{
    "bcoid": "GLY_000355",
    "title": "HCV1a Protein Citations (UniProtKB)",
    "description": "The HCV1a Protein Citations dataset contains publication information for Hepatitis C virus (isolate H77) ...",
    "filename_list": "hcv1a_protein_citations_uniprotkb.csv",
    "filename": "hcv1a_protein_citations_uniprotkb.csv",
    "filetype": "csv",
    "categories": {
        "species": [
            "Hepatitis C virus (isolate H77)"
        ],
        "molecule": [
            "Protein"
        ],
        "tag": [
            "Protein Citations"
        ],
        "file_type": [
            "csv"
        ],
        "status": [
            "Reviewed"
        ],
        "scope": [
            "internal"
        ],
        "file_category": [
            "citations"
        ]
    },
    "minitable": {
        "content": [
            [
                "P27958-1...",
                "Interferon a..."
            ],
            [
                "P27958-1...",
                "The SH3 bind..."
            ]
        ],
        "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"
                }
            ],
            [
                "P27958-1",
                "Interferon alpha (IFN\u03b1)-induced TRIM22 interrupts HCV replication by ubiquitinating NS5A.",
                "Cellular & molecular immunology",
                "2016-01",
                "Yang Chen, Zhao Xinhao, Sun Dakang, Yang Leilei, Chong Chang, Pan Yu, Chi Xiumei, Gao Yanhang, Wang Moli, Shi Xiaodong, Sun Haibo, Lv Juan, Gao Yuanda, Zhong Jin, Niu Junqi, Sun Bing",
                "protein_xref_pubmed",
                "25683609",
                "protein_xref_uniprotkb",
                "P27958"
            ],
            [
                "P27958-1",
                "The SH3 binding motif of HCV [corrected] NS5A protein interacts with Bin1 and is important for apoptosis and infectivity.",
                "Gastroenterology",
                "2006-03",
                "Nanda Santosh K, Herion David, Liang T Jake",
                "protein_xref_pubmed",
                "16530520",
                "protein_xref_uniprotkb",
                "P27958"
            ]
        ]
    },
    "readme": "Name\n   - HCV1a Protein Citations (UniProtKB)\n\nVersion\n   - v-2.12.1\n\nCreated on\n  - 2020-03-13T11:25:59.634509\n\nModified on\n   - 2024-05-22T14:43:06.082Z\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 HCV1a Protein Citations dataset contains publication information for Hepatitis C virus (isolate H77) [taxid:63746] UniProtKB accessions that includes PMID, journal name, date and author and title. Publications of large scale studies, and high frequency publications pertaining to genome sequencing, cDNA, chromosomes have been filtered out. 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: hcv1a_protein_function_uniprotkb.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/hcv1a_protein_function_uniprotkb.csv\n      Name: hcv1a_protein_ptm_annotation_uniprotkb.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/hcv1a_protein_ptm_annotation_uniprotkb.csv\n      Name: hcv1a_protein_site_annotation_uniprotkb.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/hcv1a_protein_site_annotation_uniprotkb.csv\n      Name: uniprot-proteome-hepatitis-c-virus-1a.nt\n      URI: https:/data.glygen.org/ln2downloads/ebi/2026_06_13/uniprot-proteome-hepatitis-c-virus-1a.nt\n   Output Subdomain\n      Name: hcv1a_protein_citations_uniprotkb.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/hcv1a_protein_citations_uniprotkb.csv\n      Name: hcv1a_protein_citations_uniprotkb.stat.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/hcv1a_protein_citations_uniprotkb.stat.csv\n\nFields\n      Name: \"uniprotkb_canonical_ac\"\"\n     Description: \"\"\n      Unique Values: \"1\"",
    "downloadurl": "/ln2data/releases/data/v-2.12.1/reviewed/hcv1a_protein_citations_uniprotkb.csv"
}