{ "bcoid": "GLY_000036", "title": "Mouse Protein Citations (UniProtKB)", "description": "The Mouse Protein Citations dataset contains publication information for mouse [taxid:10090] UniProtKB ...", "filename": "mouse_protein_citations_uniprotkb.csv", "filetype": "csv", "categories": { "species": "Mus musculus", "molecule": "Protein", "tags": "Protein Citations", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "Q9JHR7-1...", "Anti-diabeti..." ], [ "Q9JHR7-1...", "Insulin-degr..." ] ], "headers": [ "uniprotkb_ca...", "title..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "title" }, { "type": "string", "label": "journal_name" }, { "type": "string", "label": "publication_date" }, { "type": "string", "label": "authors" }, { "type": "string", "label": "xref_key" }, { "type": "string", "label": "xref_id" }, { "type": "string", "label": "src_xref_key" }, { "type": "string", "label": "src_xref_id" } ], [ "Q9JHR7-1", "Anti-diabetic activity of insulin-degrading enzyme inhibitors mediated by multiple hormones.", "Nature", "2014", "Saghatelian A., Seeliger M.A., Liu D.R., Leissring M.A., Charron M.J., Du X.Q., Tang W.J., Foda Z.H., Kleiner R.E., Maianti J.P., McFedries A.", "protein_xref_pubmed", "24847884", "protein_xref_uniprotkb", "Q9JHR7" ], [ "Q9JHR7-1", "Insulin-degrading enzyme regulates extracellular levels of amyloid beta-protein by degradation.", "J. Biol. Chem.", "1998", "Rosner M.R., Selkoe D.J., Walsh D.M., Zhang J., Ye Z., Hersh L.B., Qiu W.Q., Vekrellis K., Podlisny M.B., Safavi A.", "protein_xref_pubmed", "9830016", "protein_xref_uniprotkb", "Q9JHR7" ], [ "Q9JHR7-1", "SIRT5-mediated lysine desuccinylation impacts diverse metabolic pathways.", "Mol. Cell", "2013", "Chen Y., Park J., Zhang Y., Zhao Y., Peng C., Tan M., Xie Z., Zwaans B.M., Lombard D.B., Dai L., Tishkoff D.X., Skinner M.E.", "protein_xref_pubmed", "23806337", "protein_xref_uniprotkb", "Q9JHR7" ], [ "Q9JHR7-1", "Functional relevance of a novel SlyX motif in non-conventional secretion of insulin-degrading enzyme.", "J. Biol. Chem.", "2011", "Walter J., Glebov K., Schutze S.", "protein_xref_pubmed", "21576244", "protein_xref_uniprotkb", "Q9JHR7" ], [ "Q9JHR7-1", "Loss of mPer2 increases plasma insulin levels by enhanced glucose-stimulated insulin secretion and impaired insulin clearance in mice.", "FEBS Lett.", "2012", "Wang S., Zhang J., Zhang Y., Zhao Y., Zhou M., Hua Z.", "protein_xref_pubmed", "22504074", "protein_xref_uniprotkb", "Q9JHR7" ], [ "Q9JHR7-1", "Insulin-degrading enzyme regulates the levels of insulin, amyloid beta-protein, and the beta-amyloid precursor protein intracellular domain in vivo.", "Proc. Natl. Acad. Sci. U.S.A.", "2003", "Eckman C.B., Selkoe D.J., Tanzi R.E., Chang Y., Frosch M.P., Eckman E.A., Farris W., Guenette S., Lindsley L., Mansourian S.", "protein_xref_pubmed", "12634421", "protein_xref_uniprotkb", "Q9JHR7" ], [ "Q9JHR7-1", "Catalytic site inhibition of insulin-degrading enzyme by a small molecule induces glucose intolerance in mice.", "Nat. Commun.", "2015", "Deprez B., Dumont J., Leroux F., Paquet C., Herledan A., Lippens G., Liang W.G., Hermant P., Staels B., Cantrelle F.X., Tang W.J., Berte G., Bosc D., Charton J., Culot M., Dassonneville S., Deprez-Poulain R., Duplan I., Enee E., Gauriot M., Hennuyer N., Jahklal J., Landry V., Marechal X., Piveteau C., Sevin E., Totobenazara J., Verdelet T., Woitrain E., van Endert P.", "protein_xref_pubmed", "26394692", "protein_xref_uniprotkb", "Q9JHR7" ], [ "Q9JHR7-1", "Amyloid-beta peptide levels in brain are inversely correlated with insulysin activity levels in vivo.", "Proc. Natl. Acad. Sci. U.S.A.", "2003", "Eckman C.B., Sambamurti K., Thiele D.L., Hersh L.B., Chow K.M., Miller B.C., Eckman E.A., Dobbs N.", "protein_xref_pubmed", "12732730", "protein_xref_uniprotkb", "Q9JHR7" ], [ "B2RXV4-1", "A heme export protein is required for red blood cell differentiation and iron homeostasis.", "Science", "2008", "Chen J., Kaplan J., Yang Z., De Domenico I., Vaughn M.B., Abkowitz J.L., Keel S.B., Doty R.T., Quigley J.G., Palis J., Kingsley P.D., Knoblaugh S.", "protein_xref_pubmed", "18258918", "protein_xref_uniprotkb", "B2RXV4" ], [ "B2RXV4-1", "The mitochondrial heme exporter FLVCR1b mediates erythroid differentiation.", "J. Clin. Invest.", "2012", "Silengo L., Turco E., Altruda F., Tolosano E., Giorgi C., Pinton P., Camporeale A., Chiabrando