ "135The provided text does not contain any information regarding the association between myasthenia gravis and osteoporosis, so I am unable to answer this question from the given context.\n",
+ "136Yes.\n",
+ "\n",
+ " Pregabalin is commonly used to treat sciatica, a condition caused by irritation or damage to the sciatic nerve.\n",
+ "137Yes. PDS5B plays a role in cohesion establishment, as it is an alias for PDS5 COHESIN-ASSOCIATED FACTOR B, which is involved in cohesion maintenance.\n",
+ "138Yes.\n",
+ "\n",
+ "The provided text explicitly states that bapineuzumab is effective in treating Alzheimer's disease by clearing amyloid plaques and reducing the risk of AIDS dementia complex.\n",
+ "139No.\n",
+ "\n",
+ "The provided text suggests that dichlorphenamide can cause paralysis, but it does not indicate that it is effective for periodic paralysis.\n",
+ "140Yes.\n",
+ "\n",
+ "The provided text suggests that BRAF mutations are common in melanoma, as it is mentioned that the BRAF gene is involved in the pathogenesis of disease, particularly low-CSD melanoma.\n",
+ "141Yes.\n",
+ "\n",
+ "The provided text explicitly states that radiosurgery can be used to treat radiation-induced meningiomas.\n",
+ "142No, Prevenar 13 should not be used in children due to potential contraindications and a narrower relationship with this age group.\n",
+ "143Yes. UCEs are often enriched in segmental duplications due to their high sequence conservation.\n",
+ "144Yes. Marimastat is effective as a component of several chemotherapy regimens for small-cell lung cancer.\n",
+ "145The provided text does not contain any information regarding the involvement of paramyxovirus in human subacute thyroiditis, so I am unable to answer this question from the given context.\n",
+ "146No. Epigenetic changes do not change the DNA sequence.\n",
+ "147Yes.\n",
+ "\n",
+ "The provided text suggests that HDAC inhibitors could be potential candidates for controlling metastasis of solid tumors, as they can affect the function of histones, which are mutated in tumors.\n",
+ "148The provided text does not contain any information regarding whether all archaea possess multiple origins of DNA replication, so I am unable to answer this question from the given context.\n",
+ "149No, Ameloblastoma is not always a benign tumor as it can be a metastasizing Ameloblastoma.\n",
+ "150Yes.\n",
+ "\n",
+ "The provided text suggests that Cryptococcus neoformans can be a cause of isolated skin infections in immunocompromised individuals.\n",
+ "151Yes.\n",
+ "\n",
+ "The provided text states that \"Adenovirus vector is a synonym for Adenoviridae, a family of viruses that includes adenovirus\". This implies that the adenovirus vector is an adenovirus.\n",
+ "152Yes.\n",
+ "\n",
+ "The provided text explicitly states that \"Rotavirus is a type of vaccine\".\n",
+ "153Yes.\n",
+ "\n",
+ "Telomere length has been shown to correlate with chronological age, and measuring telomere length can be used as an indicator of biological age.\n",
+ "154The provided text does not contain any information regarding the efficacy of citicoline for stroke treatment, so I am unable to answer this question from the given context.\n",
+ "155Yes.\n",
+ "\n",
+ "The MammaPrint test received FDA clearance in 2007 for the detection of hereditary breast cancer.\n",
+ "156The provided text does not contain any information regarding whether GRHL2 over-expression leads to EMT, so I am unable to answer this question from the given context.\n",
+ "157Yes.\n",
+ "\n",
+ "The provided text states that the RET proto-oncogene is associated with Hirschsprung disease, indicating that it is a major gene involved in the condition.\n",
+ "158Yes.\n",
+ "\n",
+ "The passage states that Beta-Thalassemia is associated with a malfunction of the gene product Hemoglobin Subunit Beta, which implies a mutation or deletion of the gene that codes for alpha globin.\n",
+ "159Yes.\n",
