{ "bcoid": "GLY_000254", "title": "Mouse Phosphoryation Sites (UniProtKB)", "description": "The Mouse Phosphoryation Sites (UniProtKB) dataset contains mouse [taxid:10090] UniProtKB canonical accessions ...", "filename": "mouse_proteoform_phosphorylation_sites_uniprotkb.csv", "filetype": "csv", "categories": { "species": "Mus Musculus", "molecule": "Proteoform", "tags": "Phosphorylation Sites", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "Q8BKX1-1...", "Baiap2..." ], [ "Q8BKX1-1...", "Baiap2..." ] ], "headers": [ "uniprotkb_ca...", "gene_symbol..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "gene_symbol" }, { "type": "string", "label": "phosphorylated_residue" }, { "type": "string", "label": "amino_acid" }, { "type": "string", "label": "phosphorylation_site_uniprotkb" }, { "type": "string", "label": "protein_kinase" }, { "type": "string", "label": "data_source" }, { "type": "string", "label": "evidence" }, { "type": "string", "label": "eco_id" } ], [ "Q8BKX1-1", "Baiap2", "Phosphothreonine", "Thr", "361", "", "UniProtKB", "Q9UQB8", "ECO_0000250" ], [ "Q8BKX1-1", "Baiap2", "Phosphoserine", "Ser", "455", "", "UniProtKB", "Q9UQB8", "ECO_0000250" ], [ "Q8BKX1-1", "Baiap2", "Phosphoserine", "Ser", "262", "", "UniProtKB", "Q9UQB8", "ECO_0000250" ], [ "Q8BKX1-1", "Baiap2", "Phosphoserine", "Ser", "396", "", "PubMed", "21183079", "ECO_0000244" ], [ "Q8BKX1-1", "Baiap2", "Phosphoserine", "Ser", "337", "", "UniProtKB", "Q9UQB8", "ECO_0000250" ], [ "Q8BKX1-1", "Baiap2", "Phosphoserine", "Ser", "367", "", "UniProtKB", "Q9UQB8", "ECO_0000250" ], [ "Q8BKX1-1", "Baiap2", "Phosphoserine", "Ser", "324", "", "UniProtKB", "Q9UQB8", "ECO_0000250" ], [ "Q8BKX1-1", "Baiap2", "Phosphothreonine", "Thr", "341", "", "UniProtKB", "Q9UQB8", "ECO_0000250" ], [ "Q8BKX1-1", "Baiap2", "Phosphoserine", "Ser", "347", "", "UniProtKB", "Q9UQB8", "ECO_0000250" ], [ "Q8BKX1-1", "Baiap2", "Phosphoserine", "Ser", "326", "", "UniProtKB", "Q9UQB8", "ECO_0000250" ], [ "Q8BKX1-1", "Baiap2", "Phosphoserine", "Ser", "385", "", "UniProtKB", "Q9UQB8", "ECO_0000250" ], [ "P70372-1", "Elavl1", "Phosphoserine", "Ser", "202", "", "PubMed", "21183079", "ECO_0000244" ], [ "Q03160-1", "Grb7", "Phosphotyrosine;", "Tyr", "341", "", "UniProtKB", "Q14451", "ECO_0000250" ], [ "Q03160-1", "Grb7", "Phosphotyrosine;", "Tyr", "341", "", "UniProtKB", "Q14451", "ECO_0000250" ], [ "Q03160-1", "Grb7", "Phosphotyrosine;", "Tyr", "341", "FAK1", "UniProtKB", "Q14451", "ECO_0000250" ], [ "Q03160-1", "Grb7", "Phosphoserine", "Ser", "364", "", "UniProtKB", "Q14451", "ECO_0000250" ], [ "Q03160-1", "Grb7", "Phosphotyrosine;", "Tyr", "187", "", "UniProtKB", "Q14451", "ECO_0000250" ], [ "Q03160-1", "Grb7", "Phosphotyrosine;", "Tyr", "187", "", "UniProtKB", "Q14451", "ECO_0000250" ], [ "Q03160-1", "Grb7", "Phosphotyrosine;", "Tyr", "187", "FAK1", "UniProtKB", "Q14451", "ECO_0000250" ], [ "Q6PDN3-1", "Mylk", "Phosphoserine", "Ser", "1460", "", "PubMed", "21183079", "ECO_0000244" ], [ "Q6PDN3-1", "Mylk", "Phosphoserine", "Ser", "333", "", "PubMed", "21183079", "ECO_0000244" ], [ "Q6PDN3-1", "Mylk", "Phosphoserine", "Ser", "355", "", "PubMed", "17242355", "ECO_0000244" ], [ "Q6PDN3-1", "Mylk", "Phosphoserine", "Ser", "355", "", "PubMed", "21183079", "ECO_0000244" ], [ "Q6PDN3-1", "Mylk", "Phosphoserine", "Ser", "1782", "", "PubMed", "17242355", "ECO_0000244" ], [ "Q6PDN3-1", "Mylk", "Phosphoserine", "Ser", "1782", "", "PubMed", "21183079", "ECO_0000244" ], [ "Q6PDN3-1", "Mylk", "Phosphoserine", "Ser", "1781", "", "PubMed", "21183079", "ECO_0000244" ], [ "Q6PDN3-1", "Mylk", "Phosphoserine", "Ser", "1801", "", "PubMed", "21183079", "ECO_0000244" ], [ "Q6PDN3-1", "Mylk", "Phosphothreonine", "Thr", "1800", "", "PubMed", "21183079", "ECO_0000244" ], [ "Q6PDN3-1", "Mylk", "Phosphoserine", "Ser", "935", "", "PubMed", "21183079", "ECO_0000244" ], [ "Q6PDN3-1", "Mylk", "Phosphoserine", "Ser", "1798", "", "PubMed", "17242355", "ECO_0000244" ], [ "Q6PDN3-1", "Mylk", "Phosphoserine", "Ser", "1798", "", "PubMed", "21183079", "ECO_0000244" ], [ "Q6PDN3-1", "Mylk", "Phosphoserine", "Ser", "1795", "", "PubMed", "21183079", "ECO_0000244" ], [ "Q5EE38-1", "Acd", "Phosphoserine", "Ser", "25", "", "PubMed", "21183079", "ECO_0000244" ], [ "Q5EE38-1", "Acd", "Phosphoserine", "Ser", "317", "", "PubMed", "21183079", "ECO_0000244" ], [ "Q5EE38-1", "Acd", "Phosphoserine", "Ser", "313", "", "PubMed", "21183079", "ECO_0000244" ], [ "Q8C0J2-1", "Atg16l1", "Phosphoserine", "Ser", "287", "", "PubMed", "21183079", "ECO_0000244" ], [ "Q8C0J2-1", "Atg16l1", "Phosphoserine", "Ser", "269", "", "PubMed", "21183079", "ECO_0000244" ], [ "Q8C0J2-1", "Atg16l1", "Phosphoserine", "Ser", "139", "", "UniProtKB", "Q676U5", "ECO_0000250" ], [ "Q9Z0F8-1", "Adam17", "Phosphoserine", "Ser", "794", "", "PubMed", "19144319", "ECO_0000244" ], [ "Q9Z0F8-1", "Adam17", "Phosphothreonine", "Thr", "735", "", "PubMed", "21183079", "ECO_0000244" ], [ "Q9Z0F8-1", "Adam17", "Phosphoserine", "Ser", "770", "", "UniProtKB", "Q9Z1K9", "ECO_0000250" ], [ "P12023-1", "App", "Phosphotyrosine;", "Tyr", "757", "", "PubMed", "11279131", "ECO_0000269" ], [ "P12023-1", "App", "Phosphotyrosine;", "Tyr", "757", "", "PubMed", "11279131", "ECO_0000269" ], [ "P12023-1", "App", "Phosphotyrosine;", "Tyr", "757", "ABL1", "PubMed", "11279131", "ECO_0000269" ], [ "P12023-1", "App", "Phosphoserine", "Ser", "441", "", "PubMed", "21183079", "ECO_0000244" ], [ "Q3UMR0-1", "Ankrd27", "Phosphoserine", "Ser", "969", "", "UniProtKB", "Q96NW4", "ECO_0000250" ], [ "Q3UMR0-1", "Ankrd27", "Phosphoserine", "Ser", "961", "", "PubMed", "17242355", "ECO_0000244" ], [ "Q3UMR0-1", "Ankrd27", "Phosphoserine", "Ser", "961", "", "PubMed", "21183079", "ECO_0000244" ], [ "Q3UMR0-1", "Ankrd27", "Phosphothreonine", "Thr", "1022", "", "UniProtKB", "Q96NW4", "ECO_0000250" ], [ "O08715-1", "Akap1", "Phosphoserine", "Ser", "546", "", "UniProtKB", "Q92667", "ECO_0000250" ], [ "O08715-1", "Akap1", "Phosphoserine", "Ser", "55", "", "PubMed", "17242355", "ECO_0000244" ], [ "O08715-1", "Akap1", "Phosphoserine", "Ser", "55", "", "PubMed", "21183079", "ECO_0000244" ], [ "O08715-1", "Akap1", "Phosphoserine", "Ser", "55", "", "PubMed", "18630941", "ECO_0000244" ], [ "O08715-1", "Akap1", "Phosphoserine", "Ser", "101", "", "PubMed", "17242355", "ECO_0000244" ], [ "O08715-1", "Akap1", "Phosphoserine", "Ser", "101", "", "PubMed", "21183079", "ECO_0000244" ], [ "O08715-1", "Akap1", "Phosphoserine", "Ser", "103", "", "PubMed", "17242355", "ECO_0000244" ], [ "O08715-1", "Akap1", "Phosphoserine", "Ser", "103", "", "PubMed", "21183079", "ECO_0000244" ], [ "O08715-1", "Akap1", "Phosphoserine", "Ser", "527", "", "UniProtKB", "Q92667", "ECO_0000250" ], [ "O08715-1", "Akap1", "Phosphothreonine", "Thr", "401", "", "UniProtKB", "Q92667", "ECO_0000250" ], [ "O08715-1", "Akap1", "Phosphoserine", "Ser", "164", "", "UniProtKB", "Q92667", "ECO_0000250" ], [ "O08715-1", "Akap1", "Phosphothreonine", "Thr", "487", "", "UniProtKB", "Q92667", "ECO_0000250" ], [ "P31750-1", "Akt1", "Phosphoserine", "Ser", "124", "", "UniProtKB", "P31749", "ECO_0000250" ], [ "P31750-1", "Akt1", "Phosphotyrosine", "Tyr", "474", "", "UniProtKB", "P31749", "ECO_0000250" ], [ "P31750-1", "Akt1", "Phosphotyrosine;", "Tyr", "176", "", "PubMed", "20333297", "ECO_0000269" ], [ "P31750-1", "Akt1", "Phosphotyrosine;", "Tyr", "176", "", "PubMed", "20333297", "ECO_0000269" ], [ "P31750-1", "Akt1", "Phosphotyrosine;", "Tyr", "176", "TNK2", "PubMed", "20333297", "ECO_0000269" ], [ "P31750-1", "Akt1", "Phosphoserine;", "Ser", "473", "", "PubMed", "20333297", "ECO_0000305" ], [ "P31750-1", "Akt1", "Phosphoserine;", "Ser", "473", "", "PubMed", "20333297", "ECO_0000305" ], [ "P31750-1", "Akt1", "Phosphoserine;", "Ser", "473", "IKKE", "PubMed", "20333297", "ECO_0000305" ], [ "P31750-1", "Akt1", "Phosphoserine;", "Ser", "473", "MTOR", "PubMed", "20333297", "ECO_0000305" ], [ "P31750-1", "Akt1", "Phosphoserine;", "Ser", "473", "TBK1;", "PubMed", "20333297", "ECO_0000305" ], [ "P31750-1", "Akt1", "Phosphoserine;", "Ser", "473", "alternate", "PubMed", "20333297", "ECO_0000305" ], [ "P31750-1", "Akt1", "Phosphoserine;", "Ser", "473", "", "PubMed", "15753085", "ECO_0000305" ], [ "P31750-1", "Akt1", "Phosphoserine;", "Ser", "473", "", "PubMed", "15753085", "ECO_0000305" ], [ "P31750-1", "Akt1", "Phosphoserine;", "Ser", "473", "IKKE", "PubMed", "15753085", "ECO_0000305" ], [ "P31750-1", "Akt1", "Phosphoserine;", "Ser", "473", "MTOR", "PubMed", "15753085", "ECO_0000305" ], [ "P31750-1", "Akt1", "Phosphoserine;", "Ser", "473", "TBK1;", "PubMed", "15753085", "ECO_0000305" ], [ "P31750-1", "Akt1", "Phosphoserine;", "Ser", "473", "alternate", "PubMed", "15753085", "ECO_0000305" ], [ "P31750-1", "Akt1", "Phosphoserine;", "Ser", "473", "", "PubMed", "12783884", "ECO_0000305" ], [ "P31750-1", "Akt1", "Phosphoserine;", "Ser", "473", "", "PubMed", "12783884", "ECO_0000305" ], [ "P31750-1", "Akt1", "Phosphoserine;", "Ser", "473", "IKKE", "PubMed", "12783884", "ECO_0000305" ], [ "P31750-1", "Akt1", "Phosphoserine;", "Ser", "473", "MTOR", "PubMed", "12783884", "ECO_0000305" ], [ "P31750-1", "Akt1", "Phosphoserine;", "Ser", "473", "TBK1;", "PubMed", "12783884", "ECO_0000305" ], [ "P31750-1", "Akt1", "Phosphoserine;", "Ser", "473", "alternate", "PubMed", "12783884", "ECO_0000305" ] ] }, "readme": "Name\n - Mouse Phosphoryation Sites (UniProtKB)\n\nVersion\n - 1.4.5\n\nCreated on\n - 2019-09-06T14:06:38.981217\n\nModified on\n - \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 Mouse Phosphoryation Sites (UniProtKB) dataset contains mouse [taxid:10090] UniProtKB canonical accessions with information on reported and predicted phosphoryation sites with evidence in UniProtKB database. The dataset is derived from 2019-05 UniProt 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-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-10090-mus-musculus-2019-05.nt\n URI: https://data.glygen.org/ln2data/releases/data/v-1.4.5/source/uniprot-proteome-10090-mus-musculus-2019-05.nt\n Name: mouse_protein_idmapping.csv\n URI: https://data.glygen.org/ln2data/releases/data/v-1.4.5/reviewed/mouse_protein_idmapping.csv\n Output Subdomain\n Name: mouse_proteoform_phosphorylation_sites_uniprotkb.csv\n URI: http://data.glygen.org/ln2data/releases/data/v-1.4.5/reviewed/mouse_proteoform_phosphorylation_sites_uniprotkb.csv\n Name: mouse_proteoform_phosphorylation_sites_uniprotkb.stat.csv\n URI: http://data.glygen.org/ln2data/releases/data/v-1.4.5/reviewed/mouse_proteoform_phosphorylation_sites_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: \"7386\"\n Name: \"data_source\"\n Description: \"\"\n Unique Values: \"5\"\n Name: \"phosphorylation_site_uniprotkb\"\n Description: \"\"\n Unique Values: \"2751\"\n Name: \"phosphorylated_residue\"\n Description: \"\"\n Unique Values: \"9\"\n Name: \"amino_acid\"\n Description: \"Three letter abbreviation code of the amino acid\"\n Unique Values: \"5\"\n Name: \"protein_kinase\"\n Description: \"\"\n Unique Values: \"291\"\n Name: \"evidence\"\n Description: \"NCBI PubMed Id (PMID) as evidence for the entry/annotation\"\n Unique Values: \"7142\"\n Name: \"gene_symbol\"\n Description: \"Official gene name/symbol assigned to the gene. Human gene name/symbol are approved by the HUGO Gene Nomenclature Committee (HGNC) and mouse gene name are approved by the Mouse Genome Informatics (MGI)\n Unique Values: \"7332\"\n Name: \"eco_id\"\n Description: \"\"\n Unique Values: \"6\"", "downloadurl": "/ln2data/releases/data/v-1.4.5/reviewed/mouse_proteoform_phosphorylation_sites_uniprotkb.csv" }