{ "bcoid": "GLY_000281", "title": "GlyGen-Glycan masterlist", "description": "The dataset provides information on the glycan properties such as mass, permethylated mass, topology, ...", "filename_list": "glycan_masterlist.csv", "filename": "glycan_masterlist.csv", "filetype": "csv", "categories": { "molecule": [ "Glycan" ], "tag": [ "Properties" ], "status": [ "Reviewed" ], "file_type": [ "csv" ], "scope": [ "internal" ], "species": [ "Sus scrofa", "Rattus", "Homo sapiens", "Mus musculus", "Saccharomyces cerevisiae", "Drosophila melanogaster", "Rattus norvegicus", "Severe acute respiratory syndrome coronavirus 2", "Sus scrofa domesticus", "Dictyostelium discoideum", "Hepatitis C virus (isolate H77)", "Severe acute respiratory syndrome-related coronavirus", "Hepacivirus C" ] }, "minitable": { "content": [ [ "G00002CF...", "Topology..." ], [ "G00008BG...", "BaseComposit..." ] ], "headers": [ "glytoucan_ac...", "glytoucan_ty..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "glytoucan_ac" }, { "type": "string", "label": "glytoucan_type" }, { "type": "string", "label": "glycan_mass" }, { "type": "string", "label": "glycan_permass" }, { "type": "string", "label": "base_composition" }, { "type": "string", "label": "composition" }, { "type": "string", "label": "topology" }, { "type": "string", "label": "monosaccharides" }, { "type": "string", "label": "is_motif" }, { "type": "string", "label": "missing_score" }, { "type": "string", "label": "reducing_end_mono" }, { "type": "string", "label": "reducing_end_cid" }, { "type": "string", "label": "xref_key" }, { "type": "string", "label": "xref_id" } ], [ "G00002CF", "Topology", "956.29687423", "1236.60987563", "G28882EF", "G35219UR", "G00002CF", "4", "False", "1969", "Glc", "5793", "", "" ], [ "G00008BG", "BaseComposition", "1136.38541457", "1444.72971611", "G00008BG", "", "", "7", "False", "10000", "", "", "", "" ] ] }, "readme": "Name\n - GlyGen-Glycan masterlist\n\nVersion\n - v-2.10.1\n\nCreated on\n - 2019-11-13T12:43:51.676216\n\nModified on\n - 2024-05-17T11:23:54.821Z\n\nCreated by\n - Jeet Vora [jeetvora@gwu.edu], Robel Kahsay [rykahsay@gwu.edu], 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 - Nathan Edwards [nje5@georgetown.edu]\n\nChecksum\n - \n\nUsability Domain\n - The dataset provides information on the glycan properties such as mass, permethylated mass, topology, base composition, composition and the number of monosaccharides for the associated glycan (GlyTouCan Accession). This dataset is the master-list of the GlyTouCan accessions currently present in GlyGen. Source database: https://glytoucan.org/\n\nDescription Domain\n Keywords\n - Glycan\n - GlyTouCan Accession\n - Properties\n\n Pipeline Steps\n - Step-1: The input file was downloaded from the author and a python script is used to process the dataset. \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: all_blacklisted_pmids.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.10.1/compiled/all_blacklisted_pmids.csv\n Name: monosaccharide_residue_name.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.10.1/misc/monosaccharide_residue_name.csv\n Name: allglycan.tsv\n URI: https:/data.glygen.org/ln2downloads/glytoucan/2025_10_09/export/allglycan.tsv\n Name: allmotifs.tsv\n URI: https:/data.glygen.org/ln2downloads/glytoucan/2025_10_09/export/allmotifs.tsv\n Name: glycan_properties.tsv\n URI: https:/data.glygen.org/ln2downloads/glytoucan/2025_10_09/export/glycan_properties.tsv\n Name: pubs.tsv\n URI: https:/data.glygen.org/ln2downloads/glytoucan/2025_10_09/export/pubs.tsv\n Name: redendmono.tsv\n URI: https:/data.glygen.org/ln2downloads/glytoucan/2025_10_09/export/redendmono.tsv\n Name: subsumption.tsv\n URI: https:/data.glygen.org/ln2downloads/glytoucan/2025_10_09/export/subsumption.tsv\n Output Subdomain\n Name: glycan_masterlist.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.10.1/reviewed/glycan_masterlist.csv\n Name: glycan_masterlist.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.10.1/reviewed/glycan_masterlist.stat.csv\n\nFields\n Name: \"glytoucan_ac\"\n Description: \"Unique accession assigned to the registered glycan structure in GlyTouCan database\"\n Unique Values: \"58841\"\n Name: \"glytoucan_type\"\n Description: \"Type of GlyTouCan accession (composition|saccharide|topology)\"\n Unique Values: \"5\"\n Name: \"glycan_mass\"\n Description: \"Derivatized mass of the glycan\"\n Unique Values: \"1842\"\n Name: \"glycan_permass\"\n Description: \"Permethylated mass of a glycan\"\n Unique Values: \"1873\"\n Name: \"base_composition\"\n Description: \"Base composition of the glycan\"\n Unique Values: \"2539\"\n Name: \"composition\"\n Description: \"Composition of glycan\"\n Unique Values: \"5475\"\n Name: \"topology\"\n Description: \"Topology of the glycan\"\n Unique Values: \"14411\"\n Name: \"monosaccharides\"\n Description: \"Number of monosaccharides in glycan\"\n Unique Values: \"61\"\n Name: \"is_motif\"\n Description: \"\"\n Unique Values: \"2\"\n Name: \"missing_score\"\n Description: \"\"\n Unique Values: \"2565\"\n Name: \"reducing_end_mono\"\n Description: \"\"\n Unique Values: \"24\"\n Name: \"reducing_end_cid\"\n Description: \"\"\n Unique Values: \"23\"\n Name: \"xref_key\"\n Description: \"Source key associated to the xref_id\"\n Unique Values: \"2\"\n Name: \"xref_id\"\n Description: \"ID of the X-ref\"\n Unique Values: \"1245\"", "downloadurl": "/ln2data/releases/data/v-2.10.1/reviewed/glycan_masterlist.csv" }