{
    "bcoid": "GLY_000774",
    "title": "Yeast Protein Site Annotation",
    "description": "The Yeast Protein Site Annotation (UniProtKB) dataset contains Saccharomyces cerevisiae S288C [taxid:559292] ...",
    "filename_list": "yeast_protein_site_annotation_uniprotkb.csv",
    "filename": "yeast_protein_site_annotation_uniprotkb.csv",
    "filetype": "csv",
    "categories": {
        "species": [
            "Saccharomyces cerevisiae S288C"
        ],
        "molecule": [
            "Protein"
        ],
        "tag": [
            "site annotation"
        ],
        "file_type": [
            "csv"
        ],
        "status": [
            "Reviewed"
        ],
        "scope": [
            "internal"
        ]
    },
    "minitable": {
        "content": [
            [
                "P39979-1...",
                "HPA3..."
            ],
            [
                "P39979-1...",
                "HPA3..."
            ]
        ],
        "headers": [
            "uniprotkb_ca...",
            "gene_symbol..."
        ],
        "colwidth": [
            "40%",
            "20%"
        ]
    },
    "sampledata": {
        "type": "table",
        "data": [
            [
                {
                    "type": "string",
                    "label": "uniprotkb_canonical_ac"
                },
                {
                    "type": "string",
                    "label": "gene_symbol"
                },
                {
                    "type": "string",
                    "label": "ann_type"
                },
                {
                    "type": "string",
                    "label": "start_pos"
                },
                {
                    "type": "string",
                    "label": "end_pos"
                },
                {
                    "type": "string",
                    "label": "annotation"
                },
                {
                    "type": "string",
                    "label": "ecoid"
                },
                {
                    "type": "string",
                    "label": "ref_aa"
                },
                {
                    "type": "string",
                    "label": "alt_aa"
                },
                {
                    "type": "string",
                    "label": "xref_key"
                },
                {
                    "type": "string",
                    "label": "xref_id"
                }
            ],
            [
                "P39979-1",
                "HPA3",
                "Site_Annotation",
                "144",
                "144",
                "Important for catalytic activity",
                "ECO_0000250",
                "Y",
                "",
                "protein_xref_uniprotkb",
                "P39979"
            ],
            [
                "P39979-1",
                "HPA3",
                "Modified_Residue_Annotation",
                "2",
                "2",
                "N-acetylserine",
                "ECO_0007744",
                "S",
                "",
                "protein_xref_uniprotkb",
                "P39979"
            ]
        ]
    },
    "readme": "Name\n   - Yeast Protein Site Annotation\n\nVersion\n   - v-2.9.1\n\nCreated on\n  - 2022-08-31T11:08:19.037259\n\nModified on\n   - 2025-03-04T18:41:16.899Z\n\nCreated by\n   - Jeet Vora [jeetvora@gwu.edu], Robel Kahsay [rykahsay@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   - Maria Martin [martin@ebi.ac.uk], Preethi Vasudev [pvasudev@ebi.ac.uk]\n\nChecksum\n   - \n\nUsability Domain\n   - The Yeast Protein Site Annotation (UniProtKB) dataset contains Saccharomyces cerevisiae S288C [taxid:559292] site annotations for UniProtKB canonical accessions. The dataset contains information about UniProtKB annotations with their amino acid range.  If you use this dataset please give proper attribution to UniProtKB and GlyGen\n\nDescription Domain\n   Keywords\n   - site annotation\n   - amino acid range\n   - UniProtKB\n\n   Pipeline Steps\n   - Step-1: The script extracts the site annotation triples from the triplestore for the UniProtKB canonical sequnces asnd extracts as a dataset in a csv format\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: yeast_protein_masterlist.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/yeast_protein_masterlist.csv\n      Name: uniprot-proteome-saccharomyces-cerevisiae.nt\n      URI: https:/data.glygen.org/ln2downloads/ebi/2025_05_20/uniprot-proteome-saccharomyces-cerevisiae.nt\n   Output Subdomain\n      Name: yeast_protein_site_annotation_uniprotkb.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/yeast_protein_site_annotation_uniprotkb.csv\n      Name: yeast_protein_site_annotation_uniprotkb.stat.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/yeast_protein_site_annotation_uniprotkb.stat.csv\n\nFields\n      Name: \"uniprotkb_canonical_ac\"\n     Description: \"\"\n      Unique Values: \"3631\"\n      Name: \"gene_symbol\"\n     Description: \"\"Official gene name/symbol assigned to the gene. Human gene names/symbols are approved by the HUGO Gene Nomenclature Committee (HGNC)\"\n      Unique Values: \"3456\"\n      Name: \"ann_type\"\n     Description: \"Annotation Type\"\n      Unique Values: \"10\"\n      Name: \"start_pos\"\n     Description: \"Start position of the gene on the chromosome\"\n      Unique Values: \"1477\"\n      Name: \"end_pos\"\n     Description: \"End position of the gene on the chromosome\"\n      Unique Values: \"1485\"\n      Name: \"annotation\"\n     Description: \"Function annotation from UniProtKB|RefSeq database\"\n      Unique Values: \"4400\"\n      Name: \"ecoid\"\n     Description: \"Evidence & Conclusion Ontology (ECO) identifier\"\n      Unique Values: \"7\"\n      Name: \"ref_aa\"\n     Description: \"Reference amino acid residue\"\n      Unique Values: \"623\"\n      Name: \"alt_aa\"\n     Description: \"Altered amino acid residue\"\n      Unique Values: \"250\"\n      Name: \"xref_key\"\n     Description: \"Source key associated to the  xref_id\"\n      Unique Values: \"2\"\n      Name: \"xref_id\"\n     Description: \"ID of the X-ref\"\n      Unique Values: \"5802\"",
    "downloadurl": "/ln2data/releases/data/v-2.9.1/reviewed/yeast_protein_site_annotation_uniprotkb.csv"
}