# API Endpoints

The following end-points are available to all users.  The result of every query is json-ld.

## GET /metadata/species

Returns a list of species.

```
curl "https://cd.genenetwork.org/api3/metadata/species"
```

Example Result:

```
{
  "@context": {
    "alternateName": "skos:altLabel",
    "data": "@graph",
    "family": "gnt:family",
    "fullName": "skos:prefLabel",
    "gnt": "http://genenetwork.org/term/",
    "id": "@id",
    "name": "rdfs:label",
    "rdfs": "http://www.w3.org/2000/01/rdf-schema#",
    "shortName": "gnt:shortName",
    "skos": "http://www.w3.org/2004/02/skos/core#",
    "taxonomicId": "skos:notation",
    "type": "@type"
  },
  "data": [
    {
      "alternateName": "Human",
      "family": "Vertebrates",
      "fullName": "Human (Homo sapiens, hg19)",
      "id": "http://genenetwork.org/id/Homo_sapiens",
      "name": "Homo sapiens",
      "shortName": "human",
      "taxonomicId": {
        "id": "http://purl.uniprot.org/taxonomy/9606"
      }
    },
    [...]
    {
      "alternateName": "Soybean",
      "family": "Plants",
      "fullName": "Soybean (Glycine max, US DOE JGI-PGF v2 2021)",
      "id": "http://genenetwork.org/id/Glycine_max",
      "name": "Glycine max",
      "shortName": "soybean",
      "taxonomicId": {
        "id": "http://purl.uniprot.org/taxonomy/3847"
      }
    }
  ]
}
```

## GET /metadata/species/:name

Get a list of species with data available in GN.

```
curl "https://cd.genenetwork.org/api3/metadata/species/bat"
```

Example Result:

```
{
  "@context": {
    "alternateName": "skos:altLabel",
    "data": "@graph",
    "family": "gnt:family",
    "fullName": "skos:prefLabel",
    "gnt": "http://genenetwork.org/term/",
    "id": "@id",
    "name": "rdfs:label",
    "rdfs": "http://www.w3.org/2000/01/rdf-schema#",
    "shortName": "gnt:shortName",
    "skos": "http://www.w3.org/2004/02/skos/core#",
    "taxonomicId": "skos:notation",
    "type": "@type"
  },
  "alternateName": "Bat (Glossophaga soricina)",
  "family": "Vertebrates",
  "fullName": "Bat (Glossophaga soricina, gsor23)",
  "id": "http://genenetwork.org/id/Glossophaga_soricina",
  "name": "Glossophaga soricina",
  "shortName": "bat",
  "taxonomicId": {
    "id": "http://purl.uniprot.org/taxonomy/27638"
  }
}

```

## GET /metadata/groups

Fetch all groups.

```
curl "https://cd.genenetwork.org/api3/metadata/groups"
```

Example Result:

```
{
  "@context": {
    "code": "gnt:code",
    "data": "@graph",
    "family": "gnt:family",
    "fullName": "skos:prefLabel",
    "geneticType": "gnt:geneticType",
    "gnt": "http://genenetwork.org/term/",
    "id": "@id",
    "mappingMethod": "gnt:mappingMethod",
    "name": "rdfs:label",
    "rdfs": "http://www.w3.org/2000/01/rdf-schema#",
    "shortName": "gnt:shortName",
    "skos": "http://www.w3.org/2004/02/skos/core#",
    "type": "@type"
  },
  "data": [
    {
      "code": "BDG",
      "family": "BXD Individual Data",
      "fullName": "DOD-BXD-GWI",
      "geneticType": "intercross",
      "id": "http://genenetwork.org/id/setDod-bxd-gwi",
      "mappingMethod": "qtlreaper",
      "name": "BXD DOD Gulf War Illness"
    },
    [...]
    {
      "code": "CAN",
      "fullName": "CANDLE",
      "id": "http://genenetwork.org/id/setCandle",
      "name": "Child Development: CANDLE Cohort with Genotypes (TUCI/UTHSC)"
    }
  ]
}
```

## GET /metadata/groups/:name

Fetch information about a given group given a species' name.

```
curl "https://cd.genenetwork.org/api3/metadata/groups/bat"
```

Example Result:

```
{
  "@context": {
    "code": "gnt:code",
    "data": "@graph",
    "family": "gnt:family",
    "fullName": "skos:prefLabel",
    "geneticType": "gnt:geneticType",
    "gnt": "http://genenetwork.org/term/",
    "id": "@id",
    "mappingMethod": "gnt:mappingMethod",
    "name": "rdfs:label",
    "rdfs": "http://www.w3.org/2000/01/rdf-schema#",
    "shortName": "gnt:shortName",
    "skos": "http://www.w3.org/2004/02/skos/core#",
    "type": "@type"
  },
  "code": "GSO",
  "fullName": "GSO",
  "id": "http://genenetwork.org/id/setGso",
  "mappingMethod": "qtlreaper",
  "name": "HUB Winter Gsor families (2014-2022)"
}
```