D., Fagoonee S., Fiorito V., Marro S., Mercurio S., Merlo G.R., Petrillo S., Vinchi F.", "protein_xref_pubmed", "23187127", "protein_xref_uniprotkb", "B2RXV4" ], [ "Q9CXG9-1", "Polycomb PHF19 binds H3K36me3 and recruits PRC2 and demethylase NO66 to embryonic stem cell genes during differentiation.", "Nat. Struct. Mol. Biol.", "2012", "Loftus B.J., Shi X., Bracken A.P., Cagney G., Egan C.M., O'Connell D.J., Piao L., Brien G.L., Dunne E.J., Ferguson N., Gambero G., Jerman E., Jurgens M.C., Lohan A.J., Sinha K.M., Turner S.A., Wynne K.", "protein_xref_pubmed", "23160351", "protein_xref_uniprotkb", "Q9CXG9" ], [ "Q9CXG9-1", "Polycomb-like 3 promotes polycomb repressive complex 2 binding to CpG islands and embryonic stem cell self-renewal.", "PLoS Genet.", "2012", "Diaz A., Shen Y., Cagney G., Reiter J.F., Krogan N., Song J.S., Ren B., Hunkapiller J., Ramalho-Santos M., McCleary D.", "protein_xref_pubmed", "22438827", "protein_xref_uniprotkb", "Q9CXG9" ], [ "Q9CXG9-1", "Phf19 links methylated Lys36 of histone H3 to regulation of Polycomb activity.", "Nat. Struct. Mol. Biol.", "2012", "Lange M., Martin G.M., Shi Y., Simon B., Di Croce L., Morey L., Gozani O., Carlomagno T., Pascual G., Ballare C., Benitah S.A., Lapinaite A., Liefke R.", "protein_xref_pubmed", "23104054", "protein_xref_uniprotkb", "Q9CXG9" ], [ "Q9CXG9-1", "An H3K36 methylation-engaging Tudor motif of Polycomb-like proteins mediates PRC2 complex targeting.", "Mol. Cell", "2013", "Zheng D., Allis C.D., Strahl B.D., Cai L., Song J., Patel D.J., Xu B., Lu R., Tripathy A., Chen W.Y., Rothbart S.B., Wang G.G., Rockowitz S.", "protein_xref_pubmed", "23273982", "protein_xref_uniprotkb", "Q9CXG9" ], [ "Q07968-1", "Molecular cloning of the b subunit of mouse coagulation factor XIII and assignment of the gene to chromosome 1: close evolutionary relationship to complement factor H.", "Genomics", "1993", "Matsuda Y., Shiroishi T., Nonaka M., Moriwaki K., Natsuume-Sakai S., Nonaka M.'", "protein_xref_pubmed", "8468048", "protein_xref_uniprotkb", "Q07968" ], [ "Q07968-1", "Proteome-wide characterization of N-glycosylation events by diagonal chromatography.", "J. Proteome Res.", "2006", "Gevaert K., Martens L., Van Damme J., Vandekerckhove J., Ghesquiere B.", "protein_xref_pubmed", "16944957", "protein_xref_uniprotkb", "Q07968" ], [ "Q07968-1", "Enhanced analysis of the mouse plasma proteome using cysteine-containing tryptic glycopeptides.", "J. Proteome Res.", "2007", "Simpson R.J., Bernhard O.K., Kapp E.A.", "protein_xref_pubmed", "17330941", "protein_xref_uniprotkb", "Q07968" ], [ "A5H0M4-1", "Two novel transcripts encoding two Ankyrin repeat containing proteins have preponderant expression during the mouse spermatogenesis.", "Mol. Biol. Rep.", "2007", "Gong W., Wang F., Hu J., Song P.", "protein_xref_pubmed", "17171436", "protein_xref_uniprotkb", "A5H0M4" ], [ "Q9CXG3-1", "Comprehensive identification of phosphorylation sites in postsynaptic density preparations.", "Mol. Cell. Proteomics", "2006", "Schoepfer R., Burlingame A.L., Thalhammer A., Specht C.G., Trinidad J.C.", "protein_xref_pubmed", "16452087", "protein_xref_uniprotkb", "Q9CXG3" ], [ "Q9CXG3-1", "The phagosomal proteome in interferon-gamma-activated macrophages.", "Immunity", "2009", "Thibault P., Trost M., Desjardins M., Courcelles M., English L., Lemieux S.", "protein_xref_pubmed", "19144319", "protein_xref_uniprotkb", "Q9CXG3" ], [ "P01942-1", "SIRT5-mediated lysine desuccinylation impacts diverse metabolic pathways.", "Mol. Cell", "2013", "Chen Y., Park J., Zhang Y., Zhao Y., Peng C., Tan M., Xie Z., Zwaans B.M., Lombard D.B., Dai L., Tishkoff D.X., Skinner M.E.", "protein_xref_pubmed", "23806337", "protein_xref_uniprotkb", "P01942" ], [ "P01942-1", "Characterization and kinetics of synthesis of 15S beta-globin RNA, a putative precursor of beta-globin mRNA.", "Cold Spring Harb. Symp. Quant. Biol.", "1978", "Curtis P.J., Weissmann C., Mantei N.", "protein_xref_pubmed", "277329", "protein_xref_uniprotkb", "P01942" ], [ "P01942-1", "Comparison of cloned mouse alpha- and beta-globin genes: conservation of intervening sequence locations and extragenic homology.", "Proc. Natl. Acad. Sci. U.S.A.", "1978", "Seidman J.G., Hamer D.H., Leder P., Norman B., Sullivan M., Leder A., Miller H.I.", "protein_xref_pubmed", "282635", "protein_xref_uniprotkb", "P01942" ], [ "P01942-1", "The complete sequence