id string | task_type string | pipeline string | difficulty string | num_hops int64 | question string | context string | reasoning_chain dict | answer string | choices list | modalities list | modality_data list | evidence list | metadata unknown | path_confidence_score float64 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
co_path_00000 | path_traversal | coding_variant | medium | 3 | What is the shortest molecular path from NOTCH1 to HAP1 through known protein interactions and pathway memberships? | NOTCH1 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH PSEN1 -> PSEN1 GENE_ANNOTATED_WITH_GO_TERM cerebellum development -> HAP1 GENE_ANNOTATED_WITH_GO_TERM cerebellum development | {
"steps": [
{
"hop": 1,
"source_node_id": "NOTCH1",
"source_node_type": "GENE",
"source_node_label": "NOTCH1",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.998,
"edge_source_db": "STRING",
... | NOTCH1 -> PSEN1 -> cerebellum development -> HAP1 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "NOTCH1",
"source_db": "UniProt",
"payload": {
"accession": "P46531",
"sequence": "MPPLLAPLLCLALLPALAARGPRCSQPGETCLNGGKCEAANGTEACVCGGAFVGPRCQDPNPCLSTPCKNAGTCHVVDRRGVADYACSCALGFSGPLCLTPLDNACLTNPCRNGGTCDLLTLTEYKCRCPPG... | [
{
"source_db": "STRING",
"source_id": "PSEN1",
"text": "NOTCH1 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH PSEN1",
"confidence": 0.998
},
{
"source_db": "GO",
"source_id": "GO:0021549",
"text": "PSEN1 GENE_ANNOTATED_WITH_GO_TERM cerebellum development",
"confidence": 0.6
},
{
"s... | {
"gene_a": "NOTCH1",
"gene_b": "HAP1",
"path_length": 3
} | 0.710904 |
co_path_00001 | path_traversal | coding_variant | medium | 3 | What is the shortest molecular path from KRAS to GBA1 through known protein interactions and pathway memberships? | KRAS PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH PIK3CA -> PIK3CA GENE_ANNOTATED_WITH_GO_TERM response to dexamethasone -> GBA1 GENE_ANNOTATED_WITH_GO_TERM response to dexamethasone | {
"steps": [
{
"hop": 1,
"source_node_id": "KRAS",
"source_node_type": "GENE",
"source_node_label": "KRAS",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.998,
"edge_source_db": "STRING",
"t... | KRAS -> PIK3CA -> response to dexamethasone -> GBA1 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "KRAS",
"source_db": "UniProt",
"payload": {
"accession": "P01116",
"sequence": "MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPSRTVDTKQAQDLA... | [
{
"source_db": "STRING",
"source_id": "PIK3CA",
"text": "KRAS PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH PIK3CA",
"confidence": 0.998
},
{
"source_db": "GO",
"source_id": "GO:0071548",
"text": "PIK3CA GENE_ANNOTATED_WITH_GO_TERM response to dexamethasone",
"confidence": 0.6
},
{
... | {
"gene_a": "KRAS",
"gene_b": "GBA1",
"path_length": 3
} | 0.710904 |
co_path_00002 | path_traversal | coding_variant | easy | 2 | What is the shortest molecular path from POLE to MTA3 through known protein interactions and pathway memberships? | POLE GENE_ANNOTATED_WITH_GO_TERM zinc ion binding -> MTA3 GENE_ANNOTATED_WITH_GO_TERM zinc ion binding | {
"steps": [
{
"hop": 1,
"source_node_id": "POLE",
"source_node_type": "GENE",
"source_node_label": "POLE",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "IEA:UniProtKB-KW",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"target_node_i... | POLE -> zinc ion binding -> MTA3 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "POLE",
"source_db": "UniProt",
"payload": {
"accession": "Q07864",
"sequence": "MSLRSGGRRRADPGADGEASRDDGATSSVSALKRLERSQWTDKMDLRFGFERLKEPGEKTGWLINMHPTEILDEDKRLGSAVDYYFIQDDGSRFKVALPYKPYFYIATRKGCEREVSSFLSKKFQGKIAKVETV... | [
{
"source_db": "GO",
"source_id": "GO:0008270",
"text": "POLE GENE_ANNOTATED_WITH_GO_TERM zinc ion binding",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "MTA3",
"text": "MTA3 GENE_ANNOTATED_WITH_GO_TERM zinc ion binding",
"confidence": 0.6
}
] | {
"gene_a": "POLE",
"gene_b": "MTA3",
"path_length": 2
} | 0.6 |
co_path_00003 | path_traversal | coding_variant | easy | 2 | What is the shortest molecular path from RAD51D to POLD1 through known protein interactions and pathway memberships? | RAD51D GENE_PARTICIPATES_IN_PATHWAY HDR through Homologous Recombination (HRR) -> POLD1 GENE_PARTICIPATES_IN_PATHWAY HDR through Homologous Recombination (HRR) | {
"steps": [
{
"hop": 1,
"source_node_id": "RAD51D",
"source_node_type": "GENE",
"source_node_label": "RAD51D",
"edge_relation": "GENE_PARTICIPATES_IN_PATHWAY",
"edge_evidence_type": "curated",
"edge_confidence": 1,
"edge_source_db": "Reactome",
"target_node_i... | RAD51D -> HDR through Homologous Recombination (HRR) -> POLD1 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "RAD51D",
"source_db": "UniProt",
"payload": {
"accession": "O75771",
"sequence": "MGVLRVGLCPGLTEEMIQLLRSHRIKTVVDLVSADLEEVAQKCGLSYKALVALRRVLLAQFSAFPVNGADLYEELKTSTAILSTGIGSLDKLLDAGLYTGEVTEIVGGPGSGKTQVCLCMAANVAHGLQQNV... | [
{
"source_db": "Reactome",
"source_id": "R-HSA-5685942",
"text": "RAD51D GENE_PARTICIPATES_IN_PATHWAY HDR through Homologous Recombination (HRR)",
"confidence": 1
},
{
"source_db": "Reactome",
"source_id": "POLD1",
"text": "POLD1 GENE_PARTICIPATES_IN_PATHWAY HDR through Homologous Re... | {
"gene_a": "RAD51D",
"gene_b": "POLD1",
"path_length": 2
} | 1 |
co_path_00004 | path_traversal | coding_variant | hard | 4 | What is the shortest molecular path from ATP6V1C1 to ADRA2A through known protein interactions and pathway memberships? | ATP6V1C1 GENE_ANNOTATED_WITH_GO_TERM regulation of macroautophagy -> ATP13A2 GENE_ANNOTATED_WITH_GO_TERM regulation of macroautophagy -> ATP13A2 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH SLC6A3 -> ADRA2A PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH SLC6A3 | {
"steps": [
{
"hop": 1,
"source_node_id": "ATP6V1C1",
"source_node_type": "GENE",
"source_node_label": "ATP6V1C1",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "NAS:ParkinsonsUK-UCL",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"t... | ATP6V1C1 -> regulation of macroautophagy -> ATP13A2 -> SLC6A3 -> ADRA2A | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "ATP6V1C1",
"source_db": "UniProt",
"payload": {
"accession": "P21283",
"sequence": "MTEFWLISAPGEKTCQQTWEKLHAATSKNNNLAVTSKFNIPDLKVGTLDVLVGLSDELAKLDAFVEGVVKKVAQYMADVLEDSKDKVQENLLANGVDLVTYITRFQWDMAKYPIKQSLKNISEIIAKGVT... | [
{
"source_db": "GO",
"source_id": "GO:0016241",
"text": "ATP6V1C1 GENE_ANNOTATED_WITH_GO_TERM regulation of macroautophagy",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "ATP13A2",
"text": "ATP13A2 GENE_ANNOTATED_WITH_GO_TERM regulation of macroautophagy",
"confidence":... | {
"gene_a": "ATP6V1C1",
"gene_b": "ADRA2A",
"path_length": 4
} | 0.703119 |
co_path_00005 | path_traversal | coding_variant | medium | 4 | What is the shortest molecular path from MLH1 to CD68 through known protein interactions and pathway memberships? | MLH1 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH BLM -> BLM GENE_ANNOTATED_WITH_GO_TERM protein homodimerization activity -> CD4 GENE_ANNOTATED_WITH_GO_TERM protein homodimerization activity -> CD68 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH CD4 | {
"steps": [
{
"hop": 1,
"source_node_id": "MLH1",
"source_node_type": "GENE",
"source_node_label": "MLH1",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.999,
"edge_source_db": "STRING",
"t... | MLH1 -> BLM -> protein homodimerization activity -> CD4 -> CD68 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "MLH1",
"source_db": "UniProt",
"payload": {
"accession": "P40692",
"sequence": "MSFVAGVIRRLDETVVNRIAAGEVIQRPANAIKEMIENCLDAKSTSIQVIVKEGGLKLIQIQDNGTGIRKEDLDIVCERFTTSKLQSFEDLASISTYGFRGEALASISHVAHVTITTKTADGKCAYRASYSDGK... | [
{
"source_db": "STRING",
"source_id": "BLM",
"text": "MLH1 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH BLM",
"confidence": 0.999
},
{
"source_db": "GO",
"source_id": "GO:0042803",
"text": "BLM GENE_ANNOTATED_WITH_GO_TERM protein homodimerization activity",
"confidence": 0.6
},
{
... | {
"gene_a": "MLH1",
"gene_b": "CD68",
"path_length": 4
} | 0.753852 |
co_path_00006 | path_traversal | coding_variant | easy | 2 | What is the shortest molecular path from MAPT to EGFR through known protein interactions and pathway memberships? | MAPT GENE_ANNOTATED_WITH_GO_TERM double-stranded DNA binding -> EGFR GENE_ANNOTATED_WITH_GO_TERM double-stranded DNA binding | {
"steps": [
{
"hop": 1,
"source_node_id": "MAPT",
"source_node_type": "GENE",
"source_node_label": "MAPT",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "TAS:ARUK-UCL",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"target_node_id": ... | MAPT -> double-stranded DNA binding -> EGFR | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "MAPT",
"source_db": "UniProt",
"payload": {
"accession": "P10636",
"sequence": "MAEPRQEFEVMEDHAGTYGLGDRKDQGGYTMHQDQEGDTDAGLKESPLQTPTEDGSEEPGSETSDAKSTPTAEDVTAPLVDEGAPGKQAAAQPHTEIPEGTTAEEAGIGDTPSLEDEAAGHVTQEPESGKVVQE... | [
{
"source_db": "GO",
"source_id": "GO:0003690",
"text": "MAPT GENE_ANNOTATED_WITH_GO_TERM double-stranded DNA binding",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "EGFR",
"text": "EGFR GENE_ANNOTATED_WITH_GO_TERM double-stranded DNA binding",
"confidence": 0.6
}
] | {
"gene_a": "MAPT",
"gene_b": "EGFR",
"path_length": 2
} | 0.6 |
co_path_00007 | path_traversal | coding_variant | medium | 3 | What is the shortest molecular path from BIN1 to BRAF through known protein interactions and pathway memberships? | BIN1 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH MYC -> MYC GENE_ANNOTATED_WITH_GO_TERM MAPK cascade -> BRAF GENE_ANNOTATED_WITH_GO_TERM MAPK cascade | {
"steps": [
{
"hop": 1,
"source_node_id": "BIN1",
"source_node_type": "GENE",
"source_node_label": "BIN1",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.999,
"edge_source_db": "STRING",
"t... | BIN1 -> MYC -> MAPK cascade -> BRAF | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "BIN1",
"source_db": "UniProt",
"payload": {
"accession": "O00499",
"sequence": "MAEMGSKGVTAGKIASNVQKKLTRAQEKVLQKLGKADETKDEQFEQCVQNFNKQLTEGTRLQKDLRTYLASVKAMHEASKKLNECLQEVYEPDWPGRDEANKIAENNDLLWMDYHQKLVDQALLTMDTYLGQFP... | [
{
"source_db": "STRING",
"source_id": "MYC",
"text": "BIN1 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH MYC",
"confidence": 0.999
},
{
"source_db": "GO",
"source_id": "GO:0000165",
"text": "MYC GENE_ANNOTATED_WITH_GO_TERM MAPK cascade",
"confidence": 0.6
},
{
"source_db": "GO",
... | {
"gene_a": "BIN1",
"gene_b": "BRAF",
"path_length": 3
} | 0.711141 |
co_path_00008 | path_traversal | coding_variant | medium | 3 | What is the shortest molecular path from ADRA2A to FOXA1 through known protein interactions and pathway memberships? | ADRA2A GENE_ANNOTATED_WITH_GO_TERM positive regulation of cell population proliferation -> AR GENE_ANNOTATED_WITH_GO_TERM positive regulation of cell population proliferation -> AR PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH FOXA1 | {
"steps": [
{
"hop": 1,
"source_node_id": "ADRA2A",
"source_node_type": "GENE",
"source_node_label": "ADRA2A",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "TAS:ProtInc",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"target_node_id... | ADRA2A -> positive regulation of cell population proliferation -> AR -> FOXA1 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "ADRA2A",
"source_db": "UniProt",
"payload": {
"accession": "P08913",
"sequence": "MFRQEQPLAEGSFAPMGSLQPDAGNASWNGTEAPGGGARATPYSLQVTLTLVCLAGLLMLLTVFGNVLVIIAVFTSRALKAPQNLFLVSLASADILVATLVIPFSLANEVMGYWYFGKAWCEIYLALDVLFC... | [
{
"source_db": "GO",
"source_id": "GO:0008284",
"text": "ADRA2A GENE_ANNOTATED_WITH_GO_TERM positive regulation of cell population proliferation",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "AR",
"text": "AR GENE_ANNOTATED_WITH_GO_TERM positive regulation of cell populati... | {
"gene_a": "ADRA2A",
"gene_b": "FOXA1",
"path_length": 3
} | 0.710429 |
co_path_00009 | path_traversal | coding_variant | medium | 3 | What is the shortest molecular path from PARK7 to MTA3 through known protein interactions and pathway memberships? | PARK7 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH PRKN -> PRKN GENE_ANNOTATED_WITH_GO_TERM histone deacetylase binding -> MTA3 GENE_ANNOTATED_WITH_GO_TERM histone deacetylase binding | {
"steps": [
{
"hop": 1,
"source_node_id": "PARK7",
"source_node_type": "GENE",
"source_node_label": "PARK7",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.999,
"edge_source_db": "STRING",
... | PARK7 -> PRKN -> histone deacetylase binding -> MTA3 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "PARK7",
"source_db": "UniProt",
"payload": {
"accession": "Q99497",
"sequence": "MASKRALVILAKGAEEMETVIPVDVMRRAGIKVTVAGLAGKDPVQCSRDVVICPDASLEDAKKEGPYDVVVLPGGNLGAQNLSESAAVKEILKEQENRKGLIAAICAGPTALLAHEIGFGSKVTTHPLAKDKM... | [
{
"source_db": "STRING",
"source_id": "PRKN",
"text": "PARK7 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH PRKN",
"confidence": 0.999
},
{
"source_db": "GO",
"source_id": "GO:0042826",
"text": "PRKN GENE_ANNOTATED_WITH_GO_TERM histone deacetylase binding",
"confidence": 0.6
},
{
"... | {
"gene_a": "PARK7",
"gene_b": "MTA3",
"path_length": 3
} | 0.711141 |
co_path_00010 | path_traversal | coding_variant | easy | 2 | What is the shortest molecular path from BRAF to ATP6V1B2 through known protein interactions and pathway memberships? | BRAF GENE_ANNOTATED_WITH_GO_TERM ATP binding -> ATP6V1B2 GENE_ANNOTATED_WITH_GO_TERM ATP binding | {
"steps": [
{
"hop": 1,
"source_node_id": "BRAF",
"source_node_type": "GENE",
"source_node_label": "BRAF",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "IEA:UniProtKB-KW",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"target_node_i... | BRAF -> ATP binding -> ATP6V1B2 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "BRAF",
"source_db": "UniProt",
"payload": {
"accession": "P15056",
"sequence": "MAALSGGGGGGAEPGQALFNGDMEPEAGAGAGAAASSAADPAIPEEVWNIKQMIKLTQEHIEALLDKFGGEHNPPSIYLEAYEEYTSKLDALQQREQQLLESLGNGTDFSVSSSASMDTVTSSSSSSLSVLPSS... | [
{
"source_db": "GO",
"source_id": "GO:0005524",
"text": "BRAF GENE_ANNOTATED_WITH_GO_TERM ATP binding",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "ATP6V1B2",
"text": "ATP6V1B2 GENE_ANNOTATED_WITH_GO_TERM ATP binding",
"confidence": 0.6
}
] | {
"gene_a": "BRAF",
"gene_b": "ATP6V1B2",
"path_length": 2
} | 0.6 |
co_path_00011 | path_traversal | coding_variant | easy | 2 | What is the shortest molecular path from ACTB to CDK12 through known protein interactions and pathway memberships? | ACTB GENE_ANNOTATED_WITH_GO_TERM ATP binding -> CDK12 GENE_ANNOTATED_WITH_GO_TERM ATP binding | {
"steps": [
{
"hop": 1,
"source_node_id": "ACTB",
"source_node_type": "GENE",
"source_node_label": "ACTB",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "IEA:UniProtKB-KW",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"target_node_i... | ACTB -> ATP binding -> CDK12 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "ACTB",
"source_db": "UniProt",
"payload": {
"accession": "P60709",
"sequence": "MDDDIAALVVDNGSGMCKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDEAQSKRGILTLKYPIEHGIVTNWDDMEKIWHHTFYNELRVAPEEHPVLLTEAPLNPKANREKMTQIMFETFNTPAMYV... | [
{
"source_db": "GO",
"source_id": "GO:0005524",
"text": "ACTB GENE_ANNOTATED_WITH_GO_TERM ATP binding",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "CDK12",
"text": "CDK12 GENE_ANNOTATED_WITH_GO_TERM ATP binding",
"confidence": 0.6
}
] | {
"gene_a": "ACTB",
"gene_b": "CDK12",
"path_length": 2
} | 0.6 |
co_path_00012 | path_traversal | coding_variant | medium | 3 | What is the shortest molecular path from MAPT to ACVR1B through known protein interactions and pathway memberships? | MAPT PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH TUBA4A -> TUBA4A GENE_ANNOTATED_WITH_GO_TERM metal ion binding -> ACVR1B GENE_ANNOTATED_WITH_GO_TERM metal ion binding | {
"steps": [
{
"hop": 1,
"source_node_id": "MAPT",
"source_node_type": "GENE",
"source_node_label": "MAPT",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.981,
"edge_source_db": "STRING",
"t... | MAPT -> TUBA4A -> metal ion binding -> ACVR1B | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "MAPT",
"source_db": "UniProt",
"payload": {
"accession": "P10636",
