{ "bcoid": "GLY_000413", "title": "SARS-CoV1 Protein Alternative Name (UniProtKB)", "description": "The SARS coronavirus (SARS-CoV-1) Protein Alternative Name (UniProtKB) dataset contains UniProtKB alternative ...", "filename": "sarscov1_protein_altnames.csv", "filetype": "csv", "categories": { "species": "SARS coronavirus (SARS-CoV-1)", "molecule": "Protein", "tags": "Protein Alternative Names", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "P59596-1...", "Matrix glyco..." ], [ "P59596-1...", "Membrane gly..." ] ], "headers": [ "uniprotkb_ca...", "alternative_..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "alternative_name_full" }, { "type": "string", "label": "alternative_name_short" }, { "type": "string", "label": "ec_name" } ], [ "P59596-1", "Matrix glycoprotein", "", "" ], [ "P59596-1", "Membrane glycoprotein", "", "" ], [ "P59596-1", "E1 glycoprotein", "", "" ], [ "P0C6U8-1", "Papain-like proteinase", "PL-PRO", "" ], [ "P0C6U8-1", "Growth factor-like peptide", "GFL", "" ], [ "P0C6U8-1", "Main protease", "Mpro", "" ], [ "P0C6U8-1", "Non-structural protein 5", "nsp5", "" ], [ "P0C6U8-1", "Leader protein", "", "" ], [ "P0C6U8-1", "PL2-PRO", "", "" ], [ "P0C6U8-1", "ORF1a polyprotein", "", "" ], [ "P0C6U8-1", "p65 homolog", "", "" ], [ "P0C6U8-1", "SARS coronavirus main proteinase", "", "" ], [ "P59594-1", "E2", "", "" ], [ "P59594-1", "Peplomer protein", "", "" ], [ "P59595-1", "Nucleocapsid protein", "NC", "" ], [ "P59595-1", "Nucleocapsid protein", "Protein N", "" ], [ "Q80H93-1", "Non-structural protein 8b", "ns8b", "" ], [ "Q80H93-1", "Accessory protein 8b", "", "" ], [ "P59635-1", "Protein U122", "", "" ], [ "P59635-1", "Protein X4", "", "" ], [ "P59635-1", "Accessory protein 7a", "", "" ], [ "Q7TFA1-1", "Accessory protein 7b", "", "" ], [ "Q7TFA0-1", "Protein non-structural 8a", "ns8a", "" ], [ "Q7TFA0-1", "Accessory protein 8a", "", "" ], [ "P59633-1", "Non-structural protein 3b", "ns3b", "" ], [ "P59633-1", "Accessory protein 3b", "", "" ], [ "P59633-1", "Protein X2", "", "" ], [ "P59632-1", "Protein U274", "", "" ], [ "P59632-1", "Protein X1", "", "" ], [ "P59632-1", "Accessory protein 3a", "", "" ], [ "P59632-1", "Protein 3a", "", "" ], [ "P59636-1", "Accessory protein 9b", "", "" ], [ "P59636-1", "ORF-9b", "", "" ], [ "P59636-1", "Protein 9b", "", "" ], [ "P0C6X7-1", "Growth factor-like peptide", "GFL", "" ], [ "P0C6X7-1", "Main protease", "Mpro", "" ], [ "P0C6X7-1", "Papain-like proteinase", "PL-PRO", "" ], [ "P0C6X7-1", "Non-structural protein 14", "nsp14", "" ], [ "P0C6X7-1", "Non-structural protein 15", "nsp15", "" ], [ "P0C6X7-1", "Non-structural protein 13", "nsp13", "" ], [ "P0C6X7-1", "Non-structural protein 12", "nsp12", "" ], [ "P0C6X7-1", "Non-structural protein 1", "nsp1", "" ], [ "P0C6X7-1", "Non-structural protein 16", "nsp16", "" ], [ "P0C6X7-1", "Non-structural protein 5", "nsp5", "" ], [ "P0C6X7-1", "Leader protein", "", "" ], [ "P0C6X7-1", "PL2-PRO", "", "" ], [ "P0C6X7-1", "ORF1ab polyprotein", "", "" ], [ "P0C6X7-1", "NendoU", "", "" ], [ "P0C6X7-1", "p65 homolog", "", "" ], [ "P0C6X7-1", "SARS coronavirus main proteinase", "", "" ], [ "P0C6X7-1", "Guanine-N7 methyltransferase", "", "" ], [ "P59634-1", "Non-structural protein 6", "ns6", "" ], [ "P59634-1", "Accessory protein 6", "", "" ], [ "P59634-1", "Protein X3", "", "" ] ] }, "readme": "Name\n - SARS-CoV1 Protein Alternative Name (UniProtKB)\n\nVersion\n - 1.8.24\n\nCreated on\n - 2020-04-02T22:40:11.377827\n\nModified on\n - 2020-04-09T18:18:05.800985\n\nCreated by\n - Jeet Vora [jeetvora@gwu.edu], Rahi Navelkar [rsn13@gwu.edu], Robel Kahsay [rykahsay@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 SARS coronavirus (SARS-CoV-1) Protein Alternative Name (UniProtKB) dataset contains UniProtKB alternative names for sarscov1 [taxid:694009] proteins. The dataset is derived from 2020-01 UniProtKB release. If you use this dataset please provide proper attribution to EMBL-EBI-UniProtKB and GlyGen\n\nDescription Domain\n Keywords\n - protein alternative name\n - UniProtKB\n\n Pipeline Steps\n - Step-1: The script loads the UniProtKB alternative names for protein accessions from the triplestore containing triples from nt file and extracts the alternative protein names into csv dataset file\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-human-sars-coronavirus.nt\n URI: https://data.glygen.org/ln2data/releases/data/v-1.8.24/source/uniprot-proteome-human-sars-coronavirus.nt\n Name: sarscov1_protein_masterlist.csv\n URI: https://data.glygen.org/ln2data/releases/data/v-1.8.24/reviewed/sarscov1_protein_masterlist.csv\n Output Subdomain\n Name: sarscov1_protein_altnames.csv\n URI: http://data.glygen.org/ln2data/releases/data/v-1.8.24/reviewed/sarscov1_protein_altnames.csv\n Name: sarscov1_protein_altnames.stat.csv\n URI: http://data.glygen.org/ln2data/releases/data/v-1.8.24/reviewed/sarscov1_protein_altnames.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/sarscov1_protein_altnames.csv" }