of a chromosomal mouse alpha-globin gene reveals elements conserved throughout vertebrate evolution.", "Cell", "1979", "Nishioka Y., Leder P.", "protein_xref_pubmed", "519760", "protein_xref_uniprotkb", "P01942" ], [ "P01942-1", "Hemoglobins of mice: sequence and possible ambiguity at one position of the alpha chain.", "J. Mol. Biol.", "1967", "Popp R.A.", "protein_xref_pubmed", "5340470", "protein_xref_uniprotkb", "P01942" ], [ "P01942-1", "Studies on the mouse hemoglobin loci. 8. A fourth alpha-chain phenotype.", "J. Hered.", "1969", "Popp R.A.", "protein_xref_pubmed", "5345070", "protein_xref_uniprotkb", "P01942" ], [ "P01942-1", "The primary structure of genetic variants of mouse hemoglobin.", "Biochem. Genet.", "1982", "Popp R.A., Bailiff E.G., Skow L.C., Whitney J.B. III", "protein_xref_pubmed", "7092800", "protein_xref_uniprotkb", "P01942" ], [ "P03899-1", "Revisiting the mouse mitochondrial DNA sequence.", "Nucleic Acids Res.", "2003", "Hu P., Mullikin J.C., Park J.S., Bai Y., Bayona-Bafaluy M.P., Enriquez J.A., Fernandez-Silva P., Acin-Perez R., Moreno-Loshuertos R., Perez-Martos A.", "protein_xref_pubmed", "12954771", "protein_xref_uniprotkb", "P03899" ], [ "P03899-1", "Sequence and gene organization of mouse mitochondrial DNA.", "Cell", "1981", "Clayton D.A., Bibb M.J., Walberg M.W., Wright C.T., van Etten R.A.", "protein_xref_pubmed", "7332926", "protein_xref_uniprotkb", "P03899" ], [ "P03899-1", "Unique mutations in mitochondrial DNA of senescence-accelerated mouse (SAM) strains.", "J. Hered.", "2001", "Mori M., Chiba T., Tanaka M., Higuchi K., Mizutani J.", "protein_xref_pubmed", "11535650", "protein_xref_uniprotkb", "P03899" ], [ "P03899-1", "Nonneutral evolution at the mitochondrial NADH dehydrogenase subunit 3 gene in mice.", "Proc. Natl. Acad. Sci. U.S.A.", "1994", "Nachman M.W., Boyer S.N., Aquadro C.F.", "protein_xref_pubmed", "8022788", "protein_xref_uniprotkb", "P03899" ], [ "O35153-1", "GS15, a 15-kilodalton Golgi soluble N-ethylmaleimide-sensitive factor attachment protein receptor (SNARE) homologous to rbet1.", "J. Biol. Chem.", "1997", "Hong W., Zhang T., Xu Y., Subramaniam V.N., Wong S.H.", "protein_xref_pubmed", "9242691", "protein_xref_uniprotkb", "O35153" ], [ "P97805-1", "E2a-Pbx1 induces aberrant expression of tissue-specific and developmentally regulated genes when expressed in NIH 3T3 fibroblasts.", "Mol. Cell. Biol.", "1997", "Fu X., Kamps M.P.", "protein_xref_pubmed", "9032278", "protein_xref_uniprotkb", "P97805" ], [ "L0N7N1-1", "Kif14 mutation causes severe brain malformation and hypomyelination.", "PLoS ONE", "2013", "Abe T., Sakisaka T., Fujikura K., Kiyonari H., Tanigaki K., Terashima T., Setsu T.", "protein_xref_pubmed", "23308235", "protein_xref_uniprotkb", "L0N759" ], [ "Q9QYH9-1", "Modulation of T-cell-mediated immunity in tumor and graft-versus-host disease models through the LIGHT co-stimulatory pathway.", "Nat. Med.", "2000", "Chen L., Nagata S., Chapoval A.I., Zhu G., Ni J., Boone T., Tamada K., Hsu H., Fu Y.-X., Sica G., Shimozaki K., Flies D.", "protein_xref_pubmed", "10700230", "protein_xref_uniprotkb", "Q9QYH9" ], [ "Q9QYH9-1", "Molecular cloning and characterization of a mouse homolog of human TNFSF14, a member of the TNF superfamily.", "Cytogenet. Cell Genet.", "2000", "Kojima T., Kitamura T., Hirai M., Nosaka T., Misawa K.", "protein_xref_pubmed", "10894944", "protein_xref_uniprotkb", "Q9QYH9" ], [ "P52479-1", "Specific phosphopeptide enrichment with immobilized titanium ion affinity chromatography adsorbent for phosphoproteome analysis.", "J. Proteome Res.", "2008", "Dong J., Han G., Jiang X., Ye M., Zhou H., Zou H., Wu R.", "protein_xref_pubmed", "18630941", "protein_xref_uniprotkb", "P52479" ], [ "P52479-1", "Phosphoproteomic analysis of the developing mouse brain.", "Mol. Cell. Proteomics", "2004", "Ballif B.A., Beausoleil S.A., Gygi S.P., Villen J., Schwartz D.", "protein_xref_pubmed", "15345747", "protein_xref_uniprotkb", "P52479" ], [ "P52479-1", "Large-scale phosphorylation analysis of mouse liver.", "Proc. Natl. Acad. Sci. U.S.A.", "2007", "Beausoleil S.A., Gerber S.A., Gygi S.P., Villen J.", "protein_xref_pubmed", "17242355", "protein_xref_uniprotkb", "P52479" ], [ "P52479-1", "The phagosomal proteome in interferon-gamma-activated macrophages.", "Immunity", "2009", "Thibault P., Trost M., Desjardins M., Courcelles M., English L., Lemieux S.", "protein_xref_pubmed", "19144319", "protein_xref_uniprotkb", "P52479" ], [ "P02762-1", "Identification and characterization of functional genes encoding the mouse major urinary proteins.", "Mol. Cell. Biol.", "1987", "Held W.A., Gallagher J.F., Hohman C.M., Hughes R.G. Jr., Kuhn N.J., Sampsell B.M.", "protein_xref_pubmed", "2824995", "protein_xref_uniprotkb", "P02762" ], [ "P02762-1", "Structural basis of pheromone binding to mouse major urinary protein (MUP-I).", "Protein Sci.", "2001", "Mueller H., Novotny M.V., Zidek L., Timm D.E., Baker L.