## GET /metadata/datasets/:name

Fetch information about a given dataset given it's name.

```
curl "https://cd.genenetwork.org/api3/metadata/datasets/IBR_M_0204_M"
```

or

```
curl "https://cd.genenetwork.org/api3/metadata/datasets/GN11"
```

Example Result:

```
{
  "@context": {
    "accessRights": "dct:accessRights",
    "accessionId": "dct:identifier",
    "acknowledgement": "gnt:hasAcknowledgement",
    "altLabel": "skos:altLabel",
    "caseInfo": "gnt:hasCaseInfo",
    "classifiedUnder": "xkos:classifiedUnder",
    "contactPoint": "dcat:contactPoint",
    "created": "dct:created",
    "data": "@graph",
    "dcat": "http://www.w3.org/ns/dcat#",
    "dct": "http://purl.org/dc/terms/",
    "description": "dct:description",
    "ex": "http://example.org/stuff/1.0/",
    "experimentDesignInfo": "gnt:hasExperimentDesignInfo",
    "foaf": "http://xmlns.com/foaf/0.1/",
    "geoSeriesId": "gnt:hasGeoSeriesId",
    "gnt": "http://genenetwork.org/term/",
    "id": "@id",
    "inbredSet": "ex:belongsToInbredSet",
    "info": "ex:info",
    "label": "rdfs:label",
    "normalization": "gnt:usesNormalization",
    "notes": "gnt:hasNotes",
    "organization": "foaf:Organization",
    "platform": "ex:platform",
    "prefLabel": "skos:prefLabel",
    "processingInfo": "gnt:hasDataProcessingInfo",
    "rdfs": "http://www.w3.org/2000/01/rdf-schema#",
    "skos": "http://www.w3.org/2004/02/skos/core#",
    "tissue": "ex:tissue",
    "title": "dct:title",
    "type": "@type",
    "xkos": "http://rdf-vocabulary.ddialliance.org/xkos#"
  },
  "accessionId": "GN11",
  "contactPoint": "Michael Miles",
  "id": "http://genenetwork.org/id/Ibr_m_0204_m",
  "inbredSet": "BXD Family",
  "label": "IBR_M_0204_M",
  "normalization": "MAS5",
  "platform": {
    "id": "http://genenetwork.org/id/platformMoe430",
    "info": "[...]",
    "label": "Affy Mouse Genome 430A, 430B, 430A 2.0 (GPL339,GPL340)",
    "prefLabel": "MOE430",
    "type": "http://genenetwork.org/category/geneChip"
  },
  "tissue": {
    "id": "http://genenetwork.org/id/tissueBrn",
    "info": "[...]",
    "label": "Brain mRNA",
    "type": "http://genenetwork.org/category/tissue"
  },
  "type": "dcat:Dataset"
}
```

## GET /metadata/datasets/:group/list

List datasets that belong to a given group.

*Parameters:* page(default=0), per-page(default=10)

```
curl "https://cd.genenetwork.org/api3/metadata/datasets/BXD/list"
```

Example Result:

```
{
  "@context": {
    "classifiedUnder": "xkos:classifiedUnder",
    "created": "dct:created",
    "currentPage": "ex:currentPage",
    "data": "@graph",
    "dct": "http://purl.org/dc/terms/",
    "ex": "http://example.org/stuff/1.0/",
    "id": "@id",
    "name": "rdfs:label",
    "pages": "ex:totalCount",
    "rdfs": "http://www.w3.org/2000/01/rdf-schema#",
    "result": "ex:result",
    "resultItem": "ex:resultType",
    "results": "ex:items",
    "title": "dct:title",
    "type": "@type",
    "xkos": "http://rdf-vocabulary.ddialliance.org/xkos#"
  },
  "currentPage": 0,
  "id": "ex:result",
  "pages": 42,
  "results": [
    {
      "created": "2001-09-22",
      "name": "DBA2J-ONH-1212",
      "title": "Molecular clustering identifies complement and endothelin induction as early events in a mouse model of glaucoma."
    },
    [...]
    {
      "created": "2003-06-01",
      "name": "Br_U_0603_M"
    }
  ],
  "type": "resultItem"
}
```

## GET /metadata/datasets/search/:term
Search datasets based of it's title.

*Parameters:* page(default=0), per-page(default=10)

```
curl "https://cd.genenetwork.org/api3/metadata/datasets/search/BXD?page=2&per-page=3"
```

