{
    "bcoid": "GLY_000803",
    "title": "Yeast Proteoform Phosphorylation Citations (iPTMnet)",
    "description": "The Yeast Proteoform Citations (iPTMNet) contains Saccharomyces cerevisiae [taxid:559292] publication ...",
    "filename_list": "yeast_proteoform_citations_phosphorylation_sites_iptmnet.csv",
    "filename": "yeast_proteoform_citations_phosphorylation_sites_iptmnet.csv",
    "filetype": "csv",
    "categories": {
        "species": [
            "Saccharomyces cerevisiae S288C"
        ],
        "molecule": [
            "Proteoform"
        ],
        "tag": [
            "Phosphorylation Citations (iPTMnet)"
        ],
        "file_type": [
            "csv"
        ],
        "status": [
            "Reviewed"
        ],
        "scope": [
            "internal"
        ],
        "file_category": [
            "citations"
        ]
    },
    "minitable": {
        "content": [
            [
                "P04050-1...",
                "Pol II CTD k..."
            ],
            [
                "P14737-1...",
                "Dpb11 coordi..."
            ]
        ],
        "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": "isoform_mapping_notes"
                }
            ],
            [
                "P04050-1",
                "Pol II CTD kinases Bur1 and Kin28 promote Spt5 CTR-independent recruitment of Paf1 complex.",
                "The EMBO journal",
                "2012-08-15",
                "Qiu Hongfang, Hu Cuihua, Gaur Naseem A, Hinnebusch Alan G",
                "protein_xref_pubmed",
                "22796944",
                "protein_xref_iptmnet",
                "P04050",
                ""
            ],
            [
                "P14737-1",
                "Dpb11 coordinates Mec1 kinase activation with cell cycle-regulated Rad9 recruitment.",
                "The EMBO journal",
                "2011-09-23",
                "Pfander Boris, Diffley John F X",
                "protein_xref_pubmed",
                "21946560",
                "protein_xref_iptmnet",
                "P14737",
                ""
            ]
        ]
    },
    "readme": "Name\n   - Yeast Proteoform Phosphorylation Citations (iPTMnet)\n\nVersion\n   - v-2.12.1\n\nCreated on\n  - 2022-09-02T13:26:18.780372\n\nModified on\n   - 2024-12-05T19:40:07.397Z\n\nCreated by\n   -  [jeetvora@gwu.edu], Karina Martinez [karinamartinez@gwu.edu], Jingyue Wu [jingyue.wu@email.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 Yeast Proteoform Citations (iPTMNet) contains Saccharomyces cerevisiae [taxid:559292] publication information of phosphorylated proteins from iPTMnet. The script accesses the NCBI ENTREZ infrastructure to retrieve the publication information of the given PMID from iPTMnet. If you use this dataset please provide proper attribution to iPTMnet and GlyGen.\n\nDescription Domain\n   Keywords\n   - PMID\n   - journal\n   - citations\n   - authors\n   - iPTMnet\n   - PubMed\n   - Phosphorylation\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: yeast_proteoform_phosphorylation_sites_iptmnet.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/yeast_proteoform_phosphorylation_sites_iptmnet.csv\n   Output Subdomain\n      Name: yeast_proteoform_citations_phosphorylation_sites_iptmnet.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/yeast_proteoform_citations_phosphorylation_sites_iptmnet.csv\n      Name: yeast_proteoform_citations_phosphorylation_sites_iptmnet.stat.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/yeast_proteoform_citations_phosphorylation_sites_iptmnet.stat.csv\n\nFields\n      Name: \"uniprotkb_canonical_ac\"\"\n     Description: \"\"\n      Unique Values: \"4337\"",
    "downloadurl": "/ln2data/releases/data/v-2.12.1/reviewed/yeast_proteoform_citations_phosphorylation_sites_iptmnet.csv"
}