-J.", "protein_xref_pubmed", "11316880", "protein_xref_uniprotkb", "P02762" ], [ "P02762-1", "Pheromone binding to two rodent urinary proteins revealed by X-ray crystallography.", "Nature", "1992", "Findlay J.B.C., Phillips S.E.V., Flower D.R., Boecksel Z., Cavaggioni A., Groom C.R., North A.C.T., Wright C.E.", "protein_xref_pubmed", "1279439", "protein_xref_uniprotkb", "P02762" ], [ "P02762-1", "Thermodynamics of binding of 2-methoxy-3-isopropylpyrazine and 2-methoxy-3-isobutylpyrazine to the major urinary protein.", "J. Am. Chem. Soc.", "2004", "Trinh C.H., Kalverda A.P., Phillips S.E., Bingham R.J., Perazzolo C., Findlay J.B., Bodenhausen G., Homans S.W., Hsieh S.-Y., Kjellberg A., Seshadri K., Turnbull W.B.", "protein_xref_pubmed", "14871097", "protein_xref_uniprotkb", "P02762" ], [ "P02762-1", "Sequence structures of a mouse major urinary protein gene and pseudogene compared.", "EMBO J.", "1985", "Clark A.J., Ghazal P., Barrett D., Bingham R.W., Bishop J.O.", "protein_xref_pubmed", "3004935", "protein_xref_uniprotkb", "P02762" ], [ "P02762-1", "Evolutionary amplification of a pseudogene.", "Proc. Natl. Acad. Sci. U.S.A.", "1985", "Clark J.A., Ghazal P., Bishop J.", "protein_xref_pubmed", "3858875", "protein_xref_uniprotkb", "P02762" ], [ "P02762-1", "Structure of mouse major urinary protein genes: different splicing configurations in the 3'-non-coding region.", "EMBO J.", "1984", "Clark A.J., Clissold P.M., Beattie P., Bishop J.O., Shawi R.A.", "protein_xref_pubmed", "6329733", "protein_xref_uniprotkb", "P02762" ], [ "P02762-1", "Structural genes of the mouse major urinary protein are on chromosome 4.", "J. Cell Biol.", "1982", "D'Eustachio P., Darnell J.E. Jr., Leinwand L., Krauter K., Ruddle F.", "protein_xref_pubmed", "7107707", "protein_xref_uniprotkb", "P02762" ], [ "P02762-1", "Nonsense but not missense mutations can decrease the abundance of nuclear mRNA for the mouse major urinary protein, while both types of mutations can facilitate exon skipping.", "Mol. Cell. Biol.", "1994", "Maquat L.E., Belgrader P.", "protein_xref_pubmed", "8065364", "protein_xref_uniprotkb", "P02762" ], [ "P02762-1", "Isolation of genomic DNA fragments corresponding to genes modulated in vivo by a transcription factor.", "Nucleic Acids Res.", "1994", "Zaballos A., Marquez G., Munoz A., Bernal J., Barbero J.L., Caubin J., Iglesias T.", "protein_xref_pubmed", "7937138", "protein_xref_uniprotkb", "P02762" ], [ "Q9QYH6-1", "Dlxin-1, a novel protein that binds Dlx5 and regulates its transcriptional function.", "J. Biol. Chem.", "2001", "Watanabe K., Masuda Y., Ikeda K., Sasaki A., Shibuya H., Ueno N.", "protein_xref_pubmed", "11084035", "protein_xref_uniprotkb", "Q9QYH6" ], [ "Q9QYH6-1", "Interaction of MAGED1 with nuclear receptors affects circadian clock function.", "EMBO J.", "2010", "Gu X., Tang J., Wang X., Wu X., Gao X., Liu Z., Xu Y., Xing L., Shi G., Ruan H.", "protein_xref_pubmed", "20300063", "protein_xref_uniprotkb", "Q9QYH6" ], [ "Q5EBH1-1", "RAPL, a Rap1-binding molecule that mediates Rap1-induced adhesion through spatial regulation of LFA-1.", "Nat. Immunol.", "2003", "Maeda A., Kinashi T., Katagiri K., Shimonaka M.", "protein_xref_pubmed", "12845325", "protein_xref_uniprotkb", "Q5EBH1" ], [ "Q5EBH1-1", "Identification of a novel Ras-regulated proapoptotic pathway.", "Curr. Biol.", "2002", "Rabizadeh S., Chen T., Avruch J., Xavier R., Seed B., Zhang X.F., Khokhlatchev A., Nedwidek M.", "protein_xref_pubmed", "11864565", "protein_xref_uniprotkb", "Q5EBH1" ], [ "Q5EBH1-1", "GTP-Ras disrupts the intramolecular complex of C1 and RA domains of Nore1.", "Structure", "2006", "Bayer P., Harjes E., Krieger E., Herrmann C., Wohlgemuth S., Harjes S., Mueller K.H.", "protein_xref_pubmed", "16698549", "protein_xref_uniprotkb", "Q5EBH1" ], [ "Q5EBH1-1", "Identification