RefSeq db_xref to Identifiers.org mapping

rs_id.json

{
  /*
   * NCBI RefSeq
   */

  "RefSeq": {
    "label": "NCBI RefSeq",  // custom
    "class": "RefSeq",
    "prefix": "http://identifiers.org/refseq/"
  },
  "BioProject": {
    "label": "NCBI BioProject",  // custom
    "class": "BioProject",
    "prefix": "http://identifiers.org/bioproject/"
  },
  "PubMed": {
    "label": "NCBI PubMed",  // custom
    "class": "PubMed",
    "prefix": "http://identifiers.org/pubmed/"
  },
  "GeneID": {
    "label": "NCBI Gene",
    "class": "Gene",
    "prefix": "http://identifiers.org/ncbigene/"
  },
  "Protein": {
    "label": "NCBI Protein",
    "class": "Protein",
    "prefix": "http://identifiers.org/ncbiprotein/"
  },
  "taxon": {
    "label": "NCBI Taxonomy",  // custom
    "class": "Taxonomy",
    "prefix": "http://identifiers.org/taxonomy/"
  },
  "UniSTS": {
    "label": "UniSTS",
    "class": "UniSTS",
    "prefix": "http://identifiers.org/unists/"
  },

  /*
   * NCBI RefSeq xref human
   */

  "CCDS": {
    "label": "Consensus CDS",
    "class": "CCDS",
    "prefix": "http://identifiers.org/ccds/"
  },
  "HGNC": {
    "label": "HUGO Gene Nomenclature Committee",
    "class": "HGNC",
    "prefix": "http://identifiers.org/hgnc/"
  },
  "HPRD": {
    "label": "Human Protein Reference Database",
    "class": "HPRD",
    "prefix": "http://identifiers.org/hprd/"
  },
  "MIM": {
    "label": "Online Mendelian Inheritance in Man",
    "class": "OMIM",
    "prefix": "http://identifiers.org/omim/"
  },
  "miRBase": {
    "label": "miRBase Sequence Database",
    "class": "miRBase",
    "prefix": "http://identifiers.org/mirbase/"
  },

  /*
   * NCBI RefSeq xref
   */

  "ASAP": {
    "label": "A Systematic Annotation Package",  // definition
    "class": "ASAP",
    "prefix": "http://identifiers.org/asap/"
  },
  "ATCC": {
    "label": "American Type Culture Collection",  // synonym
    "class": "ATCC",
    "prefix": "http://identifiers.org/atcc/"
  },
  "CDD": {
    "label": "Conserved Domain Database",
    "class": "CDD",
    "prefix": "http://identifiers.org/cdd/"
  },
  "EcoGene": {
    "label": "EcoGene",
    "class": "EcoGene",
    "prefix": "http://identifiers.org/ecogene/"
  },
  "GO": {
    "label": "Gene Ontology",
    "class": "GO",
    "prefix": "http://identifiers.org/obo.go/"
  },
  "GOA": {
    "label": "Gene Ontology Annotation",  // synonym
    "class": "GOA",
    "prefix": "http://identifiers.org/goa/"
  },
  "Greengenes": {
    "label": "GreenGenes",
    "class": "Greengenes",
    "prefix": "http://identifiers.org/greengenes/"
  },
  "HSSP": {
    "label": "Homology-derived Structure of Proteins",
    "class": "HSSP",
    "prefix": "http://identifiers.org/hssp/"
  },
  "ISFinder": {
    "label": "ISFinder",
    "class": "ISFinder",
    "prefix": "http://identifiers.org/isfinder/"
  },
  "InterPro": {
    "label": "InterPro",
    "class": "InterPro",
    "prefix": "http://identifiers.org/interpro/"
  },
  "NBRC": {
    "label": "NITE Biological Research Center Catalogue",
    "class": "NBRC",
    "prefix": "http://identifiers.org/nbrc/"
  },
  "PDB": {
    "label": "Protein Data Bank",
    "class": "PDB",
    "prefix": "http://identifiers.org/pdb/"
  },
  "PFAM": {
    "label": "Protein Family Database",  // synonym
    "class": "Pfam",
    "prefix": "http://identifiers.org/pfam/"
  },
  "REBASE": {
    "label": "Restriction Enzyme Database",  // synonym
    "class": "REBASE",
    "prefix": "http://identifiers.org/rebase/"
  },
  "TIGRFAM": {
    "label": "TIGRFAMS",
    "class": "TIGRFAM",
    "prefix": "http://identifiers.org/tigrfam/"
  },
  "UniProtKB/Swiss-Prot": {
    "label": "UniProt/SwissProt",
    "class": "UniProt",
    "prefix": "http://identifiers.org/uniprot/"
  },
  "UniProtKB/TrEMBL": {
    "label": "UniProt/TrEMBL",
    "class": "UniProt",
    "prefix": "http://identifiers.org/uniprot/"
  },

  /*
   * NEED SOME HACK
   */

  // remove "tax_" prefix from ID
  "HOMD": {
    "label": "Human Oral Microbiome Database Taxonomy",  // custom
    "class": "HomdTaxon",
    "prefix": "http://identifiers.org/homd.taxon/"
  },

  // add "ECOCYC:" prefix to ID
  "ECOCYC": {
    "label": "BioCyc/EcoCyc",
    "class": "EcoCyc",
    "prefix": "http://identifiers.org/biocyc/ECOCYC:"
  },

  /*
   * NOT AVAILABLE IN Identifiers.org FOR NOW
   */

  // http://www.ericbrc.org/portal/eric/
  "ERIC": {
    "label": "Euteropathogen Resource Integration Center",  // custom
    "class": "ERIC",
    "prefix": "http://identifiers.org/eric/"
  },

  "GI": {
    "label": "NCBI GenInfo Identifier",  // custom
    "class": "GI",
    "prefix": "http://identifiers.org/ncbigi/"
  },

  // http://www.hmpdacc.org/
  // http://www.hmpdacc-resources.org/cgi-bin/hmp_catalog/main.cgi?section=HmpSummary&page=displayHmpProject&hmp_id=
  "HMP": {
    "label": "Human Microbiome Project",  // custom
    "class": "HMP",
    "prefix": "http://identifiers.org/hmp/"
  },

  "PSEUDO": {
    "label": "EMBL pseudo protein identifier",  // custom
    "class": "PSEUDO",
    "prefix": "http://identifiers.org/pseudo/"
  },

  // http://pathema.jcvi.org/
  "Pathema": {
    "label": "Pathema Genome Resource",  // custom
    "class": "Pathema",
    "prefix": "http://identifiers.org/pathema/"
  },

  // http://www.pseudomonas.com/
  // http://www.pseudomonas.com/getAnnotation.do?locusID=
  "PseudoCap": {
    "label": "Pseudomonas Genome Database",  // custom
    "class": "PseudoCap",
    "prefix": "http://identifiers.org/pseudocap/"
  }
}