Example Result:

```
{
  "@context": {
    "classifiedUnder": "xkos:classifiedUnder",
    "currentPage": "ex:currentPage",
    "data": "@graph",
    "dataset": "rdfs:label",
    "dct": "http://purl.org/dc/terms/",
    "ex": "http://example.org/stuff/1.0/",
    "id": "@id",
    "inbredSet": "ex:belongsToInbredSet",
    "pages": "ex:totalCount",
    "rdfs": "http://www.w3.org/2000/01/rdf-schema#",
    "result": "ex:result",
    "resultItem": "ex:resultType",
    "results": "ex:items",
    "title": "dct:title",
    "type": "@type",
    "xkos": "http://rdf-vocabulary.ddialliance.org/xkos#"
  },
  "data": [
    {
      "currentPage": 2,
      "id": "ex:result",
      "pages": 46,
      "results": [
        {
          "classifiedUnder": "Phenotype",
          "dataset": "BXD-AEPublish",
          "inbredSet": "BXD Adult and Aged Eye",
          "title": "BXD Adult and Aged Eye Phenotypes"
        },
        {
          "classifiedUnder": "Phenotype",
          "dataset": "BXD-AEPublish",
          "inbredSet": "BXD Adult and Aged Eye",
          "title": "BXD Adult and Aged Eye Phenotypes"
        },
        {
          "classifiedUnder": "Phenotype",
          "dataset": "BXD-BonePublish",
          "inbredSet": "BXD Bone Individual Data",
          "title": "BXD Bone Individual Data"
        }
      ],
      "type": "resultItem"
    }
  ]
}
```

## GET /metadata/datasets/search/:term
Search datasets based of it's title.

*Parameters:* page(default=0), per-page(default=10)

```
curl "https://cd.genenetwork.org/api3/metadata/datasets/search/BXD?page=2&per-page=3"
```

Example Result:

```
{
  "@context": {
    "classifiedUnder": "xkos:classifiedUnder",
    "currentPage": "ex:currentPage",
    "data": "@graph",
    "dataset": "rdfs:label",
    "dct": "http://purl.org/dc/terms/",
    "ex": "http://example.org/stuff/1.0/",
    "id": "@id",
    "inbredSet": "ex:belongsToInbredSet",
    "pages": "ex:totalCount",
    "rdfs": "http://www.w3.org/2000/01/rdf-schema#",
    "result": "ex:result",
    "resultItem": "ex:resultType",
    "results": "ex:items",
    "title": "dct:title",
    "type": "@type",
    "xkos": "http://rdf-vocabulary.ddialliance.org/xkos#"
  },
  "data": [
    {
      "currentPage": 2,
      "id": "ex:result",
      "pages": 118,
      "results": [
        {
          "dataset": "BR_U_0304_DPMMR",
          "inbredSet": "BXD Family"
        },
        {
          "dataset": "Br_U_0303_M",
          "inbredSet": "BXD Family"
        },
        {
          "dataset": "BR_M2_1106_R",
          "inbredSet": "BXD Family",
          "title": "Candidate genes and their regulatory elements: alcohol preference and tolerance"
        },
        {
          "dataset": "BR_M2_1106_R",
          "inbredSet": "BXD Family",
          "title": "Candidate genes and their regulatory elements: alcohol preference and tolerance"
        },
        {
          "dataset": "BR_M2_1106_R",
          "inbredSet": "BXD Family",
          "title": "Candidate genes and their regulatory elements: alcohol preference and tolerance"
        },
        {
          "classifiedUnder": "Phenotype",
          "dataset": "B6D2RIPublish",
          "inbredSet": "BXD Aged Hippocampus",
          "title": "BXD Aged Hippocampus eQTL (Dresden UTHSC 2015)"
        },
        {
          "dataset": "Br_U_0303_M",
          "inbredSet": "BXD Family"
        },
        {
          "dataset": "BR_M2_1106_R",
          "inbredSet": "BXD Family",
          "title": "Candidate genes and their regulatory elements: alcohol preference and tolerance"
        },
        {
          "classifiedUnder": "Phenotype",
          "dataset": "B6D2RIPublish",
          "inbredSet": "BXD Aged Hippocampus",
          "title": "BXD Aged Hippocampus eQTL (Dresden UTHSC 2015)"
        },
        {
          "dataset": "Br_U_0303_M",
          "inbredSet": "BXD Family"
        }
      ],
      "type": "resultItem"
    }
  ]
}

```

## GET /metadata/publications/:name

Get a publication given it's name.  Name can be a pubmedId or a GN-specific identifier for unpublished work.

```
curl "https://cd.genenetwork.org/api3/metadata/publications/2760876"
```

