{
    "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"
        ],
        "file_category": [
            "annotation"
        ]
    },
    "minitable": {
        "content": [
            [
                "P11274-1...",
                "NP_004318..."
            ],
            [
                "P11274-1...",
                "NP_004318..."
            ]
        ],
        "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"
                }
            ],
            [
                "P11274-1",
                "NP_004318",
                "protein_xref_refseq",
                "NP_004318",
                "A reciprocal translocation between chromosomes 22 and 9 produces the Philadelphia chromosome, which is often found in patients with chronic myelogenous leukemia. The chromosome 22 breakpoint for this translocation is located within the BCR gene. The translocation produces a fusion protein which is encoded by sequence from both BCR and ABL, the gene at the chromosome 9 breakpoint. Although the BCR-ABL fusion protein has been extensively studied, the function of the normal BCR gene product is not clear. The unregulated tyrosine kinase activity of BCR-ABL1 contributes to the immortality of leukaemic cells. The BCR protein has serine/threonine kinase activity and is a GTPase-activating protein for p21rac and other kinases. Two transcript variants encoding different isoforms have been found for this gene.[provided by RefSeq, Jan 2020]."
            ],
            [
                "P11274-1",
                "NP_004318",
                "protein_xref_refseq",
                "NP_004318",
                "Validation of a novel NGS based BCR::ABL1 kinase domain mutation detection assay in Indian cohort. Publication Status: Online-Only"
            ]
        ]
    },
    "readme": "Name\n   - Human Protein Function (NCBI Refseq)\n\nVersion\n   - v-2.12.1\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-2.12.1/reviewed/human_protein_xref_refseq.csv\n      Name: refseq_protein_all_9606.gpff\n      URI: https:/data.glygen.org/ln2downloads/ncbi/refseq/2026_06_01/refseq_protein_all_9606.gpff\n   Output Subdomain\n      Name: human_protein_function_refseq.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/human_protein_function_refseq.csv\n      Name: human_protein_function_refseq.stat.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/human_protein_function_refseq.stat.csv\n\nFields\n      Name: \"uniprotkb_canonical_ac\"\"\n     Description: \"\"\n      Unique Values: \"17067\"",
    "downloadurl": "/ln2data/releases/data/v-2.12.1/reviewed/human_protein_function_refseq.csv"
}