Module6.ipynb

{
 "cells": [
  {
   "cell_type": "markdown",
   "id": "c7c97665",
   "metadata": {},
   "source": [
    "## Demonstrate INDRA CoGEx graph database\n",
    "\n",
    "The INDRA CoGEx (\"context graph extension\") databases extends on the space of INDRA Statements (which represent causal mechanisms) with additional relationships representing various connections among biomedical entities as well as abstract concepts.\n",
    "\n",
    "We can query these relationsh through a public REST API."
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 1,
   "id": "1b1b98de",
   "metadata": {},
   "outputs": [],
   "source": [
    "import requests\n",
    "from indra.databases import hgnc_client"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 2,
   "id": "de9b0468",
   "metadata": {},
   "outputs": [],
   "source": [
    "base_url = 'https://discovery.indra.bio/api/'"
   ]
  },
  {
   "cell_type": "markdown",
   "id": "2c7d9cd8",
   "metadata": {},
   "source": [
    "Get diseases for a given clinical trial"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 3,
   "id": "b1b2a01c",
   "metadata": {},
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "200\n"
     ]
    },
    {
     "data": {
      "text/plain": [
       "[{'data': {'db_id': 'D012174',\n",
       "   'db_ns': 'MESH',\n",
       "   'name': 'Retinitis Pigmentosa',\n",
       "   'type': 'disease'},\n",
       "  'labels': ['BioEntity']}]"
      ]
     },
     "execution_count": 3,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "url = base_url + 'get_diseases_for_trial'\n",
    "payload = {\n",
    "  \"trial\": [\n",
    "    \"CLINICALTRIALS\",\n",
    "    \"NCT00000114\"\n",
    "  ]\n",
    "}\n",
    "res = requests.post(url, json=payload)\n",
    "print(res.status_code)\n",
    "res.json()"
   ]
  },
  {
   "cell_type": "markdown",
   "id": "9a6c6d53",
   "metadata": {},
   "source": [
    "Get pathways that a gene is involved in"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 4,
   "id": "2446c1fa",
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/plain": [
       "[{'data': {'db_id': 'R-HSA-9006934',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Signaling by Receptor Tyrosine Kinases',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-8953750',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Transcriptional Regulation by E2F6',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-75035',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Chk1/Chk2(Cds1) mediated inactivation of Cyclin B:Cdk1 complex',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-74160',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Gene expression (Transcription)',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-212436',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Generic Transcription Pathway',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-73894',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'DNA Repair',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-73857',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'RNA Polymerase II Transcription',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-69620',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Cell Cycle Checkpoints',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-69615',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'G1/S DNA Damage Checkpoints',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-69613',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'p53-Independent G1/S DNA damage checkpoint',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-69610',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'p53-Independent DNA Damage Response',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-69601',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Ubiquitin Mediated Degradation of Phosphorylated Cdc25A',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-69481',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'G2/M Checkpoints',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-69473',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'G2/M DNA damage checkpoint',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-176187',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Activation of ATR in response to replication stress',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-6804756',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Regulation of TP53 Activity through Phosphorylation',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-6796648',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'TP53 Regulates Transcription of DNA Repair Genes',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-5693616',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Presynaptic phase of homologous DNA pairing and strand exchange',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-5693607',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Processing of DNA double-strand break ends',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-5693579',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Homologous DNA Pairing and Strand Exchange',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-5693567',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'HDR through Homologous Recombination (HRR) or Single Strand Annealing (SSA)',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-5693538',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Homology Directed Repair',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-5693532',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'DNA Double-Strand Break Repair',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-5685942',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'HDR through Homologous Recombination (HRR)',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-1640170',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Cell Cycle',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-162582',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Signal Transduction',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-5633007',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Regulation of TP53 Activity',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-1433557',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Signaling by SCF-KIT',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-3700989',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Transcriptional Regulation by TP53',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP707',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'DNA damage response',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP5300',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'TROP2 regulatory signaling',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP4946',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'DNA repair pathways full network',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP4016',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'DNA IR damage and cellular response via ATR',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP3959',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'DNA IR double strand breaks and cellular response via ATM',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP3878',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'ATM signaling in development and disease ',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP3875',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'ATR signaling',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP3651',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Pathways affected in adenoid cystic carcinoma',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP2516',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'ATM signaling pathway',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP2446',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Retinoblastoma gene in cancer',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP2263',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Androgen receptor network in prostate cancer',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP1971',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Integrated cancer pathway',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP179',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Cell cycle',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP1530',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'miRNA regulation of DNA damage response',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']}]"
      ]
     },
     "execution_count": 4,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "url = base_url + 'get_pathways_for_gene'\n",
    "\n",
    "hgnc_id = hgnc_client.get_hgnc_id('CHEK1')\n",
    "\n",
    "payload = {\n",
    "  \"gene\": [\n",
    "    \"HGNC\",\n",
    "    hgnc_id\n",
    "  ]\n",
    "}\n",
    "res = requests.post(url, json=payload)\n",
    "res.json()"
   ]
  },
  {
   "cell_type": "markdown",
   "id": "748e58f4",
   "metadata": {},
   "source": [
    "Get shared pathways for a list of genes"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 5,
   "id": "aab5b83b",
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/plain": [
       "{'genes': [['HGNC', '1103'], ['HGNC', '1104'], ['HGNC', '13575']]}"
      ]
     },
     "execution_count": 5,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "url = base_url + 'get_shared_pathways_for_genes'\n",
