{
    "bcoid": "GLY_000714",
    "title": "Rat O-GlcNAc Glycosylation Citations (O-GlcNAc Atlas)",
    "description": "The Rat O-GlcNAc Glycosylation Citations (O-GlcNAc Atlas) dataset contains details of the publication ...",
    "filename_list": "rat_proteoform_citations_glycosylation_sites_oglcnac_atlas.csv",
    "filename": "rat_proteoform_citations_glycosylation_sites_oglcnac_atlas.csv",
    "filetype": "csv",
    "categories": {
        "species": [
            "Rattus norvegicus"
        ],
        "molecule": [
            "Proteoform"
        ],
        "tag": [
            "Protein Citations O-GlcNAc (O-GlcNAc Atlas)"
        ],
        "file_type": [
            "csv"
        ],
        "status": [
            "Reviewed"
        ],
        "scope": [
            "internal"
        ]
    },
    "minitable": {
        "content": [
            [
                "...",
                "Tau post-tra..."
            ],
            [
                "A0A0G2JUA5-1...",
                "Quantitative..."
            ]
        ],
        "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"
                }
            ],
            [
                "",
                "Tau post-translational modifications in wild-type and human amyloid precursor protein transgenic mice.",
                "Nature neuroscience",
                "2015 Aug",
                "Morris M, Knudsen GM, Maeda S, Trinidad JC, Ioanoviciu A, Burlingame AL, Mucke L",
                "protein_xref_pubmed",
                "26192747",
                "protein_xref_pubmed",
                "26192747",
                "G49108TO"
            ],
            [
                "A0A0G2JUA5-1",
                "Quantitative proteomics identifies altered O-GlcNAcylation of structural, synaptic and memory-associated proteins in Alzheimer's disease.",
                "The Journal of pathology",
                "2017 Sep",
                "Wang S, Yang F, Petyuk VA, Shukla AK, Monroe ME, Gritsenko MA, Rodland KD, Smith RD, Qian WJ, Gong CX, Liu T",
                "protein_xref_pubmed",
                "28657654",
                "protein_xref_oglcnac_atlas",
                "A0A0G2JUA5",
                "G49108TO"
            ]
        ]
    },
    "readme": "Name\n   - Rat O-GlcNAc Glycosylation Citations (O-GlcNAc Atlas)\n\nVersion\n   - v-2.9.1\n\nCreated on\n  - 2023-02-27T21:08:01.227Z\n\nModified on\n   - 2024-05-17T11:24:10.375Z\n\nCreated by\n   - Jeet Vora [jeetvora@gwu.edu], Karina Martinez [karinamartinez@gwu.edu], Robel Kahsay [rykahsay@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   - Jungfeng Ma [junfeng.ma@georgetown.edu ]\n\nChecksum\n   - \n\nUsability Domain\n   - The Rat O-GlcNAc Glycosylation Citations (O-GlcNAc Atlas) dataset contains details of the publication present in the dataset Rat O-GlcNAc Glycosylation Sites (O-GlcNAc Atlas)  https://data.glygen.org/GLY_000710, contributed by Jungfeng Ma's group.\n\nDescription Domain\n   Keywords\n   - O-GlcNAc\n   - Publications\n   - Citations\n   - PubMed\n\n   Pipeline Steps\n   - Step-1: The script extracts the PMID from the dataset and uses the Entrez API to retrieve the publication details and extracts in a csv dataset. \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: rat_proteoform_glycosylation_sites_oglcnac_atlas.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/rat_proteoform_glycosylation_sites_oglcnac_atlas.csv\n   Output Subdomain\n      Name: rat_proteoform_citations_glycosylation_sites_oglcnac_atlas.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/rat_proteoform_citations_glycosylation_sites_oglcnac_atlas.csv\n      Name: rat_proteoform_citations_glycosylation_sites_oglcnac_atlas.stat.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/rat_proteoform_citations_glycosylation_sites_oglcnac_atlas.stat.csv\n\nFields\n      Name: \"uniprotkb_canonical_ac\"\n     Description: \"\"\n      Unique Values: \"177\"\n      Name: \"title\"\n     Description: \"Title of the published article in the journal\"\n      Unique Values: \"38\"\n      Name: \"journal_name\"\n     Description: \"The name of the journal in which the article is published\"\n      Unique Values: \"26\"\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: \"38\"\n      Name: \"authors\"\n     Description: \"NA\"\n      Unique Values: \"38\"\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: \"38\"\n      Name: \"src_xref_key\"\n     Description: \"Source Xref  key\"\n      Unique Values: \"2\"\n      Name: \"src_xref_id\"\n     Description: \"Source X-ref ID\"\n      Unique Values: \"177\"\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/rat_proteoform_citations_glycosylation_sites_oglcnac_atlas.csv"
}