{
    "object_id": "https://biocomputeobject.org/GLY_000258/1.7.13", 
    "spec_version": "1.3.0", 
    "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": "", 
                        "category_name": "species"
                    }, 
                    {
                        "category_value": "Protein", 
                        "category_name": "molecule"
                    }, 
                    {
                        "category_value": "Homologs", 
                        "category_name": "tags"
                    }, 
                    {
                        "category_value": "csv", 
                        "category_name": "file_type"
                    }, 
                    {
                        "category_value": "Reviewed", 
                        "category_name": "status"
                    }, 
                    {
                        "category_value": "internal", 
                        "category_name": "scope"
                    }
                ]
            }
        }
    ], 
    "provenance_domain": {
        "license": "https://creativecommons.org/licenses/by/4.0/", 
        "name": "Homolog Clusters", 
        "contributors": [
            {
                "affiliation": "The George Washington University", 
                "contribution": [
                    "createdBy"
                ], 
                "name": "Jeet Vora", 
                "email": "jeetvora@gwu.edu"
            }, 
            {
                "affiliation": "The George Washington University", 
                "contribution": [
                    "createdBy"
                ], 
                "name": "Rahi Navelkar", 
                "email": "rsn13@gwu.edu"
            }, 
            {
                "affiliation": "The George Washington University", 
                "contribution": [
                    "createdBy"
                ], 
                "name": "Robel Kahsay", 
                "email": "rykahsay@gwu.edu"
            }
        ], 
        "created": "2019-09-06T14:06:38.985197", 
        "modified": "2020-04-29T23:01:49.049875", 
        "version": "1.7.13"
    }, 
    "description_domain": {
        "keywords": [
            "homologs", 
            "orthologs", 
            "MGI", 
            "OMA"
        ], 
        "pipeline_steps": [
            {
                "name": "make-species-agnostic-dataset.py", 
                "step_number": 1, 
                "version": "", 
                "input_list": [
                    {
                        "uri": "https://data.glygen.org/ln2wwwdata/source/mouse_human_orthologs_oma_release-24_061319_03-45pm.csv", 
                        "filename": "mouse_human_orthologs_oma_release-24_061319_03-45pm.csv"
                    }, 
                    {
                        "uri": "https://data.glygen.org/ln2wwwdata/source/mgi_homologs.csv", 
                        "filename": "mgi_homologs.csv"
                    }, 
                    {
                        "uri": "https://data.glygen.org/ln2wwwdata/source/mouse_human_orthologs_oma_release-24_061319_03-45pm.csv", 
                        "filename": "mouse_human_orthologs_oma_release-24_061319_03-45pm.csv"
                    }, 
                    {
                        "uri": "https://data.glygen.org/ln2wwwdata/source/rat_human_orthologs_oma_release-24_061319_03-45pm.csv", 
                        "filename": "rat_human_orthologs_oma_release-24_061319_03-45pm.csv"
                    }, 
                    {
                        "uri": "https://data.glygen.org/ln2wwwdata/reviewed/mouse_protein_xref_mgi.csv", 
                        "filename": "mouse_protein_xref_mgi.csv"
                    }, 
                    {
                        "uri": "https://data.glygen.org/ln2wwwdata/reviewed/human_protein_xref_hgnc.csv", 
                        "filename": "human_protein_xref_hgnc.csv"
                    }, 
                    {
                        "uri": "https://data.glygen.org/ln2wwwdata/reviewed/human_protein_xref_oma.csv", 
                        "filename": "human_protein_xref_oma.csv"
                    }, 
                    {
                        "uri": "https://data.glygen.org/ln2wwwdata/reviewed/mouse_protein_xref_oma.csv", 
                        "filename": "mouse_protein_xref_oma.csv"
                    }, 
                    {
                        "uri": "https://data.glygen.org/ln2wwwdata/reviewed/mouse_protein_xref_geneid.csv", 
                        "filename": "mouse_protein_xref_geneid.csv"
                    }, 
                    {
                        "uri": "https://data.glygen.org/ln2wwwdata/reviewed/rat_protein_xref_geneid.csv", 
                        "filename": "rat_protein_xref_geneid.csv"
                    }, 
                    {
                        "uri": "https://data.glygen.org/ln2wwwdata/reviewed/human_protein_xref_geneid.csv", 
                        "filename": "human_protein_xref_geneid.csv"
                    }, 
                    {
