{
    "object_id": "https://biocomputeobject.org/GLY_000089/v-1.0.13",
    "license": "https://creativecommons.org/licenses/by/4.0/",
    "contributors": [
        {
            "orcid": "",
            "affiliation": "",
            "contribution": [
                "createdBy"
            ],
            "name": "Jeet Vora",
            "email": "jeetvora@gwu.edu"
        },
        {
            "orcid": "",
            "affiliation": "",
            "contribution": [
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            ],
            "name": "Rahi Navelkar",
            "email": "rsn13@gwu.edu"
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    ],
    "created": "2019-01-23T17:21:05.958718",
    "spec_version": "1.3.0",
    "modified": "2019-02-19T14:33:59.674294",
    "extension_domain": [
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            "extension_schema": "http://www.w3id.org/biocompute/extension_domain/1.1.0/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"
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                "dataset_categories": [
                    {
                        "category_value": "Reviewed",
                        "category_name": "status"
                    }
                ]
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    ],
    "io_domain": {
        "input_subdomain": [
            {
                "uri": {
                    "uri": "https://data.glygen.org/ln2data/releases/data/v-1.0.13/source/HumanDO_2018_12_20.owl",
                    "filename": "HumanDO_2018_12_20.owl"
                }
            },
            {
                "uri": {
                    "uri": "https://data.glygen.org/ln2data/releases/data/v-1.0.13/reviewed/human_protein_idmapping.csv",
                    "filename": "human_protein_idmapping.csv"
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        ],
        "output_subdomain": [
            {
                "mediatype": "csv",
                "uri": {
                    "uri": "https://data.glygen.org/ln2data/releases/data/v-1.0.13/reviewed/human_protein_idmapping.csv",
                    "filename": "human_protein_idmapping.csv"
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    "provenance_domain": {
        "license": "https://creativecommons.org/licenses/by/4.0/",
        "name": "Human Disease Ontology Mapping",
        "contributors": [
            {
                "affiliation": "The George Washington University",
                "contribution": [
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                ],
                "name": "Jeet Vora",
                "email": "jeetvora@gwu.edu"
            },
            {
                "affiliation": "The George Washington University",
                "contribution": [
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                ],
                "name": "Rahi Navelkar",
                "email": "rsn13@gwu.edu"
            },
            {
                "affiliation": "The George Washington University",
                "contribution": [
                    "createdBy"
                ],
                "name": "Robel Kahsay",
                "email": "rykahsay@gwu.edu"
            }
        ],
        "created": "2019-01-23T17:21:05.958718",
        "modified": "2019-04-23T15:41:52.073065",
        "version": "v-1.0.13"
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    "description_domain": {
        "keywords": [
            "disease ontology",
            "mesh id",
            "icd 10",
            "icd 9",
            "umls id",
            "kegg"
        ],
        "pipeline_steps": [
            {
                "name": "extract-from-endpoint.py",
                "step_number": 1,
                "version": "1.0",
                "input_list": [
                    {
                        "uri": "https://data.glygen.org/ln2data/releases/data/v-1.0.13/source/HumanDO_2018_12_20.owl",
                        "filename": "HumanDO_2018_12_20.owl"
                    },
                    {
                        "uri": "https://data.glygen.org/ln2data/releases/data/v-1.0.13/reviewed/human_protein_idmapping.csv",
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                ],
                "output_list": [
                    {
                        "uri": "https://data.glygen.org/ln2data/releases/data/v-1.0.13/reviewed/human_protein_idmapping.csv",
                        "filename": "human_protein_idmapping.csv"
                    }
                ],
                "prerequisite": [],
                "description": "The script extract-from-endpoint.py extracts the cross-reference mapping between DOID and other databases such as ICD 9, ICD 10, UMLS, MeSH, Kegg and maps it to UniProtKB canonical accessions to be finally processed into a csv. The source owl file is loaded as triples in into the triplestore prior to the extraction"
            }
        ]
    },
    "execution_domain": {
        "external_data_endpoints": [],
        "environment_variables": {},
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                "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/pipeline/extractor/extract-from-endpoint.py",
                    "filename": "extract-from-endpoint.py"
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    "error_domain": {
        "empirical_error": {},
        "algorithmic_error": {},
        "emperical_error": {}
    },
    "parametric_domain": [
        {
            "step": "",
            "value": "",
            "param": ""
        }
    ],
    "usability_domain": [
        "The Human Disease Ontology Mapping dataset contains human [taxid:9606] UniProtKB canonical accession cross-reference mappings to the Disease Ontology Ids (DOID)",
        "If you use this dataset please provide proper attribution to GlyGen and Diease ontology"
    ],
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    "_id": {
        "$oid": "5c48e8d1f5c47b65ae4b5d44"
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    "name": ""
}