{
    "object_id": "https://biocomputeobject.org/GLY_000426/v-2.11.1",
    "spec_version": "1.3.0",
    "extension_domain": [
        {
            "extension_schema": "https://www.w3id.org/biocompute/extension_domain/1.2.0/dataset/dataset_extension.json",
            "dataset_extension": {
                "additional_license": {
                    "data_license": "https://creativecommons.org/licenses/by/4.0/",
                    "script_license": "https://www.gnu.org/licenses/gpl-3.0.en.html"
                },
                "dataset_categories": [
                    {
                        "category_value": "Severe acute respiratory syndrome coronavirus 2",
                        "category_name": "species"
                    },
                    {
                        "category_value": "Protein",
                        "category_name": "molecule"
                    },
                    {
                        "category_value": "Gene Symbols",
                        "category_name": "tag"
                    },
                    {
                        "category_value": "csv",
                        "category_name": "file_type"
                    },
                    {
                        "category_value": "Reviewed",
                        "category_name": "status"
                    },
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                        "category_value": "internal",
                        "category_name": "scope"
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                ]
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    ],
    "provenance_domain": {
        "license": "https://creativecommons.org/licenses/by/4.0/",
        "name": "SARS-CoV2 Gene Symbols (UniProtKB)",
        "contributors": [
            {
                "affiliation": "The George Washington University",
                "contribution": [
                    "createdBy"
                ],
                "name": "Jeet Vora",
                "email": "jeetvora@gwu.edu"
            },
            {
                "affiliation": "The George Washington University",
                "contribution": [
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                ],
                "name": "Robel Kahsay",
                "email": "rykahsay@gwu.edu"
            },
            {
                "affiliation": "EMBL-EBI-UniProt",
                "contribution": [
                    "contributedBy"
                ],
                "name": "Maria Martin",
                "email": "martin@ebi.ac.uk"
            },
            {
                "affiliation": "EMBL-EBI-UniProt",
                "contribution": [
                    "contributedBy"
                ],
                "name": "Preethi Vasudev",
                "email": "pvasudev@ebi.ac.uk"
            },
            {
                "affiliation": "The George Washington University",
                "contribution": [
                    "createdBy"
                ],
                "name": "Karina Martinez",
                "email": "karinamartinez@gwu.edu"
            },
            {
                "name": "Luke Johnson",
                "affiliation": "The George Washington University",
                "contribution": [
                    "createdBy"
                ],
                "email": "luke.johnson@email.gwu.edu"
            },
            {
                "name": "Urnisha Bhuiyan",
                "affiliation": "The George Washington University",
                "contribution": [
                    "createdBy"
                ],
                "email": "sbhuiyan28@email.gwu.edu"
            },
            {
                "name": "Cyrus Au-Yeung",
                "affiliation": "The George Washington University",
                "contribution": [
                    "createdBy"
                ],
                "email": "cyruschauyeung@gwu.edu"
            },
            {
                "name": "Kate Warner",
                "affiliation": "The George Washington University",
                "contribution": [
                    "createdBy"
                ],
                "email": "k.warner1@gwu.edu"
            }
        ],
        "created": "2020-04-03T11:46:41.584409",
        "modified": "2024-06-03T21:12:31.133Z",
        "version": "v-2.11.1"
    },
    "description_domain": {
        "keywords": [
            "protein alternative name",
            "UniProtKB"
        ],
        "pipeline_steps": [
            {
                "name": "make-protein-dataset.py",
                "step_number": 1,
                "input_list": [],
                "description": "The script loads the UniProtKB gene symbols for protein accessions from the triplestore containing triples from nt file and extracts the alternative protein names into csv dataset file",
                "prerequisite": [],
                "output_list": []
            }
        ]
    },
    "execution_domain": {
        "external_data_endpoints": [],
        "environment_variables": {},
        "script_driver": "manual",
        "software_prerequisites": [
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                "name": "Python",
                "uri": {
                    "uri": "https://www.python.org/download/releases/2.7.5/"
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            }
        ],
        "script": [
            {
                "uri": {
                    "uri": "https://github.com/glygener/glygen-backend-integration/blob/master/dataset-maker/make-protein-dataset.py",
                    "filename": "make-protein-dataset.py"
                }
            }
        ]
    },
    "error_domain": {},
    "parametric_domain": [
        {
            "value": ""
        }
    ],
    "usability_domain": [
        "The SARS coronavirus (SARS-CoV-2 or 2019-nCov) Gene Symbols (UniProtKB) dataset contains UniProtKB gene symbols/names for Severe acute respiratory syndrome coronavirus 2  [taxid:2697049] proteins. It contains the recommended gene symbol, alternative gene symbol and ORF gene names assigned by the Gene Name Nomenclature  commitees. (for more info - https://www.uniprot.org/help/gene_name). If you use this dataset please provide proper attribution to EMBL-EBI-UniProtKB and GlyGen."
    ],
    "etag": "d7574dfce0f2498da3639a129c5be06c",
    "io_domain": {
        "output_subdomain": [
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                "uri": {
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                    "filename": "sarscov2_protein_genenames_uniprotkb.csv"
                }
            },
            {
                "mediatype": "csv",
                "uri": {
                    "uri": "https:/data.glygen.org/ln2releases/data/v-2.11.1/reviewed/sarscov2_protein_genenames_uniprotkb.stat.csv",
                    "filename": "sarscov2_protein_genenames_uniprotkb.stat.csv"
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            }
        ],
        "input_subdomain": [
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                "uri": {
                    "filename": "uniprot-proteome-sars-cov-2.nt",
                    "uri": "https:/data.glygen.org/ln2downloads/ebi/2026_01_31/uniprot-proteome-sars-cov-2.nt"
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}