{ "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": [ [ "P26262-1...", "30019481..." ], [ "Q6P3D7-1...", "12459275..." ] ], "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" }, { "type": "string", "label": "xref_key" }, { "type": "string", "label": "xref_id" } ], [ "P26262-1", "30019481", "Crystal structure of plasma kallikrein reveals the unusual flexibility of the S1 pocket triggered by Glu217.", "FEBS letters", "2018 Aug", "Xu M, Chen Y, Xu P, Andreasen PA, Jiang L, Li J, Huang M", "protein_xref_refseq", "NP_032481.2" ], [ "Q6P3D7-1", "12459275", "Genomic structure of mouse SPI-C and genomic structure and expression pattern of human SPI-C.", "Gene", "2002 Oct 16", "Carlsson R, Hjalmarsson A, Liberg D, Persson C, Leanderson T", "protein_xref_refseq", "NP_035591.3" ], [ "Q8C3F2-1", "14585507", "The human gene CXorf17 encodes a member of a novel family of putative transmembrane proteins: cDNA cloning and characterization of CXorf17 and its mouse ortholog orf34.", "Gene", "2003 Oct 30", "Holden S, Raymond FL", "protein_xref_refseq", "NP_932773.2" ], [ "Q80Z25-1", "28450740", "The centrosomal OFD1 protein interacts with the translation machinery and regulates the synthesis of specific targets.", "Scientific reports", "2017 Apr 27", "Iaconis D, Monti M, Renda M, van Koppen A, Tammaro R, Chiaravalli M, Cozzolino F, Pignata P, Crina C, Pucci P, Boletta A, Belcastro V, Giles RH, Surace EM, Gallo S, Pende M, Franco B", "protein_xref_refseq", "NP_803178.2" ], [ "Q61983-1", "20566650", "Type 1 sodium-dependent phosphate transporter (SLC17A1 Protein) is a Cl(-)-dependent urate exporter.", "The Journal of biological chemistry", "2010 Aug 20", "Iharada M, Miyaji T, Fujimoto T, Hiasa M, Anzai N, Omote H, Moriyama Y", "protein_xref_refseq", "NP_001164109.1" ], [ "O35668-1", "28137862", "DYRK1A regulates Hap1-Dcaf7/WDR68 binding with implication for delayed growth in Down syndrome.", "Proceedings of the National Academy of Sciences of the United States of America", "2017 Feb 14", "Xiang J, Yang S, Xin N, Gaertig MA, Reeves RH, Li S, Li XJ", "protein_xref_refseq", "NP_034534.1" ], [ "Q9EQX0-1", "12039068", "Ghrelin gene expression is age-dependent and influenced by gender and the level of circulating IGF-I.", "Molecular and cellular endocrinology", "2002 Mar 28", "Liu YL, Yakar S, Otero-Corchon V, Low MJ, Liu JL", "protein_xref_refseq", "NP_001273333.1" ], [ "P21183-1", "25330943", "SLy2 controls the antibody response to pneumococcal vaccine through an IL-5Ralpha-dependent mechanism in B-1 cells.", "European journal of immunology", "2015 Jan", "Schmitt F, Schall D, Bucher K, Schindler TI, Hector A, Biedermann T, Zemlin M, Hartl D, Beer-Hammer S", "protein_xref_refseq", "NP_032396.1" ], [ "Q9D0P5-1", "15234002", "Cloning and developmental expression of mouse pygopus 2, a putative Wnt signaling component.", "Genomics", "2004 Aug", "Li B, Mackay DR, Ma J, Dai X", "protein_xref_refseq", "NP_082392.1" ], [ "Q7TNH6-1", "3712587", "A new mouse model of genetically transmitted polycystic kidney disease.", "The Journal of urology", "1986 Jun", "Takahashi H, Ueyama Y, Hibino T, Kuwahara Y, Suzuki S, Hioki K, Tamaoki N", "protein_xref_refseq", "NP_082997.3" ], [ "Q8C6M1-1", "30538132", "The deubiquitinase ubiquitin-specific protease 20 is a positive modulator of myocardial beta1-adrenergic receptor expression and signaling.", "The Journal of biological chemistry", "2019 Feb 15", "Yu SM, Jean-Charles PY, Abraham DM, Kaur S, Gareri C, Mao L, Rockman HA, Shenoy SK", "protein_xref_refseq", "NP_083122.1" ], [ "Q8CI61-1", "14559896", "Involvement of a chaperone regulator, Bcl2-associated athanogene-4, in