{ "bcoid": "GLY_000621", "title": "Glycan monosaccharide advanced compositions", "description": "The dataset provides the monosaccharide compositions for the associated glycans (GlyTouCan Accession). ...", "filename_list": "glycan_monosaccharide_composition_advanced.csv", "filename": "glycan_monosaccharide_composition_advanced.csv", "filetype": "csv", "categories": { "molecule": [ "Glycan" ], "tag": [ "Monosaccharide composition" ], "status": [ "Reviewed" ], "file_type": [ "csv" ], "scope": [ "internal" ], "species": [ "Mus musculus", "Homo sapiens", "Sus scrofa", "Saccharomyces cerevisiae", "Rattus norvegicus", "Severe acute respiratory syndrome coronavirus 2", "Rattus", "Drosophila melanogaster", "Hepacivirus C", "Severe acute respiratory syndrome-related coronavirus", "Hepatitis C virus (isolate H77)", "Sus scrofa domesticus", "Dictyostelium discoideum" ] }, "minitable": { "content": [ [ "G76100HQ...", "0..." ], [ "G05834TJ...", "1..." ] ], "headers": [ "glytoucan_ac...", "Fuc..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "glytoucan_ac" }, { "type": "string", "label": "Fuc" }, { "type": "string", "label": "Fuc+aldi" }, { "type": "string", "label": "Gal" }, { "type": "string", "label": "Gal+aldi" }, { "type": "string", "label": "GalA" }, { "type": "string", "label": "GalNAc" }, { "type": "string", "label": "GalNAc+aldi" }, { "type": "string", "label": "Glc" }, { "type": "string", "label": "Glc+aldi" }, { "type": "string", "label": "GlcA" }, { "type": "string", "label": "GlcN" }, { "type": "string", "label": "GlcNAc" }, { "type": "string", "label": "GlcNAc+aldi" }, { "type": "string", "label": "Hex" }, { "type": "string", "label": "Hex+aldi" }, { "type": "string", "label": "HexA" }, { "type": "string", "label": "HexN" }, { "type": "string", "label": "HexNAc" }, { "type": "string", "label": "HexNAc+aldi" }, { "type": "string", "label": "IdoA" }, { "type": "string", "label": "Kdn" }, { "type": "string", "label": "Man" }, { "type": "string", "label": "Man+aldi" }, { "type": "string", "label": "ManNAc" }, { "type": "string", "label": "Me" }, { "type": "string", "label": "NeuAc" }, { "type": "string", "label": "NeuGc" }, { "type": "string", "label": "P" }, { "type": "string", "label": "Pent" }, { "type": "string", "label": "S" }, { "type": "string", "label": "Sia" }, { "type": "string", "label": "X" }, { "type": "string", "label": "Xxx" }, { "type": "string", "label": "Xyl" }, { "type": "string", "label": "aldi" }, { "type": "string", "label": "dHex" }, { "type": "string", "label": "dHex+aldi" }, { "type": "string", "label": "Count" } ], [ "G76100HQ", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "1", "0", "0", "0", "1", "0", "0", "0", "0", "0", "0", "0", "1", "1", "0", "0", "0", "2", "0", "0", "0", "0", "0", "0", "4" ], [ "G05834TJ", "1", "0", "1", "0", "0", "0", "0", "0", "0", "0", "0", "3", "0", "4", "0", "0", "0", "3", "0", "0", "0", "3", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "1", "0", "8" ] ] }, "readme": "Name\n - Glycan monosaccharide advanced compositions\n\nVersion\n - v-2.8.1\n\nCreated on\n - 2022-03-10T15:38:14.531948\n\nModified on\n - 2024-05-17T11:24:06.875Z\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 - Nathan Edwards []\n\nChecksum\n - \n\nUsability Domain\n - The dataset provides the monosaccharide compositions for the associated glycans (GlyTouCan Accession). It provides the count for sugar residues such as Hexose (Hex), N-Acetylhexosamine (HexNAc), Deoxyhexose (dHex), N-Acetylneuraminic Acid ( NeuAc), N-Glycolylneuraminic Acid (NeuGc), Other (Xxx). 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 - Monosaccharide composition\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 accession 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-2.8.1/reviewed/glycan_masterlist.csv\n Name: monocounts.tsv\n URI: https:/data.glygen.org/ln2downloads/glytoucan/2025_02_10/export/monocounts.tsv\n Output Subdomain\n Name: glycan_monosaccharide_composition_advanced.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.8.1/reviewed/glycan_monosaccharide_composition_advanced.csv\n Name: glycan_monosaccharide_composition_advanced.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.8.1/reviewed/glycan_monosaccharide_composition_advanced.stat.csv\n\nFields\n Name: \"glytoucan_ac\"\n Description: \"Unique accession assigned to the registered glycan structure in GlyTouCan database\"\n Unique Values: \"56980\"\n Name: \"Fuc\"\n Description: \"\"\n Unique Values: \"9\"\n Name: \"Fuc+aldi\"\n Description: \"\"\n Unique Values: \"2\"\n Name: \"Gal\"\n Description: \"\"\n Unique Values: \"14\"\n Name: \"Gal+aldi\"\n Description: \"\"\n Unique Values: \"2\"\n Name: \"GalA\"\n Description: \"\"\n Unique Values: \"3\"\n Name: \"GalNAc\"\n Description: \"\"\n Unique Values: \"7\"\n Name: \"GalNAc+aldi\"\n Description: \"\"\n Unique Values: \"2\"\n Name: \"Glc\"\n Description: \"\"\n Unique Values: \"10\"\n Name: \"Glc+aldi\"\n Description: \"\"\n Unique Values: \"2\"\n Name: \"GlcA\"\n Description: \"\"\n Unique Values: \"7\"\n Name: \"GlcN\"\n Description: \"\"\n Unique Values: \"5\"\n Name: \"GlcNAc\"\n Description: \"\"\n Unique Values: \"16\"\n Name: \"GlcNAc+aldi\"\n Description: \"\"\n Unique Values: \"2\"\n Name: \"Hex\"\n Description: \"Abbreviation for Hexose monosaccharide residue\"\n Unique Values: \"20\"\n Name: \"Hex+aldi\"\n Description: \"\"\n Unique Values: \"2\"\n Name: \"HexA\"\n Description: \"Abbreviation for Hexuronic Acid monosaccharide residue\"\n Unique Values: \"7\"\n Name: \"HexN\"\n Description: \"Abbreviation for 2-Amino-2-Deoxy-Hexose monosaccharide residue\"\n Unique Values: \"5\"\n Name: \"HexNAc\"\n Description: \"Abbreviation for N-Acetylhexosamine monosaccharide residue\"\n Unique Values: \"16\"\n Name: \"HexNAc+aldi\"\n Description: \"\"\n Unique Values: \"2\"\n Name: \"IdoA\"\n Description: \"\"\n Unique Values: \"4\"\n Name: \"Kdn\"\n Description: \"\"\n Unique Values: \"3\"\n Name: \"Man\"\n Description: \"\"\n Unique Values: \"18\"\n Name: \"Man+aldi\"\n Description: \"\"\n Unique Values: \"2\"\n Name: \"ManNAc\"\n Description: \"\"\n Unique Values: \"2\"\n Name: \"Me\"\n Description: \"\"\n Unique Values: \"2\"\n Name: \"NeuAc\"\n Description: \"Abbreviation for N-Acetylneuraminic Acid monosaccharide residue\"\n Unique Values: \"8\"\n Name: \"NeuGc\"\n Description: \"Abbreviation for N-Glycolylneuraminic Acid monosaccharide residue\"\n Unique Values: \"6\"\n Name: \"P\"\n Description: \"Abbreviation for Phosphate\"\n Unique Values: \"4\"\n Name: \"Pent\"\n Description: \"\"\n Unique Values: \"4\"\n Name: \"S\"\n Description: \"Abbreviation for Sulphate\"\n Unique Values: \"15\"\n Name: \"Sia\"\n Description: \"\"\n Unique Values: \"8\"\n Name: \"X\"\n Description: \"\"\n Unique Values: \"4\"\n Name: \"Xxx\"\n Description: \"Denotes other monosaccharide residues \"\n Unique Values: \"6\"\n Name: \"Xyl\"\n Description: \"\"\n Unique Values: \"4\"\n Name: \"aldi\"\n Description: \"Abbreviation for alditol\"\n Unique Values: \"2\"\n Name: \"dHex\"\n Description: \"Abbreviation for Deoxyhexose monosaccharide residue\"\n Unique Values: \"9\"\n Name: \"dHex+aldi\"\n Description: \"\"\n Unique Values: \"2\"\n Name: \"Count\"\n Description: \"Number of monosaccharide residues in a glycan\"\n Unique Values: \"34\"", "downloadurl": "/ln2data/releases/data/v-2.8.1/reviewed/glycan_monosaccharide_composition_advanced.csv" }