"sequence": "MAEPRQEFEVMEDHAGTYGLGDRKDQGGYTMHQDQEGDTDAGLKESPLQTPTEDGSEEPGSETSDAKSTPTAEDVTAPLVDEGAPGKQAAAQPHTEIPEGTTAEEAGIGDTPSLEDEAAGHVTQEPESGKVVQE... | [
{
"source_db": "STRING",
"source_id": "TUBA4A",
"text": "MAPT PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH TUBA4A",
"confidence": 0.981
},
{
"source_db": "GO",
"source_id": "GO:0046872",
"text": "TUBA4A GENE_ANNOTATED_WITH_GO_TERM metal ion binding",
"confidence": 0.6
},
{
"sourc... | {
"gene_a": "MAPT",
"gene_b": "ACVR1B",
"path_length": 3
} | 0.706844 |
co_path_00013 | path_traversal | coding_variant | easy | 2 | What is the shortest molecular path from TP53 to BCHE through known protein interactions and pathway memberships? | TP53 GENE_ANNOTATED_WITH_GO_TERM negative regulation of cell population proliferation -> BCHE GENE_ANNOTATED_WITH_GO_TERM negative regulation of cell population proliferation | {
"steps": [
{
"hop": 1,
"source_node_id": "TP53",
"source_node_type": "GENE",
"source_node_label": "TP53",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "IDA:CACAO",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"target_node_id": "GO... | TP53 -> negative regulation of cell population proliferation -> BCHE | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "TP53",
"source_db": "UniProt",
"payload": {
"accession": "P04637",
"sequence": "MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGPDEAPRMPEAAPPVAPAPAAPTPAAPAPAPSWPLSSSVPSQKTYQGSYGFRLGFLHSGTAKSVTCTYSPALNKMF... | [
{
"source_db": "GO",
"source_id": "GO:0008285",
"text": "TP53 GENE_ANNOTATED_WITH_GO_TERM negative regulation of cell population proliferation",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "BCHE",
"text": "BCHE GENE_ANNOTATED_WITH_GO_TERM negative regulation of cell popula... | {
"gene_a": "TP53",
"gene_b": "BCHE",
"path_length": 2
} | 0.6 |
co_path_00014 | path_traversal | coding_variant | easy | 3 | What is the shortest molecular path from ACHE to NOTCH1 through known protein interactions and pathway memberships? | ACHE PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH APP -> APP PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH PSEN1 -> PSEN1 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH NOTCH1 | {
"steps": [
{
"hop": 1,
"source_node_id": "ACHE",
"source_node_type": "GENE",
"source_node_label": "ACHE",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.937,
"edge_source_db": "STRING",
"t... | ACHE -> APP -> PSEN1 -> NOTCH1 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "ACHE",
"source_db": "UniProt",
"payload": {
"accession": "P22303",
"sequence": "MRPPQCLLHTPSLASPLLLLLLWLLGGGVGAEGREDAELLVTVRGGRLRGIRLKTPGGPVSAFLGIPFAEPPMGPRRFLPPEPKQPWSGVVDATTFQSVCYQYVDTLYPGFEGTEMWNPNRELSEDCLYLNVWT... | [
{
"source_db": "STRING",
"source_id": "APP",
"text": "ACHE PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH APP",
"confidence": 0.937
},
{
"source_db": "STRING",
"source_id": "PSEN1",
"text": "APP PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH PSEN1",
"confidence": 0.999
},
{
"source_db": "STR... | {
"gene_a": "ACHE",
"gene_b": "NOTCH1",
"path_length": 3
} | 0.977564 |
co_path_00015 | path_traversal | coding_variant | medium | 3 | What is the shortest molecular path from PTEN to ATP6V1B2 through known protein interactions and pathway memberships? | PTEN PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH AKT1 -> AKT1 GENE_ANNOTATED_WITH_GO_TERM ATP binding -> ATP6V1B2 GENE_ANNOTATED_WITH_GO_TERM ATP binding | {
"steps": [
{
"hop": 1,
"source_node_id": "PTEN",
"source_node_type": "GENE",
"source_node_label": "PTEN",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.988,
"edge_source_db": "STRING",
"t... | PTEN -> AKT1 -> ATP binding -> ATP6V1B2 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "PTEN",
"source_db": "UniProt",
"payload": {
"accession": "P60484",
"sequence": "MTAIIKEIVSRNKRRYQEDGFDLDLTYIYPNIIAMGFPAERLEGVYRNNIDDVVRFLDSKHKNHYKIYNLCAERHYDTAKFNCRVAQYPFEDHNPPQLELIKPFCEDLDQWLSEDDNHVAAIHCKAGKGRTGVM... | [
{
"source_db": "STRING",
"source_id": "AKT1",
"text": "PTEN PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH AKT1",
"confidence": 0.988
},
{
"source_db": "GO",
"source_id": "GO:0005524",
"text": "AKT1 GENE_ANNOTATED_WITH_GO_TERM ATP binding",
"confidence": 0.6
},
{
"source_db": "GO",... | {
"gene_a": "PTEN",
"gene_b": "ATP6V1B2",
"path_length": 3
} | 0.708522 |
co_path_00016 | path_traversal | coding_variant | medium | 3 | What is the shortest molecular path from ATXN2 to BIRC5 through known protein interactions and pathway memberships? | TIA1 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH ATXN2 -> TIA1 GENE_ANNOTATED_WITH_GO_TERM apoptotic process -> BIRC5 GENE_ANNOTATED_WITH_GO_TERM apoptotic process | {
"steps": [
{
"hop": 1,
"source_node_id": "ATXN2",
"source_node_type": "GENE",
"source_node_label": "ATXN2",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.895,
"edge_source_db": "STRING",
... | ATXN2 -> TIA1 -> apoptotic process -> BIRC5 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "ATXN2",
"source_db": "UniProt",
"payload": {
"accession": "Q99700",
"sequence": "MRSAAAAPRSPAVATESRRFAAARWPGWRSLQRPARRSGRGGGGAAPGPYPSAAPPPPGPGPPPSRQSSPPSASDCFGSNGNGGGAFRPGSRRLLGLGGPPRPFVVLLLPLASPGAPPAAPTRASPLGARASP... | [
{
"source_db": "STRING",
"source_id": "TIA1",
"text": "TIA1 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH ATXN2",
"confidence": 0.895
},
{
"source_db": "GO",
"source_id": "GO:0006915",
"text": "TIA1 GENE_ANNOTATED_WITH_GO_TERM apoptotic process",
"confidence": 0.6
},
{
"source_db"... | {
"gene_a": "ATXN2",
"gene_b": "BIRC5",
"path_length": 3
} | 0.685554 |
co_path_00017 | path_traversal | coding_variant | medium | 4 | What is the shortest molecular path from MTA3 to BST1 through known protein interactions and pathway memberships? | MTA3 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH RBBP4 -> RBBP4 PROTEIN_MEMBER_OF_COMPLEX ASF1A / ASF1B / BRCA1 / CDKN3... -> SIRT6 PROTEIN_MEMBER_OF_COMPLEX ASF1A / ASF1B / BRCA1 / CDKN3... -> BST1 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH SIRT6 | {
"steps": [
{
"hop": 1,
"source_node_id": "MTA3",
"source_node_type": "GENE",
"source_node_label": "MTA3",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.998,
"edge_source_db": "STRING",
"t... | MTA3 -> RBBP4 -> ASF1A / ASF1B / BRCA1 / CDKN3... -> SIRT6 -> BST1 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "MTA3",
"source_db": "UniProt",
"payload": {
"accession": "Q9BTC8",
"sequence": "MAANMYRVGDYVYFENSSSNPYLIRRIEELNKTASGNVEAKVVCFYRRRDISNTLIMLADKHAKEIEEESETTVEADLTDKQKHQLKHRELFLSRQYESLPATHIRGKCSVALLNETESVLSYLDKEDTFFYSL... | [
{
"source_db": "STRING",
"source_id": "RBBP4",
"text": "MTA3 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH RBBP4",
"confidence": 0.998
},
{
"source_db": "OmniPath",
"source_id": "Compleat:HC6117",
"text": "RBBP4 PROTEIN_MEMBER_OF_COMPLEX ASF1A / ASF1B / BRCA1 / CDKN3...",
"confidence": 1
... | {
"gene_a": "MTA3",
"gene_b": "BST1",
"path_length": 4
} | 0.981001 |
co_path_00018 | path_traversal | coding_variant | medium | 3 | What is the shortest molecular path from BUB1B to APOE through known protein interactions and pathway memberships? | BIRC5 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH BUB1B -> BIRC5 GENE_ANNOTATED_WITH_GO_TERM protein homodimerization activity -> APOE GENE_ANNOTATED_WITH_GO_TERM protein homodimerization activity | {
"steps": [
{
"hop": 1,
"source_node_id": "BUB1B",
"source_node_type": "GENE",
"source_node_label": "BUB1B",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.987,
"edge_source_db": "STRING",
... | BUB1B -> BIRC5 -> protein homodimerization activity -> APOE | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "BUB1B",
"source_db": "UniProt",
"payload": {
"accession": "O60566",
"sequence": "MAAVKKEGGALSEAMSLEGDEWELSKENVQPLRQGRIMSTLQGALAQESACNNTLQQQKRAFEYEIRFYTGNDPLDVWDRYISWTEQNYPQGGKESNMSTLLERAVEALQGEKRYYSDPRFLNLWLKLGRLCN... | [
{
"source_db": "STRING",
"source_id": "BIRC5",
"text": "BIRC5 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH BUB1B",
"confidence": 0.987
},
{
"source_db": "GO",
"source_id": "GO:0042803",
"text": "BIRC5 GENE_ANNOTATED_WITH_GO_TERM protein homodimerization activity",
"confidence": 0.6
},
... | {
"gene_a": "BUB1B",
"gene_b": "APOE",
"path_length": 3
} | 0.708283 |
co_path_00019 | path_traversal | coding_variant | medium | 3 | What is the shortest molecular path from KRAS to CD4 through known protein interactions and pathway memberships? | KRAS PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH PIK3CA -> PIK3CA GENE_PARTICIPATES_IN_PATHWAY Downstream TCR signaling -> CD4 GENE_PARTICIPATES_IN_PATHWAY Downstream TCR signaling | {
"steps": [
{
"hop": 1,
"source_node_id": "KRAS",
"source_node_type": "GENE",
"source_node_label": "KRAS",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.998,
"edge_source_db": "STRING",
"t... | KRAS -> PIK3CA -> Downstream TCR signaling -> CD4 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "KRAS",
"source_db": "UniProt",
"payload": {
"accession": "P01116",
"sequence": "MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPSRTVDTKQAQDLA... | [
{
"source_db": "STRING",
"source_id": "PIK3CA",
"text": "KRAS PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH PIK3CA",
"confidence": 0.998
},
{
"source_db": "Reactome",
"source_id": "R-HSA-202424",
"text": "PIK3CA GENE_PARTICIPATES_IN_PATHWAY Downstream TCR signaling",
"confidence": 1
},
... | {
"gene_a": "KRAS",
"gene_b": "CD4",
"path_length": 3
} | 0.999333 |
co_path_00020 | path_traversal | coding_variant | easy | 2 | What is the shortest molecular path from ADRA2A to BNIP3 through known protein interactions and pathway memberships? | ADRA2A GENE_ANNOTATED_WITH_GO_TERM protein homodimerization activity -> BNIP3 GENE_ANNOTATED_WITH_GO_TERM protein homodimerization activity | {
"steps": [
{
"hop": 1,
"source_node_id": "ADRA2A",
"source_node_type": "GENE",
"source_node_label": "ADRA2A",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "IDA:BHF-UCL",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"target_node_id... | ADRA2A -> protein homodimerization activity -> BNIP3 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "ADRA2A",
"source_db": "UniProt",
"payload": {
"accession": "P08913",
"sequence": "MFRQEQPLAEGSFAPMGSLQPDAGNASWNGTEAPGGGARATPYSLQVTLTLVCLAGLLMLLTVFGNVLVIIAVFTSRALKAPQNLFLVSLASADILVATLVIPFSLANEVMGYWYFGKAWCEIYLALDVLFC... | [
{
"source_db": "GO",
"source_id": "GO:0042803",
"text": "ADRA2A GENE_ANNOTATED_WITH_GO_TERM protein homodimerization activity",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "BNIP3",
"text": "BNIP3 GENE_ANNOTATED_WITH_GO_TERM protein homodimerization activity",
"confiden... | {
"gene_a": "ADRA2A",
"gene_b": "BNIP3",
"path_length": 2
} | 0.6 |
co_path_00021 | path_traversal | coding_variant | medium | 3 | What is the shortest molecular path from ACE to MLH1 through known protein interactions and pathway memberships? | ACE GENE_ANNOTATED_WITH_GO_TERM zinc ion binding -> BLM GENE_ANNOTATED_WITH_GO_TERM zinc ion binding -> BLM PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH MLH1 | {
"steps": [
{
"hop": 1,
"source_node_id": "ACE",
"source_node_type": "GENE",
"source_node_label": "ACE",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "IDA:BHF-UCL",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"target_node_id": "GO... | ACE -> zinc ion binding -> BLM -> MLH1 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "ACE",
"source_db": "UniProt",
"payload": {
"accession": "P12821",
"sequence": "MGAASGRRGPGLLLPLPLLLLLPPQPALALDPGLQPGNFSADEAGAQLFAQSYNSSAEQVLFQSVAASWAHDTNITAENARRQEEAALLSQEFAEAWGQKAKELYEPIWQNFTDPQLRRIIGAVRTLGSANLPLA... | [
{
"source_db": "GO",
"source_id": "GO:0008270",
"text": "ACE GENE_ANNOTATED_WITH_GO_TERM zinc ion binding",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "BLM",
"text": "BLM GENE_ANNOTATED_WITH_GO_TERM zinc ion binding",
"confidence": 0.6
},
{
"source_db": "STRIN... | {
"gene_a": "ACE",
"gene_b": "MLH1",
"path_length": 3
} | 0.711141 |
co_path_00022 | path_traversal | coding_variant | easy | 2 | What is the shortest molecular path from CDK6 to CASP2 through known protein interactions and pathway memberships? | CDK6 GENE_ANNOTATED_WITH_GO_TERM DNA damage response -> CASP2 GENE_ANNOTATED_WITH_GO_TERM DNA damage response | {
"steps": [
{
"hop": 1,
"source_node_id": "CDK6",
"source_node_type": "GENE",
"source_node_label": "CDK6",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "IEA:Ensembl",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"target_node_id": "... | CDK6 -> DNA damage response -> CASP2 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "CDK6",
"source_db": "UniProt",
"payload": {
"accession": "Q00534",
"sequence": "MEKDGLCRADQQYECVAEIGEGAYGKVFKARDLKNGGRFVALKRVRVQTGEEGMPLSTIREVAVLRHLETFEHPNVVRLFDVCTVSRTDRETKLTLVFEHVDQDLTTYLDKVPEPGVPTETIKDMMFQLLRGLD... | [
{
"source_db": "GO",
"source_id": "GO:0006974",
"text": "CDK6 GENE_ANNOTATED_WITH_GO_TERM DNA damage response",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "CASP2",
"text": "CASP2 GENE_ANNOTATED_WITH_GO_TERM DNA damage response",
"confidence": 0.6
}
] | {
"gene_a": "CDK6",
"gene_b": "CASP2",
"path_length": 2
} | 0.6 |
co_path_00023 | path_traversal | coding_variant | easy | 2 | What is the shortest molecular path from ERG to BRCA1 through known protein interactions and pathway memberships? | ERG GENE_ANNOTATED_WITH_GO_TERM DNA-templated transcription -> BRCA1 GENE_ANNOTATED_WITH_GO_TERM DNA-templated transcription | {
"steps": [
{
"hop": 1,
"source_node_id": "ERG",
"source_node_type": "GENE",
"source_node_label": "ERG",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "IEA:UniProtKB-KW",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"target_node_id"... | ERG -> DNA-templated transcription -> BRCA1 | null | [
"expression",
"intercell_role",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "ERG",
"source_db": "UniProt",
"payload": {
"accession": "P11308",
"sequence": "MASTIKEALSVVSEDQSLFECAYGTPHLAKTEMTASSSSDYGQTSKMSPRVPQQDWLSQPPARVTIKMECNPSQVNGSRNSPDECSVAKGGKMVGSPDTVGMNYGSYMEEKHMPPPNMTTNERRVIVPADPTLWS... | [
{
"source_db": "GO",
"source_id": "GO:0006351",
"text": "ERG GENE_ANNOTATED_WITH_GO_TERM DNA-templated transcription",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "BRCA1",
"text": "BRCA1 GENE_ANNOTATED_WITH_GO_TERM DNA-templated transcription",
"confidence": 0.6
}
] | {
"gene_a": "ERG",
"gene_b": "BRCA1",
"path_length": 2
} | 0.6 |
co_path_00024 | path_traversal | coding_variant | easy | 2 | What is the shortest molecular path from CDH1 to CD8A through known protein interactions and pathway memberships? | CDH1 GENE_PARTICIPATES_IN_PATHWAY Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell -> CD8A GENE_PARTICIPATES_IN_PATHWAY Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell | {
"steps": [
{
"hop": 1,
"source_node_id": "CDH1",
"source_node_type": "GENE",
"source_node_label": "CDH1",
"edge_relation": "GENE_PARTICIPATES_IN_PATHWAY",
"edge_evidence_type": "curated",
"edge_confidence": 1,
"edge_source_db": "Reactome",
"target_node_id": ... | CDH1 -> Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell -> CD8A | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "CDH1",
"source_db": "UniProt",
"payload": {
"accession": "P12830",
"sequence": "MGPWSRSLSALLLLLQVSSWLCQEPEPCHPGFDAESYTFTVPRRHLERGRVLGRVNFEDCTGRQRTAYFSLDTRFKVGTDGVITVKRPLRFHNPQIHFLVYAWDSTYRKFSTKVTLNTVGHHHRPPPHQASVSG... | [
{
"source_db": "Reactome",
"source_id": "R-HSA-198933",
"text": "CDH1 GENE_PARTICIPATES_IN_PATHWAY Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell",
"confidence": 1
},
{
"source_db": "Reactome",
"source_id": "CD8A",
"text": "CD8A GENE_PARTICIPATES_IN_PATHWAY ... | {
"gene_a": "CDH1",
"gene_b": "CD8A",
"path_length": 2
} | 1 |
co_path_00025 | path_traversal | coding_variant | hard | 4 | What is the shortest molecular path from MTOR to ACO2 through known protein interactions and pathway memberships? | MTOR GENE_ENCODES_PROTEIN Serine/threonine-protein kinase mTOR -> Serine/threonine-protein kinase mTOR PROTEIN_ACTIVATES ACLY -> ACLY GENE_ENCODES_PROTEIN ACLY -> ACO2 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH ACLY | {
"steps": [
{
"hop": 1,
"source_node_id": "MTOR",
"source_node_type": "GENE",
"source_node_label": "MTOR",
"edge_relation": "GENE_ENCODES_PROTEIN",
"edge_evidence_type": "annotation",
"edge_confidence": 1,
"edge_source_db": "UniProt",
"target_node_id": "P4234... | MTOR -> Serine/threonine-protein kinase mTOR -> ACLY -> ACLY -> ACO2 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "MTOR",
"source_db": "UniProt",
"payload": {
"accession": "P42345",
"sequence": "MLGTGPAAATTAATTSSNVSVLQQFASGLKSRNEETRAKAAKELQHYVTMELREMSQEESTRFYDQLNHHIFELVSSSDANERKGGILAIASLIGVEGGNATRIGRFANYLRNLLPSNDPVVMEMASKAIGRLA... | [
{
"source_db": "UniProt",
"source_id": "P42345",
"text": "MTOR GENE_ENCODES_PROTEIN Serine/threonine-protein kinase mTOR",
"confidence": 1
},
{
"source_db": "SIGNOR",
"source_id": "P53396",
"text": "Serine/threonine-protein kinase mTOR PROTEIN_ACTIVATES ACLY",
"confidence": 0.95
... | {
"gene_a": "MTOR",
"gene_b": "ACO2",
"path_length": 4
} | 0.957967 |
co_path_00026 | path_traversal | coding_variant | medium | 3 | What is the shortest molecular path from BIRC5 to IL22 through known protein interactions and pathway memberships? | BIRC5 GENE_PARTICIPATES_IN_PATHWAY Interleukin-4 and Interleukin-13 signaling -> IL17A GENE_PARTICIPATES_IN_PATHWAY Interleukin-4 and Interleukin-13 signaling -> IL17A PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH IL22 | {
"steps": [
{
"hop": 1,
"source_node_id": "BIRC5",
"source_node_type": "GENE",
"source_node_label": "BIRC5",
"edge_relation": "GENE_PARTICIPATES_IN_PATHWAY",
"edge_evidence_type": "curated",
"edge_confidence": 1,
"edge_source_db": "Reactome",
"target_node_id"... | BIRC5 -> Interleukin-4 and Interleukin-13 signaling -> IL17A -> IL22 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "BIRC5",
"source_db": "UniProt",
"payload": {
"accession": "O15392",
"sequence": "MGAPTLPPAWQPFLKDHRISTFKNWPFLEGCACTPERMAEAGFIHCPTENEPDLAQCFFCFKELEGWEPDDDPIEEHKKHSSGCAFLSVKKQFEELTLGEFLKLDRERAKNKIAKETNNKKKEFEETAKKVRR... | [
{
"source_db": "Reactome",
"source_id": "R-HSA-6785807",
"text": "BIRC5 GENE_PARTICIPATES_IN_PATHWAY Interleukin-4 and Interleukin-13 signaling",
"confidence": 1
},
{
"source_db": "Reactome",
"source_id": "IL17A",
"text": "IL17A GENE_PARTICIPATES_IN_PATHWAY Interleukin-4 and Interleu... | {
"gene_a": "BIRC5",
"gene_b": "IL22",
"path_length": 3
} | 0.991935 |
co_path_00027 | path_traversal | coding_variant | easy | 2 | What is the shortest molecular path from ERG to C9orf72 through known protein interactions and pathway memberships? | ERG PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH FUS -> C9orf72 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH FUS | {
"steps": [
{
"hop": 1,
"source_node_id": "ERG",
"source_node_type": "GENE",
"source_node_label": "ERG",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.68,
"edge_source_db": "STRING",
"targ... | ERG -> FUS -> C9orf72 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "ERG",
"source_db": "UniProt",
"payload": {
"accession": "P11308",
"sequence": "MASTIKEALSVVSEDQSLFECAYGTPHLAKTEMTASSSSDYGQTSKMSPRVPQQDWLSQPPARVTIKMECNPSQVNGSRNSPDECSVAKGGKMVGSPDTVGMNYGSYMEEKHMPPPNMTTNERRVIVPADPTLWS... | [
{
"source_db": "STRING",
"source_id": "FUS",
"text": "ERG PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH FUS",
"confidence": 0.68
},
{
"source_db": "STRING",
"source_id": "C9orf72",
"text": "C9orf72 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH FUS",
"confidence": 0.929
}
] | {
"gene_a": "ERG",
"gene_b": "C9orf72",
"path_length": 2
} | 0.794808 |
co_path_00028 | path_traversal | coding_variant | easy | 2 | What is the shortest molecular path from NEK1 to ALB through known protein interactions and pathway memberships? | NEK1 GENE_ANNOTATED_WITH_GO_TERM cilium assembly -> ALB GENE_ANNOTATED_WITH_GO_TERM cilium assembly | {
"steps": [
{
"hop": 1,
"source_node_id": "NEK1",
"source_node_type": "GENE",
"source_node_label": "NEK1",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "IMP:UniProtKB",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"target_node_id":... | NEK1 -> cilium assembly -> ALB | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "NEK1",
"source_db": "UniProt",
"payload": {
"accession": "Q96PY6",
"sequence": "MEKYVRLQKIGEGSFGKAILVKSTEDGRQYVIKEINISRMSSKEREESRREVAVLANMKHPNIVQYRESFEENGSLYIVMDYCEGGDLFKRINAQKGVLFQEDQILDWFVQICLALKHVHDRKILHRDIKSQNI... | [
{
"source_db": "GO",
"source_id": "GO:0060271",
"text": "NEK1 GENE_ANNOTATED_WITH_GO_TERM cilium assembly",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "ALB",
"text": "ALB GENE_ANNOTATED_WITH_GO_TERM cilium assembly",
"confidence": 0.6
}
] | {
"gene_a": "NEK1",
"gene_b": "ALB",
"path_length": 2
} | 0.6 |
co_path_00029 | path_traversal | coding_variant | easy | 2 | What is the shortest molecular path from ADAM10 to CSF3R through known protein interactions and pathway memberships? | ADAM10 GENE_ANNOTATED_WITH_GO_TERM positive regulation of cell population proliferation -> CSF3R GENE_ANNOTATED_WITH_GO_TERM positive regulation of cell population proliferation | {
"steps": [
{
"hop": 1,
"source_node_id": "ADAM10",
"source_node_type": "GENE",
"source_node_label": "ADAM10",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "IMP:BHF-UCL",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"target_node_id... | ADAM10 -> positive regulation of cell population proliferation -> CSF3R | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "ADAM10",
"source_db": "UniProt",
"payload": {
"accession": "O14672",
"sequence": "MVLLRVLILLLSWAAGMGGQYGNPLNKYIRHYEGLSYNVDSLHQKHQRAKRAVSHEDQFLRLDFHAHGRHFNLRMKRDTSLFSDEFKVETSNKVLDYDTSHIYTGHIYGEEGSFSHGSVIDGRFEGFIQTRG... | [
{
"source_db": "GO",
"source_id": "GO:0008284",
"text": "ADAM10 GENE_ANNOTATED_WITH_GO_TERM positive regulation of cell population proliferation",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "CSF3R",
"text": "CSF3R GENE_ANNOTATED_WITH_GO_TERM positive regulation of cell po... | {
"gene_a": "ADAM10",
"gene_b": "CSF3R",
"path_length": 2
} | 0.6 |
co_path_00030 | path_traversal | coding_variant | medium | 4 | What is the shortest molecular path from JAK2 to ADM through known protein interactions and pathway memberships? | JAK2 GENE_PARTICIPATES_IN_PATHWAY Interleukin-4 and Interleukin-13 signaling -> AKT1 GENE_PARTICIPATES_IN_PATHWAY Interleukin-4 and Interleukin-13 signaling -> AKT1 GENE_PARTICIPATES_IN_PATHWAY High laminar flow shear stress activates signaling by PIEZO1 and PECAM1:CDH5:KDR in endothelial cells -> ADM GENE_PARTICIPATES... | {
"steps": [
{
"hop": 1,
"source_node_id": "JAK2",
"source_node_type": "GENE",
"source_node_label": "JAK2",
"edge_relation": "GENE_PARTICIPATES_IN_PATHWAY",
"edge_evidence_type": "curated",
"edge_confidence": 1,
"edge_source_db": "Reactome",
"target_node_id": ... | JAK2 -> Interleukin-4 and Interleukin-13 signaling -> AKT1 -> High laminar flow shear stress activates signaling by PIEZO1 and PECAM1:CDH5:KDR in endothelial cells -> ADM | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "JAK2",
"source_db": "UniProt",
"payload": {
"accession": "O60674",
"sequence": "MGMACLTMTEMEGTSTSSIYQNGDISGNANSMKQIDPVLQVYLYHSLGKSEADYLTFPSGEYVAEEICIAASKACGITPVYHNMFALMSETERIWYPPNHVFHIDESTRHNVLYRIRFYFPRWYCSGSNRAYRH... | [
{
"source_db": "Reactome",
"source_id": "R-HSA-6785807",
"text": "JAK2 GENE_PARTICIPATES_IN_PATHWAY Interleukin-4 and Interleukin-13 signaling",
"confidence": 1
},
{
"source_db": "Reactome",
"source_id": "AKT1",
"text": "AKT1 GENE_PARTICIPATES_IN_PATHWAY Interleukin-4 and Interleukin... | {
"gene_a": "JAK2",
"gene_b": "ADM",
"path_length": 4
} | 1 |
co_path_00031 | path_traversal | coding_variant | hard | 5 | What is the shortest molecular path from ACO2 to FOLH1 through known protein interactions and pathway memberships? | ACO2 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH FXN -> CFAP410 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH FXN -> CFAP410 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH NEK1 -> NEK1 GENE_ANNOTATED_WITH_GO_TERM metal ion binding -> FOLH1 GENE_ANNOTATED_WITH_GO_TERM metal ion binding | {
"steps": [
{
"hop": 1,
"source_node_id": "ACO2",
"source_node_type": "GENE",
"source_node_label": "ACO2",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.982,
"edge_source_db": "STRING",
"t... | ACO2 -> FXN -> CFAP410 -> NEK1 -> metal ion binding -> FOLH1 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "ACO2",
"source_db": "UniProt",
"payload": {
"accession": "Q99798",
"sequence": "MAPYSLLVTRLQKALGVRQYHVASVLCQRAKVAMSHFEPNEYIHYDLLEKNINIVRKRLNRPLTLSEKIVYGHLDDPASQEIERGKSYLRLRPDRVAMQDATAQMAMLQFISSGLSKVAVPSTIHCDHLIEAQV... | [
{
"source_db": "STRING",
"source_id": "FXN",
"text": "ACO2 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH FXN",
"confidence": 0.982
},
{
"source_db": "STRING",
"source_id": "CFAP410",
"text": "CFAP410 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH FXN",
"confidence": 0.597
},
{
"source_db": ... | {
"gene_a": "ACO2",
"gene_b": "FOLH1",
"path_length": 5
} | 0.729962 |
co_path_00032 | path_traversal | coding_variant | easy | 2 | What is the shortest molecular path from FGFR1 to ADRA2A through known protein interactions and pathway memberships? | FGFR1 GENE_ANNOTATED_WITH_GO_TERM protein homodimerization activity -> ADRA2A GENE_ANNOTATED_WITH_GO_TERM protein homodimerization activity | {
"steps": [
{
"hop": 1,
"source_node_id": "FGFR1",
"source_node_type": "GENE",
"source_node_label": "FGFR1",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "IPI:UniProtKB",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"target_node_id... | FGFR1 -> protein homodimerization activity -> ADRA2A | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "FGFR1",
"source_db": "UniProt",
"payload": {
"accession": "P11362",
"sequence": "MWSWKCLLFWAVLVTATLCTARPSPTLPEQAQPWGAPVEVESFLVHPGDLLQLRCRLRDDVQSINWLRDGVQLAESNRTRITGEEVEVQDSVPADSGLYACVTSSPSGSDTTYFSVNVSDALPSSEDDDDDDD... | [
{
"source_db": "GO",
"source_id": "GO:0042803",
"text": "FGFR1 GENE_ANNOTATED_WITH_GO_TERM protein homodimerization activity",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "ADRA2A",
"text": "ADRA2A GENE_ANNOTATED_WITH_GO_TERM protein homodimerization activity",
"confide... | {
"gene_a": "FGFR1",
"gene_b": "ADRA2A",
"path_length": 2
} | 0.6 |
co_path_00033 | path_traversal | coding_variant | medium | 3 | What is the shortest molecular path from ABI1 to BNIP3 through known protein interactions and pathway memberships? | ABI1 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH ABL1 -> ABL1 GENE_ANNOTATED_WITH_GO_TERM cellular response to hydrogen peroxide -> BNIP3 GENE_ANNOTATED_WITH_GO_TERM cellular response to hydrogen peroxide | {
"steps": [
{
"hop": 1,
"source_node_id": "ABI1",
"source_node_type": "GENE",
"source_node_label": "ABI1",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.998,
"edge_source_db": "STRING",
"t... | ABI1 -> ABL1 -> cellular response to hydrogen peroxide -> BNIP3 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "ABI1",
"source_db": "UniProt",
"payload": {
"accession": "Q8IZP0",
"sequence": "MAELQMLLEEEIPSGKRALIESYQNLTRVADYCENNYIQATDKRKALEETKAYTTQSLASVAYQINALANNVLQLLDIQASQLRRMESSINHISQTVDIHKEKVARREIGILTTNKNTSRTHKIIAPANMERPV... | [
{
"source_db": "STRING",
"source_id": "ABL1",
"text": "ABI1 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH ABL1",
"confidence": 0.998
},
{
"source_db": "GO",
"source_id": "GO:0070301",
"text": "ABL1 GENE_ANNOTATED_WITH_GO_TERM cellular response to hydrogen peroxide",
"confidence": 0.6
},... | {
"gene_a": "ABI1",
"gene_b": "BNIP3",
"path_length": 3
} | 0.710904 |
co_path_00034 | path_traversal | coding_variant | medium | 3 | What is the shortest molecular path from ACHE to CHMP2B through known protein interactions and pathway memberships? | ACHE PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH APP -> APP GENE_ANNOTATED_WITH_GO_TERM cognition -> CHMP2B GENE_ANNOTATED_WITH_GO_TERM cognition | {
"steps": [
{
"hop": 1,
"source_node_id": "ACHE",
"source_node_type": "GENE",
"source_node_label": "ACHE",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.937,
"edge_source_db": "STRING",
"t... | ACHE -> APP -> cognition -> CHMP2B | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "ACHE",
"source_db": "UniProt",
"payload": {
"accession": "P22303",
"sequence": "MRPPQCLLHTPSLASPLLLLLLWLLGGGVGAEGREDAELLVTVRGGRLRGIRLKTPGGPVSAFLGIPFAEPPMGPRRFLPPEPKQPWSGVVDATTFQSVCYQYVDTLYPGFEGTEMWNPNRELSEDCLYLNVWT... | [
{
"source_db": "STRING",
"source_id": "APP",
"text": "ACHE PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH APP",
"confidence": 0.937
},
{
"source_db": "GO",
"source_id": "GO:0050890",
"text": "APP GENE_ANNOTATED_WITH_GO_TERM cognition",
"confidence": 0.6
},
{
"source_db": "GO",
... | {
"gene_a": "ACHE",
"gene_b": "CHMP2B",
"path_length": 3
} | 0.696115 |
co_path_00035 | path_traversal | coding_variant | easy | 2 | What is the shortest molecular path from RAD51D to ABL2 through known protein interactions and pathway memberships? | RAD51D GENE_ANNOTATED_WITH_GO_TERM ATP binding -> ABL2 GENE_ANNOTATED_WITH_GO_TERM ATP binding | {
"steps": [
{
"hop": 1,
"source_node_id": "RAD51D",
"source_node_type": "GENE",
"source_node_label": "RAD51D",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "IEA:UniProtKB-KW",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"target_no... | RAD51D -> ATP binding -> ABL2 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "RAD51D",
"source_db": "UniProt",
"payload": {
"accession": "O75771",
"sequence": "MGVLRVGLCPGLTEEMIQLLRSHRIKTVVDLVSADLEEVAQKCGLSYKALVALRRVLLAQFSAFPVNGADLYEELKTSTAILSTGIGSLDKLLDAGLYTGEVTEIVGGPGSGKTQVCLCMAANVAHGLQQNV... | [
{
"source_db": "GO",
"source_id": "GO:0005524",
"text": "RAD51D GENE_ANNOTATED_WITH_GO_TERM ATP binding",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "ABL2",
"text": "ABL2 GENE_ANNOTATED_WITH_GO_TERM ATP binding",
"confidence": 0.6
}
] | {
"gene_a": "RAD51D",
"gene_b": "ABL2",
"path_length": 2
} | 0.6 |
co_path_00036 | path_traversal | coding_variant | medium | 4 | What is the shortest molecular path from AFF3 to AOPEP through known protein interactions and pathway memberships? | AFF3 GENE_ANNOTATED_WITH_GO_TERM double-stranded DNA binding -> RXRA GENE_ANNOTATED_WITH_GO_TERM double-stranded DNA binding -> RXRA GENE_ANNOTATED_WITH_GO_TERM zinc ion binding -> AOPEP GENE_ANNOTATED_WITH_GO_TERM zinc ion binding | {
"steps": [
{
"hop": 1,
"source_node_id": "AFF3",
"source_node_type": "GENE",
"source_node_label": "AFF3",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "IEA:Ensembl",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"target_node_id": "... | AFF3 -> double-stranded DNA binding -> RXRA -> zinc ion binding -> AOPEP | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "AFF3",
"source_db": "UniProt",
"payload": {
"accession": "P51826",
"sequence": "MDSFDLALLQEWDLESLCVYEPDRNALRRKERERRNQETQQDDGTFNSSYSLFSEPYKTNKGDELSNRIQNTLGNYDEMKDFLTDRSNQSHLVGVPKPGVPQTPVNKIDEHFVADSRAQNQPSSICSTTTSTPA... | [
{
"source_db": "GO",
"source_id": "GO:0003690",
"text": "AFF3 GENE_ANNOTATED_WITH_GO_TERM double-stranded DNA binding",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "RXRA",
"text": "RXRA GENE_ANNOTATED_WITH_GO_TERM double-stranded DNA binding",
"confidence": 0.6
},
... | {
"gene_a": "AFF3",
"gene_b": "AOPEP",
"path_length": 4
} | 0.6 |
co_path_00037 | path_traversal | coding_variant | easy | 2 | What is the shortest molecular path from VAPB to APC through known protein interactions and pathway memberships? | VAPB GENE_ANNOTATED_WITH_GO_TERM microtubule binding -> APC GENE_ANNOTATED_WITH_GO_TERM microtubule binding | {
"steps": [
{
"hop": 1,
"source_node_id": "VAPB",
"source_node_type": "GENE",
"source_node_label": "VAPB",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "IDA:UniProtKB",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"target_node_id":... | VAPB -> microtubule binding -> APC | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "VAPB",
"source_db": "UniProt",
"payload": {
"accession": "O95292",
"sequence": "MAKVEQVLSLEPQHELKFRGPFTDVVTTNLKLGNPTDRNVCFKVKTTAPRRYCVRPNSGIIDAGASINVSVMLQPFDYDPNEKSKHKFMVQSMFAPTDTSDMEAVWKEAKPEDLMDSKLRCVFELPAENDKPHD... | [
{
"source_db": "GO",
"source_id": "GO:0008017",
"text": "VAPB GENE_ANNOTATED_WITH_GO_TERM microtubule binding",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "APC",
"text": "APC GENE_ANNOTATED_WITH_GO_TERM microtubule binding",
"confidence": 0.6
}
] | {
"gene_a": "VAPB",
"gene_b": "APC",
"path_length": 2
} | 0.6 |
co_path_00038 | path_traversal | coding_variant | easy | 2 | What is the shortest molecular path from APP to AFDN through known protein interactions and pathway memberships? | APP GENE_ANNOTATED_WITH_GO_TERM positive regulation of gene expression -> AFDN GENE_ANNOTATED_WITH_GO_TERM positive regulation of gene expression | {
"steps": [
{
"hop": 1,
"source_node_id": "APP",
"source_node_type": "GENE",
"source_node_label": "APP",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "IMP:ARUK-UCL",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"target_node_id": "G... | APP -> positive regulation of gene expression -> AFDN | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "APP",
"source_db": "UniProt",
"payload": {
"accession": "P05067",
"sequence": "MLPGLALLLLAAWTARALEVPTDGNAGLLAEPQIAMFCGRLNMHMNVQNGKWDSDPSGTKTCIDTKEGILQYCQEVYPELQITNVVEANQPVTIQNWCKRGRKQCKTHPHFVIPYRCLVGEFVSDALLVPDKCKF... | [
{
"source_db": "GO",
"source_id": "GO:0010628",
"text": "APP GENE_ANNOTATED_WITH_GO_TERM positive regulation of gene expression",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "AFDN",
"text": "AFDN GENE_ANNOTATED_WITH_GO_TERM positive regulation of gene expression",
"con... | {
"gene_a": "APP",
"gene_b": "AFDN",
"path_length": 2
} | 0.6 |
co_path_00039 | path_traversal | coding_variant | medium | 3 | What is the shortest molecular path from PRKN to CD44 through known protein interactions and pathway memberships? | PRKN GENE_ANNOTATED_WITH_GO_TERM DNA-templated transcription -> ERBB2 GENE_ANNOTATED_WITH_GO_TERM DNA-templated transcription -> ERBB2 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH CD44 | {
"steps": [
{
"hop": 1,
"source_node_id": "PRKN",
"source_node_type": "GENE",
"source_node_label": "PRKN",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "IEA:UniProtKB-KW",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"target_node_i... | PRKN -> DNA-templated transcription -> ERBB2 -> CD44 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "PRKN",
"source_db": "UniProt",
"payload": {
"accession": "O60260",
"sequence": "MIVFVRFNSSHGFPVEVDSDTSIFQLKEVVAKRQGVPADQLRVIFAGKELRNDWTVQNCDLDQQSIVHIVQRPWRKGQEMNATGGDDPRNAAGGCEREPQSLTRVDLSSSVLPGDSVGLAVILHTDSRKDSPPA... | [
{
"source_db": "GO",
"source_id": "GO:0006351",
"text": "PRKN GENE_ANNOTATED_WITH_GO_TERM DNA-templated transcription",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "ERBB2",
"text": "ERBB2 GENE_ANNOTATED_WITH_GO_TERM DNA-templated transcription",
"confidence": 0.6
},
... | {
"gene_a": "PRKN",
"gene_b": "CD44",
"path_length": 3
} | 0.711141 |
co_path_00040 | path_traversal | coding_variant | easy | 2 | What is the shortest molecular path from CASS4 to APC through known protein interactions and pathway memberships? | CASS4 GENE_ANNOTATED_WITH_GO_TERM positive regulation of cell migration -> APC GENE_ANNOTATED_WITH_GO_TERM positive regulation of cell migration | {
"steps": [
{
"hop": 1,
"source_node_id": "CASS4",
"source_node_type": "GENE",
"source_node_label": "CASS4",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "IMP:UniProtKB",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"target_node_id... | CASS4 -> positive regulation of cell migration -> APC | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "CASS4",
"source_db": "UniProt",
"payload": {
"accession": "Q9NQ75",
"sequence": "MKGTGIMDCAPKALLARALYDNCPDCSDELAFSRGDILTILEQHVPESEGWWKCLLHGRQGLAPANRLQILTEVAADRPCPPFLRGLEEAPASSEETYQVPTLPRPPTPGPVYEQMRSWAEGPQPPTAQVYEF... | [
{
"source_db": "GO",
"source_id": "GO:0030335",
"text": "CASS4 GENE_ANNOTATED_WITH_GO_TERM positive regulation of cell migration",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "APC",
"text": "APC GENE_ANNOTATED_WITH_GO_TERM positive regulation of cell migration",
"confi... | {
"gene_a": "CASS4",
"gene_b": "APC",
"path_length": 2
} | 0.6 |
co_path_00041 | path_traversal | coding_variant | easy | 2 | What is the shortest molecular path from ABCA7 to AXL through known protein interactions and pathway memberships? | ABCA7 GENE_ANNOTATED_WITH_GO_TERM ATP binding -> AXL GENE_ANNOTATED_WITH_GO_TERM ATP binding | {
"steps": [
{
"hop": 1,
"source_node_id": "ABCA7",
"source_node_type": "GENE",
"source_node_label": "ABCA7",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "IEA:UniProtKB-KW",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"target_node... | ABCA7 -> ATP binding -> AXL | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "ABCA7",
"source_db": "UniProt",
"payload": {
"accession": "Q8IZY2",
"sequence": "MAFWTQLMLLLWKNFMYRRRQPVQLLVELLWPLFLFFILVAVRHSHPPLEHHECHFPNKPLPSAGTVPWLQGLICNVNNTCFPQLTPGEEPGRLSNFNDSLVSRLLADARTVLGGASAHRTLAGLGKLIATLR... | [
{
"source_db": "GO",
"source_id": "GO:0005524",
"text": "ABCA7 GENE_ANNOTATED_WITH_GO_TERM ATP binding",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "AXL",
"text": "AXL GENE_ANNOTATED_WITH_GO_TERM ATP binding",
"confidence": 0.6
}
] | {
"gene_a": "ABCA7",
"gene_b": "AXL",
"path_length": 2
} | 0.6 |
co_path_00042 | path_traversal | coding_variant | hard | 4 | What is the shortest molecular path from TMPRSS2 to ATP6V1B2 through known protein interactions and pathway memberships? | TMPRSS2 GENE_PARTICIPATES_IN_PATHWAY Attachment and Entry -> VCP GENE_PARTICIPATES_IN_PATHWAY Attachment and Entry -> VCP GENE_ANNOTATED_WITH_GO_TERM ATP binding -> ATP6V1B2 GENE_ANNOTATED_WITH_GO_TERM ATP binding | {
"steps": [
{
"hop": 1,
"source_node_id": "TMPRSS2",
"source_node_type": "GENE",
"source_node_label": "TMPRSS2",
"edge_relation": "GENE_PARTICIPATES_IN_PATHWAY",
"edge_evidence_type": "curated",
"edge_confidence": 1,
"edge_source_db": "Reactome",
"target_node... | TMPRSS2 -> Attachment and Entry -> VCP -> ATP binding -> ATP6V1B2 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "TMPRSS2",
"source_db": "UniProt",
"payload": {
"accession": "O15393",
"sequence": "MALNSGSPPAIGPYYENHGYQPENPYPAQPTVVPTVYEVHPAQYYPSPVPQYAPRVLTQASNPVVCTQPKSPSGTVCTSKTKKALCITLTLGTFLVGAALAAGLLWKFMGSKCSNSGIECDSSGTCINPSN... | [
{
"source_db": "Reactome",
"source_id": "R-HSA-9694614",
"text": "TMPRSS2 GENE_PARTICIPATES_IN_PATHWAY Attachment and Entry",
"confidence": 1
},
{
"source_db": "Reactome",
"source_id": "VCP",
"text": "VCP GENE_PARTICIPATES_IN_PATHWAY Attachment and Entry",
"confidence": 1
},
... | {
"gene_a": "TMPRSS2",
"gene_b": "ATP6V1B2",
"path_length": 4
} | 0.774597 |
co_path_00043 | path_traversal | coding_variant | easy | 3 | What is the shortest molecular path from TUBA4A to AKAP11 through known protein interactions and pathway memberships? | TUBA4A PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH MAPT -> MAPT PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH GSK3B -> AKAP11 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH GSK3B | {
"steps": [
{
"hop": 1,
"source_node_id": "TUBA4A",
"source_node_type": "GENE",
"source_node_label": "TUBA4A",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.981,
"edge_source_db": "STRING",
... | TUBA4A -> MAPT -> GSK3B -> AKAP11 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "TUBA4A",
"source_db": "UniProt",
"payload": {
"accession": "P68366",
"sequence": "MRECISVHVGQAGVQMGNACWELYCLEHGIQPDGQMPSDKTIGGGDDSFTTFFCETGAGKHVPRAVFVDLEPTVIDEIRNGPYRQLFHPEQLITGKEDAANNYARGHYTIGKEIIDPVLDRIRKLSDQCTGL... | [
{
"source_db": "STRING",
"source_id": "MAPT",
"text": "TUBA4A PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH MAPT",
"confidence": 0.981
},
{
"source_db": "STRING",
"source_id": "GSK3B",
"text": "MAPT PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH GSK3B",
"confidence": 0.999
},
{
"source_db":... | {
"gene_a": "TUBA4A",
"gene_b": "AKAP11",
"path_length": 3
} | 0.940917 |
co_path_00044 | path_traversal | coding_variant | medium | 3 | What is the shortest molecular path from FOLH1 to CFAP410 through known protein interactions and pathway memberships? | FOLH1 GENE_ANNOTATED_WITH_GO_TERM metal ion binding -> NEK1 GENE_ANNOTATED_WITH_GO_TERM metal ion binding -> NEK1 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH CFAP410 | {
"steps": [
{
"hop": 1,
"source_node_id": "FOLH1",
"source_node_type": "GENE",
"source_node_label": "FOLH1",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "IEA:UniProtKB-KW",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"target_node... | FOLH1 -> metal ion binding -> NEK1 -> CFAP410 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "FOLH1",
"source_db": "UniProt",
"payload": {
"accession": "Q04609",
"sequence": "MWNLLHETDSAVATARRPRWLCAGALVLAGGFFLLGFLFGWFIKSSNEATNITPKHNMKAFLDELKAENIKKFLYNFTQIPHLAGTEQNFQLAKQIQSQWKEFGLDSVELAHYDVLLSYPNKTHPNYISIINE... | [
{
"source_db": "GO",
"source_id": "GO:0046872",
"text": "FOLH1 GENE_ANNOTATED_WITH_GO_TERM metal ion binding",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "NEK1",
"text": "NEK1 GENE_ANNOTATED_WITH_GO_TERM metal ion binding",
"confidence": 0.6
},
{
"source_db": ... | {
"gene_a": "FOLH1",
"gene_b": "CFAP410",
"path_length": 3
} | 0.707085 |
co_path_00045 | path_traversal | coding_variant | easy | 2 | What is the shortest molecular path from ACVR1 to IL17A through known protein interactions and pathway memberships? | ACVR1 GENE_ANNOTATED_WITH_GO_TERM protein homodimerization activity -> IL17A GENE_ANNOTATED_WITH_GO_TERM protein homodimerization activity | {
"steps": [
{
"hop": 1,
"source_node_id": "ACVR1",
"source_node_type": "GENE",
"source_node_label": "ACVR1",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "IDA:BHF-UCL",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"target_node_id":... | ACVR1 -> protein homodimerization activity -> IL17A | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "ACVR1",
"source_db": "UniProt",
"payload": {
"accession": "Q04771",
"sequence": "MVDGVMILPVLIMIALPSPSMEDEKPKVNPKLYMCVCEGLSCGNEDHCEGQQCFSSLSINDGFHVYQKGCFQVYEQGKMTCKTPPSPGQAVECCQGDWCNRNITAQLPTKGKSFPGTQNFHLEVGLIILSVVF... | [
{
"source_db": "GO",
"source_id": "GO:0042803",
"text": "ACVR1 GENE_ANNOTATED_WITH_GO_TERM protein homodimerization activity",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "IL17A",
"text": "IL17A GENE_ANNOTATED_WITH_GO_TERM protein homodimerization activity",
"confidenc... | {
"gene_a": "ACVR1",
"gene_b": "IL17A",
"path_length": 2
} | 0.6 |
co_path_00046 | path_traversal | coding_variant | easy | 2 | What is the shortest molecular path from RXRA to ASXL1 through known protein interactions and pathway memberships? | RXRA GENE_ANNOTATED_WITH_GO_TERM zinc ion binding -> ASXL1 GENE_ANNOTATED_WITH_GO_TERM zinc ion binding | {
"steps": [
{
"hop": 1,
"source_node_id": "RXRA",
"source_node_type": "GENE",
"source_node_label": "RXRA",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "IDA:CAFA",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"target_node_id": "GO:... | RXRA -> zinc ion binding -> ASXL1 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "RXRA",
"source_db": "UniProt",
"payload": {
"accession": "P19793",
"sequence": "MDTKHFLPLDFSTQVNSSLTSPTGRGSMAAPSLHPSLGPGIGSPGQLHSPISTLSSPINGMGPPFSVISSPMGPHSMSVPTTPTLGFSTGSPQLSSPMNPVSSSEDIKPPLGLNGVLKVPAHPSGNMASFTKHI... | [
{
"source_db": "GO",
"source_id": "GO:0008270",
"text": "RXRA GENE_ANNOTATED_WITH_GO_TERM zinc ion binding",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "ASXL1",
"text": "ASXL1 GENE_ANNOTATED_WITH_GO_TERM zinc ion binding",
"confidence": 0.6
}
] | {
"gene_a": "RXRA",
"gene_b": "ASXL1",
"path_length": 2
} | 0.6 |
co_path_00047 | path_traversal | coding_variant | hard | 4 | What is the shortest molecular path from BRCA2 to CD33 through known protein interactions and pathway memberships? | BRCA2 GENE_ANNOTATED_WITH_GO_TERM positive regulation of DNA-templated transcription -> PSEN1 GENE_ANNOTATED_WITH_GO_TERM positive regulation of DNA-templated transcription -> PSEN1 GENE_PARTICIPATES_IN_PATHWAY Neutrophil degranulation -> CD33 GENE_PARTICIPATES_IN_PATHWAY Neutrophil degranulation | {
"steps": [
{
"hop": 1,
"source_node_id": "BRCA2",
"source_node_type": "GENE",
"source_node_label": "BRCA2",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "IDA:UniProtKB",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"target_node_id... | BRCA2 -> positive regulation of DNA-templated transcription -> PSEN1 -> Neutrophil degranulation -> CD33 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "BRCA2",
"source_db": "UniProt",
"payload": {
"accession": "P51587",
"sequence": "MPIGSKERPTFFEIFKTRCNKADLGPISLNWFEELSSEAPPYNSEPAEESEHKNNNYEPNLFKTPQRKPSYNQLASTPIIFKEQGLTLPLYQSPVKELDKFKLDLGRNVPNSRHKSLRTVKTKMDQADDVSCP... | [
{
"source_db": "GO",
"source_id": "GO:0045893",
"text": "BRCA2 GENE_ANNOTATED_WITH_GO_TERM positive regulation of DNA-templated transcription",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "PSEN1",
"text": "PSEN1 GENE_ANNOTATED_WITH_GO_TERM positive regulation of DNA-templa... | {
"gene_a": "BRCA2",
"gene_b": "CD33",
"path_length": 4
} | 0.774597 |
co_path_00048 | path_traversal | coding_variant | easy | 2 | What is the shortest molecular path from ABI1 to NRAS through known protein interactions and pathway memberships? | ABI1 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH SOS1 -> NRAS PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH SOS1 | {
"steps": [
{
"hop": 1,
"source_node_id": "ABI1",
"source_node_type": "GENE",
"source_node_label": "ABI1",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.998,
"edge_source_db": "STRING",
"t... | ABI1 -> SOS1 -> NRAS | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "ABI1",
"source_db": "UniProt",
"payload": {
"accession": "Q8IZP0",
"sequence": "MAELQMLLEEEIPSGKRALIESYQNLTRVADYCENNYIQATDKRKALEETKAYTTQSLASVAYQINALANNVLQLLDIQASQLRRMESSINHISQTVDIHKEKVARREIGILTTNKNTSRTHKIIAPANMERPV... | [
{
"source_db": "STRING",
"source_id": "SOS1",
"text": "ABI1 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH SOS1",
"confidence": 0.998
},
{
"source_db": "STRING",
"source_id": "NRAS",
"text": "NRAS PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH SOS1",
"confidence": 0.992
}
] | {
"gene_a": "ABI1",
"gene_b": "NRAS",
"path_length": 2
} | 0.994995 |
co_path_00049 | path_traversal | coding_variant | hard | 4 | What is the shortest molecular path from ADM to RET through known protein interactions and pathway memberships? | ADM GENE_PARTICIPATES_IN_PATHWAY High laminar flow shear stress activates signaling by PIEZO1 and PECAM1:CDH5:KDR in endothelial cells -> AKT1 GENE_PARTICIPATES_IN_PATHWAY High laminar flow shear stress activates signaling by PIEZO1 and PECAM1:CDH5:KDR in endothelial cells -> AKT1 GENE_ANNOTATED_WITH_GO_TERM ATP bindin... | {
"steps": [
{
"hop": 1,
"source_node_id": "ADM",
"source_node_type": "GENE",
"source_node_label": "ADM",
"edge_relation": "GENE_PARTICIPATES_IN_PATHWAY",
"edge_evidence_type": "curated",
"edge_confidence": 1,
"edge_source_db": "Reactome",
"target_node_id": "R... | ADM -> High laminar flow shear stress activates signaling by PIEZO1 and PECAM1:CDH5:KDR in endothelial cells -> AKT1 -> ATP binding -> RET | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "ADM",
"source_db": "UniProt",
"payload": {
"accession": "P35318",
"sequence": "MKLVSVALMYLGSLAFLGADTARLDVASEFRKKWNKWALSRGKRELRMSSSYPTGLADVKAGPAQTLIRPQDMKGASRSPEDSSPDAARIRVKRYRQSMNNFQGLRSFGCRFGTCTVQKLAHQIYQFTDKDKDNV... | [
{
"source_db": "Reactome",
"source_id": "R-HSA-9856530",
"text": "ADM GENE_PARTICIPATES_IN_PATHWAY High laminar flow shear stress activates signaling by PIEZO1 and PECAM1:CDH5:KDR in endothelial cells",
"confidence": 1
},
{
"source_db": "Reactome",
"source_id": "AKT1",
"text": "AKT1 ... | {
"gene_a": "ADM",
"gene_b": "RET",
"path_length": 4
} | 0.774597 |
co_path_00050 | path_traversal | coding_variant | easy | 2 | What is the shortest molecular path from NOTCH1 to NLRP3 through known protein interactions and pathway memberships? | NOTCH1 GENE_ANNOTATED_WITH_GO_TERM DNA-templated transcription -> NLRP3 GENE_ANNOTATED_WITH_GO_TERM DNA-templated transcription | {
"steps": [
{
"hop": 1,
"source_node_id": "NOTCH1",
"source_node_type": "GENE",
"source_node_label": "NOTCH1",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "IEA:UniProtKB-KW",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"target_no... | NOTCH1 -> DNA-templated transcription -> NLRP3 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "NOTCH1",
"source_db": "UniProt",
"payload": {
"accession": "P46531",
"sequence": "MPPLLAPLLCLALLPALAARGPRCSQPGETCLNGGKCEAANGTEACVCGGAFVGPRCQDPNPCLSTPCKNAGTCHVVDRRGVADYACSCALGFSGPLCLTPLDNACLTNPCRNGGTCDLLTLTEYKCRCPPG... | [
{
"source_db": "GO",
"source_id": "GO:0006351",
"text": "NOTCH1 GENE_ANNOTATED_WITH_GO_TERM DNA-templated transcription",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "NLRP3",
"text": "NLRP3 GENE_ANNOTATED_WITH_GO_TERM DNA-templated transcription",
"confidence": 0.6
}... | {
"gene_a": "NOTCH1",
"gene_b": "NLRP3",
"path_length": 2
} | 0.6 |
co_path_00051 | path_traversal | coding_variant | medium | 3 | What is the shortest molecular path from SLC18A2 to REST through known protein interactions and pathway memberships? | SLC18A2 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH SNCA -> SNCA GENE_ANNOTATED_WITH_GO_TERM transcription cis-regulatory region binding -> REST GENE_ANNOTATED_WITH_GO_TERM transcription cis-regulatory region binding | {
"steps": [
{
"hop": 1,
"source_node_id": "SLC18A2",
"source_node_type": "GENE",
"source_node_label": "SLC18A2",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.979,
"edge_source_db": "STRING",
... | SLC18A2 -> SNCA -> transcription cis-regulatory region binding -> REST | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "SLC18A2",
"source_db": "UniProt",
"payload": {
"accession": "Q05940",
"sequence": "MALSELALVRWLQESRRSRKLILFIVFLALLLDNMLLTVVVPIIPSYLYSIKHEKNATEIQTARPVHTASISDSFQSIFSYYDNSTMVTGNATRDLTLHQTATQHMVTNASAVPSDCPSEDKDLLNENVQV... | [
{
"source_db": "STRING",
"source_id": "SNCA",
"text": "SLC18A2 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH SNCA",
"confidence": 0.979
},
{
"source_db": "GO",
"source_id": "GO:0000976",
"text": "SNCA GENE_ANNOTATED_WITH_GO_TERM transcription cis-regulatory region binding",
"confidence": ... | {
"gene_a": "SLC18A2",
"gene_b": "REST",
"path_length": 3
} | 0.706364 |
co_path_00052 | path_traversal | coding_variant | medium | 3 | What is the shortest molecular path from BRCA1 to PPP1R1B through known protein interactions and pathway memberships? | BRCA1 PROTEIN_MEMBER_OF_COMPLEX ASH1L / ASIC1 / ASIC2 / BRCA1... -> PRKACA PROTEIN_MEMBER_OF_COMPLEX ASH1L / ASIC1 / ASIC2 / BRCA1... -> PPP1R1B PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH PRKACA | {
"steps": [
{
"hop": 1,
"source_node_id": "BRCA1",
"source_node_type": "GENE",
"source_node_label": "BRCA1",
"edge_relation": "PROTEIN_MEMBER_OF_COMPLEX",
"edge_evidence_type": "curated",
"edge_confidence": 1,
"edge_source_db": "OmniPath",
"target_node_id": "... | BRCA1 -> ASH1L / ASIC1 / ASIC2 / BRCA1... -> PRKACA -> PPP1R1B | null | [
"expression",
"intercell_role",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "BRCA1",
"source_db": "UniProt",
"payload": {
"accession": "P38398",
"sequence": "MDLSALRVEEVQNVINAMQKILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQESTRFSQLVEELLKIICAFQLDTGLEYANSYNFAKKENNSPEHLKDEVSIIQSMGYRNR... | [
{
"source_db": "OmniPath",
"source_id": "Compleat:HC4402",
"text": "BRCA1 PROTEIN_MEMBER_OF_COMPLEX ASH1L / ASIC1 / ASIC2 / BRCA1...",
"confidence": 1
},
{
"source_db": "OmniPath",
"source_id": "PRKACA",
"text": "PRKACA PROTEIN_MEMBER_OF_COMPLEX ASH1L / ASIC1 / ASIC2 / BRCA1...",
... | {
"gene_a": "BRCA1",
"gene_b": "PPP1R1B",
"path_length": 3
} | 0.987853 |
co_path_00053 | path_traversal | coding_variant | hard | 4 | What is the shortest molecular path from ATP6V1C1 to ANG through known protein interactions and pathway memberships? | ATP6V1C1 GENE_PARTICIPATES_IN_PATHWAY Amino acids regulate mTORC1 -> MTOR GENE_PARTICIPATES_IN_PATHWAY Amino acids regulate mTORC1 -> MTOR GENE_ANNOTATED_WITH_GO_TERM ribosome binding -> ANG GENE_ANNOTATED_WITH_GO_TERM ribosome binding | {
"steps": [
{
"hop": 1,
"source_node_id": "ATP6V1C1",
"source_node_type": "GENE",
"source_node_label": "ATP6V1C1",
"edge_relation": "GENE_PARTICIPATES_IN_PATHWAY",
"edge_evidence_type": "curated",
"edge_confidence": 1,
"edge_source_db": "Reactome",
"target_no... | ATP6V1C1 -> Amino acids regulate mTORC1 -> MTOR -> ribosome binding -> ANG | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "ATP6V1C1",
"source_db": "UniProt",
"payload": {
"accession": "P21283",
"sequence": "MTEFWLISAPGEKTCQQTWEKLHAATSKNNNLAVTSKFNIPDLKVGTLDVLVGLSDELAKLDAFVEGVVKKVAQYMADVLEDSKDKVQENLLANGVDLVTYITRFQWDMAKYPIKQSLKNISEIIAKGVT... | [
{
"source_db": "Reactome",
"source_id": "R-HSA-9639288",
"text": "ATP6V1C1 GENE_PARTICIPATES_IN_PATHWAY Amino acids regulate mTORC1",
"confidence": 1
},
{
"source_db": "Reactome",
"source_id": "MTOR",
"text": "MTOR GENE_PARTICIPATES_IN_PATHWAY Amino acids regulate mTORC1",
"confi... | {
"gene_a": "ATP6V1C1",
"gene_b": "ANG",
"path_length": 4
} | 0.774597 |
co_path_00054 | path_traversal | coding_variant | easy | 2 | What is the shortest molecular path from CDK1 to APC through known protein interactions and pathway memberships? | CDK1 GENE_PARTICIPATES_IN_PATHWAY Ovarian tumor domain proteases -> APC GENE_PARTICIPATES_IN_PATHWAY Ovarian tumor domain proteases | {
"steps": [
{
"hop": 1,
"source_node_id": "CDK1",
"source_node_type": "GENE",
"source_node_label": "CDK1",
"edge_relation": "GENE_PARTICIPATES_IN_PATHWAY",
"edge_evidence_type": "curated",
"edge_confidence": 1,
"edge_source_db": "Reactome",
"target_node_id": ... | CDK1 -> Ovarian tumor domain proteases -> APC | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "CDK1",
"source_db": "UniProt",
"payload": {
"accession": "P06493",
"sequence": "MEDYTKIEKIGEGTYGVVYKGRHKTTGQVVAMKKIRLESEEEGVPSTAIREISLLKELRHPNIVSLQDVLMQDSRLYLIFEFLSMDLKKYLDSIPPGQYMDSSLVKSYLYQILQGIVFCHSRRVLHRDLKPQNL... | [
{
"source_db": "Reactome",
"source_id": "R-HSA-5689896",
"text": "CDK1 GENE_PARTICIPATES_IN_PATHWAY Ovarian tumor domain proteases",
"confidence": 1
},
{
"source_db": "Reactome",
"source_id": "APC",
"text": "APC GENE_PARTICIPATES_IN_PATHWAY Ovarian tumor domain proteases",
"confi... | {
"gene_a": "CDK1",
"gene_b": "APC",
"path_length": 2
} | 1 |
co_path_00055 | path_traversal | coding_variant | medium | 3 | What is the shortest molecular path from UBQLN2 to IGFBP3 through known protein interactions and pathway memberships? | UBQLN2 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH TARDBP -> TARDBP GENE_ANNOTATED_WITH_GO_TERM negative regulation of protein phosphorylation -> IGFBP3 GENE_ANNOTATED_WITH_GO_TERM negative regulation of protein phosphorylation | {
"steps": [
{
"hop": 1,
"source_node_id": "UBQLN2",
"source_node_type": "GENE",
"source_node_label": "UBQLN2",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.968,
"edge_source_db": "STRING",
... | UBQLN2 -> TARDBP -> negative regulation of protein phosphorylation -> IGFBP3 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "UBQLN2",
"source_db": "UniProt",
"payload": {
"accession": "Q9UHD9",
"sequence": "MAENGESSGPPRPSRGPAAAQGSAAAPAEPKIIKVTVKTPKEKEEFAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILKDQDTLIQHGIHDGLTVHLVIKSQNRPQGQSTQPSNAAGTNTTSASTPRSN... | [
{
"source_db": "STRING",
"source_id": "TARDBP",
"text": "UBQLN2 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH TARDBP",
"confidence": 0.968
},
{
"source_db": "GO",
"source_id": "GO:0001933",
"text": "TARDBP GENE_ANNOTATED_WITH_GO_TERM negative regulation of protein phosphorylation",
"confi... | {
"gene_a": "UBQLN2",
"gene_b": "IGFBP3",
"path_length": 3
} | 0.703708 |
co_path_00056 | path_traversal | coding_variant | easy | 2 | What is the shortest molecular path from CAMLG to TP53 through known protein interactions and pathway memberships? | CAMLG GENE_ANNOTATED_WITH_GO_TERM ubiquitin protein ligase binding -> TP53 GENE_ANNOTATED_WITH_GO_TERM ubiquitin protein ligase binding | {
"steps": [
{
"hop": 1,
"source_node_id": "CAMLG",
"source_node_type": "GENE",
"source_node_label": "CAMLG",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "IPI:UniProtKB",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"target_node_id... | CAMLG -> ubiquitin protein ligase binding -> TP53 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "CAMLG",
"source_db": "UniProt",
"payload": {
"accession": "P49069",
"sequence": "MESMAVATDGGERPGVPAGSGLSASQRRAELRRRKLLMNSEQRINRIMGFHRPGSGAEEESQTKSKQQDSDKLNSLSVPSVSKRVVLGDSVSTGTTDQQGGVAEVKGTQLGDKLDSFIKPPECSSDVNLELRQ... | [
{
"source_db": "GO",
"source_id": "GO:0031625",
"text": "CAMLG GENE_ANNOTATED_WITH_GO_TERM ubiquitin protein ligase binding",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "TP53",
"text": "TP53 GENE_ANNOTATED_WITH_GO_TERM ubiquitin protein ligase binding",
"confidence": ... | {
"gene_a": "CAMLG",
"gene_b": "TP53",
"path_length": 2
} | 0.6 |
co_path_00057 | path_traversal | coding_variant | medium | 3 | What is the shortest molecular path from ADRB1 to CDKN2A through known protein interactions and pathway memberships? | ADRB1 GENE_ANNOTATED_WITH_GO_TERM protein heterodimerization activity -> TP53 GENE_ANNOTATED_WITH_GO_TERM protein heterodimerization activity -> CDKN2A PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH TP53 | {
"steps": [
{
"hop": 1,
"source_node_id": "ADRB1",
"source_node_type": "GENE",
"source_node_label": "ADRB1",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "IPI:BHF-UCL",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"target_node_id":... | ADRB1 -> protein heterodimerization activity -> TP53 -> CDKN2A | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "ADRB1",
"source_db": "UniProt",
"payload": {
"accession": "P08588",
"sequence": "MGAGVLVLGASEPGNLSSAAPLPDGAATAARLLVPASPPASLLPPASESPEPLSQQWTAGMGLLMALIVLLIVAGNVLVIVAIAKTPRLQTLTNLFIMSLASADLVMGLLVVPFGATIVVWGRWEYGSFFCEL... | [
{
"source_db": "GO",
"source_id": "GO:0046982",
"text": "ADRB1 GENE_ANNOTATED_WITH_GO_TERM protein heterodimerization activity",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "TP53",
"text": "TP53 GENE_ANNOTATED_WITH_GO_TERM protein heterodimerization activity",
"confide... | {
"gene_a": "ADRB1",
"gene_b": "CDKN2A",
"path_length": 3
} | 0.711141 |
co_path_00058 | path_traversal | coding_variant | medium | 3 | What is the shortest molecular path from CDC25B to SOX2 through known protein interactions and pathway memberships? | CDC25B GENE_PARTICIPATES_IN_PATHWAY Regulation of MITF-M-dependent genes involved in cell cycle and proliferation -> CTNNB1 GENE_PARTICIPATES_IN_PATHWAY Regulation of MITF-M-dependent genes involved in cell cycle and proliferation -> SOX2 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH CTNNB1 | {
"steps": [
{
"hop": 1,
"source_node_id": "CDC25B",
"source_node_type": "GENE",
"source_node_label": "CDC25B",
"edge_relation": "GENE_PARTICIPATES_IN_PATHWAY",
"edge_evidence_type": "curated",
"edge_confidence": 1,
"edge_source_db": "Reactome",
"target_node_i... | CDC25B -> Regulation of MITF-M-dependent genes involved in cell cycle and proliferation -> CTNNB1 -> SOX2 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "CDC25B",
"source_db": "UniProt",
"payload": {
"accession": "P30305",
"sequence": "MEVPQPEPAPGSALSPAGVCGGAQRPGHLPGLLLGSHGLLGSPVRAAASSPVTTLTQTMHDLAGLGSETPKSQVGTLLFRSRSRLTHLSLSRRASESSLSSESSESSDAGLCMDSPSPMDPHMAEQTFEQAI... | [
{
"source_db": "Reactome",
"source_id": "R-HSA-9825892",
"text": "CDC25B GENE_PARTICIPATES_IN_PATHWAY Regulation of MITF-M-dependent genes involved in cell cycle and proliferation",
"confidence": 1
},
{
"source_db": "Reactome",
"source_id": "CTNNB1",
"text": "CTNNB1 GENE_PARTICIPATES... | {
"gene_a": "CDC25B",
"gene_b": "SOX2",
"path_length": 3
} | 0.996991 |
co_path_00059 | path_traversal | coding_variant | medium | 3 | What is the shortest molecular path from AXIN2 to PFN1 through known protein interactions and pathway memberships? | AXIN2 GENE_ANNOTATED_WITH_GO_TERM protein kinase binding -> ACTB GENE_ANNOTATED_WITH_GO_TERM protein kinase binding -> ACTB PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH PFN1 | {
"steps": [
{
"hop": 1,
"source_node_id": "AXIN2",
"source_node_type": "GENE",
"source_node_label": "AXIN2",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "IBA:GO_Central",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"target_node_i... | AXIN2 -> protein kinase binding -> ACTB -> PFN1 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "AXIN2",
"source_db": "UniProt",
"payload": {
"accession": "Q9Y2T1",
"sequence": "MSSAMLVTCLPDPSSSFREDAPRPPVPGEEGETPPCQPGVGKGQVTKPMPVSSNTRRNEDGLGEPEGRASPDSPLTRWTKSLHSLLGDQDGAYLFRTFLEREKCVDTLDFWFACNGFRQMNLKDTKTLRVAKA... | [
{
"source_db": "GO",
"source_id": "GO:0019901",
"text": "AXIN2 GENE_ANNOTATED_WITH_GO_TERM protein kinase binding",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "ACTB",
"text": "ACTB GENE_ANNOTATED_WITH_GO_TERM protein kinase binding",
"confidence": 0.6
},
{
"so... | {
"gene_a": "AXIN2",
"gene_b": "PFN1",
"path_length": 3
} | 0.711141 |
co_path_00060 | path_traversal | coding_variant | medium | 3 | What is the shortest molecular path from AR to BRIP1 through known protein interactions and pathway memberships? | AR GENE_ANNOTATED_WITH_GO_TERM transcription cis-regulatory region binding -> BRCA1 GENE_ANNOTATED_WITH_GO_TERM transcription cis-regulatory region binding -> BRIP1 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH BRCA1 | {
"steps": [
{
"hop": 1,
"source_node_id": "AR",
"source_node_type": "GENE",
"source_node_label": "AR",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "IDA:UniProtKB",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"target_node_id": "GO... | AR -> transcription cis-regulatory region binding -> BRCA1 -> BRIP1 | null | [
"expression",
"intercell_role",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "AR",
"source_db": "UniProt",
"payload": {
"accession": "P10275",
"sequence": "MEVQLGLGRVYPRPPSKTYRGAFQNLFQSVREVIQNPGPRHPEAASAAPPGASLLLLQQQQQQQQQQQQQQQQQQQQQQQETSPRQQQQQQGEDGSPQAHRRGPTGYLVLDEEQQPSQPQSALECHPERGCVPEPG... | [
{
"source_db": "GO",
"source_id": "GO:0000976",
"text": "AR GENE_ANNOTATED_WITH_GO_TERM transcription cis-regulatory region binding",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "BRCA1",
"text": "BRCA1 GENE_ANNOTATED_WITH_GO_TERM transcription cis-regulatory region binding... | {
"gene_a": "AR",
"gene_b": "BRIP1",
"path_length": 3
} | 0.711141 |
co_path_00061 | path_traversal | coding_variant | easy | 2 | What is the shortest molecular path from LEPR to AXL through known protein interactions and pathway memberships? | LEPR PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH JAK2 -> AXL PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH JAK2 | {
"steps": [
{
"hop": 1,
"source_node_id": "LEPR",
"source_node_type": "GENE",
"source_node_label": "LEPR",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.999,
"edge_source_db": "STRING",
"t... | LEPR -> JAK2 -> AXL | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "LEPR",
"source_db": "UniProt",
"payload": {
"accession": "P48357",
"sequence": "MICQKFCVVLLHWEFIYVITAFNLSYPITPWRFKLSCMPPNSTYDYFLLPAGLSKNTSNSNGHYETAVEPKFNSSGTHFSNLSKTTFHCCFRSEQDRNCSLCADNIEGKTFVSTVNSLVFQQIDANWNIQCWLK... | [
{
"source_db": "STRING",
"source_id": "JAK2",
"text": "LEPR PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH JAK2",
"confidence": 0.999
},
{
"source_db": "STRING",
"source_id": "AXL",
"text": "AXL PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH JAK2",
"confidence": 0.915
}
] | {
"gene_a": "LEPR",
"gene_b": "AXL",
"path_length": 2
} | 0.956078 |
co_path_00062 | path_traversal | coding_variant | hard | 4 | What is the shortest molecular path from PDE10A to ANG through known protein interactions and pathway memberships? | PDE10A GENE_PARTICIPATES_IN_PATHWAY G alpha (s) signalling events -> ADORA2A GENE_PARTICIPATES_IN_PATHWAY G alpha (s) signalling events -> ADORA2A GENE_ANNOTATED_WITH_GO_TERM positive regulation of protein secretion -> ANG GENE_ANNOTATED_WITH_GO_TERM positive regulation of protein secretion | {
"steps": [
{
"hop": 1,
"source_node_id": "PDE10A",
"source_node_type": "GENE",
"source_node_label": "PDE10A",
"edge_relation": "GENE_PARTICIPATES_IN_PATHWAY",
"edge_evidence_type": "curated",
"edge_confidence": 1,
"edge_source_db": "Reactome",
"target_node_i... | PDE10A -> G alpha (s) signalling events -> ADORA2A -> positive regulation of protein secretion -> ANG | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "PDE10A",
"source_db": "UniProt",
"payload": {
"accession": "Q9Y233",
"sequence": "MASLEEPLAPRPQGPLPAAGDEPGCGPGKLRPEPRLSAAGGGSAAGPGPAPEWPGRGRAERAAPPRPPLSSAGRPSPAGGPGALSARGGGCGWVAARAPLALAFSSRVPSSSPSFFYFWPPPPPPPPSFLPS... | [
{
"source_db": "Reactome",
"source_id": "R-HSA-418555",
"text": "PDE10A GENE_PARTICIPATES_IN_PATHWAY G alpha (s) signalling events",
"confidence": 1
},
{
"source_db": "Reactome",
"source_id": "ADORA2A",
"text": "ADORA2A GENE_PARTICIPATES_IN_PATHWAY G alpha (s) signalling events",
... | {
"gene_a": "PDE10A",
"gene_b": "ANG",
"path_length": 4
} | 0.774597 |
co_path_00063 | path_traversal | coding_variant | easy | 2 | What is the shortest molecular path from MSH2 to PSMA6 through known protein interactions and pathway memberships? | MSH2 GENE_ANNOTATED_WITH_GO_TERM DNA repair -> PSMA6 GENE_ANNOTATED_WITH_GO_TERM DNA repair | {
"steps": [
{
"hop": 1,
"source_node_id": "MSH2",
"source_node_type": "GENE",
"source_node_label": "MSH2",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "IDA:BHF-UCL",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"target_node_id": "... | MSH2 -> DNA repair -> PSMA6 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "MSH2",
"source_db": "UniProt",
"payload": {
"accession": "P43246",
"sequence": "MAVQPKETLQLESAAEVGFVRFFQGMPEKPTTTVRLFDRGDFYTAHGEDALLAAREVFKTQGVIKYMGPAGAKNLQSVVLSKMNFESFVKDLLLVRQYRVEVYKNRAGNKASKENDWYLAYKASPGNLSQFEDI... | [
{
"source_db": "GO",
"source_id": "GO:0006281",
"text": "MSH2 GENE_ANNOTATED_WITH_GO_TERM DNA repair",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "PSMA6",
"text": "PSMA6 GENE_ANNOTATED_WITH_GO_TERM DNA repair",
"confidence": 0.6
}
] | {
"gene_a": "MSH2",
"gene_b": "PSMA6",
"path_length": 2
} | 0.6 |
co_path_00064 | path_traversal | coding_variant | easy | 2 | What is the shortest molecular path from ALK to KIF5A through known protein interactions and pathway memberships? | ALK GENE_ANNOTATED_WITH_GO_TERM ATP binding -> KIF5A GENE_ANNOTATED_WITH_GO_TERM ATP binding | {
"steps": [
{
"hop": 1,
"source_node_id": "ALK",
"source_node_type": "GENE",
"source_node_label": "ALK",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "IEA:UniProtKB-KW",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"target_node_id"... | ALK -> ATP binding -> KIF5A | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "ALK",
"source_db": "UniProt",
"payload": {
"accession": "Q9UM73",
"sequence": "MGAIGLLWLLPLLLSTAAVGSGMGTGQRAGSPAAGPPLQPREPLSYSRLQRKSLAVDFVVPSLFRVYARDLLLPPSSSELKAGRPEARGSLALDCAPLLRLLGPAPGVSWTAGSPAPAEARTLSRVLKGGSVRKL... | [
{
"source_db": "GO",
"source_id": "GO:0005524",
"text": "ALK GENE_ANNOTATED_WITH_GO_TERM ATP binding",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "KIF5A",
"text": "KIF5A GENE_ANNOTATED_WITH_GO_TERM ATP binding",
"confidence": 0.6
}
] | {
"gene_a": "ALK",
"gene_b": "KIF5A",
"path_length": 2
} | 0.6 |
co_path_00065 | path_traversal | coding_variant | easy | 2 | What is the shortest molecular path from PALB2 to SETX through known protein interactions and pathway memberships? | PALB2 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH BRCA1 -> SETX PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH BRCA1 | {
"steps": [
{
"hop": 1,
"source_node_id": "PALB2",
"source_node_type": "GENE",
"source_node_label": "PALB2",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.999,
"edge_source_db": "STRING",
... | PALB2 -> BRCA1 -> SETX | null | [
"expression",
"intercell_role",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "PALB2",
"source_db": "UniProt",
"payload": {
"accession": "Q86YC2",
"sequence": "MDEPPGKPLSCEEKEKLKEKLAFLKREYSKTLARLQRAQRAEKIKHSIKKTVEEQDCLSQQDLSPQLKHSEPKNKICVYDKLHIKTHLDEETGEKTSITLDVGPESFNPGDGPGGLPIQRTDDTQEHFPHRVS... | [
{
"source_db": "STRING",
"source_id": "BRCA1",
"text": "PALB2 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH BRCA1",
"confidence": 0.999
},
{
"source_db": "STRING",
"source_id": "SETX",
"text": "SETX PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH BRCA1",
"confidence": 0.99
}
] | {
"gene_a": "PALB2",
"gene_b": "SETX",
"path_length": 2
} | 0.99449 |
co_path_00066 | path_traversal | coding_variant | easy | 2 | What is the shortest molecular path from CTNNA1 to TUBA4A through known protein interactions and pathway memberships? | CTNNA1 GENE_PARTICIPATES_IN_PATHWAY RHO GTPases activate IQGAPs -> TUBA4A GENE_PARTICIPATES_IN_PATHWAY RHO GTPases activate IQGAPs | {
"steps": [
{
"hop": 1,
"source_node_id": "CTNNA1",
"source_node_type": "GENE",
"source_node_label": "CTNNA1",
"edge_relation": "GENE_PARTICIPATES_IN_PATHWAY",
"edge_evidence_type": "curated",
"edge_confidence": 1,
"edge_source_db": "Reactome",
"target_node_i... | CTNNA1 -> RHO GTPases activate IQGAPs -> TUBA4A | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "CTNNA1",
"source_db": "UniProt",
"payload": {
"accession": "P35221",
"sequence": "MTAVHAGNINFKWDPKSLEIRTLAVERLLEPLVTQVTTLVNTNSKGPSNKKRGRSKKAHVLAASVEQATENFLEKGDKIAKESQFLKEELVAAVEDVRKQGDLMKAAAGEFADDPCSSVKRGNMVRAARALL... | [
{
"source_db": "Reactome",
"source_id": "R-HSA-5626467",
"text": "CTNNA1 GENE_PARTICIPATES_IN_PATHWAY RHO GTPases activate IQGAPs",
"confidence": 1
},
{
"source_db": "Reactome",
"source_id": "TUBA4A",
"text": "TUBA4A GENE_PARTICIPATES_IN_PATHWAY RHO GTPases activate IQGAPs",
"con... | {
"gene_a": "CTNNA1",
"gene_b": "TUBA4A",
"path_length": 2
} | 1 |
co_path_00067 | path_traversal | coding_variant | medium | 3 | What is the shortest molecular path from CDKN1A to ALB through known protein interactions and pathway memberships? | CDKN1A GENE_ANNOTATED_WITH_GO_TERM zinc ion binding -> ACE GENE_ANNOTATED_WITH_GO_TERM zinc ion binding -> ACE PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH ALB | {
"steps": [
{
"hop": 1,
"source_node_id": "CDKN1A",
"source_node_type": "GENE",
"source_node_label": "CDKN1A",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "IEA:UniProtKB-KW",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"target_no... | CDKN1A -> zinc ion binding -> ACE -> ALB | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "CDKN1A",
"source_db": "UniProt",
"payload": {
"accession": "P38936",
"sequence": "MSEPAGDVRQNPCGSKACRRLFGPVDSEQLSRDCDALMAGCIQEARERWNFDFVTETPLEGDFAWERVRGLGLPKLYLPTGPRRGRDELGGGRRPGTSPALLQGTAEEDHVDLSLSCTLVPRSGEQAEGSPG... | [
{
"source_db": "GO",
"source_id": "GO:0008270",
"text": "CDKN1A GENE_ANNOTATED_WITH_GO_TERM zinc ion binding",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "ACE",
"text": "ACE GENE_ANNOTATED_WITH_GO_TERM zinc ion binding",
"confidence": 0.6
},
{
"source_db": "ST... | {
"gene_a": "CDKN1A",
"gene_b": "ALB",
"path_length": 3
} | 0.689868 |
co_path_00068 | path_traversal | coding_variant | medium | 4 | What is the shortest molecular path from HGF to ZMYM3 through known protein interactions and pathway memberships? | HGF PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH MET -> MET PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH CBL -> CBL GENE_ANNOTATED_WITH_GO_TERM zinc ion binding -> ZMYM3 GENE_ANNOTATED_WITH_GO_TERM zinc ion binding | {
"steps": [
{
"hop": 1,
"source_node_id": "HGF",
"source_node_type": "GENE",
"source_node_label": "HGF",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.999,
"edge_source_db": "STRING",
"tar... | HGF -> MET -> CBL -> zinc ion binding -> ZMYM3 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "HGF",
"source_db": "UniProt",
"payload": {
"accession": "P14210",
"sequence": "MWVTKLLPALLLQHVLLHLLLLPIAIPYAEGQRKRRNTIHEFKKSAKTTLIKIDPALKIKTKKVNTADQCANRCTRNKGLPFTCKAFVFDKARKQCLWFPFNSMSSGVKKEFGHEFDLYENKDYIRNCIIGKGRS... | [
{
"source_db": "STRING",
"source_id": "MET",
"text": "HGF PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH MET",
"confidence": 0.999
},
{
"source_db": "STRING",
"source_id": "CBL",
"text": "MET PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH CBL",
"confidence": 0.999
},
{
"source_db": "GO",
... | {
"gene_a": "HGF",
"gene_b": "ZMYM3",
"path_length": 4
} | 0.774209 |
co_path_00069 | path_traversal | coding_variant | hard | 4 | What is the shortest molecular path from AFDN to FAP through known protein interactions and pathway memberships? | AFDN GENE_PARTICIPATES_IN_PATHWAY Adherens junctions interactions -> ACTB GENE_PARTICIPATES_IN_PATHWAY Adherens junctions interactions -> ACTB GENE_ANNOTATED_WITH_GO_TERM regulation of cell cycle -> FAP GENE_ANNOTATED_WITH_GO_TERM regulation of cell cycle | {
"steps": [
{
"hop": 1,
"source_node_id": "AFDN",
"source_node_type": "GENE",
"source_node_label": "AFDN",
"edge_relation": "GENE_PARTICIPATES_IN_PATHWAY",
"edge_evidence_type": "curated",
"edge_confidence": 1,
"edge_source_db": "Reactome",
"target_node_id": ... | AFDN -> Adherens junctions interactions -> ACTB -> regulation of cell cycle -> FAP | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "AFDN",
"source_db": "UniProt",
"payload": {
"accession": "P55196",
"sequence": "MSAGGRDEERRKLADIIHHWNANRLDLFEISQPTEDLEFHGVMRFYFQDKAAGNFATKCIRVSSTATTQDVIETLAEKFRPDMRMLSSPKYSLYEVHVSGERRLDIDEKPLVVQLNWNKDDREGRFVLKNENDA... | [
{
"source_db": "Reactome",
"source_id": "R-HSA-418990",
"text": "AFDN GENE_PARTICIPATES_IN_PATHWAY Adherens junctions interactions",
"confidence": 1
},
{
"source_db": "Reactome",
"source_id": "ACTB",
"text": "ACTB GENE_PARTICIPATES_IN_PATHWAY Adherens junctions interactions",
"co... | {
"gene_a": "AFDN",
"gene_b": "FAP",
"path_length": 4
} | 0.774597 |
co_path_00070 | path_traversal | coding_variant | medium | 4 | What is the shortest molecular path from ATXN2 to BLM through known protein interactions and pathway memberships? | ATXN2 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH TARDBP -> TARDBP PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH FUS -> FUS GENE_ANNOTATED_WITH_GO_TERM zinc ion binding -> BLM GENE_ANNOTATED_WITH_GO_TERM zinc ion binding | {
"steps": [
{
"hop": 1,
"source_node_id": "ATXN2",
"source_node_type": "GENE",
"source_node_label": "ATXN2",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.992,
"edge_source_db": "STRING",
... | ATXN2 -> TARDBP -> FUS -> zinc ion binding -> BLM | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "ATXN2",
"source_db": "UniProt",
"payload": {
"accession": "Q99700",
"sequence": "MRSAAAAPRSPAVATESRRFAAARWPGWRSLQRPARRSGRGGGGAAPGPYPSAAPPPPGPGPPPSRQSSPPSASDCFGSNGNGGGAFRPGSRRLLGLGGPPRPFVVLLLPLASPGAPPAAPTRASPLGARASP... | [
{
"source_db": "STRING",
"source_id": "TARDBP",
"text": "ATXN2 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH TARDBP",
"confidence": 0.992
},
{
"source_db": "STRING",
"source_id": "FUS",
"text": "TARDBP PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH FUS",
"confidence": 0.999
},
{
"source_db"... | {
"gene_a": "ATXN2",
"gene_b": "BLM",
"path_length": 4
} | 0.772849 |
co_path_00071 | path_traversal | coding_variant | medium | 3 | What is the shortest molecular path from IL22 to PINK1 through known protein interactions and pathway memberships? | IL22 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH IL17A -> IL17A GENE_ANNOTATED_WITH_GO_TERM positive regulation of transcription by RNA polymerase II -> PINK1 GENE_ANNOTATED_WITH_GO_TERM positive regulation of transcription by RNA polymerase II | {
"steps": [
{
"hop": 1,
"source_node_id": "IL22",
"source_node_type": "GENE",
"source_node_label": "IL22",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.976,
"edge_source_db": "STRING",
"t... | IL22 -> IL17A -> positive regulation of transcription by RNA polymerase II -> PINK1 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "IL22",
"source_db": "UniProt",
"payload": {
"accession": "Q9GZX6",
"sequence": "MAALQKSVSSFLMGTLATSCLLLLALLVQGGAAAPISSHCRLDKSNFQQPYITNRTFMLAKEASLADNNTDVRLIGEKLFHGVSMSERCYLMKQVLNFTLEEVLFPQSDRFQPYMQEVVPFLARLSNRLSTCHI... | [
{
"source_db": "STRING",
"source_id": "IL17A",
"text": "IL22 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH IL17A",
"confidence": 0.976
},
{
"source_db": "GO",
"source_id": "GO:0045944",
"text": "IL17A GENE_ANNOTATED_WITH_GO_TERM positive regulation of transcription by RNA polymerase II",
... | {
"gene_a": "IL22",
"gene_b": "PINK1",
"path_length": 3
} | 0.705641 |
co_path_00072 | path_traversal | coding_variant | easy | 2 | What is the shortest molecular path from SNCA to DNMT3A through known protein interactions and pathway memberships? | SNCA GENE_ANNOTATED_WITH_GO_TERM zinc ion binding -> DNMT3A GENE_ANNOTATED_WITH_GO_TERM zinc ion binding | {
"steps": [
{
"hop": 1,
"source_node_id": "SNCA",
"source_node_type": "GENE",
"source_node_label": "SNCA",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "IDA:UniProtKB",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"target_node_id":... | SNCA -> zinc ion binding -> DNMT3A | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "SNCA",
"source_db": "UniProt",
"payload": {
"accession": "P37840",
"sequence": "MDVFMKGLSKAKEGVVAAAEKTKQGVAEAAGKTKEGVLYVGSKTKEGVVHGVATVAEKTKEQVTNVGGAVVTGVTAVAQKTVEGAGSIAAATGFVKKDQLGKNEEGAPQEGILEDMPVDPDNEAYEMPSEEGYQ... | [
{
"source_db": "GO",
"source_id": "GO:0008270",
"text": "SNCA GENE_ANNOTATED_WITH_GO_TERM zinc ion binding",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "DNMT3A",
"text": "DNMT3A GENE_ANNOTATED_WITH_GO_TERM zinc ion binding",
"confidence": 0.6
}
] | {
"gene_a": "SNCA",
"gene_b": "DNMT3A",
"path_length": 2
} | 0.6 |
co_path_00073 | path_traversal | coding_variant | medium | 3 | What is the shortest molecular path from NLRP3 to FAT4 through known protein interactions and pathway memberships? | NLRP3 GENE_ANNOTATED_WITH_GO_TERM DNA-binding transcription factor binding -> CTNNB1 GENE_ANNOTATED_WITH_GO_TERM DNA-binding transcription factor binding -> FAT4 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH CTNNB1 | {
"steps": [
{
"hop": 1,
"source_node_id": "NLRP3",
"source_node_type": "GENE",
"source_node_label": "NLRP3",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "ISS:UniProtKB",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"target_node_id... | NLRP3 -> DNA-binding transcription factor binding -> CTNNB1 -> FAT4 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "NLRP3",
"source_db": "UniProt",
"payload": {
"accession": "Q96P20",
"sequence": "MKMASTRCKLARYLEDLEDVDLKKFKMHLEDYPPQKGCIPLPRGQTEKADHVDLATLMIDFNGEEKAWAMAVWIFAAINRRDLYEKAKRDEPKWGSDNARVSNPTVICQEDSIEEEWMGLLEYLSRISICKMK... | [
{
"source_db": "GO",
"source_id": "GO:0140297",
"text": "NLRP3 GENE_ANNOTATED_WITH_GO_TERM DNA-binding transcription factor binding",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "CTNNB1",
"text": "CTNNB1 GENE_ANNOTATED_WITH_GO_TERM DNA-binding transcription factor binding"... | {
"gene_a": "NLRP3",
"gene_b": "FAT4",
"path_length": 3
} | 0.655953 |
co_path_00074 | path_traversal | coding_variant | medium | 3 | What is the shortest molecular path from ADRA2C to KDM6A through known protein interactions and pathway memberships? | ADRA2C PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH SLC6A2 -> SLC6A2 GENE_ANNOTATED_WITH_GO_TERM metal ion binding -> KDM6A GENE_ANNOTATED_WITH_GO_TERM metal ion binding | {
"steps": [
{
"hop": 1,
"source_node_id": "ADRA2C",
"source_node_type": "GENE",
"source_node_label": "ADRA2C",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.718,
"edge_source_db": "STRING",
... | ADRA2C -> SLC6A2 -> metal ion binding -> KDM6A | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "ADRA2C",
"source_db": "UniProt",
"payload": {
"accession": "P18825",
"sequence": "MASPALAAALAVAAAAGPNASGAGERGSGGVANASGASWGPPRGQYSAGAVAGLAAVVGFLIVFTVVGNVLVVIAVLTSRALRAPQNLFLVSLASADILVATLVMPFSLANELMAYWYFGQVWCGVYLALDV... | [
{
"source_db": "STRING",
"source_id": "SLC6A2",
"text": "ADRA2C PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH SLC6A2",
"confidence": 0.718
},
{
"source_db": "GO",
"source_id": "GO:0046872",
"text": "SLC6A2 GENE_ANNOTATED_WITH_GO_TERM metal ion binding",
"confidence": 0.6
},
{
"sou... | {
"gene_a": "ADRA2C",
"gene_b": "KDM6A",
"path_length": 3
} | 0.637004 |
co_path_00075 | path_traversal | coding_variant | medium | 4 | What is the shortest molecular path from TARDBP to CD8A through known protein interactions and pathway memberships? | TARDBP PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH FUS -> FUS GENE_ANNOTATED_WITH_GO_TERM zinc ion binding -> CD4 GENE_ANNOTATED_WITH_GO_TERM zinc ion binding -> CD4 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH CD8A | {
"steps": [
{
"hop": 1,
"source_node_id": "TARDBP",
"source_node_type": "GENE",
"source_node_label": "TARDBP",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.999,
"edge_source_db": "STRING",
... | TARDBP -> FUS -> zinc ion binding -> CD4 -> CD8A | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "TARDBP",
"source_db": "UniProt",
"payload": {
"accession": "Q13148",
"sequence": "MSEYIRVTEDENDEPIEIPSEDDGTVLLSTVTAQFPGACGLRYRNPVSQCMRGVRLVEGILHAPDAGWGNLVYVVNYPKDNKRKMDETDASSAVKVKRAVQKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLM... | [
{
"source_db": "STRING",
"source_id": "FUS",
"text": "TARDBP PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH FUS",
"confidence": 0.999
},
{
"source_db": "GO",
"source_id": "GO:0008270",
"text": "FUS GENE_ANNOTATED_WITH_GO_TERM zinc ion binding",
"confidence": 0.6
},
{
"source_db": "... | {
"gene_a": "TARDBP",
"gene_b": "CD8A",
"path_length": 4
} | 0.774209 |
co_path_00076 | path_traversal | coding_variant | easy | 3 | What is the shortest molecular path from HTT to BRIP1 through known protein interactions and pathway memberships? | HTT PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH TP53 -> BRCA1 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH TP53 -> BRIP1 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH BRCA1 | {
"steps": [
{
"hop": 1,
"source_node_id": "HTT",
"source_node_type": "GENE",
"source_node_label": "HTT",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.998,
"edge_source_db": "STRING",
"tar... | HTT -> TP53 -> BRCA1 -> BRIP1 | null | [
"expression",
"intercell_role",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "HTT",
"source_db": "UniProt",
"payload": {
"accession": "P42858",
"sequence": "MATLEKLMKAFESLKSFQQQQQQQQQQQQQQQQQQQQQPPPPPPPPPPPQLPQPPPQAQPLLPQPQPPPPPPPPPPGPAVAEEPLHRPKKELSATKKDRVNHCLTICENIVAQSVRNSPEFQKLLGIAMELFLLC... | [
{
"source_db": "STRING",
"source_id": "TP53",
"text": "HTT PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH TP53",
"confidence": 0.998
},
{
"source_db": "STRING",
"source_id": "BRCA1",
"text": "BRCA1 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH TP53",
"confidence": 0.999
},
{
"source_db": "S... | {
"gene_a": "HTT",
"gene_b": "BRIP1",
"path_length": 3
} | 0.998667 |
co_path_00077 | path_traversal | coding_variant | medium | 3 | What is the shortest molecular path from ETV1 to AURKB through known protein interactions and pathway memberships? | ETV1 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH AR -> AR GENE_ANNOTATED_WITH_GO_TERM negative regulation of transcription by RNA polymerase II -> AURKB GENE_ANNOTATED_WITH_GO_TERM negative regulation of transcription by RNA polymerase II | {
"steps": [
{
"hop": 1,
"source_node_id": "ETV1",
"source_node_type": "GENE",
"source_node_label": "ETV1",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.884,
"edge_source_db": "STRING",
"t... | ETV1 -> AR -> negative regulation of transcription by RNA polymerase II -> AURKB | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "ETV1",
"source_db": "UniProt",
"payload": {
"accession": "P50549",
"sequence": "MDGFYDQQVPYMVTNSQRGRNCNEKPTNVRKRKFINRDLAHDSEELFQDLSQLQETWLAEAQVPDNDEQFVPDYQAESLAFHGLPLKIKKEPHSPCSEISSACSQEQPFKFSYGEKCLYNVSAYDQKPQVGMRP... | [
{
"source_db": "STRING",
"source_id": "AR",
"text": "ETV1 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH AR",
"confidence": 0.884
},
{
"source_db": "GO",
"source_id": "GO:0000122",
"text": "AR GENE_ANNOTATED_WITH_GO_TERM negative regulation of transcription by RNA polymerase II",
"confiden... | {
"gene_a": "ETV1",
"gene_b": "AURKB",
"path_length": 3
} | 0.682734 |
co_path_00078 | path_traversal | coding_variant | medium | 3 | What is the shortest molecular path from CD2AP to RET through known protein interactions and pathway memberships? | ABCA7 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH CD2AP -> ABCA7 GENE_ANNOTATED_WITH_GO_TERM ATP binding -> RET GENE_ANNOTATED_WITH_GO_TERM ATP binding | {
"steps": [
{
"hop": 1,
"source_node_id": "CD2AP",
"source_node_type": "GENE",
"source_node_label": "CD2AP",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.883,
"edge_source_db": "STRING",
... | CD2AP -> ABCA7 -> ATP binding -> RET | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "CD2AP",
"source_db": "UniProt",
"payload": {
"accession": "Q9Y5K6",
"sequence": "MVDYIVEYDYDAVHDDELTIRVGEIIRNVKKLQEEGWLEGELNGRRGMFPDNFVKEIKRETEFKDDSLPIKRERHGNVASLVQRISTYGLPAGGIQPHPQTKNIKKKTKKRQCKVLFEYIPQNEDELELKVGD... | [
{
"source_db": "STRING",
"source_id": "ABCA7",
"text": "ABCA7 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH CD2AP",
"confidence": 0.883
},
{
"source_db": "GO",
"source_id": "GO:0005524",
"text": "ABCA7 GENE_ANNOTATED_WITH_GO_TERM ATP binding",
"confidence": 0.6
},
{
"source_db": "... | {
"gene_a": "CD2AP",
"gene_b": "RET",
"path_length": 3
} | 0.682477 |
co_path_00079 | path_traversal | coding_variant | medium | 4 | What is the shortest molecular path from FLT3 to CA9 through known protein interactions and pathway memberships? | FLT3 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH CEBPA -> CEBPA PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH CDKN1A -> CDKN1A GENE_ANNOTATED_WITH_GO_TERM zinc ion binding -> CA9 GENE_ANNOTATED_WITH_GO_TERM zinc ion binding | {
"steps": [
{
"hop": 1,
"source_node_id": "FLT3",
"source_node_type": "GENE",
"source_node_label": "FLT3",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.981,
"edge_source_db": "STRING",
"t... | FLT3 -> CEBPA -> CDKN1A -> zinc ion binding -> CA9 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "FLT3",
"source_db": "UniProt",
"payload": {
"accession": "P36888",
"sequence": "MPALARDGGQLPLLVVFSAMIFGTITNQDLPVIKCVLINHKNNDSSVGKSSSYPMVSESPEDLGCALRPQSSGTVYEAAAVEVDVSASITLQVLVDAPGNISCLWVFKHSSLNCQPHFDLQNRGVVSMVILKMT... | [
{
"source_db": "STRING",
"source_id": "CEBPA",
"text": "FLT3 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH CEBPA",
"confidence": 0.981
},
{
"source_db": "STRING",
"source_id": "CDKN1A",
"text": "CEBPA PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH CDKN1A",
"confidence": 0.956
},
{
"source_d... | {
"gene_a": "FLT3",
"gene_b": "CA9",
"path_length": 4
} | 0.762267 |
co_path_00080 | path_traversal | coding_variant | easy | 2 | What is the shortest molecular path from CD33 to CSF1R through known protein interactions and pathway memberships? | CD33 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH TYROBP -> CSF1R PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH TYROBP | {
"steps": [
{
"hop": 1,
"source_node_id": "CD33",
"source_node_type": "GENE",
"source_node_label": "CD33",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.897,
"edge_source_db": "STRING",
"t... | CD33 -> TYROBP -> CSF1R | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "CD33",
"source_db": "UniProt",
"payload": {
"accession": "P20138",
"sequence": "MPLLLLLPLLWAGALAMDPNFWLQVQESVTVQEGLCVLVPCTFFHPIPYYDKNSPVHGYWFREGAIISRDSPVATNKLDQEVQEETQGRFRLLGDPSRNNCSLSIVDARRRDNGSYFFRMERGSTKYSYKSPQL... | [
{
"source_db": "STRING",
"source_id": "TYROBP",
"text": "CD33 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH TYROBP",
"confidence": 0.897
},
{
"source_db": "STRING",
"source_id": "CSF1R",
"text": "CSF1R PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH TYROBP",
"confidence": 0.962
}
] | {
"gene_a": "CD33",
"gene_b": "CSF1R",
"path_length": 2
} | 0.928932 |
co_path_00081 | path_traversal | coding_variant | medium | 3 | What is the shortest molecular path from OPTN to HGF through known protein interactions and pathway memberships? | OPTN PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH TBK1 -> TBK1 GENE_ANNOTATED_WITH_GO_TERM positive regulation of transcription by RNA polymerase II -> HGF GENE_ANNOTATED_WITH_GO_TERM positive regulation of transcription by RNA polymerase II | {
"steps": [
{
"hop": 1,
"source_node_id": "OPTN",
"source_node_type": "GENE",
"source_node_label": "OPTN",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.999,
"edge_source_db": "STRING",
"t... | OPTN -> TBK1 -> positive regulation of transcription by RNA polymerase II -> HGF | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "OPTN",
"source_db": "UniProt",
"payload": {
"accession": "Q96CV9",
"sequence": "MSHQPLSCLTEKEDSPSESTGNGPPHLAHPNLDTFTPEELLQQMKELLTENHQLKEAMKLNNQAMKGRFEELSAWTEKQKEERQFFEIQSKEAKERLMALSHENEKLKEELGKLKGKSERSSEDPTDDSRLPRA... | [
{
"source_db": "STRING",
"source_id": "TBK1",
"text": "OPTN PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH TBK1",
"confidence": 0.999
},
{
"source_db": "GO",
"source_id": "GO:0045944",
"text": "TBK1 GENE_ANNOTATED_WITH_GO_TERM positive regulation of transcription by RNA polymerase II",
"co... | {
"gene_a": "OPTN",
"gene_b": "HGF",
"path_length": 3
} | 0.711141 |
co_path_00082 | path_traversal | coding_variant | medium | 3 | What is the shortest molecular path from HGF to ADORA2A through known protein interactions and pathway memberships? | HGF PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH MET -> MET GENE_ANNOTATED_WITH_GO_TERM excitatory postsynaptic potential -> ADORA2A GENE_ANNOTATED_WITH_GO_TERM excitatory postsynaptic potential | {
"steps": [
{
"hop": 1,
"source_node_id": "HGF",
"source_node_type": "GENE",
"source_node_label": "HGF",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.999,
"edge_source_db": "STRING",
"tar... | HGF -> MET -> excitatory postsynaptic potential -> ADORA2A | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "HGF",
"source_db": "UniProt",
"payload": {
"accession": "P14210",
"sequence": "MWVTKLLPALLLQHVLLHLLLLPIAIPYAEGQRKRRNTIHEFKKSAKTTLIKIDPALKIKTKKVNTADQCANRCTRNKGLPFTCKAFVFDKARKQCLWFPFNSMSSGVKKEFGHEFDLYENKDYIRNCIIGKGRS... | [
{
"source_db": "STRING",
"source_id": "MET",
"text": "HGF PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH MET",
"confidence": 0.999
},
{
"source_db": "GO",
"source_id": "GO:0060079",
"text": "MET GENE_ANNOTATED_WITH_GO_TERM excitatory postsynaptic potential",
"confidence": 0.6
},
{
... | {
"gene_a": "HGF",
"gene_b": "ADORA2A",
"path_length": 3
} | 0.711141 |
co_path_00083 | path_traversal | coding_variant | easy | 2 | What is the shortest molecular path from BLM to BCL2 through known protein interactions and pathway memberships? | BLM GENE_ANNOTATED_WITH_GO_TERM DNA damage response -> BCL2 GENE_ANNOTATED_WITH_GO_TERM DNA damage response | {
"steps": [
{
"hop": 1,
"source_node_id": "BLM",
"source_node_type": "GENE",
"source_node_label": "BLM",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "IDA:UniProtKB",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"target_node_id": "... | BLM -> DNA damage response -> BCL2 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "BLM",
"source_db": "UniProt",
"payload": {
"accession": "P54132",
"sequence": "MAAVPQNNLQEQLERHSARTLNNKLSLSKPKFSGFTFKKKTSSDNNVSVTNVSVAKTPVLRNKDVNVTEDFSFSEPLPNTTNQQRVKDFFKNAPAGQETQRGGSKSLLPDFLQTPKEVVCTTQNTPTVKKSRDTA... | [
{
"source_db": "GO",
"source_id": "GO:0006974",
"text": "BLM GENE_ANNOTATED_WITH_GO_TERM DNA damage response",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "BCL2",
"text": "BCL2 GENE_ANNOTATED_WITH_GO_TERM DNA damage response",
"confidence": 0.6
}
] | {
"gene_a": "BLM",
"gene_b": "BCL2",
"path_length": 2
} | 0.6 |
co_path_00084 | path_traversal | coding_variant | hard | 4 | What is the shortest molecular path from CD33 to CDX2 through known protein interactions and pathway memberships? | CD33 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH KIT -> ETV1 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH KIT -> ETV1 GENE_ANNOTATED_WITH_GO_TERM RNA polymerase II cis-regulatory region sequence-specific DNA binding -> CDX2 GENE_ANNOTATED_WITH_GO_TERM RNA polymerase II cis-regulatory region sequence-specific DNA binding | {
"steps": [
{
"hop": 1,
"source_node_id": "CD33",
"source_node_type": "GENE",
"source_node_label": "CD33",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.898,
"edge_source_db": "STRING",
"t... | CD33 -> KIT -> ETV1 -> RNA polymerase II cis-regulatory region sequence-specific DNA binding -> CDX2 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "CD33",
"source_db": "UniProt",
"payload": {
"accession": "P20138",
"sequence": "MPLLLLLPLLWAGALAMDPNFWLQVQESVTVQEGLCVLVPCTFFHPIPYYDKNSPVHGYWFREGAIISRDSPVATNKLDQEVQEETQGRFRLLGDPSRNNCSLSIVDARRRDNGSYFFRMERGSTKYSYKSPQL... | [
{
"source_db": "STRING",
"source_id": "KIT",
"text": "CD33 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH KIT",
"confidence": 0.898
},
{
"source_db": "STRING",
"source_id": "ETV1",
"text": "ETV1 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH KIT",
"confidence": 0.773
},
{
"source_db": "GO",
... | {
"gene_a": "CD33",
"gene_b": "CDX2",
"path_length": 4
} | 0.707033 |
co_path_00085 | path_traversal | coding_variant | medium | 3 | What is the shortest molecular path from TIA1 to CDC25B through known protein interactions and pathway memberships? | TIA1 GENE_ANNOTATED_WITH_GO_TERM apoptotic process -> CDK1 GENE_ANNOTATED_WITH_GO_TERM apoptotic process -> CDC25B PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH CDK1 | {
"steps": [
{
"hop": 1,
"source_node_id": "TIA1",
"source_node_type": "GENE",
"source_node_label": "TIA1",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "TAS:ProtInc",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"target_node_id": "... | TIA1 -> apoptotic process -> CDK1 -> CDC25B | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "TIA1",
"source_db": "UniProt",
"payload": {
"accession": "P31483",
"sequence": "MEDEMPKTLYVGNLSRDVTEALILQLFSQIGPCKNCKMIMDTAGNDPYCFVEFHEHRHAAAALAAMNGRKIMGKEVKVNWATTPSSQKKDTSSSTVVSTQRSQDHFHVFVGDLSPEITTEDIKAAFAPFGRISD... | [
{
"source_db": "GO",
"source_id": "GO:0006915",
"text": "TIA1 GENE_ANNOTATED_WITH_GO_TERM apoptotic process",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "CDK1",
"text": "CDK1 GENE_ANNOTATED_WITH_GO_TERM apoptotic process",
"confidence": 0.6
},
{
"source_db": "... | {
"gene_a": "TIA1",
"gene_b": "CDC25B",
"path_length": 3
} | 0.710904 |
co_path_00086 | path_traversal | coding_variant | medium | 3 | What is the shortest molecular path from NEFL to PFN1 through known protein interactions and pathway memberships? | NEFL PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH SOD1 -> SOD1 GENE_PARTICIPATES_IN_PATHWAY Platelet degranulation -> PFN1 GENE_PARTICIPATES_IN_PATHWAY Platelet degranulation | {
"steps": [
{
"hop": 1,
"source_node_id": "NEFL",
"source_node_type": "GENE",
"source_node_label": "NEFL",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.976,
"edge_source_db": "STRING",
"t... | NEFL -> SOD1 -> Platelet degranulation -> PFN1 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "NEFL",
"source_db": "UniProt",
"payload": {
"accession": "P07196",
"sequence": "MSSFSYEPYYSTSYKRRYVETPRVHISSVRSGYSTARSAYSSYSAPVSSSLSVRRSYSSSSGSLMPSLENLDLSQVAAISNDLKSIRTQEKAQLQDLNDRFASFIERVHELEQQNKVLEAELLVLRQKHSEPSR... | [
{
"source_db": "STRING",
"source_id": "SOD1",
"text": "NEFL PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH SOD1",
"confidence": 0.976
},
{
"source_db": "Reactome",
"source_id": "R-HSA-114608",
"text": "SOD1 GENE_PARTICIPATES_IN_PATHWAY Platelet degranulation ",
"confidence": 1
},
{
... | {
"gene_a": "NEFL",
"gene_b": "PFN1",
"path_length": 3
} | 0.991935 |
co_path_00087 | path_traversal | coding_variant | easy | 2 | What is the shortest molecular path from ATXN2 to AKT1 through known protein interactions and pathway memberships? | ATXN2 GENE_ANNOTATED_WITH_GO_TERM regulation of translation -> AKT1 GENE_ANNOTATED_WITH_GO_TERM regulation of translation | {
"steps": [
{
"hop": 1,
"source_node_id": "ATXN2",
"source_node_type": "GENE",
"source_node_label": "ATXN2",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "NAS:UniProtKB",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"target_node_id... | ATXN2 -> regulation of translation -> AKT1 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "ATXN2",
"source_db": "UniProt",
"payload": {
"accession": "Q99700",
"sequence": "MRSAAAAPRSPAVATESRRFAAARWPGWRSLQRPARRSGRGGGGAAPGPYPSAAPPPPGPGPPPSRQSSPPSASDCFGSNGNGGGAFRPGSRRLLGLGGPPRPFVVLLLPLASPGAPPAAPTRASPLGARASP... | [
{
"source_db": "GO",
"source_id": "GO:0006417",
"text": "ATXN2 GENE_ANNOTATED_WITH_GO_TERM regulation of translation",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "AKT1",
"text": "AKT1 GENE_ANNOTATED_WITH_GO_TERM regulation of translation",
"confidence": 0.6
}
] | {
"gene_a": "ATXN2",
"gene_b": "AKT1",
"path_length": 2
} | 0.6 |
