{
    "bcoid": "GLY_000264",
    "title": "Rat Protein Citations (RefSeq)",
    "description": "The Rat Protein Citations (RefSeq) datasets contains Rattus norvegicus [taxid:10116] UniProtKB accessions ...",
    "filename": "rat_protein_citations_refseq.csv",
    "filetype": "csv",
    "categories": {
        "species": [
            "Rattus norvegicus"
        ],
        "molecule": [
            "Protein"
        ],
        "tag": [
            "Protein Citations"
        ],
        "file_type": [
            "csv"
        ],
        "status": [
            "Reviewed"
        ],
        "scope": [
            "internal"
        ]
    },
    "minitable": {
        "content": [
            [
                "D3ZS29-1...",
                "TNF-alpha up..."
            ],
            [
                "D4A631-1...",
                "BIG1 is a bi..."
            ]
        ],
        "headers": [
            "uniprotkb_ca...",
            "title..."
        ],
        "colwidth": [
            "40%",
            "20%"
        ]
    },
    "sampledata": {
        "type": "table",
        "data": [
            [
                {
                    "type": "string",
                    "label": "uniprotkb_canonical_ac"
                },
                {
                    "type": "string",
                    "label": "title"
                },
                {
                    "type": "string",
                    "label": "journal_name"
                },
                {
                    "type": "string",
                    "label": "publication_date"
                },
                {
                    "type": "string",
                    "label": "authors"
                },
                {
                    "type": "string",
                    "label": "xref_key"
                },
                {
                    "type": "string",
                    "label": "xref_id"
                },
                {
                    "type": "string",
                    "label": "src_xref_key"
                },
                {
                    "type": "string",
                    "label": "src_xref_id"
                }
            ],
            [
                "D3ZS29-1",
                "TNF-alpha up-regulates Nanog by activating NF-kappaB pathway to induce primary rat spinal cord astrocytes dedifferentiation.",
                "Life sciences",
                "2021 Dec 15",
                "Ding Z, Dai C, Shan W, Liu R, Lu W, Gao W, Zhang H, Huang W, Guan J, Yin Z",
                "protein_xref_pubmed",
                "34758295",
                "protein_xref_refseq",
                "NP_001094251"
            ],
            [
                "D4A631-1",
                "BIG1 is a binding partner of myosin IXb and regulates its Rho-GTPase activating protein activity.",
                "The Journal of biological chemistry",
                "2005 Mar 18",
                "Saeki N, Tokuo H, Ikebe M",
                "protein_xref_pubmed",
                "15644318",
                "protein_xref_refseq",
                "NP_001263985"
            ]
        ]
    },
    "readme": "Name\n   - Rat Protein Citations (RefSeq)\n\nVersion\n   - v-2.5.1\n\nCreated on\n  - 2019-09-06T14:06:38.990766\n\nModified on\n   - 2024-05-17T11:23:54.217Z\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 Rat Protein Citations (RefSeq) datasets contains Rattus norvegicus [taxid:10116] UniProtKB accessions mapped to publication information (pmid, title, journal name, publication, date, authors of corresponding RefSeq accessions. If you use this dataset please provide proper attribution to NCBI RefSeq and GlyGen.\n\nDescription Domain\n   Keywords\n   - PMID\n   - journal\n   - citations\n   - authors\n   - RefSeq\n   - PubMed\n\n   Pipeline Steps\n   - Step-1: The script parses the NCBI RefSeq gpff files to extract the publication information. The script also maps RefSeq accesion 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_blacklisted_pmids_uniprotkb.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.5.1/compiled/rat_protein_blacklisted_pmids_uniprotkb.csv\n      Name: rat_protein_function_refseq.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.5.1/reviewed/rat_protein_function_refseq.csv\n   Output Subdomain\n      Name: rat_protein_citations_refseq.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.5.1/reviewed/rat_protein_citations_refseq.csv\n      Name: rat_protein_citations_refseq.stat.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.5.1/reviewed/rat_protein_citations_refseq.stat.csv\n\nFields\n      Name: \"uniprotkb_canonical_ac\"\n     Description: \"\"\n      Unique Values: \"4988\"\n      Name: \"title\"\n     Description: \"Title of the published article in the journal\"\n      Unique Values: \"12332\"\n      Name: \"journal_name\"\n     Description: \"The name of the journal in which the article is published\"\n      Unique Values: \"1291\"\n      Name: \"publication_date\"\n     Description: \"Contains the full date on which the issue of the journal was published. Sourced from MEDLINE/PubMed data element(fields) description.\"\n      Unique Values: \"3528\"\n      Name: \"authors\"\n     Description: \"NA\"\n      Unique Values: \"12292\"\n      Name: \"xref_key\"\n     Description: \"Source key associated to the  xref_id\"\n      Unique Values: \"1\"\n      Name: \"xref_id\"\n     Description: \"ID of the X-ref\"\n      Unique Values: \"12332\"\n      Name: \"src_xref_key\"\n     Description: \"Source Xref  key\"\n      Unique Values: \"1\"\n      Name: \"src_xref_id\"\n     Description: \"Source X-ref ID\"\n      Unique Values: \"4988\"",
    "downloadurl": "/ln2data/releases/data/v-2.5.1/reviewed/rat_protein_citations_refseq.csv"
}