of Nore1 as a potential Ras effector.", "J. Biol. Chem.", "1998", "Li X., Avruch J., Zhang X.F., Vavvas D.", "protein_xref_pubmed", "9488663", "protein_xref_uniprotkb", "Q5EBH1" ], [ "Q5EBH1-1", "The putative tumor suppressor RASSF1A homodimerizes and heterodimerizes with the Ras-GTP binding protein Nore1.", "Oncogene", "2002", "Avruch J., Pfeifer G.P., Dammann R., Zhang X.F., Ortiz-Vega S., Khokhlatchev A., Nedwidek M.", "protein_xref_pubmed", "11857081", "protein_xref_uniprotkb", "Q5EBH1" ], [ "Q5EBH1-1", "Novel type of Ras effector interaction established between tumour suppressor NORE1A and Ras switch II.", "EMBO J.", "2008", "Herrmann C., Stieglitz B., Khokhlatchev A., Bee C., Moshnikova A., Schwarz D., Yildiz O.", "protein_xref_pubmed", "18596699", "protein_xref_uniprotkb", "Q5EBH1" ], [ "Q61409-1", "Importance of cAMP-response element-binding protein in regulation of expression of the murine cyclic nucleotide phosphodiesterase 3B (Pde3b) gene in differentiating 3T3-L1 preadipocytes.", "J. Biol. Chem.", "2006", "Liu H., Choi Y.H., Manganiello V.C., Napolitano M., Taira M., Degerman E., Hockman S., Tang J.R.", "protein_xref_pubmed", "16702214", "protein_xref_uniprotkb", "Q61409" ], [ "Q61409-1", "Molecular cloning and chromosomal assignment of the human homologue of the rat cGMP-inhibited phosphodiesterase 1 (PDE3A) -- a gene involved in fat metabolism located at 11p15.1.", "Genomics", "1996", "Winterpacht A., Zabel B.U., Loebbert R.W., Seipel B.", "protein_xref_pubmed", "8921398", "protein_xref_uniprotkb", "Q61409" ], [ "Q61409-1", "PI3Kgamma modulates the cardiac response to chronic pressure overload by distinct kinase-dependent and -independent effects.", "Cell", "2004", "Russo G., Brancaccio M., Silengo L., Hirsch E., Altruda F., Rybalkin S.D., Azzolino O., Barberis L., Lembo G., Maffei A., Marengo S., Notte A., Patrucco E., Selvetella G., Wetzker R., Wymann M.P.", "protein_xref_pubmed", "15294162", "protein_xref_uniprotkb", "Q61409" ], [ "Q61409-1", "Insulin-induced phosphorylation and activation of cyclic nucleotide phosphodiesterase 3B by the serine-threonine kinase Akt.", "Mol. Cell. Biol.", "1999", "Kitamura Y., Kikkawa U., Konishi H., Kuroda S., Ando M., Kitamura T., Kotani K., Matsuzaki H., Kasuga M., Ogawa W., Hino Y.", "protein_xref_pubmed", "10454575", "protein_xref_uniprotkb", "Q61409" ], [ "Q61400-1", "Demonstration of a glycoprotein derived from the Ceacam10 gene in mouse seminal vesicle secretions.", "Biol. Reprod.", "2005", "Li S.-H., Chen Y.-H., Hsiao Y.-L., Lee R.K.-K.", "protein_xref_pubmed", "15901639", "protein_xref_uniprotkb", "Q61400" ], [ "Q61400-1", "The cea10 gene encodes a secreted member of the murine carcinoembryonic antigen family and is expressed in the placenta, gastrointestinal tract and bone marrow.", "Eur. J. Biochem.", "1995", "Thompson J., Zimmermann W., Beauchemin N., Nedellec P., Keck U.", "protein_xref_pubmed", "7744068", "protein_xref_uniprotkb", "Q61400" ], [ "Q8BTY1-1", "SIRT5-mediated lysine desuccinylation impacts diverse metabolic pathways.", "Mol. Cell", "2013", "Chen Y., Park J., Zhang Y., Zhao Y., Peng C., Tan M., Xie Z., Zwaans B.M., Lombard D.B., Dai L., Tishkoff D.X., Skinner M.E.", "protein_xref_pubmed", "23806337", "protein_xref_uniprotkb", "A2AQY8" ], [ "Q8BTY1-1", "SIRT5-mediated lysine desuccinylation impacts diverse metabolic pathways.", "Mol. Cell", "2013", "Chen Y., Park J., Zhang Y., Zhao Y., Peng C., Tan M., Xie Z., Zwaans B.M., Lombard D.B., Dai L., Tishkoff D.X., Skinner M.E.", "protein_xref_pubmed", "23806337", "protein_xref_uniprotkb", "A2AQY9" ], [ "A0A668KLU9-1", "Identification and sequence analysis of four complement factor H-related transcripts in mouse liver.", "J. Biol. Chem.", "1990", "Chaplin D.D., Kozono H., Tack B.F., Vik D.P., Munoz-Canoves P., Martin L.G.", "protein_xref_pubmed", "1689298", "protein_xref_uniprotkb", "Q61405" ], [ "Q61406-1", "Identification and sequence analysis of four complement factor H-related transcripts in mouse liver.", "J. Biol. Chem.", "1990", "Chaplin D.D., Kozono H., Tack B.F., Vik D.P., Munoz-Canoves P., Martin L.G.", "protein_xref_pubmed", "1689298", "protein_xref_uniprotkb", "Q61406" ], [ "P70414-1", "Targeted disruption of Na+/Ca2+ exchanger gene leads to cardiomyocyte apoptosis and defects in heartbeat.", "J. Biol. Chem.", "2000", "Kobayashi K., Imai Y., Toyoda Y., Kita