{
    "bcoid": "GLY_000251",
    "title": "Rat Proteoform Citations (UniCarbKB)",
    "description": "The Rat Proteoform Citations (UniCarbKB) contains Rattus norvegicus [taxid:10116] publication information ...",
    "filename_list": "rat_proteoform_citations_glycosylation_sites_unicarbkb.csv",
    "filename": "rat_proteoform_citations_glycosylation_sites_unicarbkb.csv",
    "filetype": "csv",
    "categories": {
        "species": [
            "Rattus norvegicus"
        ],
        "molecule": [
            "Proteoform"
        ],
        "tag": [
            "Protein Citations"
        ],
        "file_type": [
            "csv"
        ],
        "status": [
            "Reviewed"
        ],
        "scope": [
            "internal"
        ],
        "file_category": [
            "citations"
        ]
    },
    "minitable": {
        "content": [
            [
                "B2GV54-1...",
                "Site-specifi..."
            ],
            [
                "Q9EQV6-1...",
                "Site-specifi..."
            ]
        ],
        "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"
                },
                {
                    "type": "string",
                    "label": "glytoucan_ac"
                },
                {
                    "type": "string",
                    "label": "isoform_mapping_notes"
                }
            ],
            [
                "B2GV54-1",
                "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.",
                "Journal of proteome research",
                "2013 Dec 6",
                "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ",
                "protein_xref_pubmed",
                "24090084",
                "protein_xref_unicarbkb_ds",
                "GLY_000221",
                "G09775CH",
                ""
            ],
            [
                "Q9EQV6-1",
                "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.",
                "Journal of proteome research",
                "2013 Dec 6",
                "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ",
                "protein_xref_pubmed",
                "24090084",
                "protein_xref_unicarbkb_ds",
                "GLY_000221",
                "G37135JQ",
                ""
            ]
        ]
    },
    "readme": "Name\n   - Rat Proteoform Citations (UniCarbKB)\n\nVersion\n   - v-2.12.1\n\nCreated on\n  - 2019-09-06T14:06:38.978102\n\nModified on\n   - 2024-12-10T18:47:54.650Z\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   - Not Applicable []\n\nChecksum\n   - \n\nUsability Domain\n   - The Rat Proteoform Citations (UniCarbKB) contains Rattus norvegicus [taxid:10116] publication information of glycoproteins from UniCarbKB. The script accesses the NCBI ENTREZ infrastructure to retrieve the publication information of the given PMID from UniCarbKB. The dataset is contributed by UniCarbKB and processed by GlyGen. If you use this dataset please provide proper attribution to UniCarbKB and GlyGen [UniCarbKB - https://academic.oup.com/nar/article/42/D1/D215/1052197 ,https://doi.org/10.1093/nar/gkt1128]. \n\nDescription Domain\n   Keywords\n   - PMID\n   - journal\n   - citations\n   - authors\n   - UniCarbKB\n   - PubMed\n\n   Pipeline Steps\n   - Step-1: The script parses the input file for PMIDs and accesses the NCBI Entrez infrastructure to download the publication information of the corresponding PMIDs. \n\nExecution Domain\n   Scripts   - https://github.com/glygener/glygen-backend-integration/blob/master/dataset-maker/make-proteoform-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: doi_citations.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.12.1/compiled/doi_citations.csv\n   Output Subdomain\n      Name: rat_proteoform_citations_glycosylation_sites_unicarbkb.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/rat_proteoform_citations_glycosylation_sites_unicarbkb.csv\n      Name: rat_proteoform_citations_glycosylation_sites_unicarbkb.stat.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/rat_proteoform_citations_glycosylation_sites_unicarbkb.stat.csv\n\nFields\n      Name: \"uniprotkb_canonical_ac\"\"\n     Description: \"\"\n      Unique Values: \"158\"",
    "downloadurl": "/ln2data/releases/data/v-2.12.1/reviewed/rat_proteoform_citations_glycosylation_sites_unicarbkb.csv"
}