[index]

example queries for http://spoke.cgl.ucsf.edu/neighborhood.html


no cutoffs yet as of test dates (below)

query by protein name TSHR_HUMAN
depth: 2
nodes:  compound, disease, gene, protein
edges:  ASSOCIATES_DaG, BINDS_CbP, TRANSLATEDFROM_PtG, TREATS_CtD
(11/07/2018) => 130 nodes

query by protein name PTH1R_HUMAN
depth: 2
nodes:  compound, disease, gene, protein
edges:  ASSOCIATES_DaG, BINDS_CbP, TRANSLATEDFROM_PtG, TREATS_CtD
(11/07/2018) => 259 nodes

query by protein name RYR1_HUMAN
depth: 2
nodes:  compound, disease, gene, protein
edges:  ASSOCIATES_DaG, BINDS_CbP, TRANSLATEDFROM_PtG, TREATS_CtD
(11/07/2018) => 297 nodes

query by protein name BRAF_HUMAN
depth: 2
nodes:  compound, disease, gene, protein
edges:  AFFECTS_CamG, ASSOCIATES_DaG, TRANSLATEDFROM_PtG
(9/26/2018) => 29 nodes (including 1 unreviewed protein and suspicious CamG links)
(11/07/2018) => 226 nodes

query by protein name CFTR_HUMAN
depth: 2
nodes:  compound, disease, gene, protein
edges:  AFFECTS_CamG, ASSOCIATES_DaG, TRANSLATEDFROM_PtG
(9/26/2018) => 10 nodes (including 1 unreviewed protein and suspicious CamG links)
(11/07/2018) => 229 nodes
  + TREATS_CtD
(9/26/2018) => 199 nodes (mostly diseases)
(11/07/2018) => 229 nodes
  + TREATS_CtD, BINDS_CbP
(9/26/2018) => 764 nodes
(11/07/2018) => 816 nodes
  + BINDS_CbP
(11/07/2018) => 622 nodes


example compounds: CHEMBL25 aspirin CC(=O)Oc1ccccc1C(=O)O CHEMBL113 caffeine CN1C(=O)N(C)c2ncn(C)c2C1=O CHEMBL521 ibuprofen CC(C)Cc1ccc(C(C)C(=O)O)cc1 CHEMBL1686 alpha-ketoglutarate (common metabolite) CHEMBL1983268 entrectinib NTRK gene fusion inhibitor CHEMBL295316 plumbagin BindingDB entry CHEMBL297453 epigallocatechin gallate (EGCG)
example diseases: DOID:9352 type 2 diabetes mellitus