{ "bcoid": "GLY_000235", "title": "Mouse Protein Citations (RefSeq)", "description": "The Mouse Protein Citations (RefSeq) datasets contains mouse [taxid:10090] UniProtKB accessions mapped ...", "filename": "mouse_protein_citations_refseq.csv", "filetype": "csv", "categories": { "species": "Mus Musculus", "molecule": "Protein", "tags": "Protein Citations", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "Q5F2L2-1...", "23986452..." ], [ "Q8VBV4-2...", "29633504..." ] ], "headers": [ "uniprotkb_ca...", "pmid..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "pmid" }, { "type": "string", "label": "title" }, { "type": "string", "label": "journal_name" }, { "type": "string", "label": "publication_date" }, { "type": "string", "label": "authors" } ], [ "Q5F2L2-1", "23986452", "The Lewis X-related alpha1,3-fucosyltransferase, Fut10, is required for the maintenance of stem cell populations.", "The Journal of biological chemistry", "2013 Oct 4", "Kumar A, Torii T, Ishino Y, Muraoka D, Yoshimura T, Togayachi A, Narimatsu H, Ikenaka K, Hitoshi S" ], [ "Q8VBV4-2", "29633504", "FBXW7 deletion contributes to lung tumor development and confers resistance to gefitinib therapy.", "Molecular oncology", "2018 Jun", "Xiao Y, Yin C, Wang Y, Lv H, Wang W, Huang Y, Perez-Losada J, Snijders AM, Mao JH, Zhang P" ], [ "Q8VBV4-2", "29475832", "Hepatic F-Box Protein FBXW7 Maintains Glucose Homeostasis Through Degradation of Fetuin-A.", "Diabetes", "2018 May", "Zhao J, Xiong X, Li Y, Liu X, Wang T, Zhang H, Jiao Y, Jiang J, Zhang H, Tang Q, Gao X, Li X, Lu Y, Liu B, Hu C, Li X" ], [ "Q8VBV4-2", "29550488", "Genetic Deletion of Fbw7 in the mouse intestinal epithelium aggravated dextran sodium sulfate-induced colitis by modulating the inflammatory response of NF-kappaB pathway.", "Biochemical and biophysical research communications", "2018 Apr 15", "Li H, Liang Y, Lai X, Wang W, Zhang J, Chen S" ], [ "Q9JMG3-1", "24240191", "Different functions of HOPS isoforms in the cell: HOPS shuttling isoform is determined by RIP cleavage system.", "Cell cycle (Georgetown, Tex.)", "2014", "Castelli M, Piobbico D, Bartoli D, Pieroni S, Brunacci C, Bellet MM, Chiacchiaretta M, Della Fazia MA, Servillo G" ], [ "Q9JMG3-1", "22890319", "Hepatocyte odd protein shuttling (HOPS) is a bridging protein in the nucleophosmin-p19 Arf network.", "Oncogene", "2013 Jul 11", "Castelli M, Pieroni S, Brunacci C, Piobbico D, Bartoli D, Bellet MM, Colombo E, Pelicci PG, Della Fazia MA, Servillo G" ], [ "Q9JMG3-1", "20582322", "Transmembrane and ubiquitin-like domain containing 1 (Tmub1) regulates locomotor activity and wakefulness in mice and interacts with CAMLG.", "PloS one", "2010 Jun 22", "Zhang W, Savelieva KV, Suwanichkul A, Small DL, Kirkpatrick LL, Xu N, Lanthorn TH, Ye GL" ], [ "Q9JMG3-1", "18665261", "Transmembrane and ubiquitin-like domain-containing protein 1 (Tmub1/HOPS) facilitates surface expression of GluR2-containing AMPA receptors.", "PloS one", "2008 Jul 30", "Yang H, Takagi H, Konishi Y, Ageta H, Ikegami K, Yao I, Sato S, Hatanaka K, Inokuchi K, Seog DH, Setou M" ], [ "Q9JMG3-1", "18418082", "HOPS is an essential constituent of centrosome assembly.", "Cell cycle (Georgetown, Tex.)", "2008 May 15", "Pieroni S, Della Fazia MA, Castelli M, Piobbico D, Bartoli D, Brunacci C, Bellet MM, Viola-Magni M, Servillo G" ], [ "Q9DCN2-1", "20927338", "Crystal structure of a complex between amino and carboxy terminal fragments of mDia1: insights into autoinhibition of diaphanous-related formins.", "PloS one", "2010 Sep 30", "Nezami A, Poy F, Toms A, Zheng W, Eck MJ" ], [ "Q9DCN2-1", "20566685", "Adenomatous polyposis coli protein nucleates actin assembly and synergizes with the formin mDia1.", "The Journal of cell biology", "2010 Jun 28", "Okada K, Bartolini F, Deaconescu AM, Moseley JB, Dogic Z, Grigorieff N, Gundersen GG, Goode BL" ], [ "Q60972-1", "30026490", "Armadillo repeat containing 12 promotes neuroblastoma progression through interaction with retinoblastoma binding protein 4.", "Nature communications", "2018 Jul 19", "Li D, Song H, Mei H, Fang E, Wang X, Yang F, Li H, Chen Y, Huang K, Zheng L, Tong Q" ], [ "Q9JHF7-1", "30161143", "Augmented Pla2g4c/Ptgs2/Hpgds axis in bronchial smooth muscle tissues of experimental asthma.", "PloS one", "2018", "Chiba Y, Suto W, Sakai H" ], [ "Q08652-1", "27537484", "How to Make an Active Zone: Unexpected Universal Functional Redundancy between RIMs and RIM-BPs.", "Neuron", "2016 Aug 17", "Acuna C, Liu X, Sudhof TC" ], [ "Q8K4Z0-1", "19833108", "Regional distribution of the leucine-rich glioma inactivated (LGI) gene family transcripts in the adult mouse brain.", "Brain research", "2010 Jan 11", "Herranz-Perez V, Olucha-Bordonau FE, Morante-Redolat JM, Perez-Tur J" ], [ "Q6GYP7-1", "12200424", "Cloning and characterization of GRIPE, a novel interacting partner of the transcription factor E12 in developing mouse forebrain.", "The Journal of biological chemistry", "2002 Nov 8", "Heng JI, Tan SS" ], [ "O88845-1", "17485678", "Gene-trapped mouse embryonic stem cell-derived cardiac myocytes and human genetics implicate AKAP10 in heart rhythm regulation.", "Proceedings of the National Academy of Sciences of the United States of America", "2007 May 15", "Tingley WG, Pawlikowska L, Zaroff JG, Kim T, Nguyen T, Young SG, Vranizan K, Kwok PY, Whooley MA, Conklin BR" ], [ "O88845-1", "14531807", "PDZK1: II. an anchoring site for the PKA-binding protein D-AKAP2 in renal proximal tubular cells.", "Kidney international", "2003 Nov", "Gisler SM, Madjdpour C, Bacic D, Pribanic S, Taylor SS, Biber J, Murer H" ], [ "O88845-1", "12206784", "Domain organization of D-AKAP2 revealed by enhanced deuterium exchange-mass spectrometry (DXMS).", "Journal of molecular biology", "2002 Aug 23", "Hamuro Y, Burns L, Canaves J, Hoffman R, Taylor S, Woods V" ], [ "Q8BXR6-1", "26310831", "Pellino-3 promotes endotoxin tolerance and acts as a negative regulator of TLR2 and TLR4 signaling.", "Journal of leukocyte biology", "2015 Dec", "Murphy MB, Xiong Y, Pattabiraman G, Manavalan TT, Qiu F, Medvedev AE" ], [ "Q8BXR6-1", "23892723", "Pellino3 ubiquitinates RIP2 and mediates Nod2-induced signaling and protective effects in colitis.", "Nature immunology", "2013 Sep", "Yang S, Wang B, Humphries F, Jackson R, Healy ME, Bergin R, Aviello G, Hall B, McNamara D, Darby T, Quinlan A, Shanahan F, Melgar S, Fallon PG, Moynagh PN" ], [ "Q8BHW5-1", "17660561", "Genomewide discovery and classification of candidate ovarian fertility genes in the mouse.", "Genetics", "2007 Sep", "Gallardo TD, John GB, Shirley L, Contreras CM, Akbay EA, Haynie JM, Ward SE, Shidler MJ, Castrillon DH" ], [ "Q3UFT3-1", "24003223", "A brain-specific Grb2-associated regulator of extracellular signal-regulated kinase (Erk)/mitogen-activated protein kinase (MAPK) (GAREM) subtype, GAREM2, contributes to neurite outgrowth of neuroblastoma cells by regulating Erk signaling.", "The Journal of biological chemistry", "2013 Oct 11", "Taniguchi T, Tanaka S, Ishii A, Watanabe M, Fujitani N, Sugeo A, Gotoh S, Ohta T, Hiyoshi M, Matsuzaki H, Sakai N, Konishi H" ], [ "Q5EE38-1", "30189268", "High-throughput gene expression analysis