    "\n",
    "gene_names = ['BRD2', 'BRD3', 'BRD4']\n",
    "hgnc_ids = [hgnc_client.get_hgnc_id(gene_name) for gene_name in gene_names]\n",
    "payload = {\"genes\": [['HGNC', hgnc_id] for hgnc_id in hgnc_ids]}\n",
    "payload"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 6,
   "id": "5f69cdfd",
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/plain": [
       "[]"
      ]
     },
     "execution_count": 6,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "res = requests.post(url, json=payload)\n",
    "res.json()"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 7,
   "id": "6793802c",
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/plain": [
       "[{'data': {'db_id': 'R-HSA-9658195',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Leishmania infection',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-9656223',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Signaling by RAF1 mutants',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-9652169',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Signaling by MAP2K mutants',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-9649948',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Signaling downstream of RAS mutants',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-9637690',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Response of Mtb to phagocytosis',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-9635486',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Infection with Mycobacterium tuberculosis',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-9635465',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Suppression of apoptosis',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-9634815',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Transcriptional Regulation by NPAS4',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-9634638',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Estrogen-dependent nuclear events downstream of ESR-membrane signaling',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-9627069',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Regulation of the apoptosome activity',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-937061',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'TRIF(TICAM1)-mediated TLR4 signaling ',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-913531',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Interferon Signaling',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-9009391',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Extra-nuclear estrogen signaling',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-9006936',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Signaling by TGFB family members',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-9006934',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Signaling by Receptor Tyrosine Kinases',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-9006931',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Signaling by Nuclear Receptors',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-9006925',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Intracellular signaling by second messengers',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-8953897',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Cellular responses to stimuli',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-8943724',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Regulation of PTEN gene transcription',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-8941326',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'RUNX2 regulates bone development',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-8940973',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'RUNX2 regulates osteoblast differentiation',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-8939211',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'ESR-mediated signaling',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-8878166',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Transcriptional regulation by RUNX2',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-881907',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Gastrin-CREB signalling pathway via PKC and MAPK',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-879415',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Advanced glycosylation endproduct receptor signaling',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-877300',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Interferon gamma signaling',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-76002',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Platelet activation, signaling and aggregation',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-74752',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Signaling by Insulin receptor',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-74751',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Insulin receptor signalling cascade',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-74749',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Signal attenuation',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-74160',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Gene expression (Transcription)',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-212436',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Generic Transcription Pathway',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-73857',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'RNA Polymerase II Transcription',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-2029482',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Regulation of actin dynamics for phagocytic cup formation',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-2029480',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Fcgamma receptor (FCGR) dependent phagocytosis',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-202670',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'ERKs are inactivated',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-199418',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Negative regulation of the PI3K/AKT network',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-198753',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'ERK/MAPK targets',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-198725',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Nuclear Events (kinase and transcription factor activation)',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-195258',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'RHO GTPase Effectors',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-194315',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Signaling by Rho GTPases',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-69278',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Cell Cycle, Mitotic',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-190236',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Signaling by FGFR',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-187687',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Signalling to ERKs',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-187037',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Signaling by NTRK1 (TRKA)',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-181438',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Toll Like Receptor 2 (TLR2) Cascade',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-68886',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'M Phase',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-68875',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Mitotic Prophase',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-6811558',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'PI5P, PP2A and IER3 Regulate PI3K/AKT Signaling',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-170968',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Frs2-mediated activation',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-6807070',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'PTEN Regulation',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-170834',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Signaling by TGF-beta Receptor Complex',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-169893',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Prolonged ERK activation events',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-168898',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Toll-like Receptor Cascades',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-6802957',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Oncogenic MAPK signaling',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-6802955',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Paradoxical activation of RAF signaling by kinase inactive BRAF',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-6802952',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Signaling by BRAF and RAF1 fusions',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-6802949',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Signaling by RAS mutants',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-6802948',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Signaling by high-kinase activity BRAF mutants',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-6802946',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Signaling by moderate kinase activity BRAF mutants',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-168256',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Immune System',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-168249',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Innate Immune System',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-168188',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Toll Like Receptor TLR6:TLR2 Cascade',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-168181',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Toll Like Receptor 7/8 (TLR7/8) Cascade',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-168179',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Toll Like Receptor TLR1:TLR2 Cascade',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-168176',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Toll Like Receptor 5 (TLR5) Cascade',\n",
