{
    "object_id": "https://biocomputeobject.org/GLY_000556/v-1.11.2",
    "spec_version": "1.3",
    "extension_domain": [
        {
            "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"
                },
                "dataset_categories": [
                    {
                        "category_value": "Glycan",
                        "category_name": "molecule"
                    },
                    {
                        "category_value": "Citations(GlycoMotif)",
                        "category_name": "tags"
                    },
                    {
                        "category_value": "Reviewed",
                        "category_name": "status"
                    },
                    {
                        "category_value": "csv",
                        "category_name": "file_type"
                    },
                    {
                        "category_value": "internal",
                        "category_name": "scope"
                    }
                ]
            }
        }
    ],
    "provenance_domain": {
        "license": "https://creativecommons.org/licenses/by/4.0/",
        "name": "Glycan Citations (GlycoMotif)",
        "contributors": [
            {
                "affiliation": "The George Washington University",
                "contribution": [
                    "createdBy"
                ],
                "name": "Rahi Navelkar",
                "email": "rsn13@gwu.edu"
            },
            {
                "affiliation": "The George Washington University",
                "contribution": [
                    "createdBy"
                ],
                "name": "Jeet Vora",
                "email": "jeetvora@gwu.edu"
            },
            {
                "affiliation": "The George Washington University",
                "contribution": [
                    "createdBy"
                ],
                "name": "Robel Kahsay",
                "email": "rykahsay@gwu.edu"
            },
            {
                "affiliation": "Georgetown University",
                "contribution": [
                    "contributedBy",
                    "authoredBy"
                ],
                "name": "Nathan Edwards",
                "email": "nje5@georgetown.edu"
            },
            {
                "affiliation": "The George Washington University",
                "contribution": [
                    "createdBy"
                ],
                "name": "Karina Martinez",
                "email": "karinamartinez@gwu.edu"
            },
            {
                "affiliation": "The George Washington University",
                "contribution": [
                    "createdBy"
                ],
                "name": "Amanda Bell",
                "email": "amandab2140@gwu.edu"
            },
            {
                "affiliation": "The George Washington University",
                "contribution": [
                    "createdBy"
                ],
                "name": "Jonathon Keeney",
                "email": "keeneyjg@gwu.edu"
            },
            {
                "affiliation": "The George Washington University",
                "contribution": [
                    "createdBy"
                ],
                "name": "Millicent Quartey",
                "email": "mquartey@email.gwu.edu"
            }
        ],
        "created": "2021-03-16T15:44:18.145789",
        "modified": "2021-03-16T15:54:20.507510",
        "version": "v-1.11.2"
    },
    "description_domain": {
        "keywords": [
            "Glycan",
            "GlyTouCan Accession",
            "Citations"
        ],
        "pipeline_steps": [
            {
                "name": "make-species-agnostic-dataset.py",
                "step_number": 1,
                "version": "",
                "input_list": [
                    {
                        "uri": "http://data.glygen.org/ln2data/releases/data/v-1.11.2/reviewed/glycan_motif.csv",
                        "filename": "glycan_motif.csv"
                    }
                ],
                "output_list": [
                    {
                        "uri": "http://data.glygen.org/ln2data/releases/data/v-1.11.2/reviewed/glycan_citations_glycomotif.csv",
                        "filename": "glycan_citations_glycomotif.csv"
                    }
                ],
                "prerequisite": [],
                "description": "The input file was downloaded from the author and a python script is used to extract the associated PMIDs for the GlyTouCan accessions based on the acession master list. Refer to the usability domain for more information on master list. The MEDLINE format is used to add Journal, Author, Title detail associated with the publications. "
            }
        ]
    },
    "execution_domain": {
        "external_data_endpoints": [],
        "environment_variables": {},
        "script_driver": "manual",
        "software_prerequisites": [
            {
                "version": "2.7.5",
                "name": "Python",
                "uri": {
                    "uri": "https://www.python.org/download/releases/2.7.5/"
                }
            }
        ],
        "script": [
            {
                "uri": {
                    "uri": "https://github.com/GW-HIVE/glygen-backend-integration/blob/master/pipeline/integrator/make-species-agnostic-dataset.py",
                    "filename": "make-species-agnostic-dataset.py"
                }
            }
        ]
    },
    "parametric_domain": [
        {
            "step": "",
            "param": "",
            "value": ""
        }
    ],
    "usability_domain": [
        "The dataset provides citations for the associated glycan (GlyTouCan Accession) from GlycoMotif (https://glycomotif.glyomics.org/glycomotif/GlycoMotif). The listed GlyTouCan Accessions are derived from the  GlyTouCan accession master list (https://data.glygen.org/GLYDS000281) and the associated PMIDs is derived from file Glycan Motif(https://data.glygen.org/GLY_000283)."
    ],
    "etag": "ae8a4238278206569088ffdf89f74828",
    "_id": {
        "$oid": "60510a92f5c47b6e902c744a"
    },
    "io_domain": {
        "input_subdomain": [
            {
                "uri": {
                    "uri": "https://data.glygen.org//ln2data/releases/data/v-1.11.2/reviewed/glycan_motif.csv",
                    "filename": "glycan_motif.csv"
                }
            }
        ],
        "output_subdomain": [
            {
                "mediatype": "csv",
                "uri": {
                    "uri": "http://data.glygen.org/ln2data/releases/data/v-1.11.2/reviewed/glycan_citations_glycomotif.csv",
                    "filename": "glycan_citations_glycomotif.csv"
                }
            },
            {
                "mediatype": "csv",
                "uri": {
                    "uri": "http://data.glygen.org/ln2data/releases/data/v-1.11.2/reviewed/glycan_citations_glycomotif.stat.csv",
                    "filename": "glycan_citations_glycomotif.stat.csv"
                }
            }
        ]
    }
}