{
    "bcoid": "GLY_000341",
    "title": "Glycan Species ",
    "description": "The dataset provides species annotation for the associated glycan (GlyTouCan Accession) generated from ...",
    "filename_list": "glycan_species.csv",
    "filename": "glycan_species.csv",
    "filetype": "csv",
    "categories": {
        "molecule": [
            "Glycan"
        ],
        "tag": [
            "NCBI TaxID"
        ],
        "status": [
            "Reviewed"
        ],
        "file_type": [
            "csv"
        ],
        "scope": [
            "internal"
        ],
        "species": [
            "Sus scrofa",
            "Rattus",
            "Homo sapiens",
            "Mus musculus",
            "Saccharomyces cerevisiae",
            "Drosophila melanogaster",
            "Rattus norvegicus",
            "Severe acute respiratory syndrome coronavirus 2",
            "Sus scrofa domesticus",
            "Dictyostelium discoideum",
            "Hepatitis C virus (isolate H77)",
            "Severe acute respiratory syndrome-related coronavirus",
            "Hepacivirus C"
        ]
    },
    "minitable": {
        "content": [
            [
                "G00002CF...",
                "9913..."
            ],
            [
                "G00002CF...",
                "9606..."
            ]
        ],
        "headers": [
            "glytoucan_ac...",
            "tax_id..."
        ],
        "colwidth": [
            "40%",
            "20%"
        ]
    },
    "sampledata": {
        "type": "table",
        "data": [
            [
                {
                    "type": "string",
                    "label": "glytoucan_ac"
                },
                {
                    "type": "string",
                    "label": "tax_id"
                },
                {
                    "type": "string",
                    "label": "tax_name"
                },
                {
                    "type": "string",
                    "label": "annotation_category"
                },
                {
                    "type": "string",
                    "label": "source"
                },
                {
                    "type": "string",
                    "label": "source_id"
                },
                {
                    "type": "string",
                    "label": "original_source_id"
                },
                {
                    "type": "string",
                    "label": "xref_key"
                },
                {
                    "type": "string",
                    "label": "xref_id"
                },
                {
                    "type": "string",
                    "label": "is_motif"
                }
            ],
            [
                "G00002CF",
                "9913",
                "Bos taurus",
                "Subsumption",
                "GNOme",
                "G84891DZ",
                "",
                "glycan_xref_gnome",
                "G84891DZ",
                "False"
            ],
            [
                "G00002CF",
                "9606",
                "Homo sapiens",
                "Subsumption",
                "GNOme",
                "G84891DZ",
                "",
                "glycan_xref_gnome",
                "G84891DZ",
                "False"
            ]
        ]
    },
    "readme": "Name\n   - Glycan Species \n\nVersion\n   - v-2.8.1\n\nCreated on\n  - 2020-03-02T13:55:30.488616\n\nModified on\n   - 2024-05-17T11:23:56.914Z\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   - Nathan Edwards [nje5@georgetown.edu]\n\nChecksum\n   - \n\nUsability Domain\n   - The dataset provides species annotation for the associated glycan (GlyTouCan Accession) generated from direct TaxID annotation and/or inferred via subsumption. The listed GlyTouCan Accessions are derived from the GlyTouCan accession master list (https://data.glygen.org/GLYDS000281). Source database: https://glytoucan.org/; https://www.ncbi.nlm.nih.gov/taxonomy.\n\nDescription Domain\n   Keywords\n   - Glycan\n   - GlyTouCan Accession\n   - NCBI TaxID\n\n   Pipeline Steps\n   - Step-1: The input file was downloaded from the author and a python script is used to extract the data for the GlyTouCan accessions based on the acession master list. Refer to the usability domain for more information on master list.\n\nExecution Domain\n   Scripts   - https://github.com/glygener/glygen-backend-integration/blob/master/dataset-maker/make-species-agnostic-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: glycan_masterlist.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.8.1/reviewed/glycan_masterlist.csv\n      Name: species_expanded.tsv\n      URI: https:/data.glygen.org/ln2downloads/glytoucan/2025_02_10/export/species_expanded.tsv\n   Output Subdomain\n      Name: glycan_species.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.8.1/reviewed/glycan_species.csv\n      Name: glycan_species.stat.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.8.1/reviewed/glycan_species.stat.csv\n\nFields\n      Name: \"glytoucan_ac\"\n     Description: \"Unique accession assigned to the registered glycan structure in GlyTouCan database\"\n      Unique Values: \"33328\"\n      Name: \"tax_id\"\n     Description: \"NCBI Taxonomy database Identifier\"\n      Unique Values: \"18\"\n      Name: \"tax_name\"\n     Description: \"NCBI Taxonomy name\"\n      Unique Values: \"18\"\n      Name: \"annotation_category\"\n     Description: \"Species annotation category of the glycan. Category could be either direct or subsumption\"\n      Unique Values: \"2\"\n      Name: \"source\"\n     Description: \"Source for the data\"\n      Unique Values: \"16\"\n      Name: \"source_id\"\n     Description: \"source database id of the species annoation for the glycan.\"\n      Unique Values: \"15169\"\n      Name: \"original_source_id\"\n     Description: \"Original source id of the species annoation for the glycan. This columns contains values where the source id is not a valid database id. \"\n      Unique Values: \"276\"\n      Name: \"xref_key\"\n     Description: \"Source key associated to the  xref_id\"\n      Unique Values: \"10\"\n      Name: \"xref_id\"\n     Description: \"ID of the X-ref\"\n      Unique Values: \"14322\"\n      Name: \"is_motif\"\n     Description: \"\"\n      Unique Values: \"2\"",
    "downloadurl": "/ln2data/releases/data/v-2.8.1/reviewed/glycan_species.csv"
}