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       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-168164',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Toll Like Receptor 3 (TLR3) Cascade',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-168142',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Toll Like Receptor 10 (TLR10) Cascade',\n",
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       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-168138',\n",
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       "   'name': 'Toll Like Receptor 9 (TLR9) Cascade',\n",
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       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-166520',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Signaling by NTRKs',\n",
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       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-166166',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'MyD88-independent TLR4 cascade ',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-5684996',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'MAPK1/MAPK3 signaling',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-166058',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'MyD88:MAL(TIRAP) cascade initiated on plasma membrane',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-166016',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Toll Like Receptor 4 (TLR4) Cascade',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-5683057',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'MAPK family signaling cascades',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-5675221',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Negative regulation of MAPK pathway',\n",
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       " {'data': {'db_id': 'R-HSA-5674499',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Negative feedback regulation of MAPK pathway',\n",
       "   'version': '87'},\n",
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       " {'data': {'db_id': 'R-HSA-5674135',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'MAP2K and MAPK activation',\n",
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       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-5673001',\n",
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       "   'name': 'RAF/MAP kinase cascade',\n",
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       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-1643685',\n",
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       "   'name': 'Disease',\n",
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       " {'data': {'db_id': 'R-HSA-5668599',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'RHO GTPases Activate NADPH Oxidases',\n",
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       " {'data': {'db_id': 'R-HSA-5663213',\n",
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       "   'name': 'RHO GTPases Activate WASPs and WAVEs',\n",
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       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-1640170',\n",
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       " {'data': {'db_id': 'R-HSA-5663205',\n",
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       "   'name': 'Infectious disease',\n",
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       "   'name': 'Golgi Cisternae Pericentriolar Stack Reorganization',\n",
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       "   'db_ns': 'REACTOME',\n",
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       " {'data': {'db_id': 'R-HSA-162582',\n",
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       " {'data': {'db_id': 'R-HSA-5654741',\n",
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       " {'data': {'db_id': 'R-HSA-1502540',\n",
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       " {'data': {'db_id': 'R-HSA-1295596',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Spry regulation of FGF signaling',\n",
       "   'version': '87'},\n",
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       " {'data': {'db_id': 'R-HSA-1280215',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Cytokine Signaling in Immune system',\n",
       "   'version': '87'},\n",
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       " {'data': {'db_id': 'R-HSA-1266738',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Developmental Biology',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-5357801',\n",
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       "   'name': 'Programmed Cell Death',\n",
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       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-982772',\n",
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       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-1257604',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'PIP3 activates AKT signaling',\n",
       "   'version': '87'},\n",
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       " {'data': {'db_id': 'R-HSA-1181150',\n",
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       "   'name': 'Signaling by NODAL',\n",
       "   'version': '87'},\n",
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       " {'data': {'db_id': 'R-HSA-9824443',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Parasitic Infection Pathways',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-456926',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Thrombin signalling through proteinase activated receptors (PARs)',\n",
       "   'version': '87'},\n",
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       " {'data': {'db_id': 'R-HSA-112409',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'RAF-independent MAPK1/3 activation',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-112316',\n",
       "   'db_ns': 'REACTOME',\n",
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       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-9824439',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Bacterial Infection Pathways',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-450341',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Activation of the AP-1 family of transcription factors',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-450294',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'MAP kinase activation',\n",
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       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-450282',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'MAPK targets/ Nuclear events mediated by MAP kinases',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-112315',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Transmission across Chemical Synapses',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-449147',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Signaling by Interleukins',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-112314',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Neurotransmitter receptors and postsynaptic signal transmission',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-448424',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Interleukin-17 signaling',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-111471',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Apoptotic factor-mediated response',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-111461',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Cytochrome c-mediated apoptotic response',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'R-HSA-111458',\n",
       "   'db_ns': 'REACTOME',\n",
       "   'name': 'Formation of apoptosome',\n",
       "   'version': '87'},\n",
       "  'labels': ['BioEntity']},\n",
