{
    "bcoid": "GLY_000573",
    "title": "Mouse Proteoform Citations (Literature Mining)",
    "description": "The Mouse Proteoform Citations [Automatic Literature Mining] dataset contains Mus musculus [taxid:10090] ...",
    "filename_list": "mouse_proteoform_citations_glycosylation_sites_literature_mining.csv",
    "filename": "mouse_proteoform_citations_glycosylation_sites_literature_mining.csv",
    "filetype": "csv",
    "categories": {
        "species": [
            "Mus musculus"
        ],
        "molecule": [
            "Proteoform"
        ],
        "tag": [
            "Protein Citations"
        ],
        "file_type": [
            "csv"
        ],
        "status": [
            "Reviewed"
        ],
        "scope": [
            "internal"
        ]
    },
    "minitable": {
        "content": [
            [
                "Q9JIP7-1...",
                "Glycans in t..."
            ],
            [
                "P97333-1...",
                "N-glycosylat..."
            ]
        ],
        "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"
                }
            ],
            [
                "Q9JIP7-1",
                "Glycans in the intestinal peptide transporter PEPT1 contribute to function and protect from proteolysis.",
                "American journal of physiology. Gastrointestinal and liver physiology",
                "2017 Jun 1",
                "Stelzl T, Geillinger-Kastle KE, Stolz J, Daniel H",
                "protein_xref_pubmed",
                "28336547",
                "protein_xref_glygen_ds",
                "GLY_000492",
                ""
            ],
            [
                "P97333-1",
                "N-glycosylation-defective splice variants of neuropilin-1 promote metastasis by activating endosomal signals.",
                "Nature communications",
                "2019-08-16",
                "Huang Xiuping, Ye Qing, Chen Min, Li Aimin, Mi Wenting, Fang Yuxin, Zaytseva Yekaterina Y, O'Connor Kathleen L, Vander Kooi Craig W, Liu Side, She Qing-Bai",
                "protein_xref_pubmed",
                "31420553",
                "protein_xref_glygen_ds",
                "GLY_000492",
                ""
            ]
        ]
    },
    "readme": "Name\n   - Mouse Proteoform Citations (Literature Mining)\n\nVersion\n   - v-2.9.1\n\nCreated on\n  - 2021-06-04T10:20:39.827303\n\nModified on\n   - 2025-04-15T14:29:15.805Z\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   - \n\nChecksum\n   - \n\nUsability Domain\n   - The Mouse Proteoform Citations [Automatic Literature Mining] dataset contains Mus musculus [taxid:10090] citation details of the publications present in the Mouse Glycosylation Sites [Automatic Literature Mining] [Automatically verified] dataset (https://data.glygen.org/GLY_000492).\n\nDescription Domain\n   Keywords\n   - PMID\n   - journal\n   - citations\n   - authors\n   - Literature\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-2.9.1/compiled/all_blacklisted_pmids.csv\n      Name: mouse_proteoform_glycosylation_sites_literature_mining.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/mouse_proteoform_glycosylation_sites_literature_mining.csv\n   Output Subdomain\n      Name: mouse_proteoform_citations_glycosylation_sites_literature_mining.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/mouse_proteoform_citations_glycosylation_sites_literature_mining.csv\n      Name: mouse_proteoform_citations_glycosylation_sites_literature_mining.stat.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/mouse_proteoform_citations_glycosylation_sites_literature_mining.stat.csv\n\nFields\n      Name: \"uniprotkb_canonical_ac\"\n     Description: \"\"\n      Unique Values: \"113\"\n      Name: \"title\"\n     Description: \"Title of the published article in the journal\"\n      Unique Values: \"128\"\n      Name: \"journal_name\"\n     Description: \"The name of the journal in which the article is published\"\n      Unique Values: \"78\"\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: \"121\"\n      Name: \"authors\"\n     Description: \"NA\"\n      Unique Values: \"128\"\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: \"128\"\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: \"1\"\n      Name: \"glytoucan_ac\"\n     Description: \"Unique accession assigned to the registered glycan structure in GlyTouCan database\"\n      Unique Values: \"1\"",
    "downloadurl": "/ln2data/releases/data/v-2.9.1/reviewed/mouse_proteoform_citations_glycosylation_sites_literature_mining.csv"
}