apolipoprotein B mRNA editing.", "The Journal of biological chemistry", "2003 Dec 26", "Lau PP, Chan L", "protein_xref_refseq", "NP_080397.1" ], [ "Q9CQY7-1", "15226823", "Genomic analysis of mouse retinal development.", "PLoS biology", "2004 Sep", "Blackshaw S, Harpavat S, Trimarchi J, Cai L, Huang H, Kuo WP, Weber G, Lee K, Fraioli RE, Cho SH, Yung R, Asch E, Ohno-Machado L, Wong WH, Cepko CL", "protein_xref_refseq", "NP_080454.1" ], [ "Q9CXG9-1", "25031030", "WT1 controls antagonistic FGF and BMP-pSMAD pathways in early renal progenitors.", "Nature communications", "2014 Jul 17", "Motamedi FJ, Badro DA, Clarkson M, Lecca MR, Bradford ST, Buske FA, Saar K, Hubner N, Brandli AW, Schedl A", "protein_xref_refseq", "NP_082992.1" ], [ "Q8BW22-1", "16926188", "Targeted disruption of the synovial sarcoma-associated SS18 gene causes early embryonic lethality and affects PPARBP expression.", "Human molecular genetics", "2006 Oct 1", "de Bruijn DR, Peters WJ, Chuva de Sousa Lopes SM, van Dijk AH, Willemse MP, Pfundt R, de Boer P, Geurts van Kessel A", "protein_xref_refseq", "NP_848865.4" ], [ "Q9JKY7-1", "25808902", "Molecular evolution of the CYP2D subfamily in primates: purifying selection on substrate recognition sites without the frequent or long-tract gene conversion.", "Genome biology and evolution", "2015 Mar 25", "Yasukochi Y, Satta Y", "protein_xref_refseq", "NP_001156944.1" ], [ "P58710-1", "15674730", "A deletion causing spontaneous fracture identified from a candidate region of mouse Chromosome 14.", "Mammalian genome : official journal of the International Mammalian Genome Society", "2005 Jan", "Jiao Y, Li X, Beamer WG, Yan J, Tong Y, Goldowitz D, Roe B, Gu W", "protein_xref_refseq", "NP_848862.1" ], [ "A2A9I7-1", "25082981", "Involvement of doublesex and mab-3-related transcription factors in human female germ cell development demonstrated by xenograft and interference RNA strategies.", "Molecular human reproduction", "2014 Oct", "Poulain M, Frydman N, Tourpin S, Muczynski V, Souquet B, Benachi A, Habert R, Rouiller-Fabre V, Livera G", "protein_xref_refseq", "NP_063925.1" ], [ "P97492-1", "29518331", "Interactome Analysis Reveals Regulator of G Protein Signaling 14 (RGS14) is a Novel Calcium/Calmodulin (Ca(2+)/CaM) and CaM Kinase II (CaMKII) Binding Partner.", "Journal of proteome research", "2018 Apr 6", "Evans PR, Gerber KJ, Dammer EB, Duong DM, Goswami D, Lustberg DJ, Zou J, Yang JJ, Dudek SM, Griffin PR, Seyfried NT, Hepler JR", "protein_xref_refseq", "NP_058038.2" ], [ "P15209-1", "30996124", "Tiling and somatotopic alignment of mammalian low-threshold mechanoreceptors.", "Proceedings of the National Academy of Sciences of the United States of America", "2019 May 7", "Kuehn ED, Meltzer S, Abraira VE, Ho CY, Ginty DD", "protein_xref_refseq", "NP_001020245.1" ], [ "Q9JIE6-1", "30991764", "Use of Physcion to Improve Atopic Dermatitis-Like Skin Lesions through Blocking of Thymic Stromal Lymphopoietin.", "Molecules (Basel, Switzerland)", "2019 Apr 15", "Moon PD, Han NR, Lee JS, Hong S, Yoo MS, Kim HJ, Kim JH, Kang S, Jee HW, Kim HM, Jeong HJ", "protein_xref_refseq", "NP_067342.1" ], [ "Q99JB8-1", "29202928", "Deciphering caveolar functions by syndapin III KO-mediated impairment of caveolar invagination.", "eLife", "2017 Dec 5", "Seemann E, Sun M, Krueger S, Troger J, Hou W, Haag N, Schuler S, Westermann M, Huebner CA, Romeike B, Kessels MM, Qualmann B", "protein_xref_refseq", "NP_001276606.1" ], [ "P97350-1", "30689641", "RPGRIP1L is required for stabilizing epidermal keratinocyte adhesion through regulating desmoglein endocytosis.", "PLoS genetics", "2019 Jan", "Choi YJ, Laclef C, Yang N, Andