duplicated drug mechanism records in CHEMBL

[erikyao]

E.g. on CHEMBL1201631 Compound Report Card, there is only one drug mechanism record. However, http://mychem.info/v1/chem/CHEMBL1201631 shows two.

The duplication comes from the original source file, https://www.ebi.ac.uk/chembl/api/data/mechanism.json.

Same problem may occur to drug indication records.

Suggested fix: remove duplicates after chembl_parser.py#L52; pay attention to nested lists when hashing records.

[colleenXu]

@everaldorodrigo @andrewsu @newgene

Was this issue ever addressed? It may be useful since BTE uses this info

[andrewsu]

In practice though (based on the query/result below), it doesn't look like the duplicated drug mechanisms result in duplicated results in BTE. So I think this can remain a lower-priority fix.

example query and result

query

{
    "message": {
        "query_graph": {
            "edges": {
                "t_edge": {
                    "object": "on",
                    "subject": "sn"
                }
            },
            "nodes": {
                "on": {
                    "categories": [
                        "biolink:GeneOrGeneProduct"
                    ],
                    "is_set": false
                },
                "sn": {
                    "is_set": false,
                    "ids": ["chembl.compound:CHEMBL1201631"]
                }
            }
        }
    }
}

duplicated record in https://mychem.info/v1/chem/CHEMBL1201631?fields=chembl:

result snippet (search for NCBIGene:3643, which corresponds to uniprotkb:P06213)