Example Result:

```
{
  "@context": {
    "abstract": "dct:abstract",
    "creator": "dct:creator",
    "dct": "http://purl.org/dc/terms/",
    "fabio": "http://purl.org/spar/fabio/",
    "id": "@id",
    "journal": "fabio:Journal",
    "month": {
      "@id": "prism:publicationDate",
      "@type": "xsd:gMonth"
    },
    "page": "fabio:page",
    "prism": "http://prismstandard.org/namespaces/basic/2.0/",
    "title": "dct:title",
    "type": "@type",
    "volume": "prism:volume",
    "xsd": "http://www.w3.org/2001/XMLSchema#",
    "year": {
      "@id": "fabio:hasPublicationYear",
      "@type": "xsd:gYear"
    }
  },
  "abstract": "Fetal gonadal size [...]",
  "creator": [
    "Argyropoulos G",
    "Shire JG"
  ],
  "id": "http://rdf.ncbi.nlm.nih.gov/pubmed/2760876",
  "journal": "J Reprod Fertil",
  "month": "July",
  "page": "473-478",
  "title": "Genotypic effects on gonadal size in fetal mice",
  "type": "fabio:ResearchPaper",
  "volume": "86(2)",
  "year": "1989"
}
```

## GET /metadata/publications/search/:term

Search publications using :term.

```
curl "https://cd.genenetwork.org/api3/metadata/publications/search/BXD?page=0&per-page=3"
```


Example Result:

```
{
  "@context": {
    "currentPage": "ex:currentPage",
    "data": "@graph",
    "dcat": "http://www.w3.org/ns/dcat#",
    "dct": "http://purl.org/dc/terms/",
    "ex": "http://example.org/stuff/1.0/",
    "fabio": "http://purl.org/spar/fabio/",
    "foaf": "http://xmlns.com/foaf/0.1/",
    "generif": "http://www.ncbi.nlm.nih.gov/gene?cmd=Retrieve&dopt=Graphics&list_uids=",
    "genotype": "http://genenetwork.org/genotype/",
    "gn": "http://genenetwork.org/id/",
    "gnc": "http://genenetwork.org/category/",
    "gnt": "http://genenetwork.org/term/",
    "id": "@id",
    "owl": "http://www.w3.org/2002/07/owl#",
    "pages": "ex:totalCount",
    "phenotype": "http://genenetwork.org/phenotype/",
    "prism": "http://prismstandard.org/namespaces/basic/2.0/",
    "publication": "http://genenetwork.org/publication/",
    "pubmed": "fabio:hasPubMedId",
    "rdf": "http://www.w3.org/1999/02/22-rdf-syntax-ns#",
    "rdfs": "http://www.w3.org/2000/01/rdf-schema#",
    "result": "ex:result",
    "resultItem": "ex:resultType",
    "results": "ex:items",
    "skos": "http://www.w3.org/2004/02/skos/core#",
    "taxon": "https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&id=",
    "title": "dct:title",
    "type": "@type",
    "up": "http://purl.uniprot.org/core/",
    "url": "rdfs:label",
    "xkos": "http://rdf-vocabulary.ddialliance.org/xkos#",
    "xsd": "http://www.w3.org/2001/XMLSchema#"
  },
  "data": [
    {
      "currentPage": 0,
      "id": "ex:result",
      "pages": 2740,
      "results": [
        {
          "title": "A QTL on chromosome 1 modulates inter-male aggression in mice",
          "url": "http://genenetwork.org/id/unpublished14159"
        },
        {
          "title": "\tSystems genetics of metabolism: the use of the BXD murine reference panel for multiscalar integration of traits",
          "url": "http://genenetwork.org/id/unpublished14051"
        },
        {
          "title": "3a,5a-THP in BXD CIE study",
          "url": "http://genenetwork.org/id/unpublished12780"
        }
      ],
      "type": "resultItem"
    }
  ]
}
```

## GET /metadata/phenotypes/:name
Fetch metadata about a given phenotype given it's name.

```
curl "https://cd.genenetwork.org/api3/metadata/phenotypes/BXD_10007"
```

Example Result:

```
{
  "@context": {
    "LRS": "gnt:LRS",
    "abbreviation": "dct:abbreviation",
    "abstract": "dct:abstract",
    "additive": "gnt:additive",
    "altName": "rdfs:altLabel",
    "contributor": "dct:contributor",
    "creator": "dct:creator",
    "data": "@graph",
    "dct": "http://purl.org/dc/terms/",
    "description": "dct:description",
    "fabio": "http://purl.org/spar/fabio/",
    "gnc": "http://genenetwork.org/category/",
    "gnt": "http://genenetwork.org/term/",
    "id": "@id",
    "journal": "fabio:Journal",
    "labCode": "gnt:labCode",
    "locus": "gnt:locus",
    "mean": "gnt:mean",
    "month": {
      "@id": "prism:publicationDate",
      "@type": "xsd:gMonth"
    },
    "page": "fabio:page",
    "prism": "http://prismstandard.org/namespaces/basic/2.0/",
    "rdfs": "http://www.w3.org/2000/01/rdf-schema#",
    "references": "dct:isReferencedBy",
    "sequence": "gnt:sequence",
    "skos": "http://www.w3.org/2004/02/skos/core#",
    "submitter": "gnt:submitter",
    "title": "dct:title",
    "trait": "rdfs:label",
    "traitName": "skos:altLabel",
    "type": "@type",
    "volume": "prism:volume",
    "xsd": "http://www.w3.org/2001/XMLSchema#",
    "year": {
      "@id": "fabio:hasPublicationYear",
      "@type": "xsd:gYear"
    }
  },
  "LRS": 14.3203,
  "abstract": "To discover [...]",
  "additive": 1.24101,
  "creator": [
    "Airey DC",
    "Williams RW",
    "Lu L"
  ],
  "description": "Central nervous system, morphology: Internal granule layer IGL of the cerebellum volume, adjusted for sex, age, body and brain weight [mm3]",
  "gnt:abbreviation": "AdjIGLVol",
  "http://example.org/stuff/1.0/inbredSet": "BXD Family",
  "http://example.org/stuff/1.0/species": "Mouse (Mus musculus, mm10)",
  "id": "http://genenetwork.org/id/traitBxd_10007",
  "journal": "J Neurosci",
  "locus": "rsm10000005700",
  "mean": 18.2129,
  "month": "Jul",
  "page": "5099-5109",
  "references": {
    "id": "http://rdf.ncbi.nlm.nih.gov/pubmed/11438585"
  },
  "sequence": 1,
  "submitter": "robwilliams",
  "title": "Genetic control of the mouse cerebellum: identification of quantitative trait loci modulating size and architecture",

  "trait": "10007",
  "traitName": "BXD_10007",
  "type": "gnc:Phenotype",
  "volume": "21(14)",
  "year": "2001"
}
```

## GET /metadata/phenotypes/:group/:name
Fetch metadata about a given phenotype given it's group and name.

```
curl "https://cd.genenetwork.org/api3/metadata/phenotypes/BXD/10007"
```

Example Result:

```
{
  "@context": {
    "abbreviation": "gnt:abbreviation",
    "abstract": "dct:abstract",
    "additive": "gnt:additive",
    "altName": "rdfs:altLabel",
    "chromosome": "gnt:chr",
    "contributor": "dct:contributor",
    "creator": "dct:creator",
    "data": "@graph",
    "dataset": "dcat:Distribution",
    "dcat": "http://www.w3.org/ns/dcat#",
    "dct": "http://purl.org/dc/terms/",
    "description": "dct:description",
    "fabio": "http://purl.org/spar/fabio/",
    "gnc": "http://genenetwork.org/category/",
    "gnt": "http://genenetwork.org/term/",
    "group": "gnt:belongsToGroup",
    "id": "@id",
    "identifier": "dct:identifier",
    "journal": "fabio:Journal",
    "labCode": "gnt:labCode",
    "locus": "gnt:locus",
    "lodScore": "gnt:lodScore",
    "mb": "gnt:mb",
    "mean": "gnt:mean",
    "month": {
      "@id": "prism:publicationDate",
      "@type": "xsd:gMonth"
    },
    "page": "fabio:page",
    "peakLocation": "gnt:locus",
    "prefLabel": "skos:prefLabel",
    "prism": "http://prismstandard.org/namespaces/basic/2.0/",
    "rdfs": "http://www.w3.org/2000/01/rdf-schema#",
    "references": "dct:isReferencedBy",
    "sequence": "gnt:sequence",
    "skos": "http://www.w3.org/2004/02/skos/core#",
    "species": "gnt:belongsToSpecies",
    "submitter": "gnt:submitter",
    "title": "dct:title",
    "trait": "rdfs:label",
    "traitName": "skos:altLabel",
    "type": "@type",
    "volume": "prism:volume",
    "xsd": "http://www.w3.org/2001/XMLSchema#",
    "year": {
      "@id": "fabio:hasPublicationYear",
      "@type": "xsd:gYear"
    }
  },
  "abbreviation": "AdjIGLVol",
  "additive": 1.24101,
  "dataset": [
    {
      "id": "http://genenetwork.org/id/Gitrmetpublish",
      "identifier": "GITrMetPublish",
      "prefLabel": "GI Tract Metagenome Phenotypes",
      "type": "dcat:Dataset"
    },
    {
      "id": "http://genenetwork.org/id/Bxdpublish",
      "identifier": "BXDPublish",
      "prefLabel": "BXD Published Phenotypes",
      "type": "dcat:Dataset"
    }
  ],
  "description": "Central nervous system, morphology: Internal granule layer IGL of the cerebellum volume, adjusted for sex, age, body and brain weight [mm3]",
  "group": "BXD Family",
  "id": "http://genenetwork.org/id/traitBxd_10007",
  "locus": {
    "chromosome": "8",
    "id": "http://genenetwork.org/id/Rsm10000005700",
    "mb": 95.713,
    "trait": "rsm10000005700"
  },
  "lodScore": 3.11041,
  "mean": 18.2129,
  "references": {
    "abstract": "To discover genes influencing cerebellum development, we conducted a complex trait analysis of variation in the size of the adult mouse cerebellum. We analyzed two sets of recombinant inbred BXD strains and an F2 intercross of the common inbred strains, C57BL/6J and DBA/2J. We measured cerebellar size as the weight or volume of fixed or histologically processed tissue. Among BXD recombinant inbred strains, the cerebellum averages 52 mg 12.4% of the brain and ranges 18 mg in size. In F2 mice, the cerebellum averages 62 mg 12.9% of the brain and ranges approximately 20 mg in size. Five quantitative trait loci QTLs that significantly control variation in cerebellar size were mapped to chromosomes 1 Cbs1a, 8 Cbs8a, 14 Cbs14a, and 19 Cbs19a, Cbs19b. In combination, these QTLs can shift cerebellar size an appreciable 35% of the observed range. To assess regional genetic control of the cerebellum, we also measured the volume of the cell-rich, internal granule layer IGL in a set of BXD strains. The IGL ranges from 34 to 43% of total cerebellar volume. The QTL Cbs8a is significantly linked to variation in IGL volume and is suggestively linked to variation in the number of cerebellar folia. The QTLs we have discovered are among the first loci shown to modulate the size and architecture of the adult mouse cerebellum.5",
    "creator": [
      "Airey DC",
      "Williams RW",
      "Lu L"
    ],
    "id": "http://rdf.ncbi.nlm.nih.gov/pubmed/11438585",
    "journal": "J Neurosci",
    "month": "Jul",
    "page": "5099-5109",
    "title": "Genetic control of the mouse cerebellum: identification of quantitative trait loci modulating size and architecture",
    "volume": "21(14)",
    "year": "2001"
  },
  "sequence": 1,
  "species": "Mouse (Mus musculus, mm10)",
  "submitter": "robwilliams",
  "trait": "10007",
  "traitName": "BXD_10007",
  "type": "gnc:Phenotype"
}
```