identifies p53-dependent and -independent pathways contributing to the adrenocortical dysplasia (acd) phenotype.", "Gene", "2018 Dec 30", "Sucularli C, Thomas P, Kocak H, White JS, O'Connor BC, Keegan CE" ], [ "Q5EE38-1", "29386102", "The N Terminus of the OB Domain of Telomere Protein TPP1 Is Critical for Telomerase Action.", "Cell reports", "2018 Jan 30", "Grill S, Tesmer VM, Nandakumar J" ], [ "Q5EE38-1", "24469404", "TRF2-tethered TIN2 can mediate telomere protection by TPP1/POT1.", "Molecular and cellular biology", "2014 Apr", "Frescas D, de Lange T" ], [ "Q5EE38-1", "24316971", "Hematopoietic stem cells are acutely sensitive to Acd shelterin gene inactivation.", "The Journal of clinical investigation", "2014 Jan", "Jones M, Osawa G, Regal JA, Weinberg DN, Taggart J, Kocak H, Friedman A, Ferguson DO, Keegan CE, Maillard I" ], [ "Q5EE38-1", "17632522", "Telomere protection by mammalian Pot1 requires interaction with Tpp1.", "Nature structural & molecular biology", "2007 Aug", "Hockemeyer D, Palm W, Else T, Daniels JP, Takai KK, Ye JZ, Keegan CE, de Lange T, Hammer GD" ], [ "Q5EE38-1", "15537664", "Urogenital and caudal dysgenesis in adrenocortical dysplasia (acd) mice is caused by a splicing mutation in a novel telomeric regulator.", "Human molecular genetics", "2005 Jan 1", "Keegan CE, Hutz JE, Else T, Adamska M, Shah SP, Kent AE, Howes JM, Beamer WG, Hammer GD" ], [ "Q00420-1", "25200183", "A SIRT7-dependent acetylation switch of GABPbeta1 controls mitochondrial function.", "Cell metabolism", "2014 Nov 4", "Ryu D, Jo YS, Lo Sasso G, Stein S, Zhang H, Perino A, Lee JU, Zeviani M, Romand R, Hottiger MO, 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T, Ohkubo S, Lokshin M, Hosokawa H, Nakayama T, Suzuki Y, Sugano S, Sato E, Nagao T, Yokote K, Tatsuno I, Prives C" ], [ "Q9D4J7-1", "28607179", "PHF6 regulates phenotypic plasticity through chromatin organization within lineage-specific genes.", "Genes & development", "2017 May 15", "Soto-Feliciano YM, Bartlebaugh JME, Liu Y, Sanchez-Rivera FJ, Bhutkar A, Weintraub AS, Buenrostro JD, Cheng CS, Regev A, Jacks TE, Young RA, Hemann MT" ], [ "Q9D4J7-1", "25556700", "miR-128 regulates neuronal migration, outgrowth and intrinsic excitability via the intellectual disability gene Phf6.", "eLife", "2015 Jan 3", "Franzoni E, Booker SA, Parthasarathy S, Rehfeld F, Grosser S, Srivatsa S, Fuchs HR, Tarabykin V, Vida I, Wulczyn FG" ], [ "Q9D4J7-1", "23791194", "The X-linked intellectual disability protein PHF6 associates with the PAF1 complex and regulates neuronal migration in the mammalian brain.", "Neuron", "2013 Jun 19", "Zhang C, Mejia LA, Huang J, Valnegri P, Bennett EJ, Anckar J, Jahani-Asl 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official journal of the International Mammalian Genome Society", "2001 Oct", "Cormier TA, Prakash SK, Magner DB, Zoghbi HY, Van den Veyver IB" ], [ "Q7TNV1-1", "23275342", "Fam57b (family with sequence similarity 57, member B), a novel peroxisome proliferator-activated receptor gamma target gene that regulates adipogenesis through ceramide synthesis.", "The Journal of biological chemistry", "2013 Feb 15", "Yamashita-Sugahara Y, Tokuzawa Y, Nakachi Y, Kanesaki-Yatsuka Y, Matsumoto M, Mizuno Y, Okazaki Y" ], [ "Q80WP8-1", "26327310", "Mammalian CSAD and GADL1 have distinct biochemical properties and patterns of brain expression.", "Neurochemistry international", "2015 Nov", "Winge I, Teigen K, Fossbakk A, Mahootchi E, Kleppe R, Skoldberg F, Kampe O, Haavik J" ], [ "Q80WP8-1", "23038267", "Role of glutamate decarboxylase-like protein 1 (GADL1) in taurine biosynthesis.", "The Journal of biological chemistry", "2012 Nov 30", "Liu P, Ge X, Ding H, Jiang H, Christensen BM, Li J" ], [ "Q32M07-1", "24740601", "Adenine nucleotide metabolism and a role for AMP in modulating flagellar waveforms in mouse sperm.", "Biology of reproduction", "2014 Jun", "Vadnais ML, Cao W, Aghajanian HK, Haig-Ladewig L, Lin AM, Al-Alao O, Gerton GL" ], [ "Q32M07-1", "21746835", "Congenital hydrocephalus in genetically engineered mice.", "Veterinary pathology", "2012 Jan", "Vogel P, Read RW, Hansen GM, Payne BJ, Small D, Sands AT, Zambrowicz BP" ], [ "Q9DB75-1", "24139803", "CDIP1-BAP31 complex transduces apoptotic signals from endoplasmic reticulum to mitochondria under endoplasmic reticulum stress.", "Cell reports", "2013 Oct 31", "Namba T, Tian F, Chu K, Hwang SY, Yoon KW, Byun S, Hiraki M, Mandinova A, Lee SW" ], [ "Q6P1G2-1", "29166607", "Kdm2b Regulates Somatic Reprogramming through Variant PRC1 Complex-Dependent Function.", "Cell reports", "2017 Nov 21", "Zhou Z, Yang X, He J, Liu J, Wu F, Yu S, Liu Y, Lin R, Liu H, Cui Y, Zhou C, Wang X, Wu J, Cao S, Guo L, Lin L, Wang T, Peng X, 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& molecular biology", "2008 Nov", "He J, Kallin EM, Tsukada Y, Zhang Y" ], [ "Q6P1G2-1", "17296600", "Proteomics analysis of Ring1B/Rnf2 interactors identifies a novel complex with the Fbxl10/Jhdm1B histone demethylase and the Bcl6 interacting corepressor.", "Molecular & cellular proteomics : MCP", "2007 May", "Sanchez C, Sanchez I, Demmers JA, Rodriguez P, Strouboulis J, Vidal M" ], [ "Q9Z1Z2-1", "30138317", "Strap associates with Csde1 and affects expression of select Csde1-bound transcripts.", "PloS one", "2018", "Moore KS, Yagci N, van Alphen F, Meijer AB, 't Hoen PAC, von Lindern M" ], [ "Q8K1E6-1", "26930515", "Roles of Aag, Alkbh2, and Alkbh3 in the Repair of Carboxymethylated and Ethylated Thymidine Lesions.", "ACS chemical biology", "2016 May 20", "You C, Wang P, Nay SL, Wang J, Dai X, O'Connor TR, Wang Y" ], [ "Q61481-4", "22012077", "Cyclic nucleotide phosphodiesterase 1A: a key regulator of cardiac fibroblast activation and extracellular matrix remodeling in the heart.", 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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 - PMID\n - journal\n - citations\n - authors\n - RefSeq\n - PubMed\n\n Pipeline Steps\n - Step-1: The script parses the NCBI RefSeq gpff files to extract the publication information. The script also maps 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_citations_refseq.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/mouse_protein_citations_refseq.csv\n Name: mouse_protein_citations_refseq.stat.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/mouse_protein_citations_refseq.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"Accession assigned to the protein isoform chosen to be the canonical sequence to which all positional annotation refers in UniProtKB database\"\n Unique Values: \"4595\"\n Name: \"title\"\n Description: \"Title of the published article in the journal\"\n Unique Values: \"7972\"\n Name: \"journal_name\"\n Description: \"The name of the journal in which the article is published\"\n Unique Values: \"740\"\n Name: \"authors\"\n Description: \"\"\n Unique Values: \"7957\"\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: \"2611\"\n Name: \"pmid\"\n Description: \"NCBI PubMed database Identifier\"\n Unique Values: \"7972\"", "downloadurl": "/ln2data/releases/data/v-1.5.12/reviewed/mouse_protein_citations_refseq.csv" }