{
    "object_id": "https://biocomputeobject.org/GLY_000079/v-1.0.13",
    "license": "https://creativecommons.org/licenses/by/4.0/",
    "contributors": [
        {
            "orcid": "",
            "affiliation": "George Washington University",
            "contribution": [
                "createdBy"
            ],
            "name": "Rahi Navelkar",
            "email": "rsn13@gwu.edu"
        },
        {
            "orcid": "",
            "affiliation": "Georgetown University",
            "contribution": [
                "contributedBy"
            ],
            "name": "Nathan Edwards",
            "email": "nje5@georgetown.edu"
        },
        {
            "orcid": "",
            "affiliation": "George Washington University",
            "contribution": [
                "contributedBy"
            ],
            "name": "Brian Fochtman ",
            "email": "bfochtman@email.gwu.edu"
        },
        {
            "orcid": "",
            "affiliation": "George Washington University",
            "contribution": [
                "contributedBy"
            ],
            "name": "Reza Mousavi",
            "email": "rezamousavi@gwmail.gwu.edu"
        }
    ],
    "created": "2019-01-23T17:21:05.948124",
    "spec_version": "1.3.0",
    "modified": "2019-01-30T14:44:09.706664",
    "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": "Reviewed",
                        "category_name": "status"
                    }
                ]
            }
        }
    ],
    "io_domain": {
        "input_subdomain": [
            {
                "uri": {
                    "uri": "https://data.glygen.org/ln2data/releases/data/v-1.0.13/source/allmotif.txt",
                    "filename": "allmotif.txt"
                }
            },
            {
                "uri": {
                    "uri": "https://data.glygen.org/ln2data/releases/data/v-1.0.13/source/motif_acc.txt",
                    "filename": "motif_acc.txt"
                }
            },
            {
                "uri": {
                    "uri": "https://data.glygen.org/ln2data/releases/data/v-1.0.13/source/motif_name.txt",
                    "filename": "motif_name.txt"
                }
            }
        ],
        "output_subdomain": [
            {
                "mediatype": "",
                "uri": {
                    "uri": "https://data.glygen.org/ln2data/releases/data/v-1.0.13/reviewed/mouse_glycan_motif.csv",
                    "filename": "mouse_glycan_motif.csv"
                }
            },
            {
                "mediatype": "csv",
                "uri": {
                    "uri": "https://data.glygen.org/ln2data/releases/data/v-1.0.13/reviewed/mouse_glycan_motif.stat.csv",
                    "filename": "mouse_glycan_motif.stat.csv"
                }
            }
        ]
    },
    "provenance_domain": {
        "license": "https://creativecommons.org/licenses/by/4.0/",
        "name": "Mouse Glycan Motifs",
        "contributors": [
            {
                "affiliation": "George Washington University",
                "contribution": [
                    "createdBy"
                ],
                "name": "Rahi Navelkar",
                "email": "rsn13@gwu.edu"
            },
            {
                "affiliation": "George Wahington University",
                "contribution": [
                    "createdBy"
                ],
                "name": "Jeet Vora",
                "email": "jeetvora@gwu.edu"
            },
            {
                "affiliation": "Georgetown University",
                "contribution": [
                    "contributedBy"
                ],
                "name": "Nathan Edwards",
                "email": "nje5@georgetown.edu"
            },
            {
                "affiliation": "George Washington University",
                "contribution": [
                    "contributedBy"
                ],
                "name": "Brian Fochtman ",
                "email": "bfochtman@email.gwu.edu"
            },
            {
                "affiliation": "George Washington University",
                "contribution": [
                    "contributedBy"
                ],
                "name": "Reza Mousavi",
                "email": "rezamousavi@gwmail.gwu.edu"
            }
        ],
        "created": "2019-01-23T17:21:05.948124",
        "modified": "2019-04-12T14:34:09.315197",
        "version": "v-1.0.13"
    },
    "description_domain": {
        "keywords": [
            "GlyTouCan",
            "Glycan",
            "Classification",
            "Motifs"
        ],
        "pipeline_steps": [
            {
                "name": "python",
                "step_number": 1,
                "version": "",
                "input_list": [],
                "output_list": [],
                "prerequisite": [
                    {
                        "name": "",
                        "uri": {
                            "uri": "",
                            "filename": ""
                        }
                    }
                ],
                "description": "This file contains GlyTouCan accessions with information on motif accession and motif name. he List of GlyTouCans(glycan list) is compiled when the GlyTouCan accession is observed under one or more following criteria:  a) If the glycan has source/taxonomy annotation[taxid:10090] in GlyTouCan b) If the glycan is listed on mouse[taxid:10090] glycan webpage at UniCarbKB c) If the glycan is listed on a mouse[taxid:10090] protein webpage at UniCarbKB d) If the glycan is synthesized by a mouse[taxid:10090] protein [http://data.glygen.org/GLYDS00065] e) If the glycan is known to be attached to a mouse[taxid:10090] protein [http://data.glygen.org/GLYDS00041] f) If the glycan is a motif of the glycan mentioned under criteria a-f "
            },
            {
                "name": "python",
                "step_number": 2,
                "version": "",
                "input_list": [
                    {
                        "uri": "https://data.glygen.org/ln2data/releases/data/v-1.0.13/source/allmotif.txt",
                        "filename": "allmotif.txt"
                    },
                    {
                        "uri": "https://data.glygen.org/ln2data/releases/data/v-1.0.13/source/motif_acc.txt",
                        "filename": "motif_acc.txt"
                    },
                    {
                        "uri": "https://data.glygen.org/ln2data/releases/data/v-1.0.13/source/motif_name.txt",
                        "filename": "motif_name.txt"
                    }
                ],
                "output_list": [
                    {
                        "uri": "https://data.glygen.org/ln2data/releases/data/v-1.0.13/mouse_glycan_motif.csv",
                        "filename": "mouse_glycan_motif.csv"
                    }
                ],
                "prerequisite": [],
                "description": "The input file(s) were downloaded from the source link and were seperated into individual 2 column input text files (glytoucan_acc|database_id) if required and the individual input file(s) were processed based on the compiled glycan list using a python script[make-glycan-dataset.py] to generate the final output csv 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/blob/master/integration/ ",
                    "filename": "make-glycan-csv.py"
                }
            }
        ]
    },
    "version": "1.0.5",
    "error_domain": {
        "empirical_error": {},
        "algorithmic_error": {},
        "emperical_error": {}
    },
    "parametric_domain": [
        {
            "step": "",
            "value": "",
            "param": ""
        }
    ],
    "usability_domain": [
        "List of Glycans identified by GlyTouCan Accessions with motif information."
    ],
    "etag": "fe2cd220a873c7b68eec9ecb6d3e1c2d",
    "_id": {
        "$oid": "5c48e8d1f5c47b65ae4b5d3a"
    },
    "name": "Mouse Glycan Motifs"
}