{ "bcoid": "GLY_000022", "title": "Mouse Protein Information (NCBI RefSeq)", "description": "The Mouse Protein Information (NCBI RefSeq) dataset contains mouse [taxid:10090] protein information ...", "filename": "mouse_protein_info_refseq.csv", "filetype": "csv", "categories": { "species": "Mus musculus", "molecule": "Protein", "tags": "Protein Information", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "P03888-1...", "NP_904328.1..." ], [ "P03893-1...", "NP_904329.1..." ] ], "headers": [ "uniprotkb_ca...", "p_refseq_ac_..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "p_refseq_ac_best_match" }, { "type": "string", "label": "refseq_protein_name" }, { "type": "string", "label": "refseq_protein_length" }, { "type": "string", "label": "refseq_protein_summary" } ], [ "P03888-1", "NP_904328.1", "NADH dehydrogenase subunit 1", "318", "" ], [ "P03893-1", "NP_904329.1", "NADH dehydrogenase subunit 2", "345", "" ], [ "P00397-1", "NP_904330.1", "cytochrome c oxidase subunit I", "514", "" ], [ "P00405-1", "NP_904331.1", "cytochrome c oxidase subunit II", "227", "" ], [ "P03930-1", "NP_904332.1", "ATP synthase F0 subunit 8", "67", "" ], [ "P00848-1", "NP_904333.1", "ATP synthase F0 subunit 6", "226", "" ], [ "P00416-1", "NP_904334.1", "cytochrome c oxidase subunit III", "261", "" ], [ "P03899-1", "NP_904335.1", "NADH dehydrogenase subunit 3", "115", "" ], [ "P03903-1", "NP_904336.1", "NADH dehydrogenase subunit 4L", "98", "" ], [ "P03911-1", "NP_904337.1", "NADH dehydrogenase subunit 4", "459", "" ], [ "P03921-1", "NP_904338.1", "NADH dehydrogenase subunit 5", "607", "" ], [ "P03925-1", "NP_904339.1", "NADH dehydrogenase subunit 6", "172", "" ], [ "P00158-1", "NP_904340.1", "cytochrome b", "381", "" ], [ "Q3U687-1", "NP_444447.1", "interferon induced protein with tetratricopeptide repeats 1B like 2", "466", "" ], [ "A2AE21-1", "NP_899008.2", "zinc finger protein 300 isoform 2", "645", "" ], [ "Q9D9N2-1", "NP_001075140.1", "claudin 34B2 precursor", "209", "" ], [ "Q9DCP4-1", "NP_001153110.1", "uncharacterized protein LOC74088 isoform 2", "199", "" ], [ "A2ANY3-1", "NP_001162062.1", "uncharacterized protein LOC67715 isoform 1 precursor", "279", "" ], [ "Q3V0S8-1", "NP_001155900.1", "uncharacterized protein LOC69324 isoform 1", "276", "" ], [ "Q99N18-1", "NP_598888.1", "cytochrome P450, family 4, subfamily f, polypeptide 15 isoform 1", "534", "" ], [ "Q8BNV8-1", "NP_001107028.1", "triggering receptor expressed in myeloid cells 4 isoform b precursor", "160", "" ], [ "Q3UH45-1", "NP_001074526.1", "tectonin beta-propeller repeat-containing protein 2 isoform 1", "1423", "" ], [ "E9Q492-1", "NP_001156391.1", "piggyBac transposable element-derived protein 1 isoform a", "415", "" ], [ "Q3UTQ6-1", "NP_001039018.1", "Kruppel-like zinc finger protein", "422", "" ], [ "E9Q4M0-1", "NP_766202.3", "transmembrane protein 44 isoform 2", "433", "" ], [ "Q80ZX2-1", "NP_001139352.1", "zinc finger protein 790", "779", "" ], [ "Q8VI97-1", "NP_001153406.1", "2'-5' oligoadenylate synthetase 1H isoform 2", "239", "" ], [ "Q8BY68-1", "NP_001116067.1", "purinergic receptor P2Y G-protein coupled 10-like", "352", "" ], [ "Q8C7I4-1", "NP_001162131.1", "apolipoprotein L 9b", "310", "" ], [ "Q9D5W6-1", "NP_001157705.1", "solute carrier organic anion transporter family, member 6d1 isoform 2", "650", "" ], [ "J3QML9-1", "NP_001241673.1", "uncharacterized protein LOC319887 isoform 1", "246", "" ], [ "Q9D1U5-1", "NP_001294953.1", "cutA divalent cation tolerance homolog-like isoform 2", "111", "" ], [ "Q6S9I3-1", "NP_958763.1", "kininogen 2 isoform 1 precursor", "644", "" ], [ "E0CX23-1", "NP_001289282.1", "UBAP1-MVB12-associated (UMA)-domain containing protein 1 isoform 1", "159", "" ], [ "Q6PFE7-1", "NP_067411.1", "tomoregulin-1 isoform 2 precursor", "372", "" ], [ "Q14BI1-1", "NP_001103710.1", "sodium/potassium/calcium exchanger 2 isoform 2", "711", "" ], [ "E9Q9Y3-1", "NP_001161841.1", "uncharacterized protein LOC75453 isoform 1", "381", "" ], [ "A2AJB9-1", "NP_001263377.1", "epididymal-specific lipocalin-6 isoform 1 precursor", "245", "" ], [ "Q9CQ47-1", "NP_080009.1", "uncharacterized protein LOC66732", "274", "" ], [ "Q05AC5-1", "NP_080524.2", "uncharacterized protein LOC67575", "485", "" ], [ "Q24JP3-1", "NP_001119518.1", "protein FAM178B isoform A", "523", "" ], [ "E9Q3H6-1", "NP_001074509.1", "coenzyme Q-binding protein COQ10 homolog A, mitochondrial isoform 1", "259", "" ], [ "B8QI36-1", "NP_001138327.1", "liprin-alpha-4 isoform 1", "1187", "" ], [ "E9Q3R6-1", "NP_001158047.1", "zinc finger protein 169 isoform a", "731", "" ], [ "Q9JJT2-1", "NP_001129535.1", "GDNF family receptor alpha-4 isoform 1 precursor", "293", "This gene encodes a transmembrane protein that functions as the receptor for persephin, a member of the glial cell line derived neurotrophic factors. The encoded protein undergoes proteolytic processing to generate a glycosylphosphatidylinositol-anchored cell surface coreceptor that forms a complex with the receptor tyrosine kinase Ret. A complete lack of the encoded protein impairs production of thyroid calcitonin and increases the rate of bone formation in young mice. [provided by RefSeq, Jul 2016]. " ], [ "Q8BKP2-1", "NP_001276830.1", "zinc finger protein 189", "608", "" ], [ "Q8VCG1-1", "NP_001153118.1", "deoxyuridine 5'-triphosphate nucleotidohydrolase, mitochondrial isoform 1", "200", "" ], [ "A2A590-1", "NP_081433.2", "keratin associated protein 1-5", "122", "" ], [ "E9PUA5-1", "NP_444403.2", "kinesin family member C5B", "672", "" ], [ "J3QNX6-1", "NP_001177947.1", "keratin associated protein 22-2", "67", "" ], [ "Q9DB24-1", "NP_079631.2", "transcription elongation factor A (SII)-like 6", "200", "" ], [ "Q9CQH1-1", "NP_079910.1", "uncharacterized protein LOC66561", "294", "" ], [ "B1AQ85-1", "NP_081083.2", "keratin associated protein 4-2", "167", "" ], [ "Q5GLZ0-1", "NP_001011707.1", "cytochrome P450, family 2, subfamily c, polypeptide 66 precursor", "490", "" ], [ "Q8BS30-1", "NP_059086.3", "semenogelin I precursor", "375", "" ], [ "Q9CR99-1", "NP_001155245.1", "ras homolog gene family, member A-like", "193", "" ], [ "G5E8J6-1", "NP_034603.2", "sarcoplasmic reticulum histidine-rich calcium-binding protein precursor", "738", "" ], [ "E9PVZ2-1", "NP_001157088.1", "transmembrane protein 273 precursor", "95", "" ], [ "Q9R0T7-1", "NP_035776.1", "trypsin 4 precursor", "246", "" ], [ "Q9CPT7-1", "NP_080539.1", "uncharacterized protein LOC67593", "205", "" ], [ "Q0VF76-1", "NP_080627.2", "tetratricopeptide repeat domain 39D", "604", "" ], [ "Q9DAC6-1", "NP_081339.1", "uncharacterized protein LOC69380", "286", "" ], [ "Q14BX6-1", "NP_080022.2", "protein