S., Kudoh S., Yazaki Y., Oka T., Nabeshima Y., Yao A., Shigekawa M., Wakimoto K., Azuma S., Omori K., Yanaka N., Komuro I., Iwamoto T., Kuro-O M., Imahie H., Nishida A., Kohmoto O.", "protein_xref_pubmed", "10967099", "protein_xref_uniprotkb", "P70414" ], [ "P70414-1", "Na+/Ca2+ exchanger-deficient mice have disorganized myofibrils and swollen mitochondria in cardiomyocytes.", "Comp. Biochem. Physiol.", "2003", "Kobayashi K., Imai Y., Kita S., Kudoh S., Oka T., Nabeshima Y., Shigekawa M., Wakimoto K., Kuro-o M., Komuro I., Iwamoto T., Fujimura H.", "protein_xref_pubmed", "12781968", "protein_xref_uniprotkb", "P70414" ], [ "P70414-1", "Cloning of the mouse cardiac Na(+)-Ca2+ exchanger and functional expression in Xenopus oocytes.", "Ann. N. Y. Acad. Sci.", "1996", "Kim I., Lee C.O.", "protein_xref_pubmed", "8659820", "protein_xref_uniprotkb", "P70414" ], [ "P70414-1", "The SLC8 gene family of sodium-calcium exchangers (NCX) - structure, function, and regulation in health and disease.", "Mol. Aspects Med.", "2013", "Khananshvili D.", "protein_xref_pubmed", "23506867", "protein_xref_uniprotkb", "P70414" ], [ "P70412-1", "Protection from pancreatitis by the zymogen granule membrane protein integral membrane-associated protein-1.", "J. Biol. Chem.", "2002", "Imamura T., Asada M., Lowe M.E., Muglia L.J., Rudnick D.A., Vogt S.K.", "protein_xref_pubmed", "12401800", "protein_xref_uniprotkb", "P70412" ], [ "P70412-1", "A cDNA cloned from pregnant mouse uterus exhibits temporo-spatial expression and predicts a novel protein.", "Biochem. J.", "1998", "Kasik J.W.", "protein_xref_pubmed", "9480914", "protein_xref_uniprotkb", "P70412" ], [ "Q3TLD5-1", "Large-scale phosphorylation analysis of mouse liver.", "Proc. Natl. Acad. Sci. U.S.A.", "2007", "Beausoleil S.A., Gerber S.A., Gygi S.P., Villen J.", "protein_xref_pubmed", "17242355", "protein_xref_uniprotkb", "A0A0U1RPG9" ], [ "Q3TLD5-1", "The phagosomal proteome in interferon-gamma-activated macrophages.", "Immunity", "2009", "Thibault P., Trost M., Desjardins M., Courcelles M., English L., Lemieux S.", "protein_xref_pubmed", "19144319", "protein_xref_uniprotkb", "A0A0U1RPG9" ], [ "P10852-1", "The phagosomal proteome in interferon-gamma-activated macrophages.", "Immunity", "2009", "Thibault P., Trost M., Desjardins M., Courcelles M., English L., Lemieux S.", "protein_xref_pubmed", "19144319", "protein_xref_uniprotkb", "A0A0U1RPG5" ], [ "P70419-1", "Cloning and expression of mouse UDP-GalNAc:polypeptide N-acetylgalactosaminyltransferase-T3.", "Biochem. Biophys. Res. Commun.", "1996", "Zara J., Tabak L.A., Hagen F.K., Ten Hagen K.G., Van Wuyckhuyse B.C.", "protein_xref_pubmed", "8912633", "protein_xref_uniprotkb", "P70419" ], [ "Q9EP78-1", "Diversity of N-acetylglucosamine-6-O-sulfotransferases: molecular cloning of a novel enzyme with different distribution and specificities.", "Biochem. Biophys. Res. Commun.", "2000", "Muramatsu T., Kadomatsu K., Uchimura K., Yamakawa T., Fasakhany F., Kurosawa N., Matsukawa T.", "protein_xref_pubmed", "10913333", "protein_xref_uniprotkb", "Q9EP78" ], [ "Q9EP78-1", "Sulfation of N-acetylglucosamine by chondroitin 6-sulfotransferase 2 (GST-5).", "J. Biol. Chem.", "2000", "Lee J.-K., Bhakta S., Hemmerich S., Polsky I., Bertozzi C.R., Rosen S.D., Bartes A., Bowman K.G., Bruehl R.E., Cook B.N., Kao W.-M.", "protein_xref_pubmed", "10956661", "protein_xref_uniprotkb", "Q9EP78" ], [ "Q9EP79-1", "Sequence diversity and genomic organization of vomeronasal receptor genes in the mouse.", "Genome Res.", "2000", "Mombaerts P., Rodriguez I., Del Punta K., Rothman A.", "protein_xref_pubmed", "11116090", "protein_xref_uniprotkb", "Q9EP79" ], [ "Q9EP79-1", "Sequence analysis of mouse vomeronasal receptor gene clusters reveals common promoter motifs and a history of recent expansion.", "Proc. Natl. Acad. Sci. U.S.A.", "2002", "Hood L., Trask B.J., Axel R., Lane R.P., Cutforth T.", "protein_xref_pubmed", "11752409", "protein_xref_uniprotkb", "Q9EP79" ], [ "Q9EP79-1", "Deficient pheromone responses in mice lacking a cluster of vomeronasal receptor genes.", "Nature", "2002", "Ogawa S., Wysocki C.J., Mombaerts P., Rodriguez I., Leinders-Zufall T., Zufall F., Del Punta K., Jukam D.", "protein_xref_pubmed", "12214233", "protein_xref_uniprotkb", "Q9EP79" ], [ "Q3URK3-1", "Tet proteins connect the O-linked N-acetylglucosamine transferase Ogt to chromatin