{ "bcoid": "GLY_000275", "title": "Rat Protein Information (NCBI RefSeq)", "description": "The Rat Protein Information (NCBI RefSeq) dataset contains rat [taxid:10116] protein information such ...", "filename": "rat_protein_info_refseq.csv", "filetype": "csv", "categories": { "species": "Rattus norvegicus", "molecule": "Protein", "tags": "Protein Information", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "D3ZY74-1...", "NP_001102721..." ], [ "D4ACA1-1...", "NP_001102905..." ] ], "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" } ], [ "D3ZY74-1", "NP_001102721", "FANCD2 opposite strand protein", "178", "" ], [ "D4ACA1-1", "NP_001102905", "NXPE family member 3", "559", "" ], [ "A0A0G2JX63-1", "NP_001128066", "choline transporter-like protein 5", "630", "" ], [ "F1LST7-1", "NP_001163899", "coiled-coil domain-containing protein 185", "621", "" ], [ "M0RBP3-1", "NP_001128107", "NXPE family member 1", "498", "" ], [ "D3ZZ26-1", "NP_001103034", "protein phosphatase 1 regulatory subunit 3D", "279", "" ], [ "D4A504-1", "NP_001099806", "membrane-spanning 4-domains subfamily A member 10", "232", "" ], [ "D4A5J1-1", "NP_001100796", "kelch repeat and BTB domain-containing protein 11", "633", "" ], [ "M0R5M5-1", "NP_001101592", "jerky protein homolog-like", "524", "" ], [ "Q8K560-1", "NP_631927", "otospiralin precursor", "89", "mouse homolog is necessary for the survival of the neurosensory epithelium [RGD, Feb 2006]. " ], [ "O70467-1", "NP_446009", "protein arginine N-methyltransferase 3", "528", "catalyzes the asymmetric NG, NG-dimethylation of arginine residues [RGD, Feb 2006]. " ], [ "Q64380-1", "NP_446116", "sarcosine dehydrogenase, mitochondrial", "919", "a flavoenzyme involved in the oxidative degradation of choline to glycine [RGD, Feb 2006]. " ], [ "F1M6B3-1", "NP_001258269", "uncharacterized protein C12orf45 homolog", "188", "" ], [ "P14882-1", "NP_062203", "propionyl-CoA carboxylase alpha chain, mitochondrial", "723", "alpha subunit of propionyl coenzyme A carboxylase, which catalyzes the conversion of ATP, propanoyl-CoA, and HCO3- to ADP, phosphate, and (S)-methylmalonyl-CoA [RGD, Feb 2006]. " ], [ "M0R933-1", "NP_001102796", "keratin-associated protein 14", "168", "" ], [ "D3ZEF2-1", "NP_001103613", "claudin-22", "220", "" ], [ "D3ZD67-1", "NP_001102812", "preferentially expressed antigen in melanoma-like 6", "492", "" ], [ "M0RC38-1", "NP_001099366", "keratin-associated protein 15-1", "150", "" ], [ "Q6QI72-1", "NP_001171299", "uncharacterized protein LOC100364769", "436", "" ], [ "Q6TUG8-1", "NP_001171295", "uncharacterized protein LOC100363193", "546", "" ], [ "A0A0G2K0D9-1", "NP_001101981", "tumor necrosis factor receptor superfamily member 26 precursor", "191", "" ], [ "Q6TXH7-1", "NP_001171296", "uncharacterized protein LOC100363289", "191", "" ], [ "Q6QI15-1", "NP_001041439", "uncharacterized protein LOC680227", "396", "" ], [ "D4A6M8-1", "NP_001100411", "melanoma-associated antigen E2", "523", "" ], [ "D4A4T3-1", "NP_001100437", "uncharacterized protein LOC302773", "1250", "" ], [ "D4AAN7-1", "NP_001102836", "claudin 34A", "211", "" ], [ "D4A1T4-1", "NP_001156407", "cortexin-2", "82", "" ], [ "D3ZYY6-1", "NP_001100438", "uncharacterized