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       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP4301',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Inhibition of exosome biogenesis and secretion by Manumycin A in CRPC cells',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP4298',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Acute viral myocarditis',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP4263',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Pancreatic adenocarcinoma pathway',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP4262',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Breast cancer pathway',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP4255',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Non small cell lung cancer',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP4239',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Epithelial to mesenchymal transition in colorectal cancer',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP4223',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Ras signaling',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP422',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'MAPK cascade',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP4217',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Ebola virus infection in host',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP4216',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Chromosomal and microsatellite instability in colorectal cancer ',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP4205',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'MET in type 1 papillary renal cell carcinoma',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP4172',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'PI3K Akt signaling pathway',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP4155',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Endometrial cancer',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP3995',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Prion disease pathway',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP395',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'IL 4 signaling pathway',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP3932',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Focal adhesion PI3K Akt mTOR signaling pathway',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP3929',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Chemokine signaling pathway',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP3915',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Angiopoietin like protein 8 regulatory pathway',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP3888',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'VEGFA VEGFR2 signaling',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP3879',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': '4 hydroxytamoxifen dexamethasone and retinoic acids regulation of p27 expression',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP3869',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Cannabinoid receptor signaling',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP3859',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'TGF beta signaling in thyroid cells for epithelial mesenchymal transition',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP382',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'MAPK signaling pathway',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP3668',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Hypothesized pathways in pathogenesis of cardiovascular disease',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP364',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'IL6 signaling pathway',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP3303',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'RAC1 PAK1 p38 MMP2 pathway',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP3301',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'MFAP5 mediated ovarian cancer cell motility and invasiveness',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP313',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Hepatocyte growth factor receptor signaling',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP306',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Focal adhesion',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP304',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Kit receptor signaling pathway',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP2868',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'TCA cycle nutrient use and invasiveness of ovarian cancer',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP286',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'IL 3 signaling pathway',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP2795',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Cardiac hypertrophic response',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP2637',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Interleukin 1 IL 1 structural pathway',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP2636',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Common pathways underlying drug addiction',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP26',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'S1P receptor signal transduction',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP2526',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'PDGF pathway',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP244',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Alpha 6 beta 4 signaling pathway',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP2431',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Spinal cord injury',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP2380',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Brain derived neurotrophic factor BDNF signaling pathway',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP2374',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Oncostatin M signaling pathway',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP2355',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Corticotropin releasing hormone signaling pathway',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP2332',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Interleukin 11 signaling pathway',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP2324',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'AGE RAGE pathway',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP231',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'TNF alpha signaling pathway',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP2263',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Androgen receptor network in prostate cancer',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP2261',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Glioblastoma signaling pathways',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP2203',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Thymic stromal lymphopoietin TSLP signaling pathway',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP22',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'IL 9 signaling pathway',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP2112',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'IL 17 signaling pathway',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP2059',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Alzheimer 39 s disease and miRNA effects',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP205',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'IL 7 signaling pathway',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP2037',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Prolactin signaling pathway',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP2036',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'TNF related weak inducer of apoptosis TWEAK signaling pathway',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP2035',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Follicle stimulating hormone FSH signaling pathway',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP2034',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Leptin signaling pathway',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP2032',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Thyroid stimulating hormone TSH signaling pathway',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP2018',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'RANKL RANK signaling pathway',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP1981',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Thyroxine thyroid hormone production',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP195',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'IL 1 signaling pathway',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP1544',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'MicroRNAs in cardiomyocyte hypertrophy',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP1434',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'Osteopontin signaling',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']},\n",
       " {'data': {'db_id': 'WP127',\n",
       "   'db_ns': 'WIKIPATHWAYS',\n",
       "   'name': 'IL 5 signaling pathway',\n",
       "   'version': '20240101'},\n",
       "  'labels': ['BioEntity']}]"
      ]
     },
     "execution_count": 7,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "gene_names = ['MAPK1', 'MAPK3']\n",
    "hgnc_ids = [hgnc_client.get_hgnc_id(gene_name) for gene_name in gene_names]\n",
    "payload = {\"genes\": [['HGNC', hgnc_id] for hgnc_id in hgnc_ids]}\n",
    "res = requests.post(url, json=payload)\n",
    "res.json()"
   ]
  }
 ],
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