phosphatase 1, regulatory (inhibitor) subunit 14B-like", "153", "" ], [ "L7MTU6-1", "NP_032362.2", "interferon alpha family, gene B precursor", "190", "" ], [ "D3Z393-1", "NP_001094901.1", "MKRN2 opposite strand protein", "217", "" ], [ "Q810M4-1", "NP_081582.1", "zinc finger, DHHC domain containing 25", "279", "" ], [ "Q3ULP7-1", "NP_081620.2", "cathepsin L-like 3 precursor", "331", "" ], [ "Q9D6S9-1", "NP_081431.1", "uncharacterized protein LOC69661", "174", "" ], [ "Q3V4B7-1", "NP_081110.1", "keratin associated protein 4-6", "195", "" ], [ "Q14B01-1", "NP_079801.2", "ring finger protein 113A2", "337", "" ], [ "B1ATY8-1", "NP_932112.2", "ADP-ribosylation factor-like protein 16", "173", "" ], [ "G3X9T2-1", "NP_001004139.2", "zinc finger protein 91", "1161", "" ], [ "B9EJP6-1", "NP_080670.2", "late cornified envelope 1F", "147", "" ], [ "Q9CR05-1", "NP_080013.1", "JNK1/MAPK8-associated membrane protein-like", "305", "" ], [ "S4R2K0-1", "NP_080789.2", "peptide deformylase, mitochondrial", "231", "" ], [ "Q9CPU1-1", "NP_080768.1", "synovial sarcoma, X member B1", "170", "" ], [ "K7N6B6-1", "NP_001160314.1", "vomeronasal 1 receptor 168", "309", "" ], [ "D3YTY2-1", "NP_001160218.1", "vomeronasal 1 receptor 111", "306", "" ], [ "E9PUR0-1", "NP_780584.2", "ankyrin repeat and KH domain-containing protein 1", "2548", "" ], [ "Q6IMH7-1", "NP_001009545.1", "a disintegrin and metalloproteinase domain 6-like", "756", "" ], [ "A7VMS2-1", "NP_001186896.1", "predicted gene 11127 precursor", "374", "" ], [ "Q3UYP3-1", "NP_941019.2", "TSPY-like 3", "334", "" ], [ "J3KMI7-1", "NP_001186260.1", "uncharacterized protein LOC100040022", "228", "" ], [ "Q8CA09-1", "NP_808369.1", "uncharacterized protein LOC235327", "118", "" ] ] }, "readme": "Name\n - Mouse Protein Information (NCBI RefSeq)\n\nVersion\n - 1.8.25\n\nCreated on\n - 2019-01-23T17:21:05.888176\n\nModified on\n - 2020-04-10T12:31:52.568731\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 - \n\nChecksum\n - \n\nUsability Domain\n - The Mouse Protein Information (NCBI RefSeq) dataset contains mouse [taxid:10090] protein information such as protein accession, name, length and protein function summary from NCBI RefSeq database. The dataset is derived from NCBI RefSeq Release 96, September 9, 2019. If you use this dataset please provide proper attribution to NCBI RefSeq and GlyGen\n\nDescription Domain\n Keywords\n - protein information\n - protein length\n - protein summary\n - NCBI RefSeq\n\n Pipeline Steps\n - Step-1: The script parses the NCBI RefSeq gpff files to extract the accession, length, protein summary and then maps the NCBI RefSeq accesion to the UniProtKB Canonical accessions\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: refseq_protein_all_10090.gpff\n URI: https://data.glygen.org/ln2wwwdata/source/refseq_protein_all_10090.gpff\n Name: mouse_protein_xref_refseq.csv\n URI: https://data.glygen.org/ln2wwwdata/reviewed/mouse_protein_xref_refseq.csv\n Output Subdomain\n Name: mouse_protein_info_refseq.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/mouse_protein_info_refseq.csv\n Name: mouse_protein_info_refseq.stat.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/mouse_protein_info_refseq.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-1.8.25/reviewed/mouse_protein_info_refseq.csv" }