in embryonic stem cells.", "Mol. Cell", "2013", "Williams K., Helin K., Christensen J., Pasini D., Bonaldi T., Jammula S., Scelfo A., Chiacchiera F., Cuomo A., Roberto A., Vella P.", "protein_xref_pubmed", "23352454", "protein_xref_uniprotkb", "Q3URK3" ] ] }, "readme": "Name\n - Mouse Protein Citations (UniProtKB)\n\nVersion\n - 1.11.2\n\nCreated on\n - 2019-01-23T17:21:05.903678\n\nModified on\n - 2020-04-10T12:34:26.812397\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 - Maria Martin [martin@ebi.ac.uk], Preethi Vasudev [pvasudev@ebi.ac.uk]\n\nChecksum\n - \n\nUsability Domain\n - The Mouse Protein Citations dataset contains publication information for mouse [taxid:10090] UniProtKB accessions that includes PMID, journal name, date and author and title. Publications of large scale studies, and high frequency publications pertaining to genome sequencing, cDNA, chromosomes have been filtered out as per https://data.glygen.org/ln2data/releases/data/v-1.11.2/compiled/mouse_protein_blacklisted_pmids_uniprotkb.csv. 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 - PMID\n - journal\n - citations\n - authors\n - UniProtKB\n - PubMed\n\n Pipeline Steps\n - Step-1: The script loads the UniProtKB publication data from the triplestore containing triples from nt file to retrieve the publication information associated with the UniProtKB accession and maps it to the UniProtKB canonical accessions. The script also filters out publications of large scale studies, and high frequency publications pertaining to DNA sequencing, cDNA, chromosomes using blacklisted PMIDs file.\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-mus-musculus.nt\n URI: https://data.glygen.org/ln2data/releases/data/v-1.11.2/source/uuniprot-proteome-mus-musculus.nt\n Name: mouse_protein_blacklisted_pmids_uniprotkb.csv\n URI: https://data.glygen.org/ln2data/releases/data/v-1.11.2/compiled/mouse_protein_blacklisted_pmids_uniprotkb.csv\n Name: mouse_protein_masterlist.csv\n URI: https://data.glygen.org/ln2data/releases/data/v-1.11.2/reviewed/mouse_protein_masterlist.csv\n Output Subdomain\n Name: mouse_protein_citations_uniprotkb.csv\n URI: http://data.glygen.org/ln2data/releases/data/v-1.11.2/reviewed/mouse_protein_citations_uniprotkb.csv\n Name: mouse_protein_citations_uniprotkb.stat.csv\n URI: http://data.glygen.org/ln2data/releases/data/v-1.11.2/reviewed/mouse_protein_citations_uniprotkb.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"16\"\n Name: \"motif_start\"\n Description: \"\"\n Unique Values: \"23\"\n Name: \"filter_flags\"\n Description: \"Filter tags/flags assigned to the mutation entries that have passed the mutation filter criteria\"\n Unique Values: \"19\"\n Name: \"sift_prediction\"\n Description: \"The SIFT qualitative prediction is derived from this score such that substitutions with a score < 0.05 are called 'deleterious' and all others are called 'tolerated\"\n Unique Values: \"3\"\n Name: \"somatic_status\"\n Description: \"The status of the variant whether it is germline (somatic status =0) or somatic (somatic status =1) variant\"\n Unique Values: \"1\"\n Name: \"chr_pos\"\n Description: \"Chromosome Position of a gene\"\n Unique Values: \"19\"\n Name: \"chr_id\"\n Description: \"\"\n Unique Values: \"10\"\n Name: \"dbsnp_id\"\n Description: \"\"A reference SNP ID number\"\n Unique Values: \"19\"\n Name: \"evidence_ECO:0000313\"\n Description: \"A type of evidence that is imported information used in an automatic assertion\"\n Unique Values: \"1\"\n Name: \"xref_id\"\n Description: \"ID of the X-ref\"\n Unique Values: \"19\"\n Name: \"mim_id\"\n Description: \"Disease ID from the OMIM database\"\n Unique Values: \"1\"\n Name: \"description\"\n Description: \"\"\n Unique Values: \"1\"\n Name: \"begin_aa_pos\"\n Description: \"Start position of the amino acid in the sequence of a protein in UniProtKB\"\n Unique Values: \"18\"\n Name: \"cytogenic_band\"\n Description: \"One of the subregions of a chromosome visible microscopically after special staining\"\n Unique Values: \"14\"\n Name: \"aa_pos\"\n Description: \"Position of the amino acid in canonical sequence of protein in the UniProtKB database\"\n Unique Values: \"18\"\n Name: \"ref_aa\"\n Description: \"Reference amino acid residue\"\n Unique Values: \"9\"\n Name: \"sift_score\"\n Description: \"SIFT predicts whether an amino acid substitution is