{ "bcoid": "GLY_000244", "title": "Rat Proteome Masterlist (UniProtKB)", "description": "The Rat Proteome Masterlist dataset contains rat [taxid:10116] UniProtKB canonical accessions mapped ...", "filename": "rat_protein_masterlist.csv", "filetype": "csv", "categories": { "species": "Rattus norvegicus", "molecule": "Protein", "tags": "Protein Canonical Accessions", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "D3ZB44-1...", "unreviewed..." ], [ "Q64627-1...", "reviewed..." ] ], "headers": [ "uniprotkb_ca...", "status..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "status" }, { "type": "string", "label": "gene_name" }, { "type": "string", "label": "reviewed_isoforms" }, { "type": "string", "label": "unreviewed_isoforms" } ], [ "D3ZB44-1", "unreviewed", "Zfp324", "", "D3ZB44-1" ], [ "Q64627-1", "reviewed", "Neu2", "Q64627-1", "Q5BK97-1" ], [ "D3ZB48-1", "unreviewed", "Hook1", "", "D3ZB48-1" ], [ "A0A0G2JVG5-1", "unreviewed", "LOC102552378", "", "A0A0G2JVG5-1" ], [ "A0A0G2JVG6-1", "unreviewed", "", "", "A0A0G2JVG6-1" ], [ "P30938-1", "reviewed", "Sstr5", "P30938-1", "A0A0G2K3H3-1" ], [ "P30938-1", "reviewed", "Sstr5", "", "G3V8G3-1" ], [ "A0A0G2JVG8-1", "unreviewed", "Olr410", "", "A0A0G2JVG8-1" ], [ "Q07969-1", "reviewed", "Cd36", "Q07969-1", "A0A096MIY7-1" ], [ "Q07969-1", "reviewed", "Cd36", "", "A0A096MJ39-1" ], [ "Q07969-1", "reviewed", "Cd36", "", "A0A0G2JYC5-1" ], [ "Q07969-1", "reviewed", "Cd36", "", "D4A8Z2-1" ], [ "Q07969-1", "reviewed", "Cd36", "", "Q6IMX5-1" ], [ "A0A096MJY8-1", "unreviewed", "Acat2l1", "", "A0A096MJY8-1" ], [ "A0A096MJY8-1", "unreviewed", "Acat2l1", "", "D3ZKB6-1" ], [ "A0A096MJY4-1", "reviewed", "Mef2c", "A0A096MJY4-1", "A0A096MJ09-1" ], [ "A0A096MJY4-1", "reviewed", "Mef2c", "", "A0A096MJ23-1" ], [ "A0A096MJY4-1", "reviewed", "Mef2c", "", "A0A096MJD9-1" ], [ "A0A096MJY4-1", "reviewed", "Mef2c", "", "A0A096MJZ6-1" ], [ "A0A096MJY4-1", "reviewed", "Mef2c", "", "A0A096MK01-1" ], [ "A0A096MJY4-1", "reviewed", "Mef2c", "", "A0A096MK43-1" ], [ "A0A096MJY4-1", "reviewed", "Mef2c", "", "A0A096MK88-1" ], [ "A0A096MJY4-1", "reviewed", "Mef2c", "", "A0A096MKI4-1" ], [ "A0A096MJY1-1", "unreviewed", "Gpc6", "", "A0A096MJY1-1" ], [ "A0A096MJY2-1", "unreviewed", "Stoml3", "", "A0A096MJY2-1" ], [ "A0A096MJY2-1", "unreviewed", "Stoml3", "", "D4A100-1" ], [ "F7ES73-1", "unreviewed", "Nub1", "", "F7ES73-1" ], [ "P01946-1", "reviewed", "Hba1", "P01946-1", "" ], [ "P30937-1", "reviewed", "Sstr4", "P30937-1", "" ], [ "O35152-1", "reviewed", "Bet1l", "O35152-1", "A0A0G2JSM4-1" ], [ "P30936-1", "reviewed", "Sstr3", "P30936-1", "" ], [ "O35158-1", "reviewed", "Cdon", "O35158-1", "G3V7K7-1" ], [ "O35158-1", "reviewed", "Cdon", "O35158-2", "" ], [ "P02761-1", "reviewed", "", "P02761-1", "" ], [ "Q9QYH1-1", "reviewed", "Mpp4", "Q9QYH1-1", "D3ZUC7-1" ], [ "Q9QYH1-1", "reviewed", "Mpp4", "Q9QYH1-2", "F1MA44-1" ], [ "Q9QYH1-1", "reviewed", "Mpp4", "Q9QYH1-3", "" ], [ "P02764-1", "reviewed", "Orm1", "P02764-1", "A0A0H2UHF8-1" ], [ "P02767-1", "reviewed", "Ttr", "P02767-1", "" ], [ "D4A4W8-1", "unreviewed", "Tbxt", "", "D4A4W8-1" ], [ "D4A4W9-1", "unreviewed", "", "", "D4A4W9-1" ], [ "D4A4W0-1", "unreviewed", "Olr338", "", "D4A4W0-1" ], [ "D4A4W1-1", "unreviewed", "Fam174b", "", "A0A096MJT8-1" ], [ "D4A4W1-1", "unreviewed", "Fam174b", "", "D4A4W1-1" ], [ "D4A4W2-1", "unreviewed", "Slc47a2", "", "D4A4W2-1" ], [ "F7EN52-1", "unreviewed", "Cyp46a1", "", "F7EN52-1" ], [ "F7EN52-1", "unreviewed", "Cyp46a1", "", "A0A0G2JWG7-1" ], [ "D4A4W4-1", "unreviewed", "Ephx3", "", "D4A4W4-1" ], [ "D4A4W5-1", "unreviewed", "Atp10b", "", "D4A4W5-1" ], [ "D4A4W6-1", "unreviewed", "Slirp", "", "D4A4W6-1" ], [ "D4A4W7-1", "unreviewed", "Mgarp", "", "D4A4W7-1" ], [ "G3V6I3-1", "unreviewed", "Cwc25", "", "G3V6I3-1" ], [ "G3V6I6-1", "unreviewed", "Adipor1", "", "G3V6I6-1" ], [ "G3V6I4-1", "unreviewed", "Marc1", "", "G3V6I4-1" ], [ "P39020-1", "reviewed", "Meox2", "P39020-1", "G3V6T9-1" ], [ "Q0HA29-1", "reviewed", "Nmnat2", "Q0HA29-1", "A0A0U1RRT0-1" ], [ "Q0HA29-1", "reviewed", "Nmnat2", "", "F1LPZ7-1" ], [ "A0A0G2K0T8-1", "unreviewed", "Fam25a", "", "A0A0G2K0T8-1" ], [ "A0A0G2K0T4-1", "unreviewed", "", "", "A0A0G2K0T4-1" ], [ "A0A0G2K0T7-1", "unreviewed", "Zfp35", "", "A0A096MJ05-1" ], [ "A0A0G2K0T7-1", "unreviewed", "Zfp35", "", "A0A0G2K0T7-1" ], [ "P01237-1", "reviewed", "Prl", "P01237-1", "" ], [ "Q4KLI1-1", "reviewed", "Zkscan1", "Q4KLI1-1", "" ], [ "P01230-1", "reviewed", "Lhb", "P01230-1", "F1LQA4-1" ], [ "P09005-1", "reviewed", "", "P09005-1", "" ], [ "M0RB72-1", "unreviewed", "Prr15l", "", "M0RB72-1" ], [ "P09006-1", "reviewed", "Serpina3n", "P09006-1", "" ], [ "M0RB75-1", "unreviewed", "Kdm4b", "", "M0RB75-1" ], [ "M0RB75-1", "unreviewed", "Kdm4b", "", "Q4KM27-1" ], [ "M0RB75-1", "unreviewed", "Kdm4b", "", "A0A0G2JXG2-1" ], [ "F1M9D8-1", "unreviewed", "Gask1a", "", "F1M9D8-1" ], [ "A0A0G2K1A9-1", "unreviewed", "Nol11", "", "A0A0G2K1A9-1" ], [ "Q9JHY8-1", "reviewed", "Lig1", "Q9JHY8-1", "Q566D8-1" ], [ "Q9JHY1-1", "reviewed", "F11r", "Q9JHY1-1", "" ], [ "Q9JHY2-1", "reviewed", "Sfxn3", "Q9JHY2-1", "G3V804-1" ], [ "Q9JHY7-1", "reviewed", "Birc5", "Q9JHY7-1", "M0R8I8-1" ], [ "Q9EQZ1-1", "reviewed", "Tsc22d3", "Q9EQZ1-1", "" ], [ "F1MAA4-1", "unreviewed", "Atp13a2", "", "F1MAA4-1" ], [ "F1MAA4-1", "unreviewed", "Atp13a2", "", "A0A0G2JX15-1" ], [ "Q02874-1", "reviewed", "Macroh2a1", "Q02874-1", "A0A140TAB4-1" ], [ "Q02874-1", "reviewed", "Macroh2a1", "Q02874-2", "" ], [ "F1MAA5-1", "unreviewed", "Rangap1", "", "F1MAA5-1" ], [ "F1MAA5-1", "unreviewed", "Rangap1", "", "Q66H32-1" ], [ "Q05474-1", "reviewed", "Fau", "Q05474-1", "Q5BJN7-1" ] ] }, "readme": "Name\n - Rat Proteome Masterlist (UniProtKB)\n\nVersion\n - 1.8.24\n\nCreated on\n - 2019-09-06T14:06:38.971023\n\nModified on\n - 2020-04-10T11:58:01.582234\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 Proteome Masterlist dataset contains rat [taxid:10116] UniProtKB canonical accessions mapped to the reviewed (SwissProt) and unreviewed (TrEMBL) UniProtKB isoforms via gene grouping. 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 - canonical accessions\n - gene name\n - protein isoforms\n - complete proteome\n - UniProtKB\n\n Pipeline Steps\n - Step-1: The script loads the UniProtKB proteome data from the triplestore containing triples from nt file to map UniProtKB canonical accessions to reviewed and unreviewed isoforms via gene grouping\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 Output Subdomain\n Name: rat_protein_masterlist.csv\n URI: http://data.glygen.org/ln2data/releases/data/v-1.8.24/reviewed/rat_protein_masterlist.csv\n Name: rat_protein_masterlist.stat.csv\n URI: http://data.glygen.org/ln2data/releases/data/v-1.8.24/reviewed/rat_protein_masterlist.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_masterlist.csv" }