+ "\n",
+ "The provided text suggests that influenza can be clinically distinguished from COVID-19 based on their etiologies and physiopathologies.\n",
+ "160No. The provided text does not contain any information regarding telomestatin.\n",
+ "161The provided text does not contain any information regarding the silencing of SRRM4 and its effect on microexon inclusion, so I am unable to answer this question from the given context.\n",
+ "162Yes.\n",
+ "\n",
+ "Palbociclib is effective for glioblastoma, as stated in the given information.\n",
+ "163The provided text does not contain any information regarding the applications of deep learning in genomics, so I am unable to answer this question from the given context.\n",
+ "164The provided text does not contain any information regarding the use of low T3 syndrome as a prognostic marker in patients with renal insufficiency, so I am unable to answer this question from the given context.\n",
+ "165Yes\n",
+ "166Yes.\n",
+ "\n",
+ "The provided text states that Cinpanemab is an antiparkinsonian agent used to treat Parkinsonian Disorders.\n",
+ "167Yes.\n",
+ "\n",
+ "Nifedipine is an L-type calcium channel blocker, which means it inhibits the function of L-type calcium channels.\n",
+ "168The provided text does not contain any information regarding the effectiveness of multipotent adult progenitor cells for treatment of stroke, so I am unable to answer this question from the given context.\n",
+ "169Yes.\n",
+ "\n",
+ "The provided text states that saracatinib inhibits Proto-Oncogene Tyrosine-Protein Kinase Src, a key player in tumorigenesis.\n",
+ "170Yes.\n",
+ "\n",
+ "The provided text suggests that resveratrol has vasodilatory, anti-thrombotic, anti-inflammatory, and platelet aggregation inhibitory effects, suggesting its potential to reduce cardiac remodeling.\n",
+ "171Yes. The presence of Tregs (CD4+CD25+ regulatory T cells) is associated with immune suppression and can dampen immune responses.\n",
+ "172Yes.\n",
+ "\n",
+ "Fanconi anemia is a genetically and clinically heterogeneous disease entity, with variations in clinical presentation and genetic mutations among patients.\n",
+ "173Yes.\n",
+ "\n",
+ "The provided text suggests that mitochondria can be transferred from cell to cell through mitochondrial translocation and translation.\n",
+ "174Yes.\n",
+ "\n",
+ "**The provided text states that doxycycline is known to have a broader relationship with Vibravenos, Doryx, and Doxycycline Calcium, as well as Atridox, indicating a potential for photosensitivity.**\n",
+ "175Yes.\n",
+ "\n",
+ "The provided text states that capmatinib is an antineoplastic agent with therapeutic value for glioblastoma.\n",
+ "176Yes.\n",
+ "\n",
+ "The provided text suggests that Prasinezumab can be effective for Parkinson's Disease as it can alleviate Parkinsonism, a symptom associated with the disease.\n",
+ "177Yes. Botulism poisoning can harm the fetus.\n",
+ "178No. The provided text does not contain any information regarding GRG5 being involved only in late embryonic mouse development.\n",
+ "179No.\n",
+ "\n",
+ "The provided text suggests that REGN5458 is a bispecific antibody, not a single-targeted antibody.\n",
+ "180Yes.\n",
+ "\n",
+ "The provided source asserts that tocilizumab is synonymous with tocilizumab, which implies that it is a csDMARD.\n",
+ "181No.\n",
+ "\n",
+ "The provided text states that prosopagnosia is specifically related to the inability to recognize faces, not lack of auditory recognition.\n",
+ "182Yes. The provided text suggests that dacomitinib can be used for treatment of glioblastoma patients.\n",
+ "183The provided text does not contain any information regarding intepirdine or clinical trials, so I am unable to answer this question from the given context.\n",
+ "184Yes.\n",
+ "\n",
+ "The provided text suggests that tirilazad has been shown to be effective in treating ischemic stroke.\n",
+ "185Yes.\n",
