{ "bcoid": "GLY_000281", "title": "GlyGen-Glycan masterlist", "description": "The dataset provides information on the glycan properties such as mass, permethylated mass, topology, ...", "filename": "glycan_masterlist.csv", "filetype": "csv", "categories": { "molecule": [ "Glycan" ], "tags": [ "Properties" ], "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...", "Topology..." ], [ "G00009BX...", "Saccharide..." ] ], "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": "xref_key" }, { "type": "string", "label": "xref_id" } ], [ "G00002CF", "Topology", "956.29687423", "1236.60987563", "G28882EF", "G35219UR", "G00002CF", "4", "False", "1969", "", "" ], [ "G00009BX", "Saccharide", "894.33286578", "1118.5832669", "G93579XB", "G40076YB", "G97996TJ", "5", "False", "393", "", "" ], [ "G00012MO", "Saccharide", "707.248407805", "903.467508785", "G08590QR", "G53509NM", "G15216HY", "4", "False", "492", "", "" ], [ "G00012RZ", "Saccharide", "2734.99351197", "3379.71341519", "G28989NC", "G74930DK", "G01087FD", "15", "False", "432", "", "" ], [ "G00013MO", "Saccharide", "666.2218587", "862.44095968", "G90306QO", "G65968NT", "G24521PI", "4", "False", "492", "", "" ], [ "G00014MO", "Saccharide", "748.27495691", "944.49405789", "G53434XO", "G46396AV", "G12014ZL", "4", "False", "492", "", "" ], [ "G00015MO", "Saccharide", "707.248407805", "903.467508785", "G08590QR", "G12630GO", "G23069WI", "4", "False", "492", "", "" ], [ "G00016MO", "Saccharide", "342.1162117", "454.24141226", "G90627TW", "G90960QG", "G61666PA", "2", "False", "984", "", "" ], [ "G00017IP", "Saccharide", "1396.44334021", "1704.78764175", "G67486RJ", "G74337VG", "", "7", "False", "281", "", "" ], [ "G00017MO", "Saccharide", "776.23348603", "972.45258701", "G33623LN", "G67281OF", "G81929CN", "4", "False", "492", "", "" ], [ "G00018MO", "Saccharide", "936.14711521", "1104.33491605", "G79485UE", "G27961HI", "G43666WL", "4", "False", "492", "", "" ], [ "G00019MO", "Saccharide", "936.14711521", "1104.33491605", "G79485UE", "G68637ZS", "G98081AU", "4", "False", "492", "", "" ], [ "G00020MO", "Saccharide", "908.18858609", "1076.37638693", "G18981TN", "G09016GK", "G65701KB", "4", "False", "492", "", "" ], [ "G00021MO", "Saccharide", "1176.01755898", "1302.15840961", "G84862JD", "G80905BE", "G50697FX", "4", "False", "671", "", "" ], [ "G00022MO", "Saccharide", "1548.51833897", "2025.05044135", "G35871UN", "G79456AK", "G46912MY", "8", "False", "3077", "", "" ], [ "G00023MO", "Saccharide", "974.37031392", "", "G04048TK", "G55075ZO", "G83969XC", "4", "False", "246", "", "" ], [ "G00024MO", "Saccharide", "504.1690352", "658.34118597", "G39365VM", "G72116MB", "G63977XF", "3", "False", "0", "", "" ], [ "G00025AJ", "Saccharide", "490.18977064", "644.36192141", "", "G55291BP", "G68137QB", "3", "False", "0", "", "" ], [ "G00025HU", "Saccharide", "2077.74549812", "2582.30890064", "G70382FA", "G40436IV", "", "11", "False", "232", "", "" ], [ "G00025MO", "Saccharide", "666.2218587", "862.44095968", "G90306QO", "G88288TV", "G92495JT", "4", "False", "0", "", "" ], [ "G00025YC", "Saccharide", "1989.7294541", "2466.26155647", "G85740DB", "G64730RH", "G90713ZK", "11", "False", "158", "", "" ], [ "G00026MO", "Saccharide", "910.32778041", "1148.5938316", "G28681TP", "G71678CK", "G21458SP", "5", "False", "393", "", "" ], [ "G00027JG", "Saccharide", "1040.39077465", "1292.67247591", "G51210WZ", "G72933YZ", "G17734NH", "6", "False", "82", "", "" ], [ "G00027MO", "Saccharide", "707.248407805", "903.467508785", "G08590QR", "G87067NW", "G89827NJ", "4", "False", "0", "", "" ], [ "G00028MO", "Saccharide", "1234.43342741", "1556.79337902", "G02815KT", "G89929IA", "G16127HW", "7", "False", "281", "", "" ], [ "G00029MO", "Saccharide", "1275.45997651", "1597.81992812", "G57776ZU", "G04263GM", "G37692XE", "7", "False", "304", "", "" ], [ "G00030HB", "Saccharide", "2766.98334123", "3439.73454459", "G20998ZT", "G77842WM", "G85535IY", "15", "False", "35", "", "" ], [ "G00030MO", "Saccharide", "1316.48652562", "1638.84647723", "G35029YA", "G15843XU", "G26402SO", "7", "False", "445", "", "" ], [ "G00030SF", "Saccharide", "504.1690352", "658.34118597", "G39365VM", "G89489JX", "G76574OZ", "3", "False", "0", "", "" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "3514617" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "11501845" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "4091823" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "8323299" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "18282768" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "17100645" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "14741734" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "10441114" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "3342257" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "9212232" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "7496150" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "1370965" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "16033536" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "22678432" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "16965854" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "1516058" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "15864746" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "15623485" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "3880667" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "15843572" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "15466199" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "7545084" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "17674202" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "11396208" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "9852066" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "2335739" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "19021580" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "17537433" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "6619126" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "15862866" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "17057347" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "1374031" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "16563047" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "10506931" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "3935432" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "12761161" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "19496993" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "18662810" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "17607374" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "11326683" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "16776550" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "2793860" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "8625037" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "16770733" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "15505370" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "14736333" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "18301385" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "9334809" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "15221966" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "19162326" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "11406562" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "16384952" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "21551457" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "9359491" ], [ "G00031MO", "Saccharide", "383.142760805", "495.267961365", "G43417UB", "G23052ZQ", "G67200RM", "2", "True", "0", "glycan_xref_pubmed", "2404571" ] ] }, "readme": "Name\n - GlyGen-Glycan masterlist\n\nVersion\n - v-2.1.1\n\nCreated on\n - 2019-11-13T12:43:51.676216\n\nModified on\n - 2022-09-26T09:04:47.964527\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 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: allglycan.tsv\n URI: /data/shared/glyds/downloads/glytoucan/gtc_05_16_2023/export/allglycan.tsv\n Name: allmotifs.tsv\n URI: /data/shared/glyds/downloads/glytoucan/gtc_05_16_2023/export/allmotifs.tsv\n Name: glycan_properties.tsv\n URI: /data/shared/glyds/downloads/glytoucan/gtc_05_16_2023/export/glycan_properties.tsv\n Name: pubs.tsv\n URI: /data/shared/glyds/downloads/glytoucan/gtc_05_16_2023/export/pubs.tsv\n Name: subsumption.tsv\n URI: /data/shared/glyds/downloads/glytoucan/gtc_05_16_2023/export/subsumption.tsv\n Output Subdomain\n Name: glycan_masterlist.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.1.1/reviewed/glycan_masterlist.csv\n Name: glycan_masterlist.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.1.1/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: \"45192\"\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: \"1242\"\n Name: \"glycan_permass\"\n Description: \"Permethylated mass of a glycan\"\n Unique Values: \"1256\"\n Name: \"base_composition\"\n Description: \"Base composition of the glycan\"\n Unique Values: \"1827\"\n Name: \"composition\"\n Description: \"Composition of glycan\"\n Unique Values: \"3987\"\n Name: \"topology\"\n Description: \"Topology of the glycan\"\n Unique Values: \"8780\"\n Name: \"monosaccharides\"\n Description: \"Number of monosaccharides in glycan\"\n Unique Values: \"49\"\n Name: \"is_motif\"\n Description: \"\"\n Unique Values: \"2\"\n Name: \"missing_score\"\n Description: \"\"\n Unique Values: \"2022\"\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: \"1262\"", "downloadurl": "/ln2data/releases/data/v-2.1.1/reviewed/glycan_masterlist.csv" }