{
    "bcoid": "GLY_000249",
    "title": "Rat Protein Function (NCBI RefSeq)",
    "description": "The Rat Protein Function (NCBI RefSeq) dataset contains biological function annotation of Rattus norvegicus ...",
    "filename_list": "rat_protein_function_refseq.csv",
    "filename": "rat_protein_function_refseq.csv",
    "filetype": "csv",
    "categories": {
        "species": [
            "Rattus norvegicus"
        ],
        "molecule": [
            "Protein"
        ],
        "tag": [
            "Protein Function"
        ],
        "file_type": [
            "csv"
        ],
        "status": [
            "Reviewed"
        ],
        "scope": [
            "internal"
        ]
    },
    "minitable": {
        "content": [
            [
                "Q76IC6-1...",
                "NP_998792..."
            ],
            [
                "Q76IC6-1...",
                "NP_998792..."
            ]
        ],
        "headers": [
            "uniprotkb_ca...",
            "refseq_ac..."
        ],
        "colwidth": [
            "40%",
            "20%"
        ]
    },
    "sampledata": {
        "type": "table",
        "data": [
            [
                {
                    "type": "string",
                    "label": "uniprotkb_canonical_ac"
                },
                {
                    "type": "string",
                    "label": "refseq_ac"
                },
                {
                    "type": "string",
                    "label": "xref_key"
                },
                {
                    "type": "string",
                    "label": "xref_id"
                },
                {
                    "type": "string",
                    "label": "annotation"
                }
            ],
            [
                "Q76IC6-1",
                "NP_998792",
                "protein_xref_refseq",
                "NP_998792",
                "NIDD mRNA was predominantly expressed in nociceptive neurons and in neurons of the spinal dorsal horn and the number of NIDD-positive neurons in the corresponding dorsal root ganglia or spinal cord increased following induction of chronic hyperalgesia."
            ],
            [
                "Q76IC6-1",
                "NP_998792",
                "protein_xref_pubmed",
                "17899403",
                "NIDD mRNA was predominantly expressed in nociceptive neurons and in neurons of the spinal dorsal horn and the number of NIDD-positive neurons in the corresponding dorsal root ganglia or spinal cord increased following induction of chronic hyperalgesia."
            ]
        ]
    },
    "readme": "Name\n   - Rat Protein Function (NCBI RefSeq)\n\nVersion\n   - v-2.9.1\n\nCreated on\n  - 2019-09-06T14:06:38.975527\n\nModified on\n   - 2024-05-17T11:23:53.614Z\n\nCreated by\n   - Jeet Vora [jeetvora@gwu.edu], Robel Kahsay [rykahsay@gwu.edu], Karina Martinez [karinamartinez@gwu.edu], Luke Johnson [luke.johnson@email.gwu.edu], Urnisha Bhuiyan [sbhuiyan28@email.gwu.edu], Cyrus Au-Yeung [cyruschauyeung@gwu.edu], Kate Warner [k.warner1@gwu.edu]\n\nAuthors\n   - Not Applicable []\n\nChecksum\n   - \n\nUsability Domain\n   - The Rat Protein Function (NCBI RefSeq) dataset contains biological function annotation of Rattus norvegicus [taxid:10116] genes from GeneRIF section in the NCBI RefSeq database. If you use this dataset please provide proper attribution to NCBI RefSeq and GlyGen. \n\nDescription Domain\n   Keywords\n   - protein function\n   - NCBI RefSeq\n   - geneRIF\n   - PMID\n\n   Pipeline Steps\n   - Step-1: The script parses the NCBI RefSeq gpff files to extract the geneRIFs that contain protein function. The script also maps RefSeq accessions to the UniProtKB Canonical accessions. \n\nExecution Domain\n   Scripts   - https://github.com/glygener/glygen-backend-integration/blob/master/dataset-maker/make-protein-dataset.py\n\n\n   Software Prerequisites\n      Name: Python\n      Version: 2.7.5\n      URI: https://www.python.org/download/releases/2.7.5/\n\nI/O Domain\n   Input Subdomain\n      Name: rat_protein_xref_refseq.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/rat_protein_xref_refseq.csv\n      Name: refseq_protein_all_10116.gpff\n      URI: https:/data.glygen.org/ln2downloads/ncbi/refseq/2025_05_16/refseq_protein_all_10116.gpff\n   Output Subdomain\n      Name: rat_protein_function_refseq.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/rat_protein_function_refseq.csv\n      Name: rat_protein_function_refseq.stat.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/rat_protein_function_refseq.stat.csv\n\nFields\n      Name: \"uniprotkb_canonical_ac\"\n     Description: \"\"\n      Unique Values: \"6377\"\n      Name: \"refseq_ac\"\n     Description: \"Accession in the NCBI RefSeq database\"\n      Unique Values: \"6377\"\n      Name: \"xref_key\"\n     Description: \"Source key associated to the  xref_id\"\n      Unique Values: \"2\"\n      Name: \"xref_id\"\n     Description: \"ID of the X-ref\"\n      Unique Values: \"19578\"\n      Name: \"annotation\"\n     Description: \"Function annotation from UniProtKB|RefSeq database\"\n      Unique Values: \"13535\"",
    "downloadurl": "/ln2data/releases/data/v-2.9.1/reviewed/rat_protein_function_refseq.csv"
}