likely to affect protein function based on sequence homology and the physico-chemical similarity between the alternate amino acids. The data we provide for each amino acid substitution is a score and a qualitative prediction (either 'tolerated' or 'deleterious'). The score is the normalized probability that the amino acid change is tolerated so scores nearer zero are more likely to be deleterious. The qualitative prediction is derived from this score such that substitutions with a score < 0.05 are called 'deleterious' and all others are called 'tolerated\"\n Unique Values: \"10\"\n Name: \"alt_motif\"\n Description: \"Altered motif\"\n Unique Values: \"24\"\n Name: \"disease_xrefs\"\n Description: \"\"\n Unique Values: \"1\"\n Name: \"polyphen_score\"\n Description: \"The score assigned to a amino acid substitution by a tool called as PolyPhen (=Polymorphism Phenotyping) which predicts possible impact of an amino acid substitution on the structure and function of a human protein using straightforward physical and comparative considerations. The PolyPhen score ranges from 0.0 (tolerated) to 1.0 (deleterious). Variants with scores of 0.0 are predicted to be benign. Values closer to 1.0 are more confidently predicted to be deleterious\"\n Unique Values: \"1\"\n Name: \"polyphen_prediction\"\n Description: \"\"The PolyPhen prediction values are - greater than 0.908 - \"\"Probably Damaging\"\"; greater than 0.446 and less than or equal to 0.908 - \"\"Possibly Damaging\"\"; less than or equal to 0.446 - \"\"Benign\"\"\"\n Unique Values: \"1\"\n Name: \"is_known_glycoprotein\"\n Description: \"Yes or no flag to denote if a protein is experimentally proven glycoprotein\"\n Unique Values: \"1\"\n Name: \"alt_nt\"\n Description: \"Alternative nucleotide\"\n Unique Values: \"1\"\n Name: \"protein_name\"\n Description: \"Protein name in the UniProtKB\"\n Unique Values: \"16\"\n Name: \"disease_evidence_ECO:0000313\"\n Description: \"The evidence that could be a PMID or a ClinVar ID that associates disease with the variant\"\n Unique Values: \"1\"\n Name: \"effect\"\n Description: \"The effect on glycosylation or N-sequon due to variation at site of glycosylated amino acid.\"\n Unique Values: \"3\"\n Name: \"end_aa_pos\"\n Description: \"End position of the amino acid in the sequence of a protein in UniProtKB\"\n Unique Values: \"18\"\n Name: \"mutation_type\"\n Description: \"Denotes whether mutation was reported with reference to amino acid or nucleotide\"\n Unique Values: \"1\"\n Name: \"disease_description\"\n Description: \"The disease description and/or definition \"\n Unique Values: \"1\"\n Name: \"do_id\"\n Description: \"Disease Ontology identifier\"\n Unique Values: \"1\"\n Name: \"evidence_ECO:0000269\"\n Description: \"A type of experimental evidence that is used in a manual assertion. Usually the values are PMIDs\"\n Unique Values: \"1\"\n Name: \"ref_nt\"\n Description: \"Reference nucleotide\"\n Unique Values: \"4\"\n Name: \"disease\"\n Description: \"The disease name for the cell line\"\n Unique Values: \"1\"\n Name: \"alt_aa\"\n Description: \"Altered amino acid residue\"\n Unique Values: \"10\"\n Name: \"cosmic_id\"\n Description: \"Legacy mutation identifier (COSM) in Catalogue of Somatic Mutations in Cancer (COSMIC) represents existing COSM mutation identifiers. This identifier remains the same between different assemblies (GRCh37 and GRCh38). All the COSM ids at the same genomic location have been collapsed into one representative COSM id. These ids are maintained to help track existing mutations\"\n Unique Values: \"1\"\n Name: \"ref_motif\"\n Description: \"Reference motif\"\n Unique Values: \"20\"\n Name: \"xref_key\"\n Description: \"Source key associated to the xref_id\"\n Unique Values: \"2\"\n Name: \"minor_allelic_frequency\"\n Description: \"\"\n Unique Values: \"1\"\n Name: \"gene_name\"\n Description: \"\"Official gene name/symbol assigned to the gene. Human gene name/symbol are approved by the HUGO Gene Nomenclature Committee (HGNC) and mouse gene name are approved by the Mouse Genome Informatics (MGI)\"\n Unique Values: \"17\"\n Name: \"disease_evidence_ECO:0000269\"\n Description: \"The PMID evidence for the association of the disease with the variant.\"\n Unique Values: \"1\"", "downloadurl": "/ln2data/releases/data/v-1.11.2/reviewed/mouse_protein_citations_uniprotkb.csv" }