protein LOC302776", "676", "" ], [ "Q6TXE6-1", "NP_001171334", "uncharacterized protein LOC100360244", "125", "" ], [ "Q6TXI9-1", "NP_001232853", "uncharacterized protein LOC100362981 precursor", "103", "" ], [ "M0R7U6-1", "NP_001102834", "ankyrin repeat domain-containing protein SOWAHC", "516", "" ], [ "D3ZYG4-1", "NP_001102872", "claudin 34D", "210", "" ], [ "D4A2S9-1", "NP_001102885", "uncharacterized protein LOC680489", "212", "" ], [ "D3ZF25-1", "NP_001102804", "RING finger protein 225", "330", "" ], [ "Q6TUG9-1", "NP_001171287", "uncharacterized protein LOC100361645", "584", "" ], [ "Q6QI36-1", "NP_001274550", "uncharacterized protein LOC102547344", "135", "" ], [ "Q6QI20-1", "NP_001274546", "uncharacterized protein LOC102550396", "179", "" ], [ "G3V7N6-1", "NP_001300869", "membrane bound O-acyltransferase domain containing 7-like 1", "473", "" ], [ "D3ZK65-1", "NP_001102929", "uncharacterized protein LOC685171", "139", "" ], [ "D4A0V1-1", "NP_001102712", "uncharacterized protein LOC500204", "305", "" ], [ "D4AEK4-1", "NP_001102485", "transcription elongation factor A N-terminal and central domain-containing protein", "358", "" ], [ "O70149-1", "NP_001020306", "keratin associated protein 1-5", "122", "" ], [ "Q7TPI6-1", "NP_001306574", "uncharacterized protein LOC103695172", "219", "" ], [ "Q7TPK4-1", "NP_001316826", "calsequestrin-1-like", "332", "" ], [ "D3ZPP6-1", "NP_001102101", "probable E3 ubiquitin-protein ligase HERC3", "1050", "" ], [ "D4AD16-1", "NP_001001354", "olfactory receptor Olr917", "311", "Olfactory receptors interact with odorant molecules in the nose, to initiate a neuronal response that triggers the perception of a smell. The olfactory receptor proteins are members of a large family of G-protein-coupled receptors (GPCR) arising from single coding-exon genes. Olfactory receptors share a 7-transmembrane domain structure with many neurotransmitter and hormone receptors and are responsible for the recognition and G protein-mediated transduction of odorant signals. The olfactory receptor gene family is the largest in the genome. The nomenclature assigned to the olfactory receptor genes and proteins for this organism is independent of other organisms. [provided by RefSeq, Jul 2008]. " ], [ "B3DMA6-1", "NP_001101547", "actin-like protein 9", "415", "" ], [ "A0A0G2K2K4-1", "NP_001101108", "sex comb on midleg-like protein 4", "369", "" ], [ "A0A0G2K4I9-1", "NP_001041313", "coagulation factor XI", "556", "" ], [ "Q767I8-1", "NP_955780", "protocadherin alpha 11 precursor", "947", "" ], [ "D4AC39-1", "NP_001102630", "leucine-rich repeat transmembrane protein FLRT1", "674", "" ], [ "D4A2B4-1", "NP_001103614", "putative claudin-24", "220", "" ], [ "D3ZAQ8-1", "NP_001100441", "dual specificity protein phosphatase 21", "189", "" ], [ "D3ZQT2-1", "NP_001102944", "uncharacterized protein LOC685544", "230", "" ], [ "D3ZHE1-1", "NP_001099465", "kelch-like protein 8", "621", "" ], [ "D3Z8H9-1", "NP_001102519", "coiled-coil domain-containing protein 103", "237", "" ], [ "D3Z826-1", "NP_001102566", "probable G-protein coupled receptor 75", "540", "" ], [ "D3ZAC5-1", "NP_001102866", "dnaJ homolog subfamily B member 3", "241", "" ], [ "D3ZC97-1", "NP_001102612", "regulator