{ "bcoid": "GLY_000269", "title": "Mouse N-Glycosylation Sequon", "description": "The Mouse N-Glycosylation Sequon dataset contains N-glycosylation sequon or motif or consensus sequence ...", "filename": "mouse_protein_glycosylation_motifs.csv", "filetype": "csv", "categories": { "species": "Mus musculus", "molecule": "Protein", "tags": "N-Glycosylation Sequon", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "Q8BH24-1...", "105..." ], [ "Q8BH27-1...", "36..." ] ], "headers": [ "uniprotkb_ca...", "start_pos..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "start_pos" }, { "type": "string", "label": "end_pos" }, { "type": "string", "label": "motif" } ], [ "Q8BH24-1", "105", "107", "NQS" ], [ "Q8BH27-1", "36", "38", "NVT" ], [ "Q8BH27-1", "179", "181", "NSS" ], [ "Q8BH27-1", "203", "205", "NCS" ], [ "Q8BH27-1", "216", "218", "NQT" ], [ "Q8BH27-1", "243", "245", "NHT" ], [ "Q8BH27-1", "265", "267", "NSS" ], [ "Q8BH27-1", "303", "305", "NRS" ], [ "Q8BH27-1", "357", "359", "NCT" ], [ "Q8BH27-1", "426", "428", "NTT" ], [ "Q8BH27-1", "466", "468", "NAS" ], [ "Q8BH27-1", "479", "481", "NST" ], [ "Q8BH27-1", "498", "500", "NST" ], [ "Q8BH27-1", "557", "559", "NIS" ], [ "Q8BH26-1", "63", "65", "NET" ], [ "Q9DAV8-1", "60", "62", "NVS" ], [ "Q9DAV8-1", "212", "214", "NLS" ], [ "O35453-1", "131", "133", "NGT" ], [ "Q8VF69-1", "9", "11", "NVS" ], [ "Q8VF69-1", "46", "48", "NSS" ], [ "Q8VF69-1", "69", "71", "NLS" ], [ "Q8VF69-1", "269", "271", "NNT" ], [ "Q9JHR7-1", "732", "734", "NIT" ], [ "Q9JHR7-1", "979", "981", "NLS" ], [ "Q9JHR7-1", "994", "996", "NMT" ], [ "Q8VF63-1", "10", "12", "NDS" ], [ "Q8VF63-1", "70", "72", "NLS" ], [ "Q61476-1", "192", "194", "NFS" ], [ "Q61476-1", "267", "269", "NST" ], [ "Q8VF60-1", "7", "9", "NLT" ], [ "Q8VF60-1", "67", "69", "NLS" ], [ "Q9Z2D8-1", "75", "77", "NKS" ], [ "Q8VF66-1", "8", "10", "NHT" ], [ "Q8VF66-1", "45", "47", "NLS" ], [ "Q8VF66-1", "158", "160", "NAS" ], [ "Q8VF65-1", "8", "10", "NHT" ], [ "Q8VF65-1", "41", "43", "NVS" ], [ "Q8VF65-1", "45", "47", "NLS" ], [ "Q8VF65-1", "158", "160", "NAS" ], [ "Q8VF64-1", "5", "7", "NSS" ], [ "Q8VF64-1", "65", "67", "NLS" ], [ "Q80T32-1", "68", "70", "NLT" ], [ "Q80T32-1", "76", "78", "NAT" ], [ "Q80T32-1", "83", "85", "NDS" ], [ "Q80T32-1", "89", "91", "NLS" ], [ "Q80T32-1", "217", "219", "NGT" ], [ "Q80T32-1", "311", "313", "NLT" ], [ "Q80T32-1", "331", "333", "NVS" ], [ "Q80T32-1", "338", "340", "NKS" ], [ "Q80T32-1", "348", "350", "NLT" ], [ "Q80T32-1", "505", "507", "NLS" ], [ "Q80T32-1", "530", "532", "NES" ], [ "Q80T32-1", "543", "545", "NFS" ], [ "Q80T32-1", "562", "564", "NLT" ], [ "Q80T32-1", "636", "638", "NLS" ], [ "Q80T32-1", "874", "876", "NGT" ], [ "B2RXV4-1", "260", "262", "NST" ], [ "B2RXV4-1", "270", "272", "NNT" ], [ "P62492-1", "124", "126", "NKS" ], [ "E9Q3P4-1", "249", "251", "NKS" ], [ "E9Q3P4-1", "330", "332", "NKT" ], [ "E9Q3P4-1", "523", "525", "NTS" ], [ "E9Q3P4-1", "561", "563", "NCS" ], [ "E9Q3P4-1", "666", "668", "NFT" ], [ "E9Q3P4-1", "872", "874", "NLS" ], [ "E9Q3P4-1", "1154", "1156", "NLT" ], [ "E9Q3P4-1", "1326", "1328", "NDS" ], [ "E9Q3P4-1", "1378", "1380", "NHS" ], [ "E9Q3P4-1", "1516", "1518", "NAS" ], [ "E9Q3P4-1", "1885", "1887", "NAT" ], [ "E9Q3P4-1", "1969", "1971", "NVS" ], [ "E9Q3P4-1", "2042", "2044", "NDS" ], [ "E9Q3P4-1", "2412", "2414", "NSS" ], [ "E9Q3P4-1", "2448", "2450", "NET" ], [ "E9Q3P4-1", "2557", "2559", "NVT" ], [ "E9Q3P4-1", "2573", "2575", "NNT" ], [ "E9Q3P4-1", "2787", "2789", "NSS" ], [ "E9Q3P4-1", "2796", "2798", "NTS" ], [ "E9Q3P4-1", "2962", "2964", "NST" ], [ "P63166-1", "74", "76", "NHT" ], [ "A0A087WPJ1-1", "13", "15", "NST" ], [ "A0A087WPJ1-1", "60", "62", "NCS" ], [ "A0A087WPJ1-1", "99", "101", "NTT" ], [ "A0A087WPJ1-1", "125", "127", "NVS" ] ] }, "readme": "Name\n - Mouse N-Glycosylation Sequon\n\nVersion\n - 1.11.2\n\nCreated on\n - 2019-09-06T14:06:38.995531\n\nModified on\n - 2020-04-10T12:46:48.152167\n\nCreated by\n - Jeet Vora [jeetvora@gwu.edu], Rahi Navelkar [rsn13@gwu.edu], Robel Kahsay [rykahsay@gwu.edu], Xavier Holmes [xavierh@email.gwu.edu], Karina Martinez [karinamartinez@gwu.edu], Amanda Bell [amandab2140@gwu.edu], Jonathon Keeney [keeneyjg@gwu.edu], Millicent Quartey [mquartey@email.gwu.edu]\n\nAuthors\n - Maria Martin [martin@ebi.ac.uk], Preethi Vasudev [pvasudev@ebi.ac.uk]\n\nChecksum\n - \n\nUsability Domain\n - The Mouse N-Glycosylation Sequon dataset contains N-glycosylation sequon or motif or consensus sequence for mouse [taxid:10090] UniProtKB canonical sequences identified by the script. The script identifies the N-glycosylation sequon pattern - Asn-X-Ser/Thr , where X is any amino acid except proline (Pro) for UniProtKb accessions. If you use this dataset please provide proper attribution to GlyGen. The dataset is derived form 2019-09 UniprotKB release.\n\nDescription Domain\n Keywords\n - n-glycosylation sequon\n - NXS/T\n - n-glycosylation motif\n - n-glycosylation consensus sequence\n\n Pipeline Steps\n - Step-1: The script uses the PS Scan tool (accession- PS00001) from ProSite to extracts the N-glycosylation pattern/sequon/motif N-{P}-[ST]-{P} where P is not a proline from the UniProtKB canonical sequences. More info - https://prosite.expasy.org/PDOC00001, https://prosite.expasy.org/PS00001 and extracts as a csv.\n\nExecution Domain\n Scripts - https://github.com/GW-HIVE/glygen-backend-integration/blob/master/pipeline/integrator/make-protein-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: mouse_protein_canonicalsequences.fasta\n URI: https://data.glygen.org//ln2releases/data/v-1.11.2/reviewed/mouse_protein_canonicalsequences.fasta\n Output Subdomain\n Name: mouse_protein_glycosylation_motifs.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/mouse_protein_glycosylation_motifs.csv\n Name: mouse_protein_glycosylation_motifs.stat.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/mouse_protein_glycosylation_motifs.stat.csv", "downloadurl": "/ln2data/releases/data/v-1.12.1/reviewed/mouse_protein_glycosylation_motifs.csv" }