{
    "description": "Query processed successfully, retrieved 51 results.",
    "schema_version": "1.4.0",
    "biolink_version": "3.5.3",
    "workflow": [
        {
            "id": "lookup"
        }
    ],
    "message": {
        "query_graph": {
            "edges": {
                "t_edge": {
                    "object": "on",
                    "subject": "sn"
                }
            },
            "nodes": {
                "on": {
                    "categories": [
                        "biolink:GeneOrGeneProduct"
                    ],
                    "is_set": false
                },
                "sn": {
                    "is_set": false,
                    "ids": [
                        "chembl.compound:CHEMBL1201631"
                    ]
                }
            }
        },
        "knowledge_graph": {
            "nodes": {
                "CHEMBL.COMPOUND:CHEMBL1201631": {
                    "categories": [
                        "biolink:ChemicalEntity"
                    ],
                    "name": "INSULIN",
                    "attributes": [
                        {
                            "attribute_type_id": "biolink:xref",
                            "value": [
                                "CHEMBL.COMPOUND:CHEMBL1201631"
                            ]
                        },
                        {
                            "attribute_type_id": "biolink:synonym",
                            "value": [
                                "INSULIN"
                            ]
                        }
                    ]
                },
                "NCBIGene:3643": {
                    "categories": [
                        "biolink:Gene"
                    ],
                    "name": "INSR",
                    "attributes": [
                        {
                            "attribute_type_id": "biolink:xref",
                            "value": [
                                "NCBIGene:3643",
                                "ENSEMBL:ENSG00000171105",
                                "HGNC:6091",
                                "OMIM:147670",
                                "UMLS:C1334133",
                                "UniProtKB:P06213",
                                "PR:P06213",
                                "UMLS:C1448132"
                            ]
                        },
                        {
                            "attribute_type_id": "biolink:synonym",
                            "value": [
                                "INSR",
                                "INSR gene",
                                "INSR_HUMAN Insulin receptor (sprot)",
                                "insulin receptor (human)",
                                "INSR protein, human"
                            ]
                        }
                    ]
                },
                "NCBIGene:6476": {
                    "categories": [
                        "biolink:Gene"
                    ],
                    "name": "SI",
                    "attributes": [
                        {
                            "attribute_type_id": "biolink:xref",
                            "value": [
                                "NCBIGene:6476",
                                "ENSEMBL:ENSG00000090402",
                                "HGNC:10856",
                                "OMIM:609845",
                                "UMLS:C1420044",
                                "UniProtKB:P14410",
                                "PR:P14410",
                                "ENSEMBL:ENSP00000264382",
                                "ENSEMBL:ENSP00000264382.3"
                            ]
                        },
                        {
                            "attribute_type_id": "biolink:synonym",
                            "value": [
                                "SI",
                                "SI gene",
                                "SUIS_HUMAN Sucrase-isomaltase, intestinal (sprot)",
                                "sucrase-isomaltase, intestinal (human)"
                            ]
                        }
                    ]
                },
                "NCBIGene:7124": {
                    "categories": [
                        "biolink:Gene"
                    ],
                    "name": "TNF",
                    "attributes": [
                        {
                            "attribute_type_id": "biolink:xref",
                            "value": [
                                "NCBIGene:7124",
                                "ENSEMBL:ENSG00000232810",
                                "HGNC:11892",
                                "OMIM:191160",
                                "UMLS:C0812246",
                                "UniProtKB:P01375",
                                "PR:P01375",
                                "ENSEMBL:ENSP00000365290",
                                "ENSEMBL:ENSP00000365290.3",
                                "ENSEMBL:ENSP00000372988",
                                "ENSEMBL:ENSP00000372988.4",
                                "ENSEMBL:ENSP00000389490",
                                "ENSEMBL:ENSP00000389490.2",
                                "ENSEMBL:ENSP00000389492",
                                "ENSEMBL:ENSP00000389492.2",
                                "ENSEMBL:ENSP00000392858",
                                "ENSEMBL:ENSP00000392858.2",
                                "ENSEMBL:ENSP00000398698",
                                "ENSEMBL:ENSP00000398698.2",
                                "ENSEMBL:ENSP00000410668",
                                "ENSEMBL:ENSP00000410668.2",
                                "UMLS:C1448177",
                                "UniProtKB:Q5STB3"
                            ]
                        },
                        {
                            "attribute_type_id": "biolink:synonym",
                            "value": [
                                "TNF",
                                "TNF gene",
                                "TNFA_HUMAN Tumor necrosis factor (sprot)",
                                "tumor necrosis factor (human)",
                                "TNF protein, human",
                                "Q5STB3_HUMAN Tumor necrosis factor (trembl)"
                            ]
                        }
                    ]
                },
                "NCBIGene:6515": {
                    "categories": [
                        "biolink:Gene"
                    ],
                    "name": "SLC2A3",
                    "attributes": [
                        {
                            "attribute_type_id": "biolink:xref",
                            "value": [
                                "NCBIGene:6515",
                                "ENSEMBL:ENSG00000059804",
                                "HGNC:11007",
                                "OMIM:138170",
                                "UMLS:C1420173",
                                "UniProtKB:P11169",
                                "PR:P11169",
                                "ENSEMBL:ENSP00000075120",
                                "ENSEMBL:ENSP00000075120.7",
                                "UMLS:C1506953"
                            ]
                        },
                        {
                            "attribute_type_id": "biolink:synonym",
                            "value": [
                                "SLC2A3",
                                "SLC2A3 gene",
                                "GTR3_HUMAN Solute carrier family 2, facilitated glucose transporter member 3 (sprot)",
                                "solute carrier family 2, facilitated glucose transporter member 3 (human)",
                                "SLC2A3 protein, human"
                            ]
                        }
                    ]
                },
                "NCBIGene:6720": {
                    "categories": [
                        "biolink:Gene"
                    ],
                    "name": "SREBF1",
                    "attributes": [
                        {
                            "attribute_type_id": "biolink:xref",
                            "value": [
                                "NCBIGene:6720",
                                "ENSEMBL:ENSG00000072310",
                                "HGNC:11289",
                                "OMIM:184756",
                                "UMLS:C1420398",
                                "UniProtKB:A8MTU8",
                                "UniProtKB:B3KR77",
                                "UniProtKB:P36956",
                                "PR:P36956",
                                "UMLS:C1528373"
                            ]
                        },
                        {
                            "attribute_type_id": "biolink:synonym",
                            "value": [
                                "SREBF1",
                                "SREBF1 gene",
                                "A8MTU8_HUMAN cDNA FLJ38006 fis, clone CTONG2012422, highly similar to Sterol regulatory element-binding protein 1 (trembl)",
                                "B3KR77_HUMAN cDNA FLJ33812 fis, clone CTONG2002270, highly similar to Sterol regulatory element-binding protein 1 (trembl)",
