{ "bcoid": "GLY_000478", "title": "Glycan Subsumption", "description": "The dataset provides relationship between the glycans (identified by the GlyTouCan accession). The relation ...", "filename": "glycan_subsumption.csv", "filetype": "csv", "categories": { "molecule": [ "Glycan" ], "tags": [ "subsumption" ], "status": [ "Reviewed" ], "file_type": [ "csv" ], "scope": [ "internal" ], "species": [ "Rattus", "Homo sapiens", "Mus musculus", "Drosophila melanogaster", "Rattus norvegicus", "Severe acute respiratory syndrome coronavirus 2", "Severe acute respiratory syndrome-related coronavirus", "Hepatitis C virus (isolate H)", "Hepacivirus C" ] }, "minitable": { "content": [ [ "G00002CF...", "Ancestor..." ], [ "G00002CF...", "Ancestor..." ] ], "headers": [ "glytoucan_ac...", "relationship..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "glytoucan_ac" }, { "type": "string", "label": "relationship" }, { "type": "string", "label": "related_accession" }, { "type": "string", "label": "glytoucan_type" } ], [ "G00002CF", "Ancestor", "G08761XX", "Topology" ], [ "G00002CF", "Ancestor", "G14402CS", "Topology" ], [ "G00002CF", "Ancestor", "G28882EF", "BaseComposition" ], [ "G00002CF", "Ancestor", "G35219UR", "Composition" ], [ "G00002CF", "Ancestor", "G48736CB", "Topology" ], [ "G00002CF", "Ancestor", "G83963YB", "Composition" ], [ "G00002CF", "Ancestor", "G93218EI", "Composition" ], [ "G00002CF", "BaseComposition", "G28882EF", "BaseComposition" ], [ "G00002CF", "Composition", "G35219UR", "Composition" ], [ "G00002CF", "Descendant", "G84891DZ", "Saccharide" ], [ "G00002CF", "Descendant", "G86094NY", "Saccharide" ], [ "G00002CF", "FullyDetermined", "G84891DZ", "Saccharide" ], [ "G00002CF", "Leaf", "G84891DZ", "Saccharide" ], [ "G00002CF", "Level", "Topology", "" ], [ "G00002CF", "MissingScore", "1969", "" ], [ "G00002CF", "SubsumedBy", "G14402CS", "Topology" ], [ "G00002CF", "SubsumedBy", "G48736CB", "Topology" ], [ "G00002CF", "Subsumes", "G86094NY", "Saccharide" ], [ "G00002CF", "Topology", "G00002CF", "Topology" ], [ "G00009BX", "Ancestor", "G40076YB", "Composition" ], [ "G00009BX", "Ancestor", "G71784JC", "Composition" ], [ "G00009BX", "Ancestor", "G93579XB", "BaseComposition" ], [ "G00009BX", "Ancestor", "G97996TJ", "Topology" ], [ "G00009BX", "BaseComposition", "G93579XB", "BaseComposition" ], [ "G00009BX", "Composition", "G40076YB", "Composition" ], [ "G00009BX", "Descendant", "G29703NT", "Saccharide" ], [ "G00009BX", "Descendant", "G37063IE", "Saccharide" ], [ "G00009BX", "Descendant", "G81697WS", "Saccharide" ], [ "G00009BX", "FullyDetermined", "G29703NT", "Saccharide" ], [ "G00009BX", "Leaf", "G29703NT", "Saccharide" ], [ "G00009BX", "Level", "Saccharide", "" ], [ "G00009BX", "MissingScore", "393", "" ], [ "G00009BX", "SubsumedBy", "G97996TJ", "Topology" ], [ "G00009BX", "Subsumes", "G37063IE", "Saccharide" ], [ "G00009BX", "Topology", "G97996TJ", "Topology" ], [ "G00012MO", "Ancestor", "G08590QR", "BaseComposition" ], [ "G00012MO", "Ancestor", "G15216HY", "Topology" ], [ "G00012MO", "Ancestor", "G29964CE", "Saccharide" ], [ "G00012MO", "Ancestor", "G33233SN", "Topology" ], [ "G00012MO", "Ancestor", "G49958GL", "Composition" ], [ "G00012MO", "Ancestor", "G53509NM", "Composition" ], [ "G00012MO", "Ancestor", "G82558IX", "Topology" ], [ "G00012MO", "BaseComposition", "G08590QR", "BaseComposition" ], [ "G00012MO", "Composition", "G53509NM", "Composition" ], [ "G00012MO", "Descendant", "G19926LY", "Saccharide" ], [ "G00012MO", "Descendant", "G54920VX", "Saccharide" ], [ "G00012MO", "Descendant", "G57710SU", "Saccharide" ], [ "G00012MO", "FullyDetermined", "G57710SU", "Saccharide" ], [ "G00012MO", "Leaf", "G57710SU", "Saccharide" ], [ "G00012MO", "Level", "Saccharide", "" ], [ "G00012MO", "MissingScore", "492", "" ], [ "G00012MO", "SubsumedBy", "G15216HY", "Topology" ], [ "G00012MO", "SubsumedBy", "G29964CE", "Saccharide" ], [ "G00012MO", "Subsumes", "G54920VX", "Saccharide" ], [ "G00012MO", "Topology", "G15216HY", "Topology" ], [ "G00012RZ", "Ancestor", "G01087FD", "Topology" ], [ "G00012RZ", "Ancestor", "G04784US", "Composition" ], [ "G00012RZ", "Ancestor", "G15037AY", "Saccharide" ], [ "G00012RZ", "Ancestor", "G20312EM", "Composition" ], [ "G00012RZ", "Ancestor", "G28989NC", "BaseComposition" ], [ "G00012RZ", "Ancestor", "G74930DK", "Composition" ], [ "G00012RZ", "Ancestor", "G80075MS", "Composition" ], [ "G00012RZ", "BaseComposition", "G28989NC", "BaseComposition" ], [ "G00012RZ", "Composition", "G74930DK", "Composition" ], [ "G00012RZ", "Level", "Saccharide", "" ], [ "G00012RZ", "MissingScore", "432", "" ], [ "G00012RZ", "SubsumedBy", "G15037AY", "Saccharide" ], [ "G00012RZ", "Topology", "G01087FD", "Topology" ], [ "G00013MO", "Ancestor", "G17425SJ", "Composition" ], [ "G00013MO", "Ancestor", "G24521PI", "Topology" ], [ "G00013MO", "Ancestor", "G60228TP", "Saccharide" ], [ "G00013MO", "Ancestor", "G63412DQ", "Saccharide" ], [ "G00013MO", "Ancestor", "G65968NT", "Composition" ], [ "G00013MO", "Ancestor", "G90306QO", "BaseComposition" ], [ "G00013MO", "BaseComposition", "G90306QO", "BaseComposition" ], [ "G00013MO", "Composition", "G65968NT", "Composition" ], [ "G00013MO", "Descendant", "G99042JP", "Saccharide" ], [ "G00013MO", "FullyDetermined", "G99042JP", "Saccharide" ], [ "G00013MO", "Leaf", "G99042JP", "Saccharide" ], [ "G00013MO", "Level", "Saccharide", "" ], [ "G00013MO", "MissingScore", "492", "" ], [ "G00013MO", "SubsumedBy", "G60228TP", "Saccharide" ], [ "G00013MO", "Subsumes", "G99042JP", "Saccharide" ], [ "G00013MO", "Topology", "G24521PI", "Topology" ] ] }, "readme": "Name\n - Glycan Subsumption\n\nVersion\n - v-2.1.1\n\nCreated on\n - 2020-04-20T15:34:55.646138\n\nModified on\n - 2022-09-26T09:05:56.435169\n\nCreated by\n - Jeet Vora [jeetvora@gwu.edu], Robel Kahsay [rykahsay@gwu.edu], Karina Martinez [karinamartinez@gwu.edu], Jingyue Wu [jingyue.wu@email.gwu.edu]\n\nAuthors\n - Nathan Edwards [nje5@georgetown.edu]\n\nChecksum\n - \n\nUsability Domain\n - The dataset provides relationship between the glycans (identified by the GlyTouCan accession). The relation is categorized as either Ancestor, Descendant, SubsumedBy or Subsumes. The listed GlyTouCan Accessions are derived from the GlyTouCan accession master list (https://data.glygen.org/GLYDS000281).\n\nDescription Domain\n Keywords\n - Glycan\n - GlyTouCan Accession\n - Subsumption\n - ID/Accession Mapping\n\n Pipeline Steps\n - Step-1: The input file was downloaded from the provider 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/\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-2.1.1/reviewed/glycan_masterlist.csv\n Name: subsumption.tsv\n URI: /data/shared/glyds/downloads/glytoucan/gtc_05_16_2023/export/subsumption.tsv\n Output Subdomain\n Name: glycan_subsumption.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.1.1/reviewed/glycan_subsumption.csv\n Name: glycan_subsumption.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.1.1/reviewed/glycan_subsumption.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: \"relationship\"\n Description: \" Relationship of the glycan\"\n Unique Values: \"11\"\n Name: \"related_accession\"\n Description: \"\" GlyTouCan accession associated based on the \"\"relationship\"\" of th glycan\"\"\n Unique Values: \"47142\"\n Name: \"glytoucan_type\"\n Description: \"Type of GlyTouCan accession (composition|saccharide|topology)\"\n Unique Values: \"5\"", "downloadurl": "/ln2data/releases/data/v-2.1.1/reviewed/glycan_subsumption.csv" }