{ "bcoid": "GLY_000316", "title": "Human Protein PTM Annotation (UniProtKB)", "description": "The Human Protein PTM Annotation (UniProtKB) dataset contains human [taxid:9606] PTM annotations for ...", "filename": "human_protein_ptm_annotation_uniprotkb.csv", "filetype": "csv", "categories": { "species": "Homo sapiens", "molecule": "Protein", "tags": "PTM annotation", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "Q8TBF5-1...", "20534510..." ], [ "Q8TBF5-1...", "19349973..." ] ], "headers": [ "uniprotkb_ca...", "pmid..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "pmid" }, { "type": "string", "label": "eco_id" }, { "type": "string", "label": "ptm_annotation" } ], [ "Q8TBF5-1", "20534510", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "19349973", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "16765900", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "16335952", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "16740002", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "19159218", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "12754519", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "23803857", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "11336649", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "27152332", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "22106953", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "21478864", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "SIP8A89C514D119C6F4", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "1533657", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "23934049", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "2401370", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "26280335", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "20145116", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "21827946", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "20727575", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "19563754", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "25500532", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "SIPF058BA6C1F60DFA4", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "8216207", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "16859706", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "19285951", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "12794138", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "20879038", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "10970843", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "10671517", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "1458595", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "19900540", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "20470363", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "28739914", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "20457942", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "20006580", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "28489325", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "8576151", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "24548619", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "12077416", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "Q9DA48", "ECO_0000250", "N-glycosylated." ], [ "Q8TBF5-1", "24753537", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "26542571", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "25282151", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "15557162", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "Q6SJQ0", "ECO_0000250", "N-glycosylated." ], [ "Q8TBF5-1", "20223752", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "3010309", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "3903517", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "3839290", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "12796776", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "26169044", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "16678114", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "21886772", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "30140003", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "16007225", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "12660814", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "1699669", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "21884936", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "20008117", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "28067262", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "21964574", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "16740594", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "30598546", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "30630874", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "10993067", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "24297919", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "20015956", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "26095358", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "P19518", "ECO_0000250", "N-glycosylated." ], [ "Q8TBF5-1", "15485681", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "11046064", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "11513746", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "2050678", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "P10499", "ECO_0000250", "N-glycosylated." ], [ "Q8TBF5-1", "20210363", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "10698685", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "9174053", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "9480870", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "8985184", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "16752921", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "8546710", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "19136951", "ECO_0000269", "N-glycosylated." ], [ "Q8TBF5-1", "Q8BMF8", "ECO_0000250", "N-glycosylated." ] ] }, "readme": "Name\n - Human Protein PTM Annotation (UniProtKB)\n\nVersion\n - 1.5.27\n\nCreated on\n - 2019-11-30T13:58:37.032006\n\nModified on\n - 2020-04-11T11:28:33.003978\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]\n\nAuthors\n - Maria Martin [martin@ebi.ac.uk], Preethi Vasudev [pvasudev@ebi.ac.uk]\n\nChecksum\n - \n\nUsability Domain\n - The Human Protein PTM Annotation (UniProtKB) dataset contains human [taxid:9606] PTM annotations for UniProtKB canonical accessions. The annotation is the curated statements of mainly about glycosylation and phosphorylation. The dataset is derived form 2019-09 UniprotKB release. If you use this dataset please give proper attribution to UniProtKB and GlyGen\n\nDescription Domain\n Keywords\n - ptm annotation\n - glycosylation\n - phosphorylation\n\n Pipeline Steps\n - Step-1: The script extracts the ptm annotation strings from the triplestore for the UniProtKB canonical sequnces asnd extracts as a dataset in a csv format\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: uniprot-proteome-homo-sapiens.nt\n URI: https://data.glygen.org/ln2wwwdata/reviewed/uniprot-proteome-homo-sapiens.nt\n Name: human_protein_masterlist.csv\n URI: https://data.glygen.org/ln2wwwdata/reviewed/human_protein_masterlist.csv\n Output Subdomain\n Name: human_protein_ptm_annotation_uniprotkb.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/human_protein_ptm_annotation_uniprotkb.csv\n Name: human_protein_ptm_annotation_uniprotkb.stat.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/human_protein_ptm_annotation_uniprotkb.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"Accession assigned to the protein isoform chosen to be the canonical sequence to which all positional annotation refers in UniProtKB database\"\n Unique Values: \"4752\"\n Name: \"eco_id\"\n Description: \"Evidence & Conclusion Ontology (ECO) identifier\"\n Unique Values: \"8\"\n Name: \"pmid\"\n Description: \"NCBI PubMed database Identifier\"\n Unique Values: \"6704\"\n Name: \"ptm_annotation\"\n Description: \"The Post Translational Modifiaction (PTM) annotation in UniProtKB that provides more context and description about the PTMs occuring on a proein\"\n Unique Values: \"5297\"", "downloadurl": "/ln2data/releases/data/v-1.5.27/reviewed/human_protein_ptm_annotation_uniprotkb.csv" }