+ "\n",
+ "Gabapentin has been shown to be effective for chronic pelvic pain.\n",
+ "186No.\n",
+ "\n",
+ "The provided text does not contain any information regarding the depletion of Copy Number Variants (CNVs) in regions of low mappability, so I am unable to answer this question from the given context.\n",
+ "187Yes. Valproic acid has been shown to prolong survival in glioblastoma patients.\n",
+ "188Yes.\n",
+ "\n",
+ "The provided text states that NOD1 is involved in the inflammatory response process, suggesting it is activated in inflammation.\n",
+ "189No.\n",
+ "\n",
+ "Selective sweeps reduce genetic variation.\n",
+ "190Yes.\n",
+ "\n",
+ "The provided text suggests that Erbin (LAP2) and Merlin are cooperating, as they are both interacting with the ERBB2 Interacting Protein Gene (ERBIN).\n",
+ "191Yes. The provided text states that \"Methionine is a type of amino acid, specifically a primary amino acid.\"\n",
+ "192The provided text does not contain any information regarding the use of perampanel for amyotrophic lateral sclerosis, so I am unable to answer this question from the given context.\n",
+ "193Yes. PLK2 has been implicated in alpha-synuclein phosphorylation in the nervous system.\n",
+ "194No.\n",
+ "\n",
+ "The provided text does not contain any information regarding TAD boundaries in Drosophila or their depletion in highly-expressed genes, so I am unable to answer this question from the given context.\n",
+ "195Yes.\n",
+ "\n",
+ "The text mentions that cytokeratin is a component of various proteins that can be detected using immune staining, indicating its use as a tumor marker.\n",
+ "196No.\n",
+ "\n",
+ "The provided text does not contain any information regarding triiodothyronine stimulating the red blood cell sodium potassium pump.\n",
+ "197The provided text does not contain any information regarding the efficacy of Enlimomab in improving stroke outcomes, so I am unable to answer this question from the given context.\n",
+ "198The provided text does not contain any information regarding the effectiveness of erythropoietin for optic neuritis in the TONE trial, so I am unable to answer this question from the given context.\n",
+ "199Yes.\n",
+ "\n",
+ "The provided text suggests that sacituzumab govitecan is effective for breast cancer, specifically for Triple Negative Breast Neoplasms.\n",
+ "73\n",
+ "32\n",
+ "81\n",
+ "79\n"
+ ]
+ }
+ ],
+ "source": [
+ "for i,a in enumerate(gemmaainlr):\n",
+ " print(str(i) + a)\n",
+ "# unable answer 4,8,36,39,43,46,58,61,62,67,70,91,92,93,105,106,107,112,115,117,118,120,122,123,130,135,154,156,161,163,164,168,192,197,198\n",
+ "# 186 is the weird one where it answers and then says i cant\n",
+ "\n",
+ "trues = 0\n",
+ "falses = 0\n",
+ "y_valid = 0\n",
+ "n_valid = 0\n",
+ "\n",
+ "for ind,question in enumerate(final_questions):\n",
+ " ans = gemmaainlr[ind].split()[0].lower()\n",
+ " if question[\"gt\"] == \"yes\" and \"yes\" in ans:\n",
+ " trues = trues + 1\n",
+ " elif question[\"gt\"] == \"no\" and \"no\" in ans:\n",
+ " falses = falses + 1\n",
+ " if \"yes\" in ans or \"no\" in ans:\n",
+ " if question[\"gt\"] == \"no\":\n",
+ " n_valid += 1\n",
+ " else:\n",
+ " y_valid += 1\n",
+ "print(trues)\n",
+ "print(falses)\n",
+ "print(y_valid)\n",
+ "print(n_valid)"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": null,
+ "id": "5412fdb6-4ed7-4dfd-939f-94480e87fd02",
+ "metadata": {},
+ "outputs": [],
+ "source": []
+ }
+ ],
+ "metadata": {
+ "kernelspec": {
+ "display_name": "Python 3 (ipykernel)",
+ "language": "python",
+ "name": "python3"
+ },
+ "language_info": {
+ "codemirror_mode": {
+ "name": "ipython",
+ "version": 3
+ },
+ "file_extension": ".py",
+ "mimetype": "text/x-python",
+ "name": "python",
+ "nbconvert_exporter": "python",
+ "pygments_lexer": "ipython3",
+ "version": "3.10.12"
+ }
+ },
+ "nbformat": 4,
+ "nbformat_minor": 5
+}
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