                                "SRBP1_HUMAN Sterol regulatory element-binding protein 1 (sprot)",
                                "sterol regulatory element-binding protein 1 (human)",
                                "SREBF1 protein, human"
                            ]
                        }
                    ]
                },
                "NCBIGene:6752": {
                    "categories": [
                        "biolink:Gene"
                    ],
                    "name": "SSTR2",
                    "attributes": [
                        {
                            "attribute_type_id": "biolink:xref",
                            "value": [
                                "NCBIGene:6752",
                                "ENSEMBL:ENSG00000180616",
                                "HGNC:11331",
                                "OMIM:182452",
                                "UMLS:C1335867",
                                "UniProtKB:P30874",
                                "PR:P30874",
                                "UMLS:C3501617",
                                "UMLS:C3889625"
                            ]
                        },
                        {
                            "attribute_type_id": "biolink:synonym",
                            "value": [
                                "SSTR2",
                                "SSTR2 gene",
                                "SSR2_HUMAN Somatostatin receptor type 2 (sprot)",
                                "somatostatin receptor type 2 (human)",
                                "SSTR2 protein, human",
                                "Somatostatin Receptor Type 2b, human"
                            ]
                        }
                    ]
                },
                "NCBIGene:9370": {
                    "categories": [
                        "biolink:Gene"
                    ],
                    "name": "ADIPOQ",
                    "attributes": [
                        {
                            "attribute_type_id": "biolink:xref",
                            "value": [
                                "NCBIGene:9370",
                                "ENSEMBL:ENSG00000181092",
                                "HGNC:13633",
                                "OMIM:605441",
                                "UMLS:C1540187",
                                "UniProtKB:A8K660",
                                "UniProtKB:B2R773",
                                "UniProtKB:Q15848",
                                "PR:Q15848",
                                "ENSEMBL:ENSP00000320709",
                                "ENSEMBL:ENSP00000320709.2",
                                "ENSEMBL:ENSP00000389814",
                                "ENSEMBL:ENSP00000389814.2",
                                "UMLS:C1438411"
                            ]
                        },
                        {
                            "attribute_type_id": "biolink:synonym",
                            "value": [
                                "ADIPOQ",
                                "ADIPOQ gene",
                                "A8K660_HUMAN Adiponectin (trembl)",
                                "B2R773_HUMAN cDNA, FLJ93312, highly similar to Homo sapiens adipose most abundant gene transcript 1 (APM1), mRNA (trembl)",
                                "ADIPO_HUMAN Adiponectin (sprot)",
                                "adiponectin (human)",
                                "ADIPOQ protein, human"
                            ]
                        }
                    ]
                },
                "NCBIGene:1490": {
                    "categories": [
                        "biolink:Gene"
                    ],
                    "name": "CCN2",
                    "attributes": [
                        {
                            "attribute_type_id": "biolink:xref",
                            "value": [
                                "NCBIGene:1490",
                                "ENSEMBL:ENSG00000118523",
                                "HGNC:2500",
                                "OMIM:121009",
                                "UMLS:C1413791",
                                "UniProtKB:P29279",
                                "PR:P29279",
                                "UMLS:C1137457",
                                "UniProtKB:Q5M8T4"
                            ]
                        },
                        {
                            "attribute_type_id": "biolink:synonym",
                            "value": [
                                "CCN2",
                                "CCN2 gene",
                                "CCN2_HUMAN CCN family member 2 (sprot)",
                                "CCN family member 2 (human)",
                                "CTGF protein, human",
                                "Q5M8T4_HUMAN Connective tissue growth factor (trembl)"
                            ]
                        }
                    ]
                },
                "NCBIGene:1437": {
                    "categories": [
                        "biolink:Gene"
                    ],
                    "name": "CSF2",
                    "attributes": [
                        {
                            "attribute_type_id": "biolink:xref",
                            "value": [
                                "NCBIGene:1437",
                                "ENSEMBL:ENSG00000164400",
                                "HGNC:2434",
                                "OMIM:138960",
                                "UMLS:C1332791",
                                "UniProtKB:P04141",
                                "PR:P04141",
                                "ENSEMBL:ENSP00000296871",
                                "ENSEMBL:ENSP00000296871.2",
                                "UMLS:C5197246"
                            ]
                        },
                        {
                            "attribute_type_id": "biolink:synonym",
                            "value": [
                                "CSF2",
                                "CSF2 gene",
                                "CSF2_HUMAN Granulocyte-macrophage colony-stimulating factor (sprot)",
                                "granulocyte-macrophage colony-stimulating factor (human)",
                                "CSF2 protein, human"
                            ]
                        }
                    ]
                },
                "NCBIGene:1395": {
                    "categories": [
                        "biolink:Gene"
                    ],
                    "name": "CRHR2",
                    "attributes": [
                        {
                            "attribute_type_id": "biolink:xref",
                            "value": [
                                "NCBIGene:1395",
                                "ENSEMBL:ENSG00000106113",
                                "HGNC:2358",
                                "OMIM:602034",
                                "UMLS:C1413710",
                                "UniProtKB:A0A090N7T4",
                                "UniProtKB:Q13324",
                                "PR:Q13324",
                                "UMLS:C1530921"
                            ]
                        },
                        {
                            "attribute_type_id": "biolink:synonym",
                            "value": [
                                "CRHR2",
                                "CRHR2 gene",
                                "A0A090N7T4_HUMAN Corticotropin releasing hormone receptor 2 (trembl)",
                                "CRFR2_HUMAN Corticotropin-releasing factor receptor 2 (sprot)",
                                "corticotropin-releasing factor receptor 2 (human)",
                                "CRHR2 protein, human"
                            ]
                        }
                    ]
                },
                "NCBIGene:3172": {
                    "categories": [
                        "biolink:Gene"
                    ],
                    "name": "HNF4A",
                    "attributes": [
                        {
                            "attribute_type_id": "biolink:xref",
                            "value": [
                                "NCBIGene:3172",
                                "ENSEMBL:ENSG00000101076",
                                "HGNC:5024",
                                "OMIM:600281",
                                "UMLS:C1415629",
                                "UniProtKB:A0A087WXV4",
                                "ENSEMBL:ENSP00000481331",
                                "ENSEMBL:ENSP00000481331.2",
                                "UniProtKB:B9VVT8",
                                "ENSEMBL:ENSP00000476310",
                                "ENSEMBL:ENSP00000476310.1",
                                "UniProtKB:F1D8S2",
                                "UniProtKB:F1D8T0",
                                "UniProtKB:F1D8T1",
                                "UniProtKB:P41235",
                                "PR:P41235"
                            ]
                        },
                        {
                            "attribute_type_id": "biolink:synonym",
                            "value": [
                                "HNF4A",
                                "HNF4A gene",
                                "A0A087WXV4_HUMAN Hepatocyte nuclear factor 4-alpha (Fragment) (trembl)",
                                "B9VVT8_HUMAN HNF4alpha10/11/12 (Fragment) (trembl)",
                                "F1D8S2_HUMAN Hepatocyte nuclear factor 4 4 alpha variant 1 (trembl)",
                                "F1D8T0_HUMAN Hepatocyte nuclear factor 4 4 alpha variant 4 (trembl)",
                                "F1D8T1_HUMAN Hepatocyte nuclear factor 4 4 alpha variant 2 (trembl)",
                                "HNF4A_HUMAN Hepatocyte nuclear factor 4-alpha (sprot)",
                                "hepatocyte nuclear factor 4-alpha (human)"
                            ]
                        }
                    ]
                },
                "NCBIGene:9306": {
                    "categories": [
                        "biolink:Gene"
                    ],
                    "name": "SOCS6",
                    "attributes": [
                        {
                            "attribute_type_id": "biolink:xref",
                            "value": [
                                "NCBIGene:9306",
                                "ENSEMBL:ENSG00000170677",
                                "HGNC:16833",
                                "OMIM:605118",
                                "UMLS:C1424581",
                                "UniProtKB:A0A024R379",
                                "UniProtKB:O14544",
                                "PR:O14544",
                                "ENSEMBL:ENSP00000381034",
                                "ENSEMBL:ENSP00000381034.3",
                                "ENSEMBL:ENSP00000463395",
                                "ENSEMBL:ENSP00000463395.1"
                            ]
                        },
                        {
                            "attribute_type_id": "biolink:synonym",
                            "value": [
                                "SOCS6",
                                "SOCS6 gene",
                                "A0A024R379_HUMAN Suppressor of cytokine signaling 6, isoform CRA_a (trembl)",
                                "SOCS6_HUMAN Suppressor of cytokine signaling 6 (sprot)",
                                "suppressor of cytokine signaling 6 (human)"
                            ]
                        }
                    ]
                },
                "NCBIGene:5967": {
                    "categories": [
                        "biolink:Gene"
                    ],
                    "name": "REG1A",
                    "attributes": [
                        {
                            "attribute_type_id": "biolink:xref",
                            "value": [
                                "NCBIGene:5967",
                                "ENSEMBL:ENSG00000115386",
                                "HGNC:9951",
                                "OMIM:167770",
                                "UMLS:C1419333",
                                "UniProtKB:A8K7G6",
                                "UniProtKB:P05451",
                                "PR:P05451",
                                "ENSEMBL:ENSP00000233735",
                                "ENSEMBL:ENSP00000233735.1",
                                "UMLS:C0208940"
                            ]
                        },
                        {
                            "attribute_type_id": "biolink:synonym",
                            "value": [
                                "REG1A",
                                "REG1A gene",
                                "A8K7G6_HUMAN cDNA FLJ75763, highly similar to Homo sapiens regenerating islet-derived 1 alpha (pancreatic stone protein, pancreatic thread protein) (REG1A), mRNA (trembl)",
                                "REG1A_HUMAN Lithostathine-1-alpha (sprot)",
                                "lithostathine-1-alpha (human)",
                                "human REG1A protein"
                            ]
                        }
                    ]
                },
                "NCBIGene:9900": {
                    "categories": [
                        "biolink:Gene"
                    ],
                    "name": "SV2A",
                    "attributes": [
                        {
                            "attribute_type_id": "biolink:xref",
                            "value": [
                                "NCBIGene:9900",
                                "ENSEMBL:ENSG00000159164",
                                "HGNC:20566",
                                "OMIM:185860",
                                "UMLS:C1427005",
                                "UniProtKB:B4E000",
                                "UniProtKB:Q7L0J3",
                                "PR:Q7L0J3"
                            ]
                        },
                        {
                            "attribute_type_id": "biolink:synonym",
                            "value": [
                                "SV2A",
                                "SV2A gene",
                                "B4E000_HUMAN cDNA FLJ57689, highly similar to Synaptic vesicle glycoprotein 2A (trembl)",
                                "SV2A_HUMAN Synaptic vesicle glycoprotein 2A (sprot)",
                                "synaptic vesicle glycoprotein 2A (human)"
                            ]
                        }
                    ]
                },
                "NCBIGene:7531": {
                    "categories": [
                        "biolink:Gene"
                    ],
                    "name": "YWHAE",
                    "attributes": [
                        {
                            "attribute_type_id": "biolink:xref",
                            "value": [
                                "NCBIGene:7531",
                                "ENSEMBL:ENSG00000108953",
                                "HGNC:12851",
                                "OMIM:605066",
                                "UMLS:C1421560",
                                "UniProtKB:P62258",
                                "PR:P62258",
                                "UMLS:C1144015",
                                "UniProtKB:V9HW98"
                            ]
                        },
                        {
                            "attribute_type_id": "biolink:synonym",
                            "value": [
                                "YWHAE",
                                "YWHAE gene",
                                "1433E_HUMAN 14-3-3 protein epsilon (sprot)",
                                "14-3-3 protein epsilon (human)",
                                "YWHAE protein, human",
                                "V9HW98_HUMAN Epididymis luminal protein 2 (trembl)"
                            ]
                        }
                    ]
                },
                "NCBIGene:1906": {
                    "categories": [
                        "biolink:Gene"
                    ],
                    "name": "EDN1",
                    "attributes": [
                        {
                            "attribute_type_id": "biolink:xref",
                            "value": [
                                "NCBIGene:1906",
                                "ENSEMBL:ENSG00000078401",
                                "HGNC:3176",
                                "OMIM:131240",
                                "UMLS:C1414260",
                                "UniProtKB:P05305",
                                "PR:P05305",
                                "ENSEMBL:ENSP00000368683",
                                "ENSEMBL:ENSP00000368683.5",
                                "UMLS:C4316927",
                                "UniProtKB:Q6FH53"
                            ]
                        },
                        {
                            "attribute_type_id": "biolink:synonym",
                            "value": [
                                "EDN1",
                                "EDN1 gene",
                                "EDN1_HUMAN Endothelin-1 (sprot)",
                                "endothelin-1 (human)",
                                "Endothelin-1, human",
                                "Q6FH53_HUMAN EDN1 protein (trembl)"
                            ]
                        }
                    ]
                },
                "NCBIGene:5294": {
                    "categories": [
                        "biolink:Gene"
                    ],
                    "name": "PIK3CG",
                    "attributes": [
                        {
                            "attribute_type_id": "biolink:xref",
                            "value": [
                                "NCBIGene:5294",
                                "ENSEMBL:ENSG00000105851",
                                "HGNC:8978",
                                "OMIM:601232",
                                "UMLS:C1335214",
                                "UniProtKB:A0A024R720",
                                "UniProtKB:A8K9G9",
                                "UniProtKB:P48736",
                                "PR:P48736",
                                "ENSEMBL:ENSP00000352121",
                                "ENSEMBL:ENSP00000352121.3",
                                "ENSEMBL:ENSP00000392258",
                                "ENSEMBL:ENSP00000392258.2",
                                "ENSEMBL:ENSP00000419260",
                                "ENSEMBL:ENSP00000419260.1",
                                "UMLS:C2713509"
                            ]
                        },
                        {
                            "attribute_type_id": "biolink:synonym",
                            "value": [
                                "PIK3CG",
                                "PIK3CG gene",
                                "A0A024R720_HUMAN Phosphatidylinositol-4,5-bisphosphate 3-kinase (trembl)",
                                "A8K9G9_HUMAN Phosphatidylinositol-4,5-bisphosphate 3-kinase (trembl)",
                                "PK3CG_HUMAN Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform (sprot)",
                                "phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform (human)",
                                "PIK3CG protein, human"
                            ]
                        }
                    ]
                },
                "NCBIGene:6462": {
                    "categories": [
                        "biolink:Gene"
                    ],
                    "name": "SHBG",
                    "attributes": [
                        {
                            "attribute_type_id": "biolink:xref",
                            "value": [
                                "NCBIGene:6462",
                                "ENSEMBL:ENSG00000129214",
                                "HGNC:10839",
                                "OMIM:182205",
                                "UMLS:C1366439",
                                "UniProtKB:B0FWH2",
                                "UniProtKB:B0FWH8",
                                "UniProtKB:I3L145",
                                "ENSEMBL:ENSP00000345675",
                                "ENSEMBL:ENSP00000345675.6",
                                "ENSEMBL:ENSP00000458559",
                                "ENSEMBL:ENSP00000458559.1",
                                "UniProtKB:P04278",
                                "PR:P04278",
                                "UMLS:C0085805",
                                "UMLS:C5197198"
                            ]
                        },
                        {
                            "attribute_type_id": "biolink:synonym",
                            "value": [
                                "SHBG",
                                "SHBG gene",
                                "B0FWH2_HUMAN Sex hormone binding globulin (Fragment) (trembl)",
                                "B0FWH8_HUMAN Sex hormone binding globulin (trembl)",
                                "I3L145_HUMAN Sex hormone-binding globulin (trembl)",
                                "SHBG_HUMAN Sex hormone-binding globulin (sprot)",
                                "sex hormone-binding globulin (human)",
                                "Androgen Binding Protein",
                                "SHBG protein, human"
                            ]
                        }
                    ]
                },
                "NCBIGene:382": {
                    "categories": [
                        "biolink:Gene"
                    ],
                    "name": "ARF6",
                    "attributes": [
                        {
                            "attribute_type_id": "biolink:xref",
                            "value": [
                                "NCBIGene:382",
                                "ENSEMBL:ENSG00000165527",
                                "HGNC:659",
                                "OMIM:600464",
                                "UMLS:C1412511",
                                "UniProtKB:P62330",
                                "PR:P62330",
                                "ENSEMBL:ENSP00000298316",
                                "ENSEMBL:ENSP00000298316.5",
                                "ENSEMBL:ENSP00000510419",
                                "ENSEMBL:ENSP00000510419.1",
                                "UMLS:C1742415"
                            ]
                        },
                        {
                            "attribute_type_id": "biolink:synonym",
                            "value": [
                                "ARF6",
                                "ARF6 gene",
                                "ARF6_HUMAN ADP-ribosylation factor 6 (sprot)",
                                "ADP-ribosylation factor 6 (human)",
                                "ARF6 protein, human"
                            ]
                        }
                    ]
                },
                "NCBIGene:3381": {
                    "categories": [
                        "biolink:Gene"
                    ],
                    "name": "IBSP",
                    "attributes": [
                        {
                            "attribute_type_id": "biolink:xref",
                            "value": [
                                "NCBIGene:3381",
                                "ENSEMBL:ENSG00000029559",
                                "HGNC:5341",
                                "OMIM:147563",
                                "UMLS:C1415840",
                                "UniProtKB:P21815",
                                "PR:P21815",
                                "ENSEMBL:ENSP00000226284",
                                "ENSEMBL:ENSP00000226284.5"
                            ]
                        },
                        {
                            "attribute_type_id": "biolink:synonym",
                            "value": [
                                "IBSP",
                                "IBSP gene",
                                "SIAL_HUMAN Bone sialoprotein 2 (sprot)",
                                "bone sialoprotein 2 (human)"
                            ]
                        }
                    ]
                },
                "NCBIGene:4825": {
                    "categories": [
                        "biolink:Gene"
                    ],
                    "name": "NKX6-1",
                    "attributes": [
                        {
                            "attribute_type_id": "biolink:xref",
                            "value": [
                                "NCBIGene:4825",
                                "ENSEMBL:ENSG00000163623",
                                "HGNC:7839",
                                "OMIM:602563",
                                "UMLS:C1417738",
                                "UniProtKB:P78426",
                                "PR:P78426",
                                "ENSEMBL:ENSP00000295886",
                                "ENSEMBL:ENSP00000295886.3"
                            ]
                        },
                        {
                            "attribute_type_id": "biolink:synonym",
                            "value": [
                                "NKX6-1",
                                "NKX6-1 gene",
                                "NKX61_HUMAN Homeobox protein Nkx-6.1 (sprot)",
                                "homeobox protein Nkx-6.1 (human)"
                            ]
                        }
                    ]
                },
                "NCBIGene:6999": {
                    "categories": [
                        "biolink:Gene"
                    ],
                    "name": "TDO2",
                    "attributes": [
                        {
                            "attribute_type_id": "biolink:xref",
                            "value": [
                                "NCBIGene:6999",
                                "ENSEMBL:ENSG00000151790",
                                "HGNC:11708",
                                "OMIM:191070",
                                "UMLS:C1420674",
                                "UniProtKB:P48775",
                                "PR:P48775",
                                "ENSEMBL:ENSP00000444788",
                                "ENSEMBL:ENSP00000444788.2",
                                "ENSEMBL:ENSP00000460086",
                                "ENSEMBL:ENSP00000460086.1",
                                "UMLS:C5441735"
                            ]
                        },
                        {
                            "attribute_type_id": "biolink:synonym",
                            "value": [
                                "TDO2",
                                "TDO2 gene",
                                "T23O_HUMAN Tryptophan 2,3-dioxygenase (sprot)",
                                "tryptophan 2,3-dioxygenase (human)",
                                "TDO2 protein, human"
                            ]
                        }
                    ]
                },
                "NCBIGene:5502": {
                    "categories": [
                        "biolink:Gene"
                    ],
                    "name": "PPP1R1A",
                    "attributes": [
                        {
                            "attribute_type_id": "biolink:xref",
                            "value": [
                                "NCBIGene:5502",
                                "ENSEMBL:ENSG00000135447",
