{
    "bcoid": "GLY_001251",
    "title": "Mouse Glycosylation Sites (GlyCosmos)",
    "description": "The GlyCosmos Mouse Glycosylation Sites dataset contains information on Asn (N)-glycosylated proteins ...",
    "filename_list": "mouse_proteoform_glycosylation_sites_glycosmos.csv",
    "filename": "mouse_proteoform_glycosylation_sites_glycosmos.csv",
    "filetype": "csv",
    "categories": {
        "species": [
            "Mus musculus"
        ],
        "molecule": [
            "Proteoform"
        ],
        "tag": [
            "Glycosylation Sites (GlyCosmos)"
        ],
        "file_type": [
            "csv"
        ],
        "status": [
            "Reviewed"
        ],
        "scope": [
            "internal"
        ],
        "file_category": [
            "glycosylation_sites_"
        ]
    },
    "minitable": {
        "content": [
            [
                "P06909-1...",
                "773..."
            ],
            [
                "P06909-1...",
                "773..."
            ]
        ],
        "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": "taxonomy_id"
                },
                {
                    "type": "string",
                    "label": "taxonomy_species"
                },
                {
                    "type": "string",
                    "label": "n_sequon"
                },
                {
                    "type": "string",
                    "label": "n_sequon_type"
                },
                {
                    "type": "string",
                    "label": "start_pos"
                },
                {
                    "type": "string",
                    "label": "end_pos"
                },
                {
                    "type": "string",
                    "label": "start_aa"
                },
                {
                    "type": "string",
                    "label": "end_aa"
                },
                {
                    "type": "string",
                    "label": "site_seq"
                },
                {
                    "type": "string",
                    "label": "isoform_mapping_notes"
                }
            ],
            [
                "P06909-1",
                "773",
                "Asn",
                "G02281EI",
                "N-linked",
                "protein_xref_glycosmos",
                "A0A0A6YWP4",
                "protein_xref_glygen_ds",
                "GLY_001251",
                "10090",
                "Mus musculus",
                "CXK",
                "",
                "773",
                "773",
                "Asn",
                "Asn",
                "N",
                "reported site N505 is on non-canonical isoform A0A0A6YWP4-1 which maps to canonical isoform site P06909-1:773"
            ],
            [
                "P06909-1",
                "773",
                "Asn",
                "G13749ZZ",
                "N-linked",
                "protein_xref_glycosmos",
                "A0A0A6YWP4",
                "protein_xref_glygen_ds",
                "GLY_001251",
                "10090",
                "Mus musculus",
                "CXK",
                "",
                "773",
                "773",
                "Asn",
                "Asn",
                "N",
                "reported site N505 is on non-canonical isoform A0A0A6YWP4-1 which maps to canonical isoform site P06909-1:773"
            ]
        ]
    },
    "readme": "Name\n   - Mouse Glycosylation Sites (GlyCosmos)\n\nVersion\n   - v-2.12.1\n\nCreated on\n  - 2022-08-16T20:48:29.540934\n\nModified on\n   - 2025-08-03T22:24:30.214Z\n\nCreated by\n   - Jeet Vora [jeetvora@gwu.edu], Robel Kahsay [rykahsay@gwu.edu], Urnisha Bhuiyan [sbhuiyan28@email.gwu.edu], Kate Warner [k.warner1@gwu.edu]\n\nAuthors\n   - \n\nChecksum\n   - \n\nUsability Domain\n   - The GlyCosmos Mouse Glycosylation Sites dataset contains information on Asn (N)-glycosylated proteins and their glycosylation sites in *Mus musculus* [taxid:10090]. This dataset originates from GlycoProtDB (https://acgg.asia/db/gpdb/) and is made available to GlyGen through GlyCosmos (https://glycosmos.org/). The identification of glycoproteins in mouse models was carried out using LC/MS techniques as part of the Structural Glycomics Project, supported by NEDO (New Energy and Industrial Technology Development Organization) and the RIO Database Project by AIST. The development of the database was further supported by MEXT\u2019s Integrated Database Project and the Program for Coordination Toward Integration of Related Databases, led by the Japan Science and Technology Agency (JST).\n\nDescription Domain\n   Keywords\n   - Glycosylation Sites\n   - GlyCosmos\n   - GlycoProtDB\n\n   Pipeline Steps\n   - Step-1: The script maps the UniProtKB accesions to the UniProtKB Canonical accessions and also checks the position and amino acid of O-GlcNAc modified residue against UniProtKB Canonical sequences. The script that processes this dataset matches the amino acid and position with the latest release fasta file as a QC check to eliminate the incorrect entries. The script also adds the -5 and +5 amino acids from the modified residue in the peptide field.\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: filtered_glycoproteins_glycan_list.csv\n      URI: https:/data.glygen.org/ln2downloads/glycosmos/2025_06_23/filtered_glycoproteins_glycan_list.csv\n   Output Subdomain\n      Name: mouse_proteoform_glycosylation_sites_glycosmos.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/mouse_proteoform_glycosylation_sites_glycosmos.csv\n      Name: mouse_proteoform_glycosylation_sites_glycosmos.stat.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/mouse_proteoform_glycosylation_sites_glycosmos.stat.csv\n\nFields\n      Name: \"uniprotkb_canonical_ac\"\"\n     Description: \"\"\n      Unique Values: \"25\"",
    "downloadurl": "/ln2data/releases/data/v-2.12.1/reviewed/mouse_proteoform_glycosylation_sites_glycosmos.csv"
}