{ "bcoid": "GLY_000282", "title": "Glycan Classification", "description": "The dataset provides information on the glycan classification such as glycan type and sub-type for the ...", "filename": "glycan_classification.csv", "filetype": "csv", "categories": { "molecule": [ "Glycan" ], "tag": [ "Classification" ], "status": [ "Reviewed" ], "file_type": [ "csv" ], "scope": [ "internal" ], "species": [ "Mus musculus", "Homo sapiens", "Sus scrofa", "Drosophila melanogaster", "Rattus norvegicus", "Severe acute respiratory syndrome coronavirus 2", "Rattus", "Saccharomyces cerevisiae", "Hepacivirus C", "Severe acute respiratory syndrome-related coronavirus", "Hepatitis C virus (isolate H)", "Dictyostelium discoideum", "Sus scrofa domesticus" ] }, "minitable": { "content": [ [ "G76100HQ...", "O-linked..." ], [ "G05834TJ...", "N-linked..." ] ], "headers": [ "glytoucan_ac...", "glycan_type..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "glytoucan_ac" }, { "type": "string", "label": "glycan_type" }, { "type": "string", "label": "glycan_type_source" }, { "type": "string", "label": "glycan_type_source_id" }, { "type": "string", "label": "glycan_subtype" }, { "type": "string", "label": "glycan_subtype_source" }, { "type": "string", "label": "glycan_subtype_source_id" } ], [ "G76100HQ", "O-linked", "Subsumption", "G07078LK", "Core 1", "Subsumption", "G07078LK" ], [ "G05834TJ", "N-linked", "GlycoMotif", "GGM.001024", "Core-fucosylated", "GlycoMotif", "GGM.001024" ], [ "G22196LK", "N-linked", "GlycoMotif", "GGM.001004", "Biantennary", "GlycoMotif", "GGM.001037" ], [ "G22196LK", "N-linked", "GlycoMotif", "GGM.001004", "Complex", "GlycoMotif", "GGM.001004" ], [ "G27946NT", "N-linked", "GlycoMotif", "GGM.001001", "", "", "" ], [ "G10609HO", "N-linked", "GlycoMotif", "GGM.001002", "High mannose", "GlycoMotif", "GGM.001002" ], [ "G67583XR", "O-linked", "Subsumption", "G10031LH", "Core 2", "Subsumption", "G10031LH" ], [ "G91636VS", "N-linked", "Subsumption", "G00025YC", "Core-fucosylated", "Subsumption", "G00025YC" ], [ "G91636VS", "N-linked", "Subsumption", "G00025YC", "Bisected", "Subsumption", "G00826SV" ], [ "G91636VS", "N-linked", "Subsumption", "G00025YC", "Truncated", "Subsumption", "G66554NB" ], [ "G91636VS", "N-linked", "Subsumption", "G00025YC", "Triantennary", "Subsumption", "G00025YC" ], [ "G91636VS", "N-linked", "Subsumption", "G00025YC", "Biantennary", "Subsumption", "G00545NQ" ], [ "G91636VS", "N-linked", "Subsumption", "G00025YC", "Complex", "Subsumption", "G00025YC" ], [ "G91636VS", "N-linked", "Subsumption", "G00025YC", "Hybrid", "Subsumption", "G01755WL" ], [ "G91636VS", "N-linked", "Subsumption", "G00025YC", "Arm-fucosylated", "Subsumption", "G06535JA" ], [ "G79026TT", "N-linked", "GlycoMotif", "GGM.001004", "Core-fucosylated", "GlycoMotif", "GGM.001024" ], [ "G79026TT", "N-linked", "GlycoMotif", "GGM.001004", "Complex", "GlycoMotif", "GGM.001004" ], [ "G79026TT", "N-linked", "GlycoMotif", "GGM.001004", "Triantennary", "GlycoMotif", "GGM.001038" ], [ "G48400DU", "Glycosphingolipid", "GlycoMotif", "GGM.001106", "Lacto series", "GlycoMotif", "GGM.001106" ], [ "G55459MJ", "O-linked", "GlycoMotif", "GGM.001006", "Core 1", "GlycoMotif", "GGM.001006" ], [ "G33734YD", "N-linked", "GlycoMotif", "GGM.001024", "Core-fucosylated", "GlycoMotif", "GGM.001024" ], [ "G30001EY", "Glycosphingolipid", "Subsumption", "G23596JQ", "Ganglio series", "Subsumption", "G23596JQ" ], [ "G48472LJ", "O-linked", "GlycoMotif", "GGM.001007", "Core 2", "GlycoMotif", "GGM.001007" ], [ "G64828QT", "N-linked", "GlycoMotif", "GGM.001004", "Core-fucosylated", "GlycoMotif", "GGM.001024" ], [ "G64828QT", "N-linked", "GlycoMotif", "GGM.001004", "Arm-fucosylated", "GlycoMotif", "GGM.001025" ], [ "G64828QT", "N-linked", "GlycoMotif", "GGM.001004", "Complex", "GlycoMotif", "GGM.001004" ], [ "G64828QT", "N-linked", "GlycoMotif", "GGM.001004", "Tetraantennary", "GlycoMotif", "GGM.001039" ], [ "G96934US", "O-linked", "Subsumption", "G08465VN", "Core 1", "Subsumption", "G08465VN" ], [ "G31922FD", "N-linked", "GlycoMotif", "GGM.001002", "High mannose", "GlycoMotif", "GGM.001002" ], [ "G09173AD", "N-linked", "GlycoMotif", "GGM.001004", "Tetraantennary", "GlycoMotif", "GGM.001039" ], [ "G09173AD", "N-linked", "GlycoMotif", "GGM.001004", "Complex", "GlycoMotif", "GGM.001004" ], [ "G03459AF", "N-linked", "GlycoMotif", "GGM.001002", "High mannose", "GlycoMotif", "GGM.001002" ], [ "G63527PL", "O-linked", "GlycoMotif", "GGM.001005", "Core 1", "GlycoMotif", "GGM.001005" ], [ "G59345UT", "N-linked", "GlycoMotif", "GGM.001004", "Core-fucosylated", "GlycoMotif", "GGM.001024" ], [ "G59345UT", "N-linked", "GlycoMotif", "GGM.001004", "Complex", "GlycoMotif", "GGM.001004" ], [ "G59345UT", "N-linked", "GlycoMotif", "GGM.001004", "Triantennary", "GlycoMotif", "GGM.001038" ], [ "G56339QG", "N-linked", "GlycoMotif", "GGM.001004", "Complex", "GlycoMotif", "GGM.001004" ], [ "G56339QG", "N-linked", "GlycoMotif", "GGM.001004", "Triantennary", "GlycoMotif", "GGM.001038" ], [ "G80364WF", "N-linked", "GlycoMotif", "GGM.001004", "Biantennary", "GlycoMotif", "GGM.001037" ], [ "G80364WF", "N-linked", "GlycoMotif", "GGM.001004", "Complex", "GlycoMotif", "GGM.001004" ], [ "G39256XF", "N-linked", "GlycoMotif", "GGM.001004", "Complex", "GlycoMotif", "GGM.001004" ], [ "G39256XF", "N-linked", "GlycoMotif", "GGM.001004", "Triantennary", "GlycoMotif", "GGM.001038" ], [ "G27761LM", "Glycosphingolipid", "GlycoMotif", "GGM.001107", "Neo-lacto series", "GlycoMotif", "GGM.001107" ], [ "G24634JN", "N-linked", "Subsumption", "G03089XS", "Core-fucosylated", "Subsumption", "G03089XS" ], [ "G24634JN", "N-linked", "Subsumption", "G03089XS", "Bisected", "Subsumption", "G03984TW" ], [ "G24634JN", "N-linked", "Subsumption", "G03089XS", "Triantennary", "Subsumption", "G19455CM" ], [ "G24634JN", "N-linked", "Subsumption", "G03089XS", "Biantennary", "Subsumption", "G03089XS" ], [ "G24634JN", "N-linked", "Subsumption", "G03089XS", "Complex", "Subsumption", "G03089XS" ], [ "G24634JN", "N-linked", "Subsumption", "G03089XS", "Arm-fucosylated", "Subsumption", "G03089XS" ], [ "G17218WW", "O-linked", "GlycoMotif", "GGM.001008", "Core 2", "GlycoMotif", "GGM.001008" ], [ "G92855TK", "N-linked", "GlycoMotif", "GGM.001004", "Complex", "GlycoMotif", "GGM.001004" ], [ "G92855TK", "N-linked", "GlycoMotif", "GGM.001004", "Triantennary", "GlycoMotif", "GGM.001038" ], [ "G59456VR", "N-linked", "GlycoMotif", "GGM.001004", "Core-fucosylated", "GlycoMotif", "GGM.001024" ], [ "G59456VR", "N-linked", "GlycoMotif", "GGM.001004", "Complex", "GlycoMotif", "GGM.001004" ], [ "G59456VR", "N-linked", "GlycoMotif", "GGM.001004", "Triantennary", "GlycoMotif", "GGM.001038" ], [ "G30404JO", "N-linked", "Subsumption", "G04037ET", "Tetraantennary", "Subsumption", "G04037ET" ], [ "G30404JO", "N-linked", "Subsumption", "G04037ET", "Core-fucosylated", "Subsumption", "G04037ET" ], [ "G30404JO", "N-linked", "Subsumption", "G04037ET", "Bisected", "Subsumption", "G04037ET" ], [ "G30404JO", "N-linked", "Subsumption", "G04037ET", "Triantennary", "Subsumption", "G12902VJ" ], [ "G30404JO", "N-linked", "Subsumption", "G04037ET", "Complex", "Subsumption", "G04037ET" ], [ "G30404JO", "N-linked", "Subsumption", "G04037ET", "Arm-fucosylated", "Subsumption", "G04037ET" ], [ "G43638GS", "N-linked", "GlycoMotif", "GGM.001024", "Arm-fucosylated", "GlycoMotif", "GGM.001025" ], [ "G43638GS", "N-linked", "GlycoMotif", "GGM.001024", "Core-fucosylated", "GlycoMotif", "GGM.001024" ], [ "G12417OE", "N-linked", "GlycoMotif", "GGM.001004", "Biantennary", "GlycoMotif", "GGM.001037" ], [ "G12417OE", "N-linked", "GlycoMotif", "GGM.001004", "Complex", "GlycoMotif", "GGM.001004" ], [ "G39632CM", "Glycosphingolipid", "Subsumption", "G04676YO", "Neo-lacto series", "Subsumption", "G12611ZS" ], [ "G39632CM", "Glycosphingolipid", "Subsumption", "G04676YO", "Lacto series", "Subsumption", "G04676YO" ], [ "G91451KI", "N-linked", "GlycoMotif", "GGM.001004", "Biantennary", "GlycoMotif", "GGM.001037" ], [ "G91451KI", "N-linked", "GlycoMotif", "GGM.001004", "Complex", "GlycoMotif", "GGM.001004" ], [ "G36847DS", "N-linked", "GlycoMotif", "GGM.001004", "Arm-fucosylated", "GlycoMotif", "GGM.001025" ], [ "G36847DS", "N-linked", "GlycoMotif", "GGM.001004", "Complex", "GlycoMotif", "GGM.001004" ], [ "G36847DS", "N-linked", "GlycoMotif", "GGM.001004", "Triantennary", "GlycoMotif", "GGM.001038" ], [ "G44094CZ", "O-linked", "GlycoMotif", "GGM.001007", "Core 2", "GlycoMotif", "GGM.001007" ], [ "G55786MG", "N-linked", "GlycoMotif", "GGM.001002", "High mannose", "GlycoMotif", "GGM.001002" ], [ "G24823MG", "N-linked", "GlycoMotif", "GGM.001004", "Bisected", "GlycoMotif", "GGM.001023" ], [ "G24823MG", "N-linked", "GlycoMotif", "GGM.001004", "Biantennary", "Subsumption", "G94838KN" ], [ "G24823MG", "N-linked", "GlycoMotif", "GGM.001004", "Complex", "GlycoMotif", "GGM.001004" ], [ "G24823MG", "N-linked", "GlycoMotif", "GGM.001004", "Triantennary", "GlycoMotif", "GGM.001038" ], [ "G18574CV", "O-linked", "GlycoMotif", "GGM.001005", "Core 1", "GlycoMotif", "GGM.001005" ], [ "G08597BP", "N-linked", "GlycoMotif", "GGM.001004", "Bisected", "GlycoMotif", "GGM.001023" ], [ "G08597BP", "N-linked", "GlycoMotif", "GGM.001004", "Core-fucosylated", "GlycoMotif", "GGM.001024" ], [ "G08597BP", "N-linked", "GlycoMotif", "GGM.001004", "Arm-fucosylated", "GlycoMotif", "GGM.001025" ], [ "G08597BP", "N-linked", "GlycoMotif", "GGM.001004", "Complex", "GlycoMotif", "GGM.001004" ], [ "G08597BP", "N-linked", "GlycoMotif", "GGM.001004", "Triantennary", "GlycoMotif", "GGM.001038" ] ] }, "readme": "Name\n - Glycan Classification\n\nVersion\n - v-2.3.1\n\nCreated on\n - 2019-11-13T12:59:46.920689\n\nModified on\n - 2022-09-26T09:04:47.976046\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 information on the glycan classification such as glycan type and sub-type for the associated glycan (GlyTouCan Accession). The listed GlyTouCan Accessions are derived from the GlyTouCan accession master list (https://data.glygen.org/GLYDS000281). Source database: https://glytoucan.org/\n\nDescription Domain\n Keywords\n - Glycan\n - GlyTouCan Accession\n - Classification\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. \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-2.3.1/reviewed/glycan_masterlist.csv\n Name: classification.tsv\n URI: https:/data.glygen.org/ln2downloads/glytoucan/gtc_12_09_2023/export/classification.tsv\n Output Subdomain\n Name: glycan_classification.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.3.1/reviewed/glycan_classification.csv\n Name: glycan_classification.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.3.1/reviewed/glycan_classification.stat.csv\n\nFields\n Name: \"glytoucan_ac\"\n Description: \"Unique accession assigned to the registered glycan structure in GlyTouCan database\"\n Unique Values: \"32983\"\n Name: \"glycan_type\"\n Description: \"\"Type of Glycan (N-Glycan\"\n Unique Values: \"5\"\n Name: \"glycan_type_source\"\n Description: \"\"\n Unique Values: \"2\"\n Name: \"glycan_type_source_id\"\n Description: \"\"\n Unique Values: \"2468\"\n Name: \"glycan_subtype\"\n Description: \"Subtype of the glycan e.g high mannose or complex or core 1 etc\"\n Unique Values: \"33\"\n Name: \"glycan_subtype_source\"\n Description: \"\"\n Unique Values: \"3\"\n Name: \"glycan_subtype_source_id\"\n Description: \"\"\n Unique Values: \"3590\"", "downloadurl": "/ln2data/releases/data/v-2.3.1/reviewed/glycan_classification.csv" }