                                "HGNC:9286",
                                "OMIM:613246",
                                "UMLS:C1418824",
                                "UniProtKB:Q13522",
                                "PR:Q13522",
                                "ENSEMBL:ENSP00000257905",
                                "ENSEMBL:ENSP00000257905.8"
                            ]
                        },
                        {
                            "attribute_type_id": "biolink:synonym",
                            "value": [
                                "PPP1R1A",
                                "PPP1R1A gene",
                                "PPR1A_HUMAN Protein phosphatase 1 regulatory subunit 1A (sprot)",
                                "protein phosphatase 1 regulatory subunit 1A (human)"
                            ]
                        }
                    ]
                },
                "NCBIGene:4170": {
                    "categories": [
                        "biolink:Gene"
                    ],
                    "name": "MCL1",
                    "attributes": [
                        {
                            "attribute_type_id": "biolink:xref",
                            "value": [
                                "NCBIGene:4170",
                                "ENSEMBL:ENSG00000143384",
                                "HGNC:6943",
                                "OMIM:159552",
                                "UMLS:C1366587",
                                "UniProtKB:A0A087WT64",
                                "ENSEMBL:ENSP00000477624",
                                "ENSEMBL:ENSP00000477624.1",
                                "UniProtKB:C8YZ26",
                                "UniProtKB:Q07820",
                                "PR:Q07820",
                                "UMLS:C0215343"
                            ]
                        },
                        {
                            "attribute_type_id": "biolink:synonym",
                            "value": [
                                "MCL1",
                                "MCL1 gene",
                                "A0A087WT64_HUMAN Induced myeloid leukemia cell differentiation protein Mcl-1 (trembl)",
                                "C8YZ26_HUMAN Myeloid cell leukemia ES variant (trembl)",
                                "MCL1_HUMAN Induced myeloid leukemia cell differentiation protein Mcl-1 (sprot)",
                                "induced myeloid leukemia cell differentiation protein Mcl-1 (human)",
                                "MCL1 protein, human"
                            ]
                        }
                    ]
                },
                "NCBIGene:51738": {
                    "categories": [
                        "biolink:Gene"
                    ],
                    "name": "GHRL",
                    "attributes": [
                        {
                            "attribute_type_id": "biolink:xref",
                            "value": [
                                "NCBIGene:51738",
                                "ENSEMBL:ENSG00000157017",
                                "HGNC:18129",
                                "OMIM:605353",
                                "UMLS:C1825346",
                                "UniProtKB:Q9UBU3",
                                "PR:Q9UBU3",
                                "UMLS:C1870739"
                            ]
                        },
                        {
                            "attribute_type_id": "biolink:synonym",
                            "value": [
                                "GHRL",
                                "GHRL gene",
                                "GHRL_HUMAN Appetite-regulating hormone (sprot)",
                                "appetite-regulating hormone (human)",
                                "GHRL protein, human"
                            ]
                        }
                    ]
                },
                "NCBIGene:2516": {
                    "categories": [
                        "biolink:Gene"
                    ],
                    "name": "NR5A1",
                    "attributes": [
                        {
                            "attribute_type_id": "biolink:xref",
                            "value": [
                                "NCBIGene:2516",
                                "ENSEMBL:ENSG00000136931",
                                "HGNC:7983",
                                "OMIM:184757",
                                "UMLS:C1417838",
                                "UniProtKB:F1D8R8",
                                "UniProtKB:Q13285",
                                "PR:Q13285",
                                "ENSEMBL:ENSP00000362690",
                                "ENSEMBL:ENSP00000362690.4",
                                "UMLS:C1569965"
                            ]
                        },
                        {
                            "attribute_type_id": "biolink:synonym",
                            "value": [
                                "NR5A1",
                                "NR5A1 gene",
                                "F1D8R8_HUMAN Steroidogenic factor 1 nuclear receptor (trembl)",
                                "STF1_HUMAN Steroidogenic factor 1 (sprot)",
                                "steroidogenic factor 1 (human)",
                                "NR5A1 protein, human"
                            ]
                        }
                    ]
                },
                "NCBIGene:4023": {
                    "categories": [
                        "biolink:Gene"
                    ],
                    "name": "LPL",
                    "attributes": [
                        {
                            "attribute_type_id": "biolink:xref",
                            "value": [
                                "NCBIGene:4023",
                                "ENSEMBL:ENSG00000175445",
                                "HGNC:6677",
                                "OMIM:609708",
                                "UMLS:C1416902",
                                "UniProtKB:A0A1B1RVA9",
                                "UniProtKB:P06858",
                                "PR:P06858",
                                "ENSEMBL:ENSP00000497642",
                                "ENSEMBL:ENSP00000497642.1",
                                "UMLS:C2932881"
                            ]
                        },
                        {
                            "attribute_type_id": "biolink:synonym",
                            "value": [
                                "LPL",
                                "LPL gene",
                                "A0A1B1RVA9_HUMAN Lipoprotein lipase (trembl)",
                                "LIPL_HUMAN Lipoprotein lipase (sprot)",
                                "lipoprotein lipase (human)",
                                "LPL protein, human"
                            ]
                        }
                    ]
                },
                "NCBIGene:8660": {
                    "categories": [
                        "biolink:Gene"
                    ],
                    "name": "IRS2",
                    "attributes": [
                        {
                            "attribute_type_id": "biolink:xref",
                            "value": [
                                "NCBIGene:8660",
                                "ENSEMBL:ENSG00000185950",
                                "HGNC:6126",
                                "OMIM:600797",
                                "UMLS:C1334141",
                                "UniProtKB:Q9P084",
                                "UniProtKB:Q9Y4H2",
                                "PR:Q9Y4H2",
                                "ENSEMBL:ENSP00000365016",
                                "ENSEMBL:ENSP00000365016.3",
                                "UMLS:C1334191"
                            ]
                        },
                        {
                            "attribute_type_id": "biolink:synonym",
                            "value": [
                                "IRS2",
                                "IRS2 gene",
                                "Q9P084_HUMAN HSPC298 (Fragment) (trembl)",
                                "IRS2_HUMAN Insulin receptor substrate 2 (sprot)",
                                "insulin receptor substrate 2 (human)",
                                "IRS2 protein, human"
                            ]
                        }
                    ]
                },
                "NCBIGene:5602": {
                    "categories": [
                        "biolink:Gene"
                    ],
                    "name": "MAPK10",
                    "attributes": [
                        {
                            "attribute_type_id": "biolink:xref",
                            "value": [
                                "NCBIGene:5602",
                                "ENSEMBL:ENSG00000109339",
                                "HGNC:6872",
                                "OMIM:602897",
                                "UMLS:C1334478",
                                "UniProtKB:A0A1P0B7D2",
                                "ENSEMBL:ENSP00000378589",
