{ "bcoid": "GLY_000557", "title": "Glycan structure dictionary", "description": "Glycan dictionary is a list of terms which describe some structural aspect of the glycan composition ...", "filename": "glycan_dictionary.csv", "filetype": "csv", "categories": { "molecule": [ "Glycan" ], "tag": [ "glycan dictionary" ], "file_type": [ "csv" ], "status": [ "Reviewed" ], "scope": [ "internal" ], "species": [ "Homo sapiens", "Rattus", "Sus scrofa", "Rattus norvegicus", "Mus musculus", "Sus scrofa domesticus", "Drosophila melanogaster", "Severe acute respiratory syndrome coronavirus 2", "Saccharomyces cerevisiae" ] }, "minitable": { "content": [ [ "G06953DR...", "2,6-Branched..." ], [ "G41145LF...", "2,6-sialyl-S..." ] ], "headers": [ "glytoucan_ac...", "term..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "glytoucan_ac" }, { "type": "string", "label": "term" }, { "type": "string", "label": "term_in_sentence" }, { "type": "string", "label": "publication" }, { "type": "string", "label": "definition" }, { "type": "string", "label": "term_xref" }, { "type": "string", "label": "synonymns" }, { "type": "string", "label": "function" }, { "type": "string", "label": "disease_associations" }, { "type": "string", "label": "wikipedia" }, { "type": "string", "label": "essentials_of_glycobiology" }, { "type": "string", "label": "xref_key" }, { "type": "string", "label": "xref_id" } ], [ "G06953DR", "2,6-Branched O-mannose", "Collectively, these results strongly suggest that GnT-IX may be a novel beta1,6-N-acetylglucosaminyltransferase that is responsible for the formation of the 2,6-branched structure in the brain O-mannosyl glycan.[PMID:14617637]", "14617637|10469154", "(2S,4S,5R,6R)-5-Acetamido-2-[(2S,3R,4S,5S,6R)-2-[(2R,3S,4R,5R,6R)-5-acetamido-6-[[(2R,3S,4S,5S,6S)-5-[(2S,3R,4R,5S,6R)-3-acetamido-5-[(2S,3R,4S,5S,6R)-4-[(2S,4S,5R,6R)-5-acetamido-2-carboxy-4-hydroxy-6-[(1R,2R)-1,2,3-trihydroxypropyl]oxan-2-yl]oxy-3,5-dihydroxy-6-(hydroxymethyl)oxan-2-yl]oxy-4-hydroxy-6-(hydroxymethyl)oxan-2-yl]oxy-3,4,6-trihydroxyoxan-2-yl]methoxy]-4-hydroxy-2-(hydroxymethyl)oxan-3-yl]oxy-3,5-dihydroxy-6-(hydroxymethyl)oxan-4-yl]oxy-4-hydroxy-6-[(1R,2R)-1,2,3-trihydroxypropyl]oxane-2-carboxylic acid.[CHEBI:157265]", "CHEBI:157265|GlycoMotif:GGM.000056|GTC:G06953DR", "5-acetamido-3,5-dideoxy-D-glycero-alpha-D-galacto-non-2-ulopyranosylonic acid-(2\u21923)-beta-D-galacto-hexopyranosyl-(1\u21924)-2-acetamido-2-deoxy-beta-D-gluco-hexopyranosyl-(1\u21922)-[5-acetamido-3,5-dideoxy-D-glycero-alpha-D-galacto-non-2-ulopyranosylonic acid-(2\u21923)-beta-D-galacto-hexopyranosyl-(1\u21924)-2-acetamido-2-deoxy-beta-D-gluco-hexopyranosyl-(1\u21926)]-alpha-D-manno-hexopyranose|NeuAc(a2-3)Gal(b1-4)GlcNAc(b1-2)[NeuAc(a2-3)Gal(b1-4)GlcNAc(b1-6)]a-Man", "", "", "", "", "glycan_xref_dictionary", "GSD000001" ], [ "G41145LF", "2,6-sialyl-Sulfo-LN", "The alpha2-6-sialylated 6-sulfo-LacNAc determinant defined by the antibody was significantly expressed on a majority of normal human peripheral B-lymphocytes as well as follicular B-lymphocytes in peripheral lymph nodes.[PMID:17728258]", "17728258", "", "GlycoMotif:GGM.000026|GTC:G41145LF", "6-sialyl-6-sulfo LN", "B-cell interaction with blood vessels and trafficking[PMID: 17728258]", "", "", "", "glycan_xref_dictionary", "GSD000002" ] ] }, "readme": "Name\n - Glycan structure dictionary\n\nVersion\n - v-2.5.1\n\nCreated on\n - 2021-03-31T13:03:41.839695\n\nModified on\n - 2024-06-03T22:00:07.194Z\n\nCreated by\n - Karina Martinez [karinamartinez@gwu.edu], Luke Johnson [luke.johnson@email.gwu.edu], Urnisha Bhuiyan [sbhuiyan28@email.gwu.edu], Cyrus Au-Yeung [cyruschauyeung@gwu.edu], Kate Warner [k.warner1@gwu.edu]\n\nAuthors\n - \n\nChecksum\n - \n\nUsability Domain\n - Glycan dictionary is a list of terms which describe some structural aspect of the glycan composition or structure. The terms are extracted with a combination of manual and automatic literature mining tools from various sources. It is an on-going process and the current list includes 180 terms..The terms can also be viewed on the GlyGen wikipedia:https://wiki.glygen.org/index.php/Glycan_structure_dictionary. To submit more terms please follow instructions provided on the GlyGen wikipedia page. \n\nDescription Domain\n Keywords\n - Glycan dictionary\n - structure\n - glycan\n\n Pipeline Steps\n\nExecution Domain\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-2.5.1/reviewed/glycan_masterlist.csv\n Name: glycan_dictionary.csv\n URI: https:/data.glygen.org/ln2downloads/glycan_dictionary/03_03_2023/glycan_dictionary.csv\n Output Subdomain\n Name: glycan_dictionary.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.5.1/reviewed/glycan_dictionary.csv\n Name: glycan_dictionary.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.5.1/reviewed/glycan_dictionary.stat.csv\n\nFields\n Name: \"glytoucan_ac\"\n Description: \"Unique accession assigned to the registered glycan structure in GlyTouCan database\"\n Unique Values: \"128\"\n Name: \"term\"\n Description: \"\"\n Unique Values: \"138\"\n Name: \"term_in_sentence\"\n Description: \"\"\n Unique Values: \"136\"\n Name: \"publication\"\n Description: \"\"\n Unique Values: \"137\"\n Name: \"definition\"\n Description: \"\"\n Unique Values: \"100\"\n Name: \"term_xref\"\n Description: \"\"\n Unique Values: \"136\"\n Name: \"synonymns\"\n Description: \"\"\n Unique Values: \"83\"\n Name: \"function\"\n Description: \"\"\n Unique Values: \"40\"\n Name: \"disease_associations\"\n Description: \"\"\n Unique Values: \"61\"\n Name: \"wikipedia\"\n Description: \"\"\n Unique Values: \"7\"\n Name: \"essentials_of_glycobiology\"\n Description: \"\"\n Unique Values: \"20\"\n Name: \"xref_key\"\n Description: \"Source key associated to the xref_id\"\n Unique Values: \"1\"\n Name: \"xref_id\"\n Description: \"ID of the X-ref\"\n Unique Values: \"138\"", "downloadurl": "/ln2data/releases/data/v-2.5.1/reviewed/glycan_dictionary.csv" }