{
    "bcoid": "GLY_000133",
    "title": "Human Protein Function (NCBI Refseq)",
    "description": "The Human Protein Function (NCBI RefSeq) dataset contains biological function annotation of Homo sapiens ...",
    "filename_list": "human_protein_function_refseq.csv",
    "filename": "human_protein_function_refseq.csv",
    "filetype": "csv",
    "categories": {
        "species": [
            "Homo sapiens"
        ],
        "molecule": [
            "Protein"
        ],
        "tag": [
            "Protein Function"
        ],
        "file_type": [
            "csv"
        ],
        "status": [
            "Reviewed"
        ],
        "scope": [
            "internal"
        ]
    },
    "minitable": {
        "content": [
            [
                "Q9Y446-1...",
                "NP_001289958..."
            ],
            [
                "Q9Y446-1...",
                "NP_001289958..."
            ]
        ],
        "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"
                }
            ],
            [
                "Q9Y446-1",
                "NP_001289958",
                "protein_xref_refseq",
                "NP_001289958",
                "This gene encodes a member of the arm-repeat (armadillo) and plakophilin gene families. Plakophilin proteins contain numerous armadillo repeats, localize to cell desmosomes and nuclei, and participate in linking cadherins to intermediate filaments in the cytoskeleton. This protein may act in cellular desmosome-dependent adhesion and signaling pathways. Two transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Dec 2014]."
            ],
            [
                "Q9Y446-1",
                "NP_001289958",
                "protein_xref_refseq",
                "NP_001289958",
                "Role and function of plakophilin 3 in cancer progression and skin disease. Review article"
            ]
        ]
    },
    "readme": "Name\n   - Human Protein Function (NCBI Refseq)\n\nVersion\n   - v-2.8.1\n\nCreated on\n  - 2019-03-16T15:35:15.248632\n\nModified on\n   - 2024-05-17T11:23:52.243Z\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   - Maria Martin [martin@ebi.ac.uk], Preethi Vasudev [pvasudev@ebi.ac.uk]\n\nChecksum\n   - \n\nUsability Domain\n   - The Human Protein Function (NCBI RefSeq) dataset contains biological function annotation of Homo sapiens [taxid:9606] 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 accession 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: human_protein_xref_refseq.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.8.1/reviewed/human_protein_xref_refseq.csv\n      Name: refseq_protein_all_9606.gpff\n      URI: https:/data.glygen.org/ln2downloads/ncbi/refseq/2025_01_17/refseq_protein_all_9606.gpff\n   Output Subdomain\n      Name: human_protein_function_refseq.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.8.1/reviewed/human_protein_function_refseq.csv\n      Name: human_protein_function_refseq.stat.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.8.1/reviewed/human_protein_function_refseq.stat.csv\n\nFields\n      Name: \"uniprotkb_canonical_ac\"\n     Description: \"\"\n      Unique Values: \"16979\"\n      Name: \"refseq_ac\"\n     Description: \"Accession in the NCBI RefSeq database\"\n      Unique Values: \"16979\"\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: \"74803\"\n      Name: \"annotation\"\n     Description: \"Function annotation from UniProtKB|RefSeq database\"\n      Unique Values: \"69530\"",
    "downloadurl": "/ln2data/releases/data/v-2.8.1/reviewed/human_protein_function_refseq.csv"
}