                        "uri": "https://data.glygen.org/ln2wwwdata/reviewed/rat_protein_xref_oma.csv", 
                        "filename": "rat_protein_xref_oma.csv"
                    }
                ], 
                "output_list": [
                    {
                        "uri": "https://data.glygen.org/ln2wwwdata/reviewed/homolog_clusters.csv", 
                        "filename": "homolog_clusters.csv"
                    }
                ], 
                "prerequisite": [], 
                "description": "The script extracts the human, mouse and rat homologs from the input files and using xref files maps the identifiers to UniProtKB canonical accessions"
            }
        ]
    }, 
    "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"
                }
            }
        ]
    }, 
    "usability_domain": [
        "The Homolog Clusters dataset contains homologs of human [taxid: 9606], mouse [taxid:10090] and rat [taxid:10116] species mapped to UniProtKB canonical accessions. The homologs data is downloaded from OMA browser and MGI. If you use this dataset please provide proper attribution to MGI, OMA Browser and GlyGen"
    ], 
    "etag": "42c8ea80b64611a46a742fed4f9a391f", 
    "_id": {
        "$oid": "5d72a02ef5c47b0f43423373"
    }, 
    "io_domain": {
        "input_subdomain": [
            {
                "uri": {
                    "uri": "https://data.glygen.org//ln2releases/data/v-1.7.13/reviewed/mouse_protein_xref_geneid.csv", 
                    "filename": "mouse_protein_xref_geneid.csv"
                }
            }, 
            {
                "uri": {
                    "uri": "https://data.glygen.org//ln2releases/data/v-1.7.13/reviewed/human_protein_xref_hgnc.csv", 
                    "filename": "human_protein_xref_hgnc.csv"
                }
            }, 
            {
                "uri": {
                    "uri": "https://data.glygen.org//ln2downloads/mgi/2019_10/mgi_homologs.csv", 
                    "filename": "mgi_homologs.csv"
                }
            }, 
            {
                "uri": {
                    "uri": "https://data.glygen.org//ln2downloads/oma/2019_06/mouse_human_orthologs_oma_release-24_061319_03-45pm.csv", 
                    "filename": "mouse_human_orthologs_oma_release-24_061319_03-45pm.csv"
                }
            }, 
            {
                "uri": {
                    "uri": "https://data.glygen.org//ln2releases/data/v-1.7.13/reviewed/human_protein_xref_geneid.csv", 
                    "filename": "human_protein_xref_geneid.csv"
                }
            }, 
            {
                "uri": {
                    "uri": "https://data.glygen.org//ln2releases/data/v-1.7.13/reviewed/rat_protein_xref_geneid.csv", 
                    "filename": "rat_protein_xref_geneid.csv"
                }
            }, 
            {
                "uri": {
                    "uri": "https://data.glygen.org//ln2releases/data/v-1.7.13/reviewed/human_protein_xref_oma.csv", 
                    "filename": "human_protein_xref_oma.csv"
                }
            }, 
            {
                "uri": {
                    "uri": "https://data.glygen.org//ln2releases/data/v-1.7.13/reviewed/mouse_protein_xref_oma.csv", 
                    "filename": "mouse_protein_xref_oma.csv"
                }
            }, 
            {
                "uri": {
                    "uri": "https://data.glygen.org//ln2downloads/mgi/2019_06/mgi_orthologs_hom_allorganism_release6.14_060419_12-33pm.csv", 
                    "filename": "mgi_orthologs_hom_allorganism_release6.14_060419_12-33pm.csv"
                }
            }, 
            {
                "uri": {
                    "uri": "https://data.glygen.org//ln2downloads/oma/2019_06/rat_human_orthologs_oma_release-24_061319_12-24pm.csv", 
                    "filename": "rat_human_orthologs_oma_release-24_061319_12-24pm.csv"
                }
            }, 
            {
                "uri": {
                    "uri": "https://data.glygen.org//ln2releases/data/v-1.7.13/reviewed/rat_protein_xref_oma.csv", 
                    "filename": "rat_protein_xref_oma.csv"
                }
            }, 
            {
                "uri": {
                    "uri": "https://data.glygen.org//ln2releases/data/v-1.7.13/reviewed/mouse_protein_xref_mgi.csv", 
                    "filename": "mouse_protein_xref_mgi.csv"
                }
            }
        ], 
        "output_subdomain": [
            {
                "mediatype": "csv", 
                "uri": {
                    "uri": "http://data.glygen.org/ln2wwwdata/reviewed/protein_homolog_clusters.csv", 
                    "filename": "protein_homolog_clusters.csv"
                }
            }, 
            {
                "mediatype": "csv", 
                "uri": {
                    "uri": "http://data.glygen.org/ln2wwwdata/reviewed/protein_homolog_clusters.stat.csv", 
                    "filename": "protein_homolog_clusters.stat.csv"
                }
            }
        ]
    }
}