co_path_00088 | path_traversal | coding_variant | medium | 3 | What is the shortest molecular path from ZMYM3 to CDK4 through known protein interactions and pathway memberships? | ZMYM3 GENE_ANNOTATED_WITH_GO_TERM zinc ion binding -> CDKN1A GENE_ANNOTATED_WITH_GO_TERM zinc ion binding -> CDKN1A PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH CDK4 | {
"steps": [
{
"hop": 1,
"source_node_id": "ZMYM3",
"source_node_type": "GENE",
"source_node_label": "ZMYM3",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "IEA:UniProtKB-KW",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"target_node... | ZMYM3 -> zinc ion binding -> CDKN1A -> CDK4 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "ZMYM3",
"source_db": "UniProt",
"payload": {
"accession": "Q14202",
"sequence": "MDPSDFPSPFDPLTLPEKPLAGDLPVDMEFGEDLLESQTAPTRGWAPPGPSPSSGALDLLDTPAGLEKDPGVLDGATELLGLGGLLYKAPSPPEVDHGPEGTLAWDAGDQTLEPGPGGQTPEVVPPDPGAGAN... | [
{
"source_db": "GO",
"source_id": "GO:0008270",
"text": "ZMYM3 GENE_ANNOTATED_WITH_GO_TERM zinc ion binding",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "CDKN1A",
"text": "CDKN1A GENE_ANNOTATED_WITH_GO_TERM zinc ion binding",
"confidence": 0.6
},
{
"source_db"... | {
"gene_a": "ZMYM3",
"gene_b": "CDK4",
"path_length": 3
} | 0.711141 |
co_path_00089 | path_traversal | coding_variant | medium | 3 | What is the shortest molecular path from PRPH to EGFR through known protein interactions and pathway memberships? | PRPH PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH NEFL -> NEFL GENE_PARTICIPATES_IN_PATHWAY RAF/MAP kinase cascade -> EGFR GENE_PARTICIPATES_IN_PATHWAY RAF/MAP kinase cascade | {
"steps": [
{
"hop": 1,
"source_node_id": "PRPH",
"source_node_type": "GENE",
"source_node_label": "PRPH",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.902,
"edge_source_db": "STRING",
"t... | PRPH -> NEFL -> RAF/MAP kinase cascade -> EGFR | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "PRPH",
"source_db": "UniProt",
"payload": {
"accession": "P41219",
"sequence": "MSHHPSGLRAGFSSTSYRRTFGPPPSLSPGAFSYSSSSRFSSSRLLGSASPSSSVRLGSFRSPRAGAGALLRLPSERLDFSMAEALNQEFLATRSNEKQELQELNDRFANFIEKVRFLEQQNAALRGELSQARG... | [
{
"source_db": "STRING",
"source_id": "NEFL",
"text": "PRPH PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH NEFL",
"confidence": 0.902
},
{
"source_db": "Reactome",
"source_id": "R-HSA-5673001",
"text": "NEFL GENE_PARTICIPATES_IN_PATHWAY RAF/MAP kinase cascade",
"confidence": 1
},
{
... | {
"gene_a": "PRPH",
"gene_b": "EGFR",
"path_length": 3
} | 0.966204 |
co_path_00090 | path_traversal | coding_variant | hard | 5 | What is the shortest molecular path from ATP6V1C1 to ACKR3 through known protein interactions and pathway memberships? | ATP6V1C1 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH ATP6V1B2 -> ATP6V1B2 GENE_ANNOTATED_WITH_GO_TERM ATP binding -> EGFR GENE_ANNOTATED_WITH_GO_TERM ATP binding -> EGFR GENE_ANNOTATED_WITH_GO_TERM positive regulation of ERK1 and ERK2 cascade -> ACKR3 GENE_ANNOTATED_WITH_GO_TERM positive regulation of ERK1 and ERK2 cascade | {
"steps": [
{
"hop": 1,
"source_node_id": "ATP6V1C1",
"source_node_type": "GENE",
"source_node_label": "ATP6V1C1",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.999,
"edge_source_db": "STRING",
... | ATP6V1C1 -> ATP6V1B2 -> ATP binding -> EGFR -> positive regulation of ERK1 and ERK2 cascade -> ACKR3 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "ATP6V1C1",
"source_db": "UniProt",
"payload": {
"accession": "P21283",
"sequence": "MTEFWLISAPGEKTCQQTWEKLHAATSKNNNLAVTSKFNIPDLKVGTLDVLVGLSDELAKLDAFVEGVVKKVAQYMADVLEDSKDKVQENLLANGVDLVTYITRFQWDMAKYPIKQSLKNISEIIAKGVT... | [
{
"source_db": "STRING",
"source_id": "ATP6V1B2",
"text": "ATP6V1C1 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH ATP6V1B2",
"confidence": 0.999
},
{
"source_db": "GO",
"source_id": "GO:0005524",
"text": "ATP6V1B2 GENE_ANNOTATED_WITH_GO_TERM ATP binding",
"confidence": 0.6
},
{
"s... | {
"gene_a": "ATP6V1C1",
"gene_b": "ACKR3",
"path_length": 5
} | 0.664407 |
co_path_00091 | path_traversal | coding_variant | medium | 3 | What is the shortest molecular path from FUS to ATP6V1B2 through known protein interactions and pathway memberships? | SETX PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH FUS -> SETX GENE_ANNOTATED_WITH_GO_TERM ATP binding -> ATP6V1B2 GENE_ANNOTATED_WITH_GO_TERM ATP binding | {
"steps": [
{
"hop": 1,
"source_node_id": "FUS",
"source_node_type": "GENE",
"source_node_label": "FUS",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.887,
"edge_source_db": "STRING",
"tar... | FUS -> SETX -> ATP binding -> ATP6V1B2 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "FUS",
"source_db": "UniProt",
"payload": {
"accession": "P35637",
"sequence": "MASNDYTQQATQSYGAYPTQPGQGYSQQSSQPYGQQSYSGYSQSTDTSGYGQSSYSSYGQSQNTGYGTQSTPQGYGSTGGYGSSQSSQSSYGQQSSYPGYGQQPAPSSTSGSYGSSSQSSSYGQPQSGSYSQQPS... | [
{
"source_db": "STRING",
"source_id": "SETX",
"text": "SETX PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH FUS",
"confidence": 0.887
},
{
"source_db": "GO",
"source_id": "GO:0005524",
"text": "SETX GENE_ANNOTATED_WITH_GO_TERM ATP binding",
"confidence": 0.6
},
{
"source_db": "GO",
... | {
"gene_a": "FUS",
"gene_b": "ATP6V1B2",
"path_length": 3
} | 0.683506 |
co_path_00092 | path_traversal | coding_variant | medium | 3 | What is the shortest molecular path from RAD51C to FUS through known protein interactions and pathway memberships? | RAD51C PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH BRCA1 -> BRCA1 GENE_ANNOTATED_WITH_GO_TERM zinc ion binding -> FUS GENE_ANNOTATED_WITH_GO_TERM zinc ion binding | {
"steps": [
{
"hop": 1,
"source_node_id": "RAD51C",
"source_node_type": "GENE",
"source_node_label": "RAD51C",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.98,
"edge_source_db": "STRING",
... | RAD51C -> BRCA1 -> zinc ion binding -> FUS | null | [
"expression",
"intercell_role",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "RAD51C",
"source_db": "UniProt",
"payload": {
"accession": "O43502",
"sequence": "MRGKTFRFEMQRDLVSFPLSPAVRVKLVSAGFQTAEELLEVKPSELSKEVGISKAEALETLQIIRRECLTNKPRYAGTSESHKKCTALELLEQEHTQGFIITFCSALDDILGGGVPLMKTTEICGAPGVGKT... | [
{
"source_db": "STRING",
"source_id": "BRCA1",
"text": "RAD51C PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH BRCA1",
"confidence": 0.98
},
{
"source_db": "GO",
"source_id": "GO:0008270",
"text": "BRCA1 GENE_ANNOTATED_WITH_GO_TERM zinc ion binding",
"confidence": 0.6
},
{
"source_d... | {
"gene_a": "RAD51C",
"gene_b": "FUS",
"path_length": 3
} | 0.706604 |
co_path_00093 | path_traversal | coding_variant | easy | 2 | What is the shortest molecular path from ETV1 to TBK1 through known protein interactions and pathway memberships? | ETV1 GENE_ANNOTATED_WITH_GO_TERM positive regulation of transcription by RNA polymerase II -> TBK1 GENE_ANNOTATED_WITH_GO_TERM positive regulation of transcription by RNA polymerase II | {
"steps": [
{
"hop": 1,
"source_node_id": "ETV1",
"source_node_type": "GENE",
"source_node_label": "ETV1",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "IDA:NTNU_SB",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"target_node_id": "... | ETV1 -> positive regulation of transcription by RNA polymerase II -> TBK1 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "ETV1",
"source_db": "UniProt",
"payload": {
"accession": "P50549",
"sequence": "MDGFYDQQVPYMVTNSQRGRNCNEKPTNVRKRKFINRDLAHDSEELFQDLSQLQETWLAEAQVPDNDEQFVPDYQAESLAFHGLPLKIKKEPHSPCSEISSACSQEQPFKFSYGEKCLYNVSAYDQKPQVGMRP... | [
{
"source_db": "GO",
"source_id": "GO:0045944",
"text": "ETV1 GENE_ANNOTATED_WITH_GO_TERM positive regulation of transcription by RNA polymerase II",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "TBK1",
"text": "TBK1 GENE_ANNOTATED_WITH_GO_TERM positive regulation of transc... | {
"gene_a": "ETV1",
"gene_b": "TBK1",
"path_length": 2
} | 0.6 |
co_path_00094 | path_traversal | coding_variant | medium | 4 | What is the shortest molecular path from RAD51C to SYNJ1 through known protein interactions and pathway memberships? | RAD51C PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH BRCA1 -> MYC PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH BRCA1 -> MYC PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH BIN1 -> BIN1 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH SYNJ1 | {
"steps": [
{
"hop": 1,
"source_node_id": "RAD51C",
"source_node_type": "GENE",
"source_node_label": "RAD51C",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.98,
"edge_source_db": "STRING",
... | RAD51C -> BRCA1 -> MYC -> BIN1 -> SYNJ1 | null | [
"expression",
"intercell_role",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "RAD51C",
"source_db": "UniProt",
"payload": {
"accession": "O43502",
"sequence": "MRGKTFRFEMQRDLVSFPLSPAVRVKLVSAGFQTAEELLEVKPSELSKEVGISKAEALETLQIIRRECLTNKPRYAGTSESHKKCTALELLEQEHTQGFIITFCSALDDILGGGVPLMKTTEICGAPGVGKT... | [
{
"source_db": "STRING",
"source_id": "BRCA1",
"text": "RAD51C PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH BRCA1",
"confidence": 0.98
},
{
"source_db": "STRING",
"source_id": "MYC",
"text": "MYC PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH BRCA1",
"confidence": 0.999
},
{
"source_db": "... | {
"gene_a": "RAD51C",
"gene_b": "SYNJ1",
"path_length": 4
} | 0.992969 |
co_path_00095 | path_traversal | coding_variant | medium | 4 | What is the shortest molecular path from ATXN2 to CD274 through known protein interactions and pathway memberships? | ATXN2 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH ATXN3 -> VCP PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH ATXN3 -> VCP GENE_PARTICIPATES_IN_PATHWAY AMPK-induced ERAD and lysosome mediated degradation of PD-L1(CD274) -> CD274 GENE_PARTICIPATES_IN_PATHWAY AMPK-induced ERAD and lysosome mediated degradation of PD-L1(CD274) | {
"steps": [
{
"hop": 1,
"source_node_id": "ATXN2",
"source_node_type": "GENE",
"source_node_label": "ATXN2",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.993,
"edge_source_db": "STRING",
... | ATXN2 -> ATXN3 -> VCP -> AMPK-induced ERAD and lysosome mediated degradation of PD-L1(CD274) -> CD274 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "ATXN2",
"source_db": "UniProt",
"payload": {
"accession": "Q99700",
"sequence": "MRSAAAAPRSPAVATESRRFAAARWPGWRSLQRPARRSGRGGGGAAPGPYPSAAPPPPGPGPPPSRQSSPPSASDCFGSNGNGGGAFRPGSRRLLGLGGPPRPFVVLLLPLASPGAPPAAPTRASPLGARASP... | [
{
"source_db": "STRING",
"source_id": "ATXN3",
"text": "ATXN2 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH ATXN3",
"confidence": 0.993
},
{
"source_db": "STRING",
"source_id": "VCP",
"text": "VCP PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH ATXN3",
"confidence": 0.999
},
{
"source_db": "... | {
"gene_a": "ATXN2",
"gene_b": "CD274",
"path_length": 4
} | 0.997996 |
co_path_00096 | path_traversal | coding_variant | easy | 2 | What is the shortest molecular path from PPP2R1B to AKT2 through known protein interactions and pathway memberships? | PPP2R1B GENE_PARTICIPATES_IN_PATHWAY Regulation of TP53 Degradation -> AKT2 GENE_PARTICIPATES_IN_PATHWAY Regulation of TP53 Degradation | {
"steps": [
{
"hop": 1,
"source_node_id": "PPP2R1B",
"source_node_type": "GENE",
"source_node_label": "PPP2R1B",
"edge_relation": "GENE_PARTICIPATES_IN_PATHWAY",
"edge_evidence_type": "curated",
"edge_confidence": 1,
"edge_source_db": "Reactome",
"target_node... | PPP2R1B -> Regulation of TP53 Degradation -> AKT2 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "PPP2R1B",
"source_db": "UniProt",
"payload": {
"accession": "P30154",
"sequence": "MAGASELGTGPGAAGGDGDDSLYPIAVLIDELRNEDVQLRLNSIKKLSTIALALGVERTRSELLPFLTDTIYDEDEVLLALAEQLGNFTGLVGGPDFAHCLLPPLENLATVEETVVRDKAVESLRQISQEH... | [
{
"source_db": "Reactome",
"source_id": "R-HSA-6804757",
"text": "PPP2R1B GENE_PARTICIPATES_IN_PATHWAY Regulation of TP53 Degradation",
"confidence": 1
},
{
"source_db": "Reactome",
"source_id": "AKT2",
"text": "AKT2 GENE_PARTICIPATES_IN_PATHWAY Regulation of TP53 Degradation",
"... | {
"gene_a": "PPP2R1B",
"gene_b": "AKT2",
"path_length": 2
} | 1 |
co_path_00097 | path_traversal | coding_variant | easy | 2 | What is the shortest molecular path from ADORA2A to SFRP4 through known protein interactions and pathway memberships? | ADORA2A GENE_ANNOTATED_WITH_GO_TERM negative regulation of cell population proliferation -> SFRP4 GENE_ANNOTATED_WITH_GO_TERM negative regulation of cell population proliferation | {
"steps": [
{
"hop": 1,
"source_node_id": "ADORA2A",
"source_node_type": "GENE",
"source_node_label": "ADORA2A",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "IEA:Ensembl",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"target_node_... | ADORA2A -> negative regulation of cell population proliferation -> SFRP4 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "ADORA2A",
"source_db": "UniProt",
"payload": {
"accession": "P29274",
"sequence": "MPIMGSSVYITVELAIAVLAILGNVLVCWAVWLNSNLQNVTNYFVVSLAAADIAVGVLAIPFAITISTGFCAACHGCLFIACFVLVLTQSSIFSLLAIAIDRYIAIRIPLRYNGLVTGTRAKGIIAICWVL... | [
{
"source_db": "GO",
"source_id": "GO:0008285",
"text": "ADORA2A GENE_ANNOTATED_WITH_GO_TERM negative regulation of cell population proliferation",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "SFRP4",
"text": "SFRP4 GENE_ANNOTATED_WITH_GO_TERM negative regulation of cell p... | {
"gene_a": "ADORA2A",
"gene_b": "SFRP4",
"path_length": 2
} | 0.6 |
co_path_00098 | path_traversal | coding_variant | easy | 2 | What is the shortest molecular path from ABL1 to PARK7 through known protein interactions and pathway memberships? | ABL1 GENE_ANNOTATED_WITH_GO_TERM cellular response to hydrogen peroxide -> PARK7 GENE_ANNOTATED_WITH_GO_TERM cellular response to hydrogen peroxide | {
"steps": [
{
"hop": 1,
"source_node_id": "ABL1",
"source_node_type": "GENE",
"source_node_label": "ABL1",
"edge_relation": "GENE_ANNOTATED_WITH_GO_TERM",
"edge_evidence_type": "IDA:ParkinsonsUK-UCL",
"edge_confidence": 0.6,
"edge_source_db": "GO",
"target_no... | ABL1 -> cellular response to hydrogen peroxide -> PARK7 | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "ABL1",
"source_db": "UniProt",
"payload": {
"accession": "P00519",
"sequence": "MLEICLKLVGCKSKKGLSSSSSCYLEEALQRPVASDFEPQGLSEAARWNSKENLLAGPSENDPNLFVALYDFVASGDNTLSITKGEKLRVLGYNHNGEWCEAQTKNGQGWVPSNYITPVNSLEKHSWYHGPVSR... | [
{
"source_db": "GO",
"source_id": "GO:0070301",
"text": "ABL1 GENE_ANNOTATED_WITH_GO_TERM cellular response to hydrogen peroxide",
"confidence": 0.6
},
{
"source_db": "GO",
"source_id": "PARK7",
"text": "PARK7 GENE_ANNOTATED_WITH_GO_TERM cellular response to hydrogen peroxide",
"... | {
"gene_a": "ABL1",
"gene_b": "PARK7",
"path_length": 2
} | 0.6 |
co_path_00099 | path_traversal | coding_variant | hard | 4 | What is the shortest molecular path from CAMK4 to PPP1R1B through known protein interactions and pathway memberships? | CAMK4 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH CALM3 -> SNCA PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH CALM3 -> SNCA GENE_ANNOTATED_WITH_GO_TERM protein kinase inhibitor activity -> PPP1R1B GENE_ANNOTATED_WITH_GO_TERM protein kinase inhibitor activity | {
"steps": [
{
"hop": 1,
"source_node_id": "CAMK4",
"source_node_type": "GENE",
"source_node_label": "CAMK4",
"edge_relation": "PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH",
"edge_evidence_type": "multi-channel",
"edge_confidence": 0.998,
"edge_source_db": "STRING",
... | CAMK4 -> CALM3 -> SNCA -> protein kinase inhibitor activity -> PPP1R1B | null | [
"expression",
"protein_sequence",
"protein_structure"
] | [
{
"family": "sequence",
"tag": "protein_sequence",
"anchor_node_id": "CAMK4",
"source_db": "UniProt",
"payload": {
"accession": "Q16566",
"sequence": "MLKVTVPSCSASSCSSVTASAAPGTASLVPDYWIDGSNRDALSDFFEVESELGRGATSIVYRCKQKGTQKPYALKVLKKTVDKKIVRTEIGVLLRLSHPNIIKLKEIFETPTEISLVLELVTGGELFDRIVEK... | [
{
"source_db": "STRING",
"source_id": "CALM3",
"text": "CAMK4 PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH CALM3",
"confidence": 0.998
},
{
"source_db": "STRING",
"source_id": "SNCA",
"text": "SNCA PROTEIN_FUNCTIONALLY_ASSOCIATED_WITH CALM3",
"confidence": 0.995
},
{
"source_db":... | {
"gene_a": "CAMK4",
"gene_b": "PPP1R1B",
"path_length": 4
} | 0.773239 |
Subsets and Splits
No community queries yet
The top public SQL queries from the community will appear here once available.