{ "bcoid": "GLY_000394", "title": "Rat Protein Names (NCBI RefSeq)", "description": "The Rat Protein Names (NCBI RefSeq) dataset contains rat [taxid:10116] protein names (primary and other ...", "filename": "rat_protein_proteinnames_refseq.csv", "filetype": "csv", "categories": { "species": [ "Rattus norvegicus" ], "molecule": [ "Protein" ], "tag": [ "Protein Names" ], "file_type": [ "csv" ], "status": [ "Reviewed" ], "scope": [ "internal" ] }, "minitable": { "content": [ [ "Q5RJZ1-1...", "XP_006235834..." ], [ "F1LVT6-1...", "XP_008764072..." ] ], "headers": [ "uniprotkb_ca...", "refseq_ac..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "refseq_ac" }, { "type": "string", "label": "refseq_protein_name" } ], [ "Q5RJZ1-1", "XP_006235834", "regulator of telomere elongation helicase 1 isoform X1" ], [ "F1LVT6-1", "XP_008764072", "sentrin-specific protease 1 isoform X9" ], [ "Q0HA29-1", "NP_001041507", "nicotinamide/nicotinic acid mononucleotide adenylyltransferase 2" ], [ "Q0HA29-1", "NP_001041507", "nicotinamide mononucleotide adenylyltransferase 2; NMN adenylyltransferase 2; naMN adenylyltransferase 1; nicotinate-nucleotide adenylyltransferase 1; naMN adenylyltransferase 2; NMN/NaMN adenylyltransferase 2; nicotinate-nucleotide adenylyltransferase 2" ], [ "P30937-1", "NP_037168", "somatostatin receptor type 4" ], [ "P30937-1", "NP_037168", "Somatostatin receptor subtype 4 Rattus norvegicus Sprague-Dawley major hippocampal somatostatin receptor (SSTR4) mRNA; SS4R; SS4-R; SS-4-R" ], [ "O35152-1", "NP_062241", "BET1-like protein" ], [ "O35152-1", "NP_062241", "golgi SNARE, 15 kD; GOS-15; vesicle transport protein GOS15; golgi SNARE with a size of 15 kDa; Golgi soluble N-ethylmaleimide-sensitive factor attachment protein 15; blocked early in transport 1 homolog like" ], [ "P30936-1", "NP_598206", "somatostatin receptor type 3" ], [ "P30936-1", "NP_598206", "SS3R; SSR-28; SS3-R; SS-3-R; somatostatin receptor 28; somatostatin receptor subtype 3" ], [ "O35158-1", "NP_059054", "cell adhesion molecule-related/down-regulated by oncogenes precursor" ], [ "O35158-1", "NP_059054", "immunoglobulin superfamily member; cell adhesion molecule-related/down-regulated by oncogenes; Cdon homolog" ], [ "P02764-1", "NP_445740", "alpha-1-acid glycoprotein precursor" ], [ "P02764-1", "NP_445740", "alpha-1-acid glycoprotein" ], [ "P02767-1", "NP_036813", "transthyretin precursor" ], [ "P02767-1", "NP_036813", "prealbumin, amyloidosis type I" ], [ "D4A4W8-1", "NP_001099679", "T-box transcription factor T" ], [ "D4A4W8-1", "NP_001099679", "brachyury protein; brachyury homolog; T brachyury transcription factor" ], [ "D4A4W0-1", "NP_001000252", "olfactory receptor Olr338" ], [ "D4A4W0-1", "NP_001000252", "olfactory receptor gene Olr338; olfactory receptor 338" ], [ "D4A4W2-1", "NP_001178849", "multidrug and toxin extrusion protein 2" ], [ "D4A4W2-1", "NP_001178849", "solute carrier family 47 (multidrug and toxin extrusion), member 2" ], [ "D4A4W4-1", "NP_001102458", "epoxide hydrolase 3" ], [ "D4A4W4-1", "NP_001102458", "abhydrolase domain containing 9" ], [ "D4A4W6-1", "NP_001102977", "SRA stem-loop-interacting RNA-binding protein, mitochondrial" ], [ "D4A4W7-1", "NP_001103026", "protein MGARP" ], [ "D4A4W7-1", "NP_001103026", "hypoxia up-regulated mitochondrial movement regulator; ovary-specific acidic protein" ], [ "P01237-1", "NP_036761", "prolactin precursor" ], [ "P01237-1", "NP_036761", "prolactin family 1, subfamily a, member 1; growth hormone a1" ], [ "P01230-1", "NP_001029147", "lutropin