{
    "bcoid": "GLY_000470",
    "title": "SARS-CoV2 Protein Citations (UniProtKB)",
    "description": "The SARS coronavirus (SARS-CoV-2 or 2019-nCoV) Protein Citations dataset contains publication information ...",
    "filename_list": "sarscov2_protein_citations_uniprotkb.csv",
    "filename": "sarscov2_protein_citations_uniprotkb.csv",
    "filetype": "csv",
    "categories": {
        "species": [
            "Severe acute respiratory syndrome coronavirus 2"
        ],
        "molecule": [
            "Protein"
        ],
        "tag": [
            "Protein Citations"
        ],
        "file_type": [
            "csv"
        ],
        "status": [
            "Reviewed"
        ],
        "scope": [
            "internal"
        ],
        "file_category": [
            "citations"
        ]
    },
    "minitable": {
        "content": [
            [
                "P0DTC1-1...",
                "The mechanis..."
            ],
            [
                "P0DTC1-1...",
                "Structural B..."
            ]
        ],
        "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"
                }
            ],
            [
                "P0DTC1-1",
                "The mechanism of RNA capping by SARS-CoV-2.",
                "Nature",
                "2022 Sep",
                "Park GJ, Osinski A, Hernandez G, Eitson JL, Majumdar A, Tonelli M, Henzler-Wildman K, Pawlowski K, Chen Z, Li Y, Schoggins JW, Tagliabracci VS",
                "protein_xref_pubmed",
                "35944563",
                "protein_xref_uniprotkb",
                "P0DTC1"
            ],
            [
                "P0DTC1-1",
                "Structural Basis for RNA Replication by the SARS-CoV-2 Polymerase.",
                "Cell",
                "2020 Jul 23",
                "Wang Q, Wu J, Wang H, Gao Y, Liu Q, Mu A, Ji W, Yan L, Zhu Y, Zhu C, Fang X, Yang X, Huang Y, Gao H, Liu F, Ge J, Sun Q, Yang X, Xu W, Liu Z, Yang H, Lou Z, Jiang B, Guddat LW, Gong P, Rao Z",
                "protein_xref_pubmed",
                "32526208",
                "protein_xref_uniprotkb",
                "P0DTC1"
            ]
        ]
    },
    "readme": "Name\n   - SARS-CoV2 Protein Citations (UniProtKB)\n\nVersion\n   - v-2.12.1\n\nCreated on\n  - 2020-04-19T11:32:35.963024\n\nModified on\n   - 2024-06-03T21:21:42.530Z\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 SARS coronavirus (SARS-CoV-2 or 2019-nCoV) Protein Citations dataset contains publication information for Severe acute respiratory syndrome coronavirus 2 [taxid:2697049] UniProtKB accessions that includes PMID, journal name, date and author and title. If you use this dataset please provide proper attribution to EMBL-EBI-UniProtKB and GlyGen.\n\nDescription Domain\n   Keywords\n   - publications\n   - PMID\n   - journal\n   - citations\n   - authors\n   - UniProtKB\n   - PubMed\n\n   Pipeline Steps\n   - Step-1: The script loads the UniProtKB publication data from the triplestore containing triples from nt file to retrieve the publication information associated with the UniProtKB accession and maps it to the UniProtKB canonical accessions. The script also filters out publications of large scale studies, and high frequency publications pertaining to DNA sequencing, cDNA, chromosomes using blacklisted PMIDs file.\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: all_blacklisted_pmids.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.12.1/compiled/all_blacklisted_pmids.csv\n      Name: sarscov2_protein_function_uniprotkb.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/sarscov2_protein_function_uniprotkb.csv\n      Name: sarscov2_protein_ptm_annotation_uniprotkb.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/sarscov2_protein_ptm_annotation_uniprotkb.csv\n      Name: sarscov2_protein_site_annotation_uniprotkb.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/sarscov2_protein_site_annotation_uniprotkb.csv\n      Name: uniprot-proteome-sars-cov-2.nt\n      URI: https:/data.glygen.org/ln2downloads/ebi/2026_06_13/uniprot-proteome-sars-cov-2.nt\n   Output Subdomain\n      Name: sarscov2_protein_citations_uniprotkb.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/sarscov2_protein_citations_uniprotkb.csv\n      Name: sarscov2_protein_citations_uniprotkb.stat.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/sarscov2_protein_citations_uniprotkb.stat.csv\n\nFields\n      Name: \"uniprotkb_canonical_ac\"\"\n     Description: \"\"\n      Unique Values: \"17\"",
    "downloadurl": "/ln2data/releases/data/v-2.12.1/reviewed/sarscov2_protein_citations_uniprotkb.csv"
}