{
    "bcoid": "GLY_001160",
    "title": "Yeast Predicted O-Glycosylation Sites (IsoGlyP)",
    "description": "The Yeast predicted O-Glycosylation Sites dataset contains Saccharomyces cerevisiae S288C [taxid:559292] ...",
    "filename_list": "yeast_proteoform_glycosylation_sites_predicted_isoglyp.csv",
    "filename": "yeast_proteoform_glycosylation_sites_predicted_isoglyp.csv",
    "filetype": "csv",
    "categories": {
        "species": [
            "Saccharomyces cerevisiae S288C"
        ],
        "molecule": [
            "Proteoform"
        ],
        "tag": [
            "O-Glycosylation Sites"
        ],
        "file_type": [
            "csv"
        ],
        "status": [
            "Reviewed"
        ],
        "scope": [
            "internal"
        ]
    },
    "minitable": {
        "content": [
            [
                "Q02875-1...",
                "238..."
            ],
            [
                "P25357-1...",
                "59..."
            ]
        ],
        "headers": [
            "uniprotkb_ca...",
            "glycosylatio..."
        ],
        "colwidth": [
            "40%",
            "20%"
        ]
    },
    "sampledata": {
        "type": "table",
        "data": [
            [
                {
                    "type": "string",
                    "label": "uniprotkb_canonical_ac"
                },
                {
                    "type": "string",
                    "label": "glycosylation_site_uniprotkb"
                },
                {
                    "type": "string",
                    "label": "amino_acid"
                },
                {
                    "type": "string",
                    "label": "saccharide"
                },
                {
                    "type": "string",
                    "label": "glycosylation_type"
                },
                {
                    "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": "start_pos"
                },
                {
                    "type": "string",
                    "label": "end_pos"
                },
                {
                    "type": "string",
                    "label": "start_aa"
                },
                {
                    "type": "string",
                    "label": "end_aa"
                }
            ],
            [
                "Q02875-1",
                "238",
                "Thr",
                "",
                "O-linked",
                "protein_xref_glygen_ds",
                "GLY_001160",
                "protein_xref_glygen_ds",
                "GLY_001160",
                "238",
                "238",
                "T",
                "T"
            ],
            [
                "P25357-1",
                "59",
                "Thr",
                "",
                "O-linked",
                "protein_xref_glygen_ds",
                "GLY_001160",
                "protein_xref_glygen_ds",
                "GLY_001160",
                "59",
                "59",
                "T",
                "T"
            ]
        ]
    },
    "readme": "Name\n   - Yeast Predicted O-Glycosylation Sites (IsoGlyP)\n\nVersion\n   - v-2.8.1\n\nCreated on\n  - 2024-08-01T16:50:43\n\nModified on\n   - 2025-03-04T16:37:43.864Z\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   - Maria Martin [martin@ebi.ac.uk], Preethi Vasudev [pvasudev@ebi.ac.uk]\n\nChecksum\n   - \n\nUsability Domain\n   - The Yeast predicted O-Glycosylation Sites dataset contains Saccharomyces cerevisiae S288C [taxid:559292] UniProtKB canonical accessions with information on reported and predicted O-Glycosylation sites. If you use this dataset please provide proper attribution to EMBL-EBI-UniProtKB and GlyGen. \n\nDescription Domain\n   Keywords\n   - O-Glycosylation\n   - Predicted\n\n   Pipeline Steps\n   - Step-1: The script takes a path twords a canonical sequences fasta and runs it through the IsoGlyP O-Glycosylation prediction software. This process is slow so it is broken into 10 seperate processes.\n   - Step-2: The script takes the output of the previous step and combines them into one final dataset.\n\nExecution Domain\n   Scripts   - https://github.com/glygener/glygen-backend-integration/blob/master/dataset-maker/\n   - https://github.com/glygener/glygen-backend-integration/blob/master/dataset-maker/\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: output.yeast.csv\n      URI: https:/data.glygen.org/ln2downloads/isoglyp/outputdb/output.yeast.csv\n      Name: output.yeast_legacy.csv\n      URI: https:/data.glygen.org/ln2downloads/isoglyp/outputdb/output.yeast_legacy.csv\n   Output Subdomain\n      Name: yeast_proteoform_glycosylation_sites_predicted_isoglyp.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.8.1/reviewed/yeast_proteoform_glycosylation_sites_predicted_isoglyp.csv\n      Name: yeast_proteoform_glycosylation_sites_predicted_isoglyp.stat.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.8.1/reviewed/yeast_proteoform_glycosylation_sites_predicted_isoglyp.stat.csv\n\nFields\n      Name: \"uniprotkb_canonical_ac\"\n     Description: \"\"\n      Unique Values: \"669\"\n      Name: \"glycosylation_site_uniprotkb\"\n     Description: \"Site on the protein sequence of the UniProtKB entry where glycosylation is observed\"\n      Unique Values: \"472\"\n      Name: \"amino_acid\"\n     Description: \"Three letter abbreviation code of the amino acid\"\n      Unique Values: \"1\"\n      Name: \"saccharide\"\n     Description: \"Sugar\"\n      Unique Values: \"1\"\n      Name: \"glycosylation_type\"\n     Description: \"Type of glycosylation (N/O/C/S linked glycosylation)\"\n      Unique Values: \"1\"\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: \"1\"\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: \"start_pos\"\n     Description: \"Start position of the gene on the chromosome\"\n      Unique Values: \"472\"\n      Name: \"end_pos\"\n     Description: \"End position of the gene on the chromosome\"\n      Unique Values: \"472\"\n      Name: \"start_aa\"\n     Description: \"\"\n      Unique Values: \"1\"\n      Name: \"end_aa\"\n     Description: \"\"\n      Unique Values: \"1\"",
    "downloadurl": "/ln2data/releases/data/v-2.8.1/reviewed/yeast_proteoform_glycosylation_sites_predicted_isoglyp.csv"
}