{ "bcoid": "GLY_000539", "title": "Glycan Xref GNOme", "description": "The datasets provides a list of GlyTouCan accessions which are supported by GNOme ontology (https://gnome.glyomics.org/) ...", "filename": "glycan_xref_gnome.csv", "filetype": "csv", "categories": { "molecule": "Glycan", "tags": "GNOme", "status": "Reviewed", "file_type": "csv", "scope": "internal" }, "minitable": { "content": [ [ "G00002CF...", "G00002CF..." ], [ "G00009BX...", "G00009BX..." ] ], "headers": [ "glytoucan_ac...", "xref_id..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "glytoucan_ac" }, { "type": "string", "label": "xref_id" }, { "type": "string", "label": "xref_key" } ], [ "G00002CF", "G00002CF", "glycan_xref_gnome_cross_reference" ], [ "G00009BX", "G00009BX", "glycan_xref_gnome_cross_reference" ], [ "G00012MO", "G00012MO", "glycan_xref_gnome_cross_reference" ], [ "G00012RZ", "G00012RZ", "glycan_xref_gnome_cross_reference" ], [ "G00013MO", "G00013MO", "glycan_xref_gnome_cross_reference" ], [ "G00014MO", "G00014MO", "glycan_xref_gnome_cross_reference" ], [ "G00015MO", "G00015MO", "glycan_xref_gnome_cross_reference" ], [ "G00016MO", "G00016MO", "glycan_xref_gnome_cross_reference" ], [ "G00017IP", "G00017IP", "glycan_xref_gnome_cross_reference" ], [ "G00017MO", "G00017MO", "glycan_xref_gnome_cross_reference" ], [ "G00018MO", "G00018MO", "glycan_xref_gnome_cross_reference" ], [ "G00019MO", "G00019MO", "glycan_xref_gnome_cross_reference" ], [ "G00020MO", "G00020MO", "glycan_xref_gnome_cross_reference" ], [ "G00021MO", "G00021MO", "glycan_xref_gnome_cross_reference" ], [ "G00022MO", "G00022MO", "glycan_xref_gnome_cross_reference" ], [ "G00023MO", "G00023MO", "glycan_xref_gnome_cross_reference" ], [ "G00024MO", "G00024MO", "glycan_xref_gnome_cross_reference" ], [ "G00025AJ", "G00025AJ", "glycan_xref_gnome_cross_reference" ], [ "G00025HU", "G00025HU", "glycan_xref_gnome_cross_reference" ], [ "G00025MO", "G00025MO", "glycan_xref_gnome_cross_reference" ], [ "G00025YC", "G00025YC", "glycan_xref_gnome_cross_reference" ], [ "G00026MO", "G00026MO", "glycan_xref_gnome_cross_reference" ], [ "G00027JG", "G00027JG", "glycan_xref_gnome_cross_reference" ], [ "G00027MO", "G00027MO", "glycan_xref_gnome_cross_reference" ], [ "G00028MO", "G00028MO", "glycan_xref_gnome_cross_reference" ], [ "G00029MO", "G00029MO", "glycan_xref_gnome_cross_reference" ], [ "G00030HB", "G00030HB", "glycan_xref_gnome_cross_reference" ], [ "G00030MO", "G00030MO", "glycan_xref_gnome_cross_reference" ], [ "G00030SF", "G00030SF", "glycan_xref_gnome_cross_reference" ], [ "G00031MO", "G00031MO", "glycan_xref_gnome_cross_reference" ], [ "G00032MO", "G00032MO", "glycan_xref_gnome_cross_reference" ], [ "G00033MO", "G00033MO", "glycan_xref_gnome_cross_reference" ], [ "G00034MO", "G00034MO", "glycan_xref_gnome_cross_reference" ], [ "G00034WH", "G00034WH", "glycan_xref_gnome_cross_reference" ], [ "G00035MO", "G00035MO", "glycan_xref_gnome_cross_reference" ], [ "G00036MO", "G00036MO", "glycan_xref_gnome_cross_reference" ], [ "G00037MO", "G00037MO", "glycan_xref_gnome_cross_reference" ], [ "G00038JC", "G00038JC", "glycan_xref_gnome_cross_reference" ], [ "G00038MO", "G00038MO", "glycan_xref_gnome_cross_reference" ], [ "G00039MO", "G00039MO", "glycan_xref_gnome_cross_reference" ], [ "G00040MO", "G00040MO", "glycan_xref_gnome_cross_reference" ], [ "G00041IL", "G00041IL", "glycan_xref_gnome_cross_reference" ], [ "G00041MO", "G00041MO", "glycan_xref_gnome_cross_reference" ], [ "G00042MO", "G00042MO", "glycan_xref_gnome_cross_reference" ], [ "G00043MO", "G00043MO", "glycan_xref_gnome_cross_reference" ], [ "G00044MO", "G00044MO", "glycan_xref_gnome_cross_reference" ], [ "G00045MO", "G00045MO", "glycan_xref_gnome_cross_reference" ], [ "G00046MO", "G00046MO", "glycan_xref_gnome_cross_reference" ], [ "G00047MO", "G00047MO", "glycan_xref_gnome_cross_reference" ], [ "G00048MO", "G00048MO", "glycan_xref_gnome_cross_reference" ], [ "G00049MO", "G00049MO", "glycan_xref_gnome_cross_reference" ], [ "G00050MO", "G00050MO", "glycan_xref_gnome_cross_reference" ], [ "G00051MO", "G00051MO", "glycan_xref_gnome_cross_reference" ], [ "G00052MO", "G00052MO", "glycan_xref_gnome_cross_reference" ], [ "G00053MO", "G00053MO", "glycan_xref_gnome_cross_reference" ], [ "G00054MO", "G00054MO", "glycan_xref_gnome_cross_reference" ], [ "G00055MO", "G00055MO", "glycan_xref_gnome_cross_reference" ], [ "G00056HH", "G00056HH", "glycan_xref_gnome_cross_reference" ], [ "G00056MO", "G00056MO", "glycan_xref_gnome_cross_reference" ], [ "G00057LF", "G00057LF", "glycan_xref_gnome_cross_reference" ], [ "G00057MO", "G00057MO", "glycan_xref_gnome_cross_reference" ], [ "G00058MO", "G00058MO", "glycan_xref_gnome_cross_reference" ], [ "G00058XR", "G00058XR", "glycan_xref_gnome_cross_reference" ], [ "G00059MO", "G00059MO", "glycan_xref_gnome_cross_reference" ], [ "G00060BT", "G00060BT", "glycan_xref_gnome_cross_reference" ], [ "G00060MO", "G00060MO", "glycan_xref_gnome_cross_reference" ], [ "G00061MO", "G00061MO", "glycan_xref_gnome_cross_reference" ], [ "G00062MO", "G00062MO", "glycan_xref_gnome_cross_reference" ], [ "G00063MO", "G00063MO", "glycan_xref_gnome_cross_reference" ], [ "G00064MO", "G00064MO", "glycan_xref_gnome_cross_reference" ], [ "G00065MO", "G00065MO", "glycan_xref_gnome_cross_reference" ], [ "G00066MO", "G00066MO", "glycan_xref_gnome_cross_reference" ], [ "G00066WY", "G00066WY", "glycan_xref_gnome_cross_reference" ], [ "G00067MO", "G00067MO", "glycan_xref_gnome_cross_reference" ], [ "G00068MO", "G00068MO", "glycan_xref_gnome_cross_reference" ], [ "G00069MO", "G00069MO", "glycan_xref_gnome_cross_reference" ], [ "G00069YC", "G00069YC", "glycan_xref_gnome_cross_reference" ], [ "G00070MO", "G00070MO", "glycan_xref_gnome_cross_reference" ], [ "G00071MO", "G00071MO", "glycan_xref_gnome_cross_reference" ], [ "G00072MO", "G00072MO", "glycan_xref_gnome_cross_reference" ], [ "G00076PK", "G00076PK", "glycan_xref_gnome_cross_reference" ], [ "G00082CQ", "G00082CQ", "glycan_xref_gnome_cross_reference" ], [ "G00084IF", "G00084IF", "glycan_xref_gnome_cross_reference" ], [ "G00087BY", "G00087BY", "glycan_xref_gnome_cross_reference" ] ] }, "readme": "Name\n - Glycan Xref GNOme\n\nVersion\n - v-2.0.3\n\nCreated on\n - 2021-02-11T14:43:28.543150\n\nModified on\n - 2022-09-26T09:08:12.713090\n\nCreated by\n - Rahi Navelkar [rsn13@gwu.edu], Jeet Vora [jeetvora@gwu.edu], Robel Kahsay [rykahsay@gwu.edu], Karina Martinez [karinamartinez@gwu.edu], Amanda Bell [amandab2140@gwu.edu], Jonathon Keeney [keeneyjg@gwu.edu], Millicent Quartey [mquartey@email.gwu.edu]\n\nAuthors\n - Nathan Edwards [nje5@georgetown.edu]\n\nChecksum\n - \n\nUsability Domain\n - The datasets provides a list of GlyTouCan accessions which are supported by GNOme ontology (https://gnome.glyomics.org/) (https://gnome.glyomics.org/restrictions/GlyGen.StructureBrowser.html). \n\nDescription Domain\n Keywords\n - Glycan\n - GlyTouCan Accession\n - GNOme\n - accessions\n - ID/Accession Mapping\n\n Pipeline Steps\n - Step-1: The input file was downloaded from the author and a python script is used to extract the data for the GlyTouCan accessions based on the acession master list. Refer to the usability domain for more information on master list.\n\nExecution Domain\n Scripts - https://github.com/glygener/glygen-backend-integration/blob/master/dataset-maker/make-species-agnostic-dataset.py\n\n\n Software Prerequisites\n Name: Python\n Version: 2.7.5\n URI: https://www.python.org/download/releases/2.7.5/\n\nI/O Domain\n Input Subdomain\n Name: glycan_masterlist.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.0.3/reviewed/glycan_masterlist.csv\n Name: gnome.tsv\n URI: /data/shared/glyds/downloads/glytoucan/gtc_12_20_2022/export/gnome.tsv\n Output Subdomain\n Name: glycan_xref_gnome.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.0.3/reviewed/glycan_xref_gnome.csv\n Name: glycan_xref_gnome.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.0.3/reviewed/glycan_xref_gnome.stat.csv\n\nFields\n Name: \"glytoucan_ac\"\n Description: \"Unique accession assigned to the registered glycan structure in GlyTouCan database\"\n Unique Values: \"45120\"\n Name: \"xref_id\"\n Description: \"ID of the X-ref\"\n Unique Values: \"45120\"\n Name: \"xref_key\"\n Description: \"Source key associated to the xref_id\"\n Unique Values: \"1\"", "downloadurl": "/ln2data/releases/data/v-2.0.3/reviewed/glycan_xref_gnome.csv" }