{ "bcoid": "GLY_000231", "title": "Rat Phosphorylation Sites (UniProtKB)", "description": "The Rat Phosphorylation Sites (UniProtKB) dataset contains rat [taxid:10116] UniProtKB canonical accessions ...", "filename": "rat_proteoform_phosphorylation_sites_uniprotkb.csv", "filetype": "csv", "categories": { "species": "Rattus norvegicus", "molecule": "Protein", "tags": "Phosphorylation Sites", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "Q63486-1...", "309..." ], [ "Q63486-1...", "309..." ] ], "headers": [ "uniprotkb_ca...", "phosphorylat..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "phosphorylation_site_uniprotkb" }, { "type": "string", "label": "amino_acid" }, { "type": "string", "label": "kinase_uniprotkb_canonical_ac" }, { "type": "string", "label": "kinase_gene_name" }, { "type": "string", "label": "xref_key" }, { "type": "string", "label": "xref_id" }, { "type": "string", "label": "src_xref_key" }, { "type": "string", "label": "src_xref_id" }, { "type": "string", "label": "phosphorylated_residue" }, { "type": "string", "label": "phosphorylation_annotation" }, { "type": "string", "label": "eco_id" } ], [ "Q63486-1", "309", "Ser", "", "", "protein_xref_uniprotkb", "Q63486", "protein_xref_uniprotkb", "Q63486", "Phosphoserine", "Phosphoserine", "" ], [ "Q63486-1", "309", "Ser", "", "", "protein_xref_uniprotkb", "Q63486", "protein_xref_uniprotkb", "Q63486", "Phosphoserine", "Phosphoserine", "" ], [ "Q63424-1", "9", "Ser", "", "", "protein_xref_uniprotkb", "Q63424", "protein_xref_uniprotkb", "Q63424", "Phosphoserine", "Phosphoserine", "" ], [ "Q63424-1", "9", "Ser", "", "", "protein_xref_uniprotkb", "Q63424", "protein_xref_uniprotkb", "Q63424", "Phosphoserine", "Phosphoserine", "" ], [ "Q63424-1", "12", "Thr", "", "", "protein_xref_uniprotkb", "Q63424", "protein_xref_uniprotkb", "Q63424", "Phosphothreonine", "Phosphothreonine", "" ], [ "Q63424-1", "12", "Thr", "", "", "protein_xref_uniprotkb", "Q63424", "protein_xref_uniprotkb", "Q63424", "Phosphothreonine", "Phosphothreonine", "" ], [ "Q03348-1", "792", "Tyr", "", "", "protein_xref_uniprotkb", "Q66HJ7", "protein_xref_uniprotkb", "Q66HJ7", "Phosphotyrosine", "Phosphotyrosine", "" ], [ "Q03348-1", "792", "Tyr", "", "", "protein_xref_uniprotkb", "Q66HJ7", "protein_xref_uniprotkb", "Q66HJ7", "Phosphotyrosine", "Phosphotyrosine", "" ], [ "P10686-1", "1248", "Ser", "", "", "protein_xref_uniprotkb", "G3V845", "protein_xref_uniprotkb", "G3V845", "Phosphoserine", "Phosphoserine", "" ], [ "P10686-1", "1248", "Ser", "", "", "protein_xref_uniprotkb", "G3V845", "protein_xref_uniprotkb", "G3V845", "Phosphoserine", "Phosphoserine", "" ], [ "P10686-1", "1221", "Ser", "", "", "protein_xref_uniprotkb", "G3V845", "protein_xref_uniprotkb", "G3V845", "Phosphoserine", "Phosphoserine", "" ], [ "P10686-1", "1221", "Ser", "", "", "protein_xref_uniprotkb", "G3V845", "protein_xref_uniprotkb", "G3V845", "Phosphoserine", "Phosphoserine", "" ], [ "O35815-1", "273", "Ser", "", "", "protein_xref_uniprotkb", "O35815", "protein_xref_uniprotkb", "O35815", "Phosphoserine", "Phosphoserine", "" ], [ "O35815-1", "273", "Ser", "", "", "protein_xref_uniprotkb", "O35815", "protein_xref_uniprotkb", "O35815", "Phosphoserine", "Phosphoserine", "" ], [ "O35815-1", "321", "Ser", "", "", "protein_xref_uniprotkb", "O35815", "protein_xref_uniprotkb", "O35815", "Phosphoserine", "Phosphoserine", "" ], [ "O35815-1", "321", "Ser", "", "", "protein_xref_uniprotkb", "O35815", "protein_xref_uniprotkb", "O35815", "Phosphoserine", "Phosphoserine", "" ], [ "O35815-1", "272", "Ser", "", "", "protein_xref_uniprotkb", "O35815", "protein_xref_uniprotkb", "O35815", "Phosphoserine", "Phosphoserine", "" ], [ "O35815-1", "272", "Ser", "", "", "protein_xref_uniprotkb", "O35815", "protein_xref_uniprotkb", "O35815", "Phosphoserine", "Phosphoserine", "" ], [ "O35815-1", "268", "Ser", "", "", "protein_xref_uniprotkb", "O35815", "protein_xref_uniprotkb", "O35815", "Phosphoserine", "Phosphoserine", "" ], [ "O35815-1", "268", "Ser", "", "", "protein_xref_uniprotkb", "O35815", "protein_xref_uniprotkb", "O35815", "Phosphoserine", "Phosphoserine", "" ], [ "P07174-1", "312", "Ser", "", "", "protein_xref_uniprotkb", "P07174", "protein_xref_uniprotkb", "P07174", "Phosphoserine", "Phosphoserine", "" ], [ "P07174-1", "312", "Ser", "", "", "protein_xref_uniprotkb", "P07174", "protein_xref_uniprotkb", "P07174", "Phosphoserine", "Phosphoserine", "" ], [ "P21707-1", "264", "Ser", "", "", "protein_xref_uniprotkb", "P21707", "protein_xref_uniprotkb", "P21707", "Phosphoserine", "Phosphoserine", "" ], [ "P21707-1", "264", "Ser", "", "", "protein_xref_uniprotkb", "P21707", "protein_xref_uniprotkb", "P21707", "Phosphoserine", "Phosphoserine", "" ], [ "P21707-1", "229", "Tyr", "", "", "protein_xref_uniprotkb", "P21707", "protein_xref_uniprotkb", "P21707", "Phosphotyrosine", "Phosphotyrosine", "" ], [ "P21707-1", "229", "Tyr", "", "", "protein_xref_uniprotkb", "P21707", "protein_xref_uniprotkb", "P21707", "Phosphotyrosine", "Phosphotyrosine", "" ], [ "P31652-1", "276", "Thr", "", "", "protein_xref_uniprotkb", "P31652", "protein_xref_uniprotkb", "P31652", "Phosphothreonine", "Phosphothreonine", "" ], [ "P31652-1", "276", "Thr", "", "", "protein_xref_uniprotkb", "P31652", "protein_xref_uniprotkb", "P31652", "Phosphothreonine", "Phosphothreonine", "" ], [ "P31652-1", "611", "Ser", "", "", "protein_xref_uniprotkb", "P31652", "protein_xref_uniprotkb", "P31652", "Phosphoserine", "Phosphoserine", "" ], [ "P31652-1", "611", "Ser", "", "", "protein_xref_uniprotkb", "P31652", "protein_xref_uniprotkb", "P31652", "Phosphoserine", "Phosphoserine", "" ], [ "P31652-1", "47", "Tyr", "", "", "protein_xref_uniprotkb", "P31652", "protein_xref_uniprotkb", "P31652", "Phosphotyrosine", "Phosphotyrosine", "" ], [ "P31652-1", "47", "Tyr", "", "", "protein_xref_uniprotkb", "P31652", "protein_xref_uniprotkb", "P31652", "Phosphotyrosine", "Phosphotyrosine", "" ], [ "P31652-1", "613", "Thr", "", "", "protein_xref_uniprotkb", "P31652", "protein_xref_uniprotkb", "P31652", "Phosphothreonine", "Phosphothreonine", "" ], [ "P31652-1", "613", "Thr", "", "", "protein_xref_uniprotkb", "P31652", "protein_xref_uniprotkb", "P31652", "Phosphothreonine", "Phosphothreonine", "" ], [ "P31652-1", "616", "Thr", "", "", "protein_xref_uniprotkb", "P31652", "protein_xref_uniprotkb", "P31652", "Phosphothreonine", "Phosphothreonine", "" ], [ "P31652-1", "616", "Thr", "", "", "protein_xref_uniprotkb", "P31652", "protein_xref_uniprotkb", "P31652", "Phosphothreonine", "Phosphothreonine", "" ], [ "P31652-1", "142", "Tyr", "", "", "protein_xref_uniprotkb", "P31652", "protein_xref_uniprotkb", "P31652", "Phosphotyrosine", "Phosphotyrosine", "" ], [ "P31652-1", "142", "Tyr", "", "", "protein_xref_uniprotkb", "P31652", "protein_xref_uniprotkb", "P31652", "Phosphotyrosine", "Phosphotyrosine", "" ], [ "P32851-1", "188", "Ser", "", "", "protein_xref_uniprotkb", "P32851", "protein_xref_uniprotkb", "P32851", "Phosphoserine", "Phosphoserine; by DAPK1", "" ], [ "P32851-1", "188", "Ser", "", "", "protein_xref_uniprotkb", "P32851", "protein_xref_uniprotkb", "P32851", "Phosphoserine", "Phosphoserine; by DAPK1", "" ], [ "P60881-1", "154", "Ser", "", "", "protein_xref_uniprotkb", "P60881", "protein_xref_uniprotkb", "P60881", "Phosphoserine", "Phosphoserine", "" ], [ "P60881-1", "154", "Ser", "", "", "protein_xref_uniprotkb", "P60881", "protein_xref_uniprotkb", "P60881", "Phosphoserine", "Phosphoserine", "" ], [ "P60881-1", "138", "Thr", "", "", "protein_xref_uniprotkb", "P60881", "protein_xref_uniprotkb", "P60881", "Phosphothreonine", "Phosphothreonine; by PKC and PKA", "" ], [ "P60881-1", "138", "Thr", "", "", "protein_xref_uniprotkb", "P60881", "protein_xref_uniprotkb", "P60881", "Phosphothreonine", "Phosphothreonine; by PKC and PKA", "" ], [ "P60881-1", "187", "Ser", "", "", "protein_xref_uniprotkb", "P60881", "protein_xref_uniprotkb", "P60881", "Phosphoserine", "Phosphoserine; by PKC", "" ], [ "P60881-1", "187", "Ser", "", "", "protein_xref_uniprotkb", "P60881", "protein_xref_uniprotkb", "P60881", "Phosphoserine", "Phosphoserine; by PKC", "" ], [ "Q91V26-1", "225", "Ser", "", "", "protein_xref_uniprotkb", "Q91V26", "protein_xref_uniprotkb", "Q91V26", "Phosphoserine", "Phosphoserine", "" ], [ "Q91V26-1", "225", "Ser", "", "", "protein_xref_uniprotkb", "Q91V26", "protein_xref_uniprotkb", "Q91V26", "Phosphoserine", "Phosphoserine", "" ], [ "Q91V26-1", "193", "Thr", "", "", "protein_xref_uniprotkb", "Q91V26", "protein_xref_uniprotkb", "Q91V26", "Phosphothreonine", "Phosphothreonine", "" ], [ "Q91V26-1", "193", "Thr", "", "", "protein_xref_uniprotkb", "Q91V26", "protein_xref_uniprotkb", "Q91V26", "Phosphothreonine", "Phosphothreonine", "" ], [ "A1A5P5-1", "583", "Ser", "", "", "protein_xref_uniprotkb", "A1A5P5", "protein_xref_uniprotkb", "A1A5P5", "Phosphoserine", "Phosphoserine", "" ], [ "A1A5P5-1", "583", "Ser", "", "", "protein_xref_uniprotkb", "A1A5P5", "protein_xref_uniprotkb", "A1A5P5", "Phosphoserine", "Phosphoserine", "" ], [ "O08837-1", "404", "Thr", "", "", "protein_xref_uniprotkb", "O08837", "protein_xref_uniprotkb", "O08837", "Phosphothreonine", "Phosphothreonine", "" ], [ "O08837-1", "404", "Thr", "", "", "protein_xref_uniprotkb", "O08837", "protein_xref_uniprotkb", "O08837", "Phosphothreonine", "Phosphothreonine", "" ], [ "O08837-1", "424", "Thr", "", "", "protein_xref_uniprotkb", "O08837", "protein_xref_uniprotkb", "O08837", "Phosphothreonine", "Phosphothreonine", "" ], [ "O08837-1", "424", "Thr", "", "", "protein_xref_uniprotkb", "O08837", "protein_xref_uniprotkb", "O08837", "Phosphothreonine", "Phosphothreonine", "" ], [ "O08837-1", "227", "Thr", "", "", "protein_xref_uniprotkb", "O08837", "protein_xref_uniprotkb", "O08837", "Phosphothreonine", "Phosphothreonine", "" ], [ "O08837-1", "227", "Thr", "", "", "protein_xref_uniprotkb", "O08837", "protein_xref_uniprotkb", "O08837", "Phosphothreonine", "Phosphothreonine", "" ], [ "O08837-1", "411", "Thr", "", "", "protein_xref_uniprotkb", "O08837", "protein_xref_uniprotkb", "O08837", "Phosphothreonine", "Phosphothreonine", "" ], [ "O08837-1", "411", "Thr", "", "", "protein_xref_uniprotkb", "O08837", "protein_xref_uniprotkb", "O08837", "Phosphothreonine", "Phosphothreonine", "" ], [ "O08837-1", "438", "Thr", "", "", "protein_xref_uniprotkb", "O08837", "protein_xref_uniprotkb", "O08837", "Phosphothreonine", "Phosphothreonine", "" ], [ "O08837-1", "438", "Thr", "", "", "protein_xref_uniprotkb", "O08837", "protein_xref_uniprotkb", "O08837", "Phosphothreonine", "Phosphothreonine", "" ], [ "O08837-1", "303", "Ser", "", "", "protein_xref_uniprotkb", "O08837", "protein_xref_uniprotkb", "O08837", "Phosphoserine", "Phosphoserine", "" ], [ "O08837-1", "303", "Ser", "", "", "protein_xref_uniprotkb", "O08837", "protein_xref_uniprotkb", "O08837", "Phosphoserine", "Phosphoserine", "" ], [ "O08837-1", "430", "Thr", "", "", "protein_xref_uniprotkb", "O08837", "protein_xref_uniprotkb", "O08837", "Phosphothreonine", "Phosphothreonine", "" ], [ "O08837-1", "430", "Thr", "", "", "protein_xref_uniprotkb", "O08837", "protein_xref_uniprotkb", "O08837", "Phosphothreonine", "Phosphothreonine", "" ], [ "O08837-1", "442", "Thr", "", "", "protein_xref_uniprotkb", "O08837", "protein_xref_uniprotkb", "O08837", "Phosphothreonine", "Phosphothreonine", "" ], [ "O08837-1", "442", "Thr", "", "", "protein_xref_uniprotkb", "O08837", "protein_xref_uniprotkb", "O08837", "Phosphothreonine", "Phosphothreonine", "" ], [ "O08837-1", "415", "Thr", "", "", "protein_xref_uniprotkb", "O08837", "protein_xref_uniprotkb", "O08837", "Phosphothreonine", "Phosphothreonine", "" ], [ "O08837-1", "415", "Thr", "", "", "protein_xref_uniprotkb", "O08837", "protein_xref_uniprotkb", "O08837", "Phosphothreonine", "Phosphothreonine", "" ], [ "O08837-1", "417", "Ser", "", "", "protein_xref_uniprotkb", "O08837", "protein_xref_uniprotkb", "O08837", "Phosphoserine", "Phosphoserine", "" ], [ "O08837-1", "417", "Ser", "", "", "protein_xref_uniprotkb", "O08837", "protein_xref_uniprotkb", "O08837", "Phosphoserine", "Phosphoserine", "" ], [ "O08837-1", "358", "Ser", "", "", "protein_xref_uniprotkb", "O08837", "protein_xref_uniprotkb", "O08837", "Phosphoserine", "Phosphoserine", "" ], [ "O08837-1", "358", "Ser", "", "", "protein_xref_uniprotkb", "O08837", "protein_xref_uniprotkb", "O08837", "Phosphoserine", "Phosphoserine", "" ], [ "O35240-1", "40", "Thr", "", "", "protein_xref_uniprotkb", "O35240", "protein_xref_uniprotkb", "O35240", "Phosphothreonine", "Phosphothreonine; by PKC", "" ], [ "O35240-1", "40", "Thr", "", "", "protein_xref_uniprotkb", "O35240", "protein_xref_uniprotkb", "O35240", "Phosphothreonine", "Phosphothreonine; by PKC", "" ], [ "O35240-1", "523", "Ser", "", "", "protein_xref_uniprotkb", "O35240", "protein_xref_uniprotkb", "O35240", "Phosphoserine", "Phosphoserine; by PKC", "" ], [ "O35240-1", "523", "Ser", "", "", "protein_xref_uniprotkb", "O35240", "protein_xref_uniprotkb", "O35240", "Phosphoserine", "Phosphoserine; by PKC", "" ], [ "O35889-1", "1335", "Ser", "", "", "protein_xref_uniprotkb", "O35889", "protein_xref_uniprotkb", "O35889", "Phosphoserine", "Phosphoserine", "" ], [ "O35889-1", "1335", "Ser", "", "", "protein_xref_uniprotkb", "O35889", "protein_xref_uniprotkb", "O35889", "Phosphoserine", "Phosphoserine", "" ], [ "O35889-1", "1337", "Thr", "", "", "protein_xref_uniprotkb", "O35889", "protein_xref_uniprotkb", "O35889", "Phosphothreonine", "Phosphothreonine", "" ], [ "O35889-1", "1337", "Thr", "", "", "protein_xref_uniprotkb", "O35889", "protein_xref_uniprotkb", "O35889", "Phosphothreonine", "Phosphothreonine", "" ], [ "O35889-1", "589", "Ser", "", "", "protein_xref_uniprotkb", "O35889", "protein_xref_uniprotkb", "O35889", "Phosphoserine", "Phosphoserine", "" ], [ "O35889-1", "589", "Ser", "", "", "protein_xref_uniprotkb", "O35889", "protein_xref_uniprotkb", "O35889", "Phosphoserine", "Phosphoserine", "" ] ] }, "readme": "Name\n - Rat Phosphorylation Sites (UniProtKB)\n\nVersion\n - 1.8.24\n\nCreated on\n - 2019-09-06T14:06:38.959200\n\nModified on\n - 2020-04-10T11:53:53.248846\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 Rat Phosphorylation Sites (UniProtKB) dataset contains rat [taxid:10116] UniProtKB canonical accessions with information on reported and predicted phosphoryation sites with evidence in UniProtKB database. The dataset is derived from 2019-09 UniProtKB release. If you use this dataset please provide proper attribution to EMBL-EBI-UniProtKB and GlyGen\n\nDescription Domain\n Keywords\n - phosphoryation Sites\n - ptm processing\n - UniProtKB\n\n Pipeline Steps\n - Step-1: The script loads the phosphorylation information from the triplestore conatining triples from the nt file and extracts as a csv dataset\n\nExecution Domain\n Scripts - https://github.com/GW-HIVE/glygen-backend-integration/blob/master/pipeline/integrator/make-proteoform-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-rattus-norvegicus.nt\n URI: https://data.glygen.org/ln2data/releases/data/v-1.8.24/source/uniprot-proteome-rattus-norvegicus.nt\n Name: rat_protein_masterlist.csv\n URI: https://data.glygen.org/ln2data/releases/data/v-1.8.24/reviewed/rat_protein_masterlist.csv\n Output Subdomain\n Name: rat_proteoform_phosphorylation_sites_uniprotkb.csv\n URI: http://data.glygen.org/ln2data/releases/data/v-1.8.24/reviewed/rat_proteoform_phosphorylation_sites_uniprotkb.csv\n Name: rat_proteoform_phosphorylation_sites_uniprotkb.stat.csv\n URI: http://data.glygen.org/ln2data/releases/data/v-1.8.24/reviewed/rat_proteoform_phosphorylation_sites_uniprotkb.stat.csv\n\nFields\n Name: \"src_xref_key\"\n Description: \"Source Xref key\"\n Unique Values: \"1\"\n Name: \"xref_id\"\n Description: \"ID of the X-ref\"\n Unique Values: \"119\"\n Name: \"title\"\n Description: \"Title of the published article in the journal\"\n Unique Values: \"119\"\n Name: \"src_xref_id\"\n Description: \"Source X-ref ID\"\n Unique Values: \"120\"\n Name: \"journal_name\"\n Description: \"The name of the journal in which the article is published\"\n Unique Values: \"49\"\n Name: \"authors\"\n Description: \"NA\"\n Unique Values: \"118\"\n Name: \"publication_date\"\n Description: \"Contains the full date on which the issue of the journal was published. Sourced from MEDLINE/PubMed data element(fields) description.\"\n Unique Values: \"117\"\n Name: \"glytoucan_ac\"\n Description: \"Unique accession assigned to the registered glycan structure in GlyTouCan database\"\n Unique Values: \"115\"\n Name: \"xref_key\"\n Description: \"Source key associated to the xref_id\"\n Unique Values: \"1\"", "downloadurl": "/ln2data/releases/data/v-1.8.24/reviewed/rat_proteoform_phosphorylation_sites_uniprotkb.csv" }