{ "bcoid": "GLY_000241", "title": "Rat Protein Information (UniProtKB)", "description": "The Rat Protein Information dataset contains rat [taxid:10116] UniProtKB canonical accessions with their ...", "filename": "rat_protein_info_uniprotkb.csv", "filetype": "csv", "categories": { "species": "Rattus norvegicus", "molecule": "Protein", "tags": "Protein Information", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "Q5RJK9-1...", "Q5RJK9_RAT..." ], [ "Q5RJK8-1...", "ACBD6_RAT..." ] ], "headers": [ "uniprotkb_ca...", "uniprotkb_id..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "uniprotkb_id" }, { "type": "string", "label": "uniprotkb_protein_mass" }, { "type": "string", "label": "uniprotkb_protein_length" } ], [ "Q5RJK9-1", "Q5RJK9_RAT", "39018", "346" ], [ "Q5RJK8-1", "ACBD6_RAT", "30810", "282" ], [ "D3ZZY8-1", "D3ZZY8_RAT", "47190", "419" ], [ "D3ZG10-1", "D3ZG10_RAT", "37534", "327" ], [ "D3ZB44-1", "D3ZB44_RAT", "63800", "581" ], [ "D3ZZY2-1", "D3ZZY2_RAT", "91044", "803" ], [ "Q5RJK0-1", "T106C_RAT", "28908", "260" ], [ "Q5RJK3-1", "TM10B_RAT", "36430", "316" ], [ "P30349-1", "LKHA4_RAT", "69089", "611" ], [ "Q5RJK5-1", "Q5RJK5_RAT", "20811", "183" ], [ "D3ZB48-1", "D3ZB48_RAT", "84372", "728" ], [ "Q5RJK6-1", "Q5RJK6_RAT", "43359", "396" ], [ "A0A096MKC6-1", "A0A096MKC6_RAT", "8532", "77" ], [ "Q6MG55-1", "ABHGA_RAT", "63038", "558" ], [ "Q6MG56-1", "LY66F_RAT", "32615", "293" ], [ "A0A0G2K0H3-1", "A0A0G2K0H3_RAT", "180344", "1613" ], [ "Q5XIH0-1", "MAF1_RAT", "28922", "260" ], [ "Q6MG51-1", "CF047_RAT", "31825", "293" ], [ "F1M2W7-1", "F1M2W7_RAT", "29270", "258" ], [ "Q6MG53-1", "LY65B_RAT", "21588", "194" ], [ "D4AAV0-1", "D4AAV0_RAT", "53062", "467" ], [ "P20961-1", "PAI1_RAT", "45010", "402" ], [ "Q6MG59-1", "G6B_RAT", "25083", "232" ], [ "P01805-1", "HVR01_RAT", "16024", "142" ], [ "Q4KLP0-1", "DHTK1_RAT", "102642", "920" ], [ "M0RAP0-1", "M0RAP0_RAT", "18449", "161" ], [ "M0RAP1-1", "M0RAP1_RAT", "36110", "338" ], [ "M0RAP6-1", "M0RAP6_RAT", "169629", "1506" ], [ "A0A0G2JVG5-1", "A0A0G2JVG5_RAT", "54808", "460" ], [ "A0A0G2JVG6-1", "A0A0G2JVG6_RAT", "72019", "612" ], [ "M0RAP5-1", "M0RAP5_RAT", "211407", "1893" ], [ "A0A0G2JVG8-1", "A0A0G2JVG8_RAT", "34907", "312" ], [ "F1M1W4-1", "F1M1W4_RAT", "36282", "337" ], [ "P34997-1", "CXCR5_RAT", "42013", "374" ], [ "M0R5G7-1", "M0R5G7_RAT", "6961", "67" ], [ "Q9WUD9-1", "SRC_RAT", "59973", "536" ], [ "M0R5G5-1", "M0R5G5_RAT", "271709", "2452" ], [ "Q8R553-1", "CSTN3_RAT", "105945", "957" ], [ "Q925Q4-1", "GPHA2_RAT", "14199", "130" ], [ "Q9QX69-1", "LANC1_RAT", "45240", "399" ], [ "A0A0G2K1J7-1", "A0A0G2K1J7_RAT", "29844", "265" ], [ "P30348-1", "CXCL2_RAT", "10783", "100" ], [ "Q9WUD2-1", "TRPV2_RAT", "86706", "761" ], [ "A0A0G2JUK9-1", "A0A0G2JUK9_RAT", "35325", "315" ], [ "D3ZLV0-1", "D3ZLV0_RAT", "35939", "327" ], [ "Q07969-1", "CD36_RAT", "52731", "472" ], [ "D3ZZY1-1", "D3ZZY1_RAT", "24323", "220" ], [ "D3ZLV5-1", "D3ZLV5_RAT", "152615", "1402" ], [ "A0A096MJY8-1", "A0A096MJY8_RAT", "41289", "397" ], [ "Q8VHI8-1", "SEC20_RAT", "26170", "228" ], [ "D3ZLV9-1", "D3ZLV9_RAT", "68314", "596" ], [ "A0A096MJY4-1", "MEF2C_RAT", "51217", "473" ], [ "O88181-1", "BARH2_RAT", "41463", "384" ], [ "A0A096MJY1-1", "A0A096MJY1_RAT", "62958", "555" ], [ "Q2KMM2-1", "TPPC1_RAT", "16882", "145" ], [ "Q2KN99-1", "CYTSA_RAT", "124338", "1118" ], [ "A0A096MJY2-1", "A0A096MJY2_RAT", "31677", "287" ], [ "D4A838-1", "D4A838_RAT", "35838", "318" ], [ "Q5M808-1", "HIKES_RAT", "21619", "197" ], [ "D3ZKU2-1", "D3ZKU2_RAT", "36197", "316" ], [ "O55043-1", "ARHG7_RAT", "73140", "646" ], [ "A0A0G2K5R6-1", "A0A0G2K5R6_RAT", "26456", "230" ], [ "D4A830-1", "D4A830_RAT", "35047", "304" ], [ "D4A831-1", "D4A831_RAT", "171236", "1522" ], [ "D4A832-1", "D4A832_RAT", "56008", "499" ], [ "D3ZZY5-1", "D3ZZY5_RAT", "101823", "917" ], [ "D4A834-1", "D4A834_RAT", "25534", "225" ], [ "M0R6T1-1", "M0R6T1_RAT", "33291", "293" ], [ "A0A0G2JZ74-1", "A0A0G2JZ74_RAT", "29683", "243" ], [ "B0JYS4-1", "B0JYS4_RAT", "27981", "263" ], [ "A0A0G2K5R4-1", "A0A0G2K5R4_RAT", "208488", "1848" ], [ "O54783-1", "CHKB_RAT", "45100", "394" ], [ "Q6QI33-1", "Q6QI33_RAT", "40173", "357" ], [ "M0RCZ9-1", "M0RCZ9_RAT", "17627", "164" ], [ "M0RCZ7-1", "M0RCZ7_RAT", "14171", "131" ], [ "M0RCZ2-1", "M0RCZ2_RAT", "53643", "508" ], [ "F1M2W3-1", "F1M2W3_RAT", "14782", "135" ], [ "P01946-1", "HBA_RAT", "15329", "142" ], [ "M0RCZ1-1", "M0RCZ1_RAT", "35405", "314" ], [ "P56571-1", "ES1_RAT", "28173", "266" ], [ "P20646-1", "PPAP_RAT", "43850", "381" ], [ "P56573-1", "UH05_RAT", "1269", "10" ], [ "P56572-1", "UH03_RAT", "1255", "12" ], [ "P56575-1", "UH09_RAT", "1029", "8" ] ] }, "readme": "Name\n - Rat Protein Information (UniProtKB)\n\nVersion\n - 1.8.24\n\nCreated on\n - 2019-09-06T14:06:38.968442\n\nModified on\n - 2020-04-10T11:56:50.003593\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 Protein Information dataset contains rat [taxid:10116] UniProtKB canonical accessions with their UniProtKB entry [id/mnemonic] name and properties such as mass and length. 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 - UniProtKB entry id\n - UniProtKB mnemonic name\n - protein length\n - protein mass\n\n Pipeline Steps\n - Step-1: The script loads the UniProtKB entry id/mnemonic name, protein mass and length for all canonical accessions from the triplestore containing triples from nt file and extracts it into a dataset as 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-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_protein_info_uniprotkb.csv\n URI: http://data.glygen.org/ln2data/releases/data/v-1.8.24/reviewed/rat_protein_info_uniprotkb.csv\n Name: rat_protein_info_uniprotkb.stat.csv\n URI: http://data.glygen.org/ln2data/releases/data/v-1.8.24/reviewed/rat_protein_info_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_protein_info_uniprotkb.csv" }