subunit beta isoform 2 precursor" ], [ "P01230-1", "NP_001029147", "lutropin subunit beta; LH-B; LSH-B; LSH-beta; lutropin beta chain; luteinizing hormone beta polypeptide; Luteinizing hormone (lutropin) subunit beta; luteinizing hormone beta subunit" ], [ "P09006-1", "NP_113719", "serine protease inhibitor A3N precursor" ], [ "P09006-1", "NP_113719", "serine protease inhibitor 2c; serine protease inhibitor A3N; serpina3n-like protein; SPI-3; serpin A3N; serine protease inhibitor 3; contrapsin-like protease inhibitor 6" ], [ "Q9JHY1-1", "NP_446248", "junctional adhesion molecule A precursor" ], [ "Q9JHY1-1", "NP_446248", "junctional adhesion molecule A; JAM-1; JAM-A; junctional adhesion molecule 1" ], [ "Q9JHY2-1", "NP_075237", "sideroflexin-3" ], [ "Q9JHY2-1", "NP_075237", "tricarboxylate carrier-like protein; solute carrier family 64 member 3" ], [ "Q9JHY7-1", "NP_071610", "baculoviral IAP repeat-containing protein 5" ], [ "Q9JHY7-1", "NP_071610", "apoptosis inhibitor survivin" ], [ "Q9WU49-1", "NP_690003", "calcium-regulated heat stable protein 1" ], [ "Q9WU49-1", "NP_690003", "calcium-regulated heat-stable protein (24kD); calcium-regulated heat-stable protein of 24 kDa" ], [ "F1MAA4-1", "XP_006239308", "polyamine-transporting ATPase 13A2 isoform X1" ], [ "P04757-1", "NP_434692", "neuronal acetylcholine receptor subunit alpha-3 precursor" ], [ "P04757-1", "NP_434692", "neuronal acetylcholine receptor subunit alpha-3; cholinergic receptor, nicotinic, alpha polypeptide 3; Acetylcholine receptor alpha 3 (neuronal nicotine); cetylcholine receptor alpha 3 (neuronal nicotine); acetylcholine receptor alpha3; cholinergic receptor nicotinic alpha polypeptide 4; cholinergic receptor, nicotinic, alpha 3 (neuronal)" ], [ "A0A8I5Y6V4-1", "NP_001102559", "myb/SANT-like DNA-binding domain-containing protein 1" ], [ "A0A8I5Y6V4-1", "NP_001102559", "Myb/SANT-like DNA-binding domain containing 1" ], [ "D3ZGN2-1", "XP_017457136", "copine-5 isoform X2" ], [ "Q9Z0V5-1", "XP_006257013", "peroxiredoxin-4 isoform X1" ], [ "Q9R1N3-1", "NP_001257790", "sodium bicarbonate cotransporter 3 isoform 3" ], [ "Q9R1N3-1", "NP_001257790", "sodium bicarbonate cotransporter 3; NBC-like protein; electroneutral sodium bicarbonate cotransporter 1; solute carrier family 4, sodium bicarbonate cotransporter, member 7; solute carrier family 4 sodium bicarbonate cotransporter member 7 variant NBCn1-J; solute carrier family 4 sodium bicarbonate cotransporter member 7 variant NBCn1-I; solute carrier family 4 sodium bicarbonate cotransporter member 7 variant NBCn1-G" ], [ "D3ZIY3-1", "NP_001102016", "YTH domain-containing family protein 3" ], [ "D3ZIY3-1", "NP_001102016", "YTH domain family protein 3; YTH domain family 3; YTH domain family, member 3; YTH N(6)-methyladenosine RNA binding protein 3" ], [ "Q62952-1", "XP_006254733", "dihydropyrimidinase-related protein 3 isoform X2" ], [ "D3ZFP5-1", "NP_001103108", "Protein RoBo-1-like precursor" ], [ "D3ZFP4-1", "NP_001178734", "DNA replication licensing factor MCM3" ], [ "D3ZFP4-1", "NP_001178734", "minichromosome maintenance deficient 3" ], [ "D3ZFP7-1", "NP_001099755", "protein inscuteable homolog" ], [ "D3ZFP7-1", "NP_001099755", "inscuteable homolog" ], [ "D3ZFP6-1", "XP_218829", "treslin isoform X1" ], [ "D3ZFP1-1", "NP_001128013", "integral membrane protein GPR137C" ], [ "D4A131-1", "NP_001102224", "39S ribosomal protein L4, mitochondrial" ], [ "A0A1W2Q641-1", "NP_001101788", "V-type proton ATPase catalytic subunit A" ], [ "A0A1W2Q641-1", "NP_001101788", "ATPase, H+ transporting, lysosomal V1 subunit A" ], [ "P09875-1", "NP_001178605", "UDP-glucuronosyltransferase 2B10 precursor" ], [ "P09875-1", "NP_001178605", "UDP glycosyltransferase 2 family, polypeptide B10; UDP-glucuronosyltransferase 2B10; UDP glucuronosyltransferase 2 family, polypeptide B34" ], [ "D4A138-1", "NP_001099415", "nanos homolog 3" ], [ "A0A8I6ALX9-1", "NP_001333290", "similar to Gpd1l protein isoform 1" ], [ "D3ZCS5-1", "NP_001099300", "crossover junction endonuclease EME1" ], [ "D3ZCS5-1", "NP_001099300", "essential meiotic endonuclease 1 homolog 1" ], [ "D3ZCS4-1", "NP_001178638", "ras GTPase-activating-like protein IQGAP3" ], [ "D3ZCS6-1", "NP_001099321", "proton channel OTOP2" ], [ "D3ZCS1-1", "XP_017454472", "regulator of G-protein signaling 13" ], [ "D3ZCS3-1", "NP_001178812", "poly(rC)-binding protein 4" ], [ "A0A3B0J1M6-1", "NP_001178847", "complement C1q tumor necrosis factor-related protein 2 precursor" ], [ "A0A3B0J1M6-1", "NP_001178847", "complement C1q tumor necrosis factor-related protein 2; C1q and tumor necrosis factor related protein 2; adiponectin h" ], [ "D3ZCS9-1", "NP_001127979", "5-hydroxyisourate hydrolase" ], [ "A0A0G2KAH3-1", "NP_001101602", "T-box transcription factor TBX20 isoform 2" ], [ "A0A0G2KAH3-1", "NP_001101602", "T-box transcription factor TBX20; T-box 20" ], [ "A0A8I6ACL3-1", "NP_001178817", "transmembrane gamma-carboxyglutamic acid protein 1" ], [ "A0A8I6ACL3-1", "NP_001178817", "proline rich Gla (G-carboxyglutamic acid) 1" ], [ "Q9JIL3-1", "NP_445864", "interleukin enhancer-binding factor 3" ], [ "Q9JIL3-1", "NP_445864", "M phase phosphoprotein 4" ], [ "A0A8I6A636-1", "NP_001013150", "F-box only protein 16" ], [ "Q6P5P5-1", "NP_001009617", "mesoderm-specific transcript homolog protein" ] ] }, "readme": "Name\n - Rat Protein Names (NCBI RefSeq)\n\nVersion\n - v-2.2.1\n\nCreated on\n - 2020-03-15T13:32:44.009025\n\nModified on\n - 2022-09-26T09:05:27.607527\n\nCreated by\n - Jeet Vora [jeetvora@gwu.edu], Robel Kahsay [rykahsay@gwu.edu], Karina Martinez [karinamartinez@gwu.edu], Jingyue Wu [jingyue.wu@email.gwu.edu]\n\nAuthors\n - Not Applicable []\n\nChecksum\n - \n\nUsability Domain\n - The Rat Protein Names (NCBI RefSeq) dataset contains rat [taxid:10116] protein names (primary and other alternative/synonym protein names) 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 names\n - NCBI RefSeq\n\n Pipeline Steps\n - Step-1: The script parses the NCBI RefSeq gpff files to extract the protein names and then maps the NCBI RefSeq accesion to the UniProtKB Canonical accessions\n\nExecution Domain\n Scripts - https://github.com/glygener/glygen-backend-integration/blob/master/dataset-maker/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: rat_protein_xref_refseq.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/rat_protein_xref_refseq.csv\n Output Subdomain\n Name: rat_protein_proteinnames_refseq.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/rat_protein_proteinnames_refseq.csv\n Name: rat_protein_proteinnames_refseq.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/rat_protein_proteinnames_refseq.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"14849\"\n Name: \"refseq_ac\"\n Description: \"Accession in the NCBI RefSeq database\"\n Unique Values: \"17487\"\n Name: \"refseq_protein_name\"\n Description: \"Name of the protein in NCBI RefSeq database\"\n Unique Values: \"28772\"", "downloadurl": "/ln2data/releases/data/v-2.2.1/reviewed/rat_protein_proteinnames_refseq.csv" }