                                "ENSEMBL:ENSP00000378589.5",
                                "ENSEMBL:ENSP00000378598",
                                "ENSEMBL:ENSP00000378598.5",
                                "UniProtKB:A0A286YEQ7",
                                "ENSEMBL:ENSP00000492898",
                                "ENSEMBL:ENSP00000492898.1",
                                "UniProtKB:A0A286YES0",
                                "ENSEMBL:ENSP00000492920",
                                "ENSEMBL:ENSP00000492920.1",
                                "ENSEMBL:ENSP00000493313",
                                "ENSEMBL:ENSP00000493313.1",
                                "UniProtKB:A0A286YF02",
                                "ENSEMBL:ENSP00000493199",
                                "ENSEMBL:ENSP00000493199.1",
                                "ENSEMBL:ENSP00000493455",
                                "ENSEMBL:ENSP00000493455.1",
                                "UniProtKB:A0A286YF97",
                                "ENSEMBL:ENSP00000492886",
                                "ENSEMBL:ENSP00000492886.1",
                                "ENSEMBL:ENSP00000492913",
                                "ENSEMBL:ENSP00000492913.1",
                                "ENSEMBL:ENSP00000493344",
                                "ENSEMBL:ENSP00000493344.1",
                                "UniProtKB:A0A286YFD7",
                                "ENSEMBL:ENSP00000493350",
                                "ENSEMBL:ENSP00000493350.1",
                                "UniProtKB:A0A286YFN2",
                                "ENSEMBL:ENSP00000493447",
                                "ENSEMBL:ENSP00000493447.1",
                                "UniProtKB:D6RCB1",
                                "ENSEMBL:ENSP00000422277",
                                "ENSEMBL:ENSP00000422277.2",
                                "UniProtKB:D6RJF9",
                                "ENSEMBL:ENSP00000352157",
                                "ENSEMBL:ENSP00000352157.4",
                                "ENSEMBL:ENSP00000425654",
                                "ENSEMBL:ENSP00000425654.2",
                                "ENSEMBL:ENSP00000492484",
                                "ENSEMBL:ENSP00000492484.1",
                                "ENSEMBL:ENSP00000492809",
                                "ENSEMBL:ENSP00000492809.1",
                                "ENSEMBL:ENSP00000492972",
                                "ENSEMBL:ENSP00000492972.1",
                                "ENSEMBL:ENSP00000493204",
                                "ENSEMBL:ENSP00000493204.1",
                                "ENSEMBL:ENSP00000493206",
                                "ENSEMBL:ENSP00000493206.1",
                                "ENSEMBL:ENSP00000493215",
                                "ENSEMBL:ENSP00000493215.1",
                                "ENSEMBL:ENSP00000493309",
                                "ENSEMBL:ENSP00000493309.1",
                                "ENSEMBL:ENSP00000493329",
                                "ENSEMBL:ENSP00000493329.1",
                                "ENSEMBL:ENSP00000493373",
                                "ENSEMBL:ENSP00000493373.1",
                                "ENSEMBL:ENSP00000493395",
                                "ENSEMBL:ENSP00000493395.1",
                                "UniProtKB:F8W9R5",
                                "ENSEMBL:ENSP00000414469",
                                "ENSEMBL:ENSP00000414469.4",
                                "UniProtKB:I6L9F3",
                                "UniProtKB:P53779",
                                "PR:P53779",
                                "UMLS:C1455843",
                                "UniProtKB:Q499Y8"
                            ]
                        },
                        {
                            "attribute_type_id": "biolink:synonym",
                            "value": [
                                "MAPK10",
                                "MAPK10 gene",
                                "A0A1P0B7D2_HUMAN Stress-activated protein kinase JNK (trembl)",
                                "A0A286YEQ7_HUMAN Stress-activated protein kinase JNK (trembl)",
                                "A0A286YES0_HUMAN Stress-activated protein kinase JNK (trembl)",
                                "A0A286YF02_HUMAN Stress-activated protein kinase JNK (trembl)",
                                "A0A286YF97_HUMAN Stress-activated protein kinase JNK (trembl)",
                                "A0A286YFD7_HUMAN Stress-activated protein kinase JNK (trembl)",
                                "A0A286YFN2_HUMAN Stress-activated protein kinase JNK (trembl)",
                                "D6RCB1_HUMAN Stress-activated protein kinase JNK (trembl)",
                                "D6RJF9_HUMAN Stress-activated protein kinase JNK (trembl)",
                                "F8W9R5_HUMAN Stress-activated protein kinase JNK (trembl)",
                                "I6L9F3_HUMAN Stress-activated protein kinase JNK (trembl)",
                                "MK10_HUMAN Mitogen-activated protein kinase 10 (sprot)",
                                "mitogen-activated protein kinase 10 (human)",
                                "MAPK10 protein, human",
                                "Q499Y8_HUMAN Stress-activated protein kinase JNK (trembl)"
                            ]
                        }
                    ]
                },
                "NCBIGene:627": {
                    "categories": [
                        "biolink:Gene"
                    ],
                    "name": "BDNF",
                    "attributes": [
                        {
                            "attribute_type_id": "biolink:xref",
                            "value": [
                                "NCBIGene:627",
                                "ENSEMBL:ENSG00000176697",
                                "HGNC:1033",
                                "OMIM:113505",
                                "UMLS:C1332408",
                                "UniProtKB:A0A0E3SU01",
                                "UniProtKB:P23560",
                                "PR:P23560",
                                "UMLS:C0961966",
                                "UMLS:C3486709"
                            ]
                        },
                        {
                            "attribute_type_id": "biolink:synonym",
                            "value": [
                                "BDNF",
                                "BDNF gene",
                                "A0A0E3SU01_HUMAN Brain-derived neurotrophic factor (trembl)",
                                "BDNF_HUMAN Brain-derived neurotrophic factor (sprot)",
                                "brain-derived neurotrophic factor (human)",
                                "abrineurin",
                                "brain-derived neurotrophic factor, human"
                            ]
                        }
                    ]
                },
                "NCBIGene:5770": {
                    "categories": [
                        "biolink:Gene"
                    ],
                    "name": "PTPN1",
                    "attributes": [
                        {
                            "attribute_type_id": "biolink:xref",
                            "value": [
                                "NCBIGene:5770",
                                "ENSEMBL:ENSG00000196396",
                                "HGNC:9642",
                                "OMIM:176885",
                                "UMLS:C1335281",
                                "UniProtKB:A8K3M3",
                                "UniProtKB:B4DSN5",
                                "ENSEMBL:ENSP00000437732",
                                "ENSEMBL:ENSP00000437732.1",
                                "UniProtKB:P18031",
                                "PR:P18031",
                                "ENSEMBL:ENSP00000360683",
                                "ENSEMBL:ENSP00000360683.3",
                                "UMLS:C1335056"
                            ]
                        },
                        {
                            "attribute_type_id": "biolink:synonym",
                            "value": [
                                "PTPN1",
                                "PTPN1 gene",
                                "A8K3M3_HUMAN Tyrosine-protein phosphatase non-receptor type (trembl)",
                                "B4DSN5_HUMAN Tyrosine-protein phosphatase non-receptor type (trembl)",
                                "PTN1_HUMAN Tyrosine-protein phosphatase non-receptor type 1 (sprot)",
                                "tyrosine-protein phosphatase non-receptor type 1 (human)",
                                "PTPN1 protein, human"
                            ]
                        }
                    ]
                },
                "NCBIGene:7498": {
                    "categories": [
                        "biolink:Gene"
                    ],
                    "name": "XDH",
                    "attributes": [
                        {
                            "attribute_type_id": "biolink:xref",
                            "value": [
                                "NCBIGene:7498",
                                "ENSEMBL:ENSG00000158125",
                                "HGNC:12805",
                                "OMIM:607633",
                                "UMLS:C1421531",
                                "UniProtKB:P47989",
                                "PR:P47989",
                                "ENSEMBL:ENSP00000368727",
                                "ENSEMBL:ENSP00000368727.3",
                                "UMLS:C0043317",
                                "UMLS:C5441738"
                            ]
                        },
                        {
                            "attribute_type_id": "biolink:synonym",
                            "value": [
                                "XDH",
                                "XDH gene",
                                "XDH_HUMAN Xanthine dehydrogenase/oxidase (sprot)",
                                "xanthine dehydrogenase/oxidase (human)",
                                "Xanthine Oxidase",
                                "Xanthine Dehydrogenase/Oxidase, Human"
                            ]
                        }
                    ]
                },
                "NCBIGene:1981": {
                    "categories": [
                        "biolink:Gene"
                    ],
                    "name": "EIF4G1",
                    "attributes": [
                        {
                            "attribute_type_id": "biolink:xref",
                            "value": [
                                "NCBIGene:1981",
                                "ENSEMBL:ENSG00000114867",
                                "HGNC:3296",
                                "OMIM:600495",
                                "UMLS:C1414356",
                                "UniProtKB:B2RU06",
                                "UniProtKB:B2RU10",
                                "UniProtKB:B4DSI9",
                                "UniProtKB:O95065",
                                "UniProtKB:Q04637",
                                "PR:Q04637",
                                "UMLS:C2826593",
                                "UniProtKB:Q96I65"
                            ]
                        },
                        {
                            "attribute_type_id": "biolink:synonym",
                            "value": [
                                "EIF4G1",
                                "EIF4G1 gene",
                                "B2RU06_HUMAN eIF4G1 protein (trembl)",
                                "B2RU10_HUMAN eIF4G1 protein (trembl)",
                                "B4DSI9_HUMAN cDNA FLJ56483, highly similar to Eukaryotic translation initiation factor 4 gamma 1 (trembl)",
                                "O95065_HUMAN Eucaryotic translation initiation factor 4G isoform 1 (Fragment) (trembl)",
                                "IF4G1_HUMAN Eukaryotic translation initiation factor 4 gamma 1 (sprot)",
                                "eukaryotic translation initiation factor 4 gamma 1 (human)",
                                "Eukaryotic Translation Initiation Factor 4 Gamma 1",
                                "Q96I65_HUMAN Eukaryotic translation initiation factor 4 gamma, 1 (trembl)"
                            ]
                        }
                    ]
                },
                "NCBIGene:9607": {
                    "categories": [
                        "biolink:Gene"
                    ],
                    "name": "CARTPT",
                    "attributes": [
                        {
                            "attribute_type_id": "biolink:xref",
                            "value": [
                                "NCBIGene:9607",
                                "ENSEMBL:ENSG00000164326",
                                "HGNC:24323",
                                "OMIM:602606",
                                "UMLS:C1824528",
                                "UniProtKB:Q16568",
                                "PR:Q16568",
                                "ENSEMBL:ENSP00000296777",
                                "ENSEMBL:ENSP00000296777.4",
                                "UMLS:C1738809"
                            ]
                        },
                        {
                            "attribute_type_id": "biolink:synonym",
                            "value": [
                                "CARTPT",
                                "CARTPT gene",
                                "CART_HUMAN Cocaine- and amphetamine-regulated transcript protein (sprot)",
                                "cocaine- and amphetamine-regulated transcript protein (human)",
                                "CART protein, human"
                            ]
                        }
                    ]
                },
                "NCBIGene:2026": {
                    "categories": [
                        "biolink:Gene"
                    ],
                    "name": "ENO2",
                    "attributes": [
                        {
                            "attribute_type_id": "biolink:xref",
                            "value": [
                                "NCBIGene:2026",
                                "ENSEMBL:ENSG00000111674",
                                "HGNC:3353",
                                "OMIM:131360",
                                "UMLS:C1414404",
                                "UniProtKB:P09104",
                                "PR:P09104",
                                "UMLS:C5441659",
                                "UniProtKB:Q6FHV6"
                            ]
                        },
                        {
                            "attribute_type_id": "biolink:synonym",
                            "value": [
                                "ENO2",
                                "ENO2 gene",
                                "ENOG_HUMAN Gamma-enolase (sprot)",
                                "gamma-enolase (human)",
                                "ENO2 protein, human",
                                "Q6FHV6_HUMAN Phosphopyruvate hydratase (trembl)"
                            ]
                        }
                    ]
                },
                "NCBIGene:8651": {
                    "categories": [
                        "biolink:Gene"
                    ],
                    "name": "SOCS1",
                    "attributes": [
                        {
                            "attribute_type_id": "biolink:xref",
                            "value": [
                                "NCBIGene:8651",
                                "ENSEMBL:ENSG00000185338",
                                "HGNC:19383",
                                "OMIM:603597",
                                "UMLS:C1426208",
                                "UniProtKB:O15524",
                                "PR:O15524",
                                "ENSEMBL:ENSP00000329418",
                                "ENSEMBL:ENSP00000329418.2",
                                "ENSEMBL:ENSP00000496577",
                                "ENSEMBL:ENSP00000496577.1",
                                "UMLS:C3275256",
                                "UniProtKB:Q4JHT5"
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                                "SOCS1 gene",
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                                "suppressor of cytokine signaling 1 (human)",
                                "Suppressor of Cytokine Signaling 1",
                                "Q4JHT5_HUMAN Suppressor of cytokine signaling 1 (trembl)"
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                                "UMLS:C1418388",
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                                "PCSK1 gene",
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                                "PCSK1 protein, human"
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                                "RARA gene",
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                                "F1D8N9_HUMAN Retinoic acid nuclear receptor alpha variant 2 (trembl)",
                                "RARA_HUMAN Retinoic acid receptor alpha (sprot)",
                                "retinoic acid receptor alpha (human)",
                                "Retinoic Acid Receptor Alpha Isoform Alpha-2, human",
                                "Retinoic Acid Receptor Alpha, human",
                                "Q6I9R7_HUMAN RARA protein (trembl)"
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                                "PR:P20783",
                                "UMLS:C3887787"
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                                "NTF3 gene",
                                "NTF3_HUMAN Neurotrophin-3 (sprot)",
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                                "Neurotrophin-3, human"
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                                "ADCYAP1R1 gene",
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                                "PACR_HUMAN Pituitary adenylate cyclase-activating polypeptide type I receptor (sprot)",
                                "pituitary adenylate cyclase-activating polypeptide type I receptor (human)"
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