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Description
ARAs should respond to a creative query asking for genes whose activity or abundance is decreased by an input chemical. TRAPI:
{
"message": {
"query_graph": {
"nodes": {
"gene": {
"categories": [
"biolink:Gene"
]
},
"chemical": {
"categories": [
"biolink:ChemicalEntity"
],
"ids": [
"$INPUTID"
]
}
},
"edges": {
"t_edge": {
"object": "gene",
"subject": "chemical",
"predicates": [
"biolink:affects"
],
"knowledge_type": "inferred",
"qualifier_constraints": [
{
"qualifier_set": [
{
"qualifier_type_id": "biolink:object_aspect_qualifier",
"qualifier_value": "activity_or_abundance"
},
{
"qualifier_type_id": "biolink:object_direction_qualifier",
"qualifier_value": "decreased"
}
]
}
]
}
}
}
}
}
$INPUTID will be the CURIE of the input chemical. Some chemicals that can be used for testing include:
Amphetamine PUBCHEM.COMPOUND:3007
Dextroamphetamine PUBCHEM.COMPOUND:5826
Methylphenidate PUBCHEM.COMPOUND:44246724
Metformin PUBCHEM.COMPOUND:4091
Atorvastatin PUBCHEM.COMPOUND:60823
Valproic Acid PUBCHEM.COMPOUND:88111
Vitamin A PUBCHEM.COMPOUND:445354
Vitamin C PUBCHEM.COMPOUND:54670067
Vitamin D PUBCHEM.COMPOUND:5280795
Glucose PUBCHEM.COMPOUND:79025
Magnesium PUBCHEM.COMPOUND:888
DHEA PUBCHEM.COMPOUND:5881
Testosterone PUBCHEM.COMPOUND:6013
Estrogen PUBCHEM.COMPOUND:5991
Somatostatin PUBCHEM.COMPOUND:16129681
Amitriptyline PUBCHEM.COMPOUND:2160
Gabapentin PUBCHEM.COMPOUND:3446
Propranolol PUBCHEM.COMPOUND:4946
Sumatriptan PUBCHEM.COMPOUND:5358
Palmitic acid PUBCHEM.COMPOUND:12358543
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