of G-protein signaling 9-binding protein", "237", "" ], [ "D4A6L7-1", "NP_001100582", "claudin-17", "224", "" ], [ "D3ZU26-1", "NP_001102681", "class E basic helix-loop-helix protein 23", "223", "" ], [ "D4A138-1", "NP_001099415", "nanos homolog 3", "178", "" ], [ "D3ZRI9-1", "NP_001100904", "gigaxonin", "603", "" ], [ "D4AEH8-1", "NP_001101545", "sphingosine 1-phosphate receptor 4", "413", "" ], [ "D4ADR3-1", "NP_001102665", "RING finger protein 208", "265", "" ], [ "B1WC74-1", "NP_001102675", "EP300-interacting inhibitor of differentiation 1", "159", "" ], [ "D4A7Q5-1", "NP_001102368", "probable ATP-dependent RNA helicase DDX28", "540", "" ], [ "D4A114-1", "NP_001102450", "fer3-like protein", "166", "" ], [ "A0A0G2K946-1", "NP_001102003", "testican-2 precursor", "425", "" ], [ "D3ZP93-1", "NP_001099693", "flt3-interacting zinc finger protein 1", "497", "" ], [ "D4A1E1-1", "NP_001099270", "zinc finger MYND domain-containing protein 15", "738", "" ], [ "B2GV63-1", "NP_001103109", "carbohydrate sulfotransferase 14", "375", "" ], [ "D3ZBH0-1", "NP_001128093", "cyclic AMP-responsive element-binding protein 5", "561", "" ], [ "D3ZCT9-1", "NP_001102917", "galactosylceramide sulfotransferase", "455", "" ], [ "M0R5G2-1", "NP_001102640", "gem-associated protein 7", "143", "" ], [ "A0A0G2JZX7-1", "NP_001099998", "zinc finger protein PLAGL2", "175", "" ], [ "A0A0G2K543-1", "NP_001128053", "C2 domain-containing protein 5", "1037", "" ], [ "D3ZVG1-1", "NP_001100351", "molybdenum cofactor biosynthesis protein 1", "480", "" ], [ "D3ZN46-1", "NP_001123982", "dnaJ homolog subfamily B member 7", "303", "" ], [ "F1LY78-1", "NP_001178918", "probable E3 ubiquitin-protein ligase DTX3", "347", "" ], [ "D3ZZW1-1", "NP_001137330", "dedicator of cytokinesis protein 1", "1864", "" ], [ "D3ZJB1-1", "NP_001102114", "microfibrillar-associated protein 5 precursor", "166", "" ], [ "D4AEL1-1", "NP_001101049", "paraneoplastic antigen-like protein 5", "436", "" ], [ "D3ZIP6-1", "NP_001103070", "disintegrin and metalloproteinase domain-containing protein 30 precursor", "726", "" ] ] }, "readme": "Name\n - Rat Protein Information (NCBI RefSeq)\n\nVersion\n - 1.11.2\n\nCreated on\n - 2019-09-06T14:06:39.001496\n\nModified on\n - 2020-04-10T12:10:02.728045\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], Karina Martinez [karinamartinez@gwu.edu], Amanda Bell [amandab2140@gwu.edu], Jonathon Keeney [keeneyjg@gwu.edu], Millicent Quartey [mquartey@email.gwu.edu]\n\nAuthors\n - \n\nChecksum\n - \n\nUsability Domain\n - The Rat Protein Information (NCBI RefSeq) dataset contains rat [taxid:10116] 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 - NCBI RefSeq\n - protein summary\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_10116.gpff\n URI: https://data.glygen.org//ln2downloads/ncbi/refseq/2020_12/refseq_protein_all_10116.gpff\n Output Subdomain\n Name: rat_protein_info_refseq.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/rat_protein_info_refseq.csv\n Name: rat_protein_info_refseq.stat.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/rat_protein_info_refseq.stat.csv", "downloadurl": "/ln2data/releases/data/v-1.12.1/reviewed/rat_protein_info_refseq.csv" }