## GET /metadata/genotypes/:name
Fetch metadata about a given genotype given it's name.

```
curl "https://cd.genenetwork.org/api3/metadata/genotypes/D1Mit3"
```

Example Result:

```
{
  "@context": {
    "alternateSource": "gnt:hasAltSourceName",
    "chr": "gnt:chr",
    "chrNum": {
      "@id": "gnt:chrNum",
      "@type": "xsd:int"
    },
    "comments": "rdfs:comments",
    "data": "@graph",
    "gnc": "http://genenetwork.org/category/",
    "gnt": "http://genenetwork.org/term/",
    "id": "@id",
    "mb": "gnt:mb",
    "mb2016": "gnt:mb2016",
    "mbMm8": "gnt:mbMm8",
    "name": "rdfs:label",
    "rdfs": "http://www.w3.org/2000/01/rdf-schema#",
    "sequence": "gnt:hasSequence",
    "source": "gnt:hasSource",
    "species": "xkos:classifiedUnder",
    "type": "@type",
    "xkos": "http://rdf-vocabulary.ddialliance.org/xkos#",
    "xsd": "http://www.w3.org/2001/XMLSchema#"
  },
  "chr": "1",
  "chrNum": "1",
  "id": "http://genenetwork.org/id/D1mit3",
  "mb": 19.812,
  "mb2016": 19.8021,
  "mbMm8": 19.7972,
  "name": "D1Mit3",
  "sequence": "TTTAGCAATGGGTANCGGGGATCTTCCACTGTCTTTGTGTCTTAGGACCCAGAATTTACTTTTCTTTTTGTTTTCTTTTCTTTTCCCTGTCTTTTTTTTTTTTTGCTTCTTTTATTTTAAAAATCTATTCATGTTTAAAGTCTCCCTCTCTGTCTCTCTGTCTGTCTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTCCAGTACATGTGGAAACCAGAAGAGGGCATCAGATTCCTAGGAACTGGAGCTACAGAT",
  "source": "Mit",
  "species": {
    "id": "http://genenetwork.org/id/Mus_musculus",
    "name": "Mus musculus"
  },
  "type": "gnc:Genotype"
}
```

## GET /genewiki/gn/:symbol
Get genewiki entries from Genetwork about a given symbol

*Parameters:* page(default=0), per-page(default=10)

```
curl "https://cd.genenetwork.org/api3/metadata/genewikis/gn/Lpl"
```

Example Result:

```
{
  "@context": {
    "author": "dct:creator",
    "category": "gnt:belongsToCategory",
    "comment": "rdfs:comment",
    "created": {
      "@id": "dct:created",
      "@type": "xsd:datetime"
    },
    "currentPage": "ex:currentPage",
    "data": "@graph",
    "dct": "http://purl.org/dc/terms/",
    "entries": "ex:entries",
    "ex": "http://example.org/stuff/1.0/",
    "gnc": "http://genenetwork.org/category/",
    "gnt": "http://genenetwork.org/term/",
    "id": "@id",
    "pages": "ex:totalCount",
    "pubmed": "dct:references",
    "rdfs": "http://www.w3.org/2000/01/rdf-schema#",
    "species": "ex:species",
    "type": "@type",
    "xsd": "http://www.w3.org/2001/XMLSchema#"
  },
  "currentPage": 0,
  "entries": [
    {
      "author": "Robert Williams",
      "category": "Genetic variation and alleles",
      "comment": "cis eQTL in BXD brain RNA-seq data with LRS of 33 and high D allele. No obvious trans target transcripts.",
      "created": "2012-11-10T07:30:09",
      "pubmed": "",
      "species": "Mouse (Mus musculus, mm10)"
    },
    {
      "category": "Genetic variation and alleles",
      "comment": "Individual probe analysis:probably true cisQTL",
      "created": "2007-10-05T09:09:52",
      "pubmed": "",
      "species": "Mouse (Mus musculus, mm10)"
    },
    {
      "category": "",
      "comment": "hippocampal CA1-3 expression signature",
      "created": "2005-12-16T15:23:23",
      "pubmed": "http://rdf.ncbi.nlm.nih.gov/pubmed/15084669",
      "species": "Mouse (Mus musculus, mm10)"
    },
    {
      "category": "Probes and probe sets; Transcriptional and translation control",
      "comment": "Validated strong cis-QTL in CNS using allele-specific expression ASE SNaPshot assay Daniel Ciobanu and al., 2007. Possible 3' UTR variants.",
      "created": "2007-05-08T09:46:07",
      "pubmed": "",
      "species": "Mouse (Mus musculus, mm10)"
    },
    {
      "category": "Expression patterns: mature cells, tissues; Gene structure and organization; Genetic variation and alleles",
      "comment": "cis QTL present in hippocampus LXS, ILM2970706 distal 3' UTR, 121.4 LRS, ISS increases the trait;",
      "created": "2007-05-10T05:52:22",
      "pubmed": "",
      "species": "Mouse (Mus musculus, mm10)"
    },
    {
      "category": "Health and disease associations",
      "comment": "Merck, Rosetta, Schadt, Lusis target gene associated with obesity, diabetes and atherosclerosis.",
      "created": "2008-05-13T08:48:50",
      "pubmed": "",
      "species": "Mouse (Mus musculus, mm10)"
    },
    {
      "author": "Robert Williams",
      "category": "",
      "comment": "Of interest to Lu Lu and colleagues 2015 due to modulation of expression of this gene in hippocampus following stress or ethanol BXD Illumina Hippocampus data sets.",
      "created": "2015-05-26T11:37:57",
      "pubmed": "",
      "species": "Mouse (Mus musculus, mm10)"
    }
  ],
  "id": "http://genenetwork.org/id/symbolLpl",
  "pages": 1,
  "type": "gnc:GNWikiEntry"
}
```

## GET /genewiki/ncbi/:symbol
Get genewiki entries from NCBI about a given symbol

*Parameters:* page(default=0), per-page(default=10)

```
curl "https://cd.genenetwork.org/api3/metadata/genewikis/ncbi/Lpl?per-page=3"
```

Example Result:

```
{
  "@context": {
    "author": "dct:creator", 
    "category": "gnt:belongsToCategory", 
    "comment": "rdfs:comment", 
    "created": {
      "@id": "dct:created", 
      "@type": "xsd:datetime"
    }, 
    "currentPage": "ex:currentPage", 
    "data": "@graph", 
    "dct": "http://purl.org/dc/terms/", 
    "entries": "ex:entries", 
    "ex": "http://example.org/stuff/1.0/", 
    "geneId": "gnt:hasGeneId", 
    "gnc": "http://genenetwork.org/category/", 
    "gnt": "http://genenetwork.org/term/", 
    "id": "@id", 
    "pages": "ex:totalCount", 
    "pubmed": "dct:references", 
    "rdfs": "http://www.w3.org/2000/01/rdf-schema#", 
    "species": "ex:species", 
    "type": "@type", 
    "xsd": "http://www.w3.org/2001/XMLSchema#"
  }, 
  "currentPage": 0, 
  "entries": [
    {
      "comment": "LPL gene variant is involved in carotid atherosclerotic lesions.", 
      "created": "2010-01-20T18:00:00", 
      "geneId": {
        "id": "http://www.ncbi.nlm.nih.gov/gene?cmd=Retrieve&dopt=Graphics&list_uids=4023"
      }, 
      "pubmed": "", 
      "species": "Human (Homo sapiens, hg19)"
    }, 
    {
      "comment": "LPL 44X alleles were associated with moderately increased LDL peak particle size.", 
      "created": "2010-01-20T18:00:00", 
      "geneId": {
        "id": "http://www.ncbi.nlm.nih.gov/gene?cmd=Retrieve&dopt=Graphics&list_uids=4023"
      }, 
      "pubmed": "", 
      "species": "Human (Homo sapiens, hg19)"
    }, 
    {
      "comment": "Observational study of gene-disease association and pharmacogenomic / toxicogenomic. HuGE Navigator", 
      "created": "2009-02-11T15:30:00", 
      "geneId": {
        "id": "http://www.ncbi.nlm.nih.gov/gene?cmd=Retrieve&dopt=Graphics&list_uids=4023"
      }, 
      "pubmed": "", 
      "species": "Human (Homo sapiens, hg19)"
    }
  ], 
  "id": "http://genenetwork.org/id/symbolLPL", 
  "pages": 158, 
  "type": "gnc:GNWikiEntry"
}
```
## GET /metadata/probesets/:name

Get probeset metadat given it's name

```
curl "https://cd.genenetwork.org/api3/metadata/probesets/1436869_at"
```

Expected Result:

```
{
  "@context": {
    "alias": "skos:altLabel",
    "blatMbEnd": "gnt:hasBlatMbEnd",
    "blatMbEnd2016": "gnt:hasBlatMbEnd2016",
    "blatMbStart": "gnt:hasBlatMbStart",
    "blatMbStart2016": "gnt:hasBlatMbStart2016",
    "blatScore": "gnt:hasBlatScore",
    "blatSeq": "gnt:hasBlatSeq",
    "chebi": "gnt:hasChebiId",
    "chip": "gnt:hasChip",
    "chr": "gnt:chr",
    "data": "@graph",
    "dct": "http://purl.org/dc/terms/",
    "description": "dct:description",
    "gnt": "http://genenetwork.org/term/",
    "homologene": "gnt:hasHomologeneId",
    "id": "@id",
    "kegg": "gnt:hasKeggId",
    "mb": "gnt:mb",
    "mb2016": "gnt:mb2016",
    "mbMm8": "gnt:mbMm8",
    "name": "rdfs:label",
    "omim": "gnt:hasOmimId",
    "pubchem": "gnt:hasPubChemId",
    "rdf": "http://www.w3.org/1999/02/22-rdf-syntax-ns#",
    "rdfs": "http://www.w3.org/2000/01/rdf-schema#",
    "skos": "http://www.w3.org/2004/02/skos/core#",
    "specificity": "gnt:hasSpecificity",
    "symbol": "gnt:symbol",
    "targetId": "gnt:hasTargetId",
    "targetSeq": "gnt:hasTargetSeq",
    "targetsRegion": "gnt:targetsRegion",
    "type": "@type",
    "uniprot": "gnt:hasUniprotId"
  },
  "alias": "HHG1; HLP3; HPE3; SMMCI; Dsh; Hhg1",
  "blatMbEnd": 28.4573,
  "blatMbEnd2016": 28.7837,
  "blatMbStart": 28.4572,
  "blatMbStart2016": 28.7837,
  "blatScore": "72",
  "blatSeq": "CATGGGGGTCCACAAATTATATTTTAATTTAACTATTTTCCAATGTAATAGCCGTCTTCTGTACTGCCTTCTT",
  "chip": "Affy Mouse Genome 430 2.0 (GPL1261)",
  "chr": "5",
  "description": "sonic hedgehog hedgehog",
  "homologene": {
    "id": "https://bio2rdf.org/homologene:30961"
  },
  "id": "http://genenetwork.org/id/probeset1436869_at",
  "mb": 28.4572,
  "mb2016": 28.7837,
  "mbMm8": 28.7879,
  "name": "1436869_at",
  "omim": {
    "id": "https://www.omim.org/entry/600725"
  },
  "specificity": "3.6",
  "symbol": "Shh",
  "targetSeq": "catgggggtccacaaattatatttttatacacagaattgtanattanatttttgagagatcaatacctaantgaatgacatttcattttttgaaagtgtaaaatatgnaaatatattattttaatttaactattttccaatgtaatagccgtcttctgtactgccttctt",
  "type": "http://genenetwork.org/category/Probeset"
}
```