{ "bcoid": "GLY_000559", "title": "Glycan sequences Byonic", "description": "The dataset provides the glycan sequences in Byonic format for the associated glycans (GlyTouCan Accession). ...", "filename": "glycan_sequences_byonic.csv", "filetype": "csv", "categories": { "molecule": [ "Glycan" ], "tag": [ "byonic sequence format" ], "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 H)", "Severe acute respiratory syndrome-related coronavirus", "Hepacivirus C" ] }, "minitable": { "content": [ [ "G00002CF...", "Hex(2)NeuGc(..." ], [ "G00009BX...", "HexNAc(2)Hex..." ] ], "headers": [ "glytoucan_ac...", "sequence_byo..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "glytoucan_ac" }, { "type": "string", "label": "sequence_byonic" }, { "type": "string", "label": "name_source" } ], [ "G00002CF", "Hex(2)NeuGc(2) % 956.29687423", "G93218EI" ], [ "G00009BX", "HexNAc(2)Hex(2)dHex(1) % 894.33286578", "G93579XB" ], [ "G00012MO", "HexNAc(1)Hex(3) % 707.248407805", "G08590QR" ], [ "G00012RZ", "HexNAc(5)Hex(6)dHex(3)NeuAc(1) % 2734.99351197", "G04784US" ], [ "G00013MO", "Hex(4) % 666.2218587", "G90306QO" ], [ "G00014MO", "HexNAc(2)Hex(2) % 748.27495691", "G53434XO" ], [ "G00015MO", "HexNAc(1)Hex(3) % 707.248407805", "G08590QR" ], [ "G00016MO", "Hex(2) % 342.1162117", "G90627TW" ], [ "G00017IP", "HexNAc(4)Hex(3)Sulpho(1) % 1396.44334021", "G67486RJ" ], [ "G00024MO", "Hex(3) % 504.1690352", "G39365VM" ], [ "G00025HU", "HexNAc(4)Hex(5)dHex(1)NeuAc(1) % 2077.74549812", "G08293MJ" ], [ "G00025MO", "Hex(4) % 666.2218587", "G90306QO" ], [ "G00025YC", "HexNAc(5)Hex(5)dHex(1) % 1989.7294541", "G85740DB" ], [ "G00026MO", "HexNAc(2)Hex(3) % 910.32778041", "G28681TP" ], [ "G00027JG", "HexNAc(2)Hex(2)dHex(2) % 1040.39077465", "G51210WZ" ], [ "G00027MO", "HexNAc(1)Hex(3) % 707.248407805", "G08590QR" ], [ "G00028MO", "HexNAc(2)Hex(5) % 1234.43342741", "G02815KT" ], [ "G00029MO", "HexNAc(3)Hex(4) % 1275.45997651", "G57776ZU" ], [ "G00030HB", "HexNAc(5)Hex(8)dHex(1)NeuAc(1) % 2766.98334123", "G58014BV" ], [ "G00030MO", "HexNAc(4)Hex(3) % 1316.48652562", "G35029YA" ], [ "G00030SF", "Hex(3) % 504.1690352", "G39365VM" ], [ "G00031MO", "HexNAc(1)Hex(1) % 383.142760805", "G43417UB" ], [ "G00032MO", "HexNAc(1)Hex(1) % 383.142760805", "G43417UB" ], [ "G00033MO", "HexNAc(2)Hex(1) % 586.22213341", "G58001LT" ], [ "G00034MO", "HexNAc(2)Hex(1) % 586.22213341", "G58001LT" ], [ "G00034WH", "Hex(6) % 990.3275057", "G32030CB" ], [ "G00035MO", "HexNAc(2) % 424.16930991", "G27391WQ" ], [ "G00036MO", "HexNAc(2) % 424.16930991", "G27391WQ" ], [ "G00037MO", "HexNAc(3) % 627.248682515", "G40740AD" ], [ "G00038JC", "Hex(2)dHex(2) % 634.23202944", "G39329TJ" ], [ "G00038MO", "HexNAc(3) % 627.248682515", "G40740AD" ], [ "G00039MO", "HexNAc(2) % 424.16930991", "G27391WQ" ], [ "G00040MO", "HexNAc(2) % 424.16930991", "G27391WQ" ], [ "G00041IL", "HexNAc(2)Hex(1)NeuAc(1) % 877.317550045", "G48586RX" ], [ "G00041MO", "HexNAc(2) % 424.16930991", "G27391WQ" ], [ "G00042MO", "HexNAc(2) % 424.16930991", "G27391WQ" ], [ "G00043MO", "HexNAc(2) % 424.16930991", "G27391WQ" ], [ "G00044MO", "HexNAc(2) % 424.16930991", "G27391WQ" ], [ "G00046MO", "Hex(2) % 342.1162117", "G90627TW" ], [ "G00047MO", "HexNAc(1)Hex(1)dHex(1) % 529.200669675", "G54129SE" ], [ "G00048MO", "HexNAc(1)Hex(1)dHex(2) % 675.258578545", "G82458HY" ], [ "G00049MO", "HexNAc(1)Hex(3) % 707.248407805", "G08590QR" ], [ "G00050MO", "HexNAc(1)Hex(3)dHex(1) % 853.306316675", "G54630CD" ], [ "G00051MO", "HexNAc(1)Hex(1)dHex(1) % 529.200669675", "G54129SE" ], [ "G00052MO", "HexNAc(1)Hex(1)dHex(2) % 675.258578545", "G82458HY" ], [ "G00053MO", "HexNAc(1)Hex(1)dHex(1)NeuAc(1) % 820.29608631", "G98896IU" ], [ "G00054MO", "HexNAc(1)Hex(1)dHex(1)NeuAc(1) % 820.29608631", "G98896IU" ], [ "G00055MO", "HexNAc(1)Hex(1) % 383.142760805", "G43417UB" ], [ "G00056HH", "HexNAc(5)Hex(6)dHex(1) % 2151.78227759", "G44211QA" ], [ "G00056MO", "HexNAc(1)Hex(1) % 383.142760805", "G43417UB" ], [ "G00057LF", "HexNAc(4)Hex(5)NeuAc(1) % 1931.68758926", "G59626AS" ], [ "G00057MO", "HexNAc(2) % 424.16930991", "G27391WQ" ], [ "G00058MO", "HexNAc(2)Hex(2) % 748.27495691", "G53434XO" ], [ "G00058XR", "HexNAc(1)Hex(2)Sulpho(1) % 625.152398895", "G06932DR" ], [ "G00059MO", "Hex(3) % 504.1690352", "G39365VM" ], [ "G00060BT", "HexNAc(1)Hex(4) % 869.301231305", "G15666IG" ], [ "G00060MO", "HexNAc(1)Hex(4) % 869.301231305", "G15666IG" ], [ "G00061MO", "HexNAc(1)Hex(3) % 707.248407805", "G08590QR" ], [ "G00062MO", "HexNAc(2)Hex(2)NeuAc(1) % 1039.37037354", "G77513SG" ], [ "G00063MO", "HexNAc(2)Hex(1)NeuAc(2) % 1168.41296668", "G12520SZ" ], [ "G00064MO", "HexNAc(2)Hex(3) % 910.32778041", "G28681TP" ], [ "G00065MO", "HexNAc(1)Hex(1)NeuAc(1) % 674.23817744", "G17015OC" ], [ "G00066MO", "HexNAc(1)Hex(1)dHex(1) % 529.200669675", "G54129SE" ], [ "G00066WY", "HexNAc(2)Hex(3) % 910.32778041", "G28681TP" ], [ "G00067MO", "Hex(2)dHex(1) % 488.17412057", "G89864HJ" ], [ "G00068MO", "Hex(1)dHex(1) % 326.12129707", "G08453HV" ], [ "G00069MO", "HexNAc(1)Hex(3) % 707.248407805", "G08590QR" ], [ "G00069YC", "HexNAc(6)Hex(5)dHex(3) % 2484.92464444", "G48053DU" ], [ "G00070MO", "HexNAc(1)Hex(3) % 707.248407805", "G08590QR" ], [ "G00071MO", "HexNAc(1)Hex(3) % 707.248407805", "G08590QR" ], [ "G00072MO", "HexNAc(1)Hex(3) % 707.248407805", "G08590QR" ], [ "G00076PK", "HexNAc(1)Hex(2) % 545.195584305", "G05394UY" ], [ "G00087BY", "HexNAc(5)Hex(4)dHex(1)NeuAc(1)Sulpho(1) % 2198.72886182", "G88691YO" ], [ "G00089VH", "HexNAc(3)Hex(5)NeuAc(2) % 2019.70363329", "G11157ZG" ], [ "G00091RT", "Hex(5) % 828.2746822", "G84322TE" ], [ "G00091UN", "HexNAc(3)Hex(4)dHex(1)NeuAc(1) % 1712.61330202", "G72791KH" ], [ "G00094SE", "HexNAc(4)Hex(2)dHex(1) % 1300.49161099", "G60060GI" ], [ "G00097DN", "Hex(1)Pent(1) % 312.105647", "G25325JY" ], [ "G00104PH", "HexNAc(6)Hex(5)dHex(1)NeuAc(1) % 2483.90424334", "G43638QT" ], [ "G00105XF", "HexNAc(4)Hex(5)NeuAc(1) % 1931.68758926", "G59626AS" ], [ "G00106LE", "HexNAc(1)Hex(1)dHex(1)NeuAc(1)Sulpho(1) % 900.2529009", "G05761AI" ], [ "G00113FP", "HexNAc(5)Hex(6)dHex(2)NeuAc(1) % 2588.9356031", "G03596YS" ], [ "G00118FH", "HexNAc(7)Hex(8)dHex(1)NeuAc(5) % 4337.52375298", "G33696BZ" ], [ "G00120OY", "HexNAc(5)Hex(6)dHex(3) % 2443.89809534", "G41126SR" ] ] }, "readme": "Name\n - Glycan sequences Byonic\n\nVersion\n - v-2.4.1\n\nCreated on\n - 2021-06-02T12:48:41.483014\n\nModified on\n - 2022-09-26T09:08:12.680882\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], Jingyue Wu [jingyue.wu@email.gwu.edu]\n\nAuthors\n - \n\nChecksum\n - \n\nUsability Domain\n - The dataset provides the glycan sequences in Byonic format for the associated glycans (GlyTouCan Accession). The listed GlyTouCan Accessions are derived from the GlyTouCan accession master list (https://data.glygen.org/GLYDS000281). Source database: https://dev.glycam.org/\n\nDescription Domain\n Keywords\n - Glycan\n - GlyTouCan Accession\n - Byonic\n\n Pipeline Steps\n - Step-1: A python script is used to generate the byonic format based on the compositioon for the GlyTouCan accessions based on the acession 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-2.4.1/reviewed/glycan_masterlist.csv\n Name: names.tsv\n URI: https:/data.glygen.org/ln2downloads/glytoucan/gtc_02_20_2024/export/names.tsv\n Name: subsumption.tsv\n URI: https:/data.glygen.org/ln2downloads/glytoucan/gtc_02_20_2024/export/subsumption.tsv\n Output Subdomain\n Name: glycan_sequences_byonic.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/glycan_sequences_byonic.csv\n Name: glycan_sequences_byonic.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/glycan_sequences_byonic.stat.csv\n\nFields\n Name: \"glytoucan_ac\"\n Description: \"Unique accession assigned to the registered glycan structure in GlyTouCan database\"\n Unique Values: \"38458\"\n Name: \"sequence_byonic\"\n Description: \"\"\n Unique Values: \"1008\"\n Name: \"name_source\"\n Description: \"\"\n Unique Values: \"1008\"", "downloadurl": "/ln2data/releases/data/v-2.4.1/reviewed/glycan_sequences_byonic.csv" }