{
    "object_id": "https://biocomputeobject.org/GLY_000464/v-2.12.1",
    "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": "Homo sapiens",
                        "category_name": "species"
                    },
                    {
                        "category_value": "Protein",
                        "category_name": "molecule"
                    },
                    {
                        "category_value": "GlyGen-Pharos Crossreferences",
                        "category_name": "tag"
                    },
                    {
                        "category_value": "csv",
                        "category_name": "file_type"
                    },
                    {
                        "category_value": "Reviewed",
                        "category_name": "status"
                    },
                    {
                        "category_value": "internal",
                        "category_name": "scope"
                    },
                    {
                        "category_name": "file_category",
                        "category_value": "xref_mapping"
                    }
                ]
            }
        }
    ],
    "provenance_domain": {
        "license": "",
        "name": "GlyGen-Pharos Crossreferences Mapping",
        "contributors": [
            {
                "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": "The George Washington University",
                "contribution": [
                    "createdBy"
                ],
                "name": "Karina Martinez",
                "email": "karinamartinez@gwu.edu"
            },
            {
                "affiliation": "",
                "contribution": [
                    "contributedBy"
                ],
                "name": "Not Applicable",
                "email": ""
            },
            {
                "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": "2020-04-03T22:31:02.233246",
        "modified": "2024-05-17T11:24:01.507Z",
        "version": "v-2.12.1"
    },
    "description_domain": {
        "keywords": [
            "Pharos",
            "GlyGen",
            "crossreferences",
            "human",
            "mouse",
            "rat"
        ],
        "pipeline_steps": [
            {
                "name": "make-species-agnostic-dataset.py",
                "step_number": 1,
                "version": "",
                "input_list": [],
                "output_list": [],
                "prerequisite": [],
                "description": "The script loads the human UniProtKB GlyGen accessions that mapped to the Pharos protein accessions along with the GlyGen protein accession URL and extracts it into csv dataset file. "
            }
        ]
    },
    "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/glygener/glygen-backend-integration/blob/master/dataset-maker/make-species-agnostic-dataset.py",
                    "filename": "make-species-agnostic-dataset.py"
                }
            }
        ]
    },
    "parametric_domain": [
        {
            "step": "",
            "param": "",
            "value": ""
        }
    ],
    "usability_domain": [
        "The GlyGen-Pharos Cross-references Mapping dataset contains GlyGen's Homo sapiens [taxid:9606] UniProtKB accessions and corresponding GlyGen URLs.",
        "The dataset is created for Pharos database to crosslink their protein page links to GlyGen protein pages.",
        "The log file contains the Pharos protein accessions that could not be mapped to GlyGen protein accessions."
    ],
    "etag": "76bcfbf5c1aa962df11ba6308e981be8",
    "io_domain": {
        "input_subdomain": [
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                "uri": {
                    "filename": "arabidopsis_protein_masterlist.csv",
                    "uri": "https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/arabidopsis_protein_masterlist.csv"
                }
            },
            {
                "uri": {
                    "filename": "bdbv_protein_masterlist.csv",
                    "uri": "https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/bdbv_protein_masterlist.csv"
                }
            },
            {
                "uri": {
                    "filename": "bovine_protein_masterlist.csv",
                    "uri": "https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/bovine_protein_masterlist.csv"
                }
            },
            {
                "uri": {
                    "filename": "chicken_protein_masterlist.csv",
                    "uri": "https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/chicken_protein_masterlist.csv"
                }
            },
            {
                "uri": {
                    "filename": "dicty_protein_masterlist.csv",
                    "uri": "https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/dicty_protein_masterlist.csv"
                }
            },
            {
                "uri": {
                    "filename": "ebov_protein_masterlist.csv",
                    "uri": "https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/ebov_protein_masterlist.csv"
                }
            },
            {
                "uri": {
                    "filename": "fruitfly_protein_masterlist.csv",
                    "uri": "https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/fruitfly_protein_masterlist.csv"
                }
            },
            {
                "uri": {
                    "filename": "hamster_protein_masterlist.csv",
                    "uri": "https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/hamster_protein_masterlist.csv"
                }
            },
            {
                "uri": {
                    "filename": "hcv1a_protein_masterlist.csv",
                    "uri": "https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/hcv1a_protein_masterlist.csv"
                }
            },
            {
                "uri": {
                    "filename": "hcv1b_protein_masterlist.csv",
                    "uri": "https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/hcv1b_protein_masterlist.csv"
                }
            },
            {
                "uri": {
                    "filename": "human_protein_masterlist.csv",
                    "uri": "https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/human_protein_masterlist.csv"
                }
            },
            {
                "uri": {
                    "filename": "mouse_protein_masterlist.csv",
                    "uri": "https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/mouse_protein_masterlist.csv"
                }
            },
            {
                "uri": {
                    "filename": "pig_protein_masterlist.csv",
                    "uri": "https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/pig_protein_masterlist.csv"
                }
            },
            {
                "uri": {
                    "filename": "rat_protein_masterlist.csv",
                    "uri": "https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/rat_protein_masterlist.csv"
                }
            },
            {
                "uri": {
                    "filename": "sarscov1_protein_masterlist.csv",
                    "uri": "https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/sarscov1_protein_masterlist.csv"
                }
            },
            {
                "uri": {
                    "filename": "sarscov2_protein_masterlist.csv",
                    "uri": "https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/sarscov2_protein_masterlist.csv"
                }
            },
            {
                "uri": {
                    "filename": "yeast_protein_masterlist.csv",
                    "uri": "https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/yeast_protein_masterlist.csv"
                }
            },
            {
                "uri": {
                    "filename": "zebrafish_protein_masterlist.csv",
                    "uri": "https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/zebrafish_protein_masterlist.csv"
                }
            }
        ],
        "output_subdomain": [
            {
                "mediatype": "csv",
                "uri": {
                    "uri": "https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/protein_glygen_pharos_xref_mapping.csv",
                    "filename": "protein_glygen_pharos_xref_mapping.csv"
                }
            },
            {
                "mediatype": "csv",
                "uri": {
                    "uri": "https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/protein_glygen_pharos_xref_mapping.stat.csv",
                    "filename": "protein_glygen_pharos_xref_mapping.stat.csv"
                }
            }
        ]
    },
    "error_domain": {
        "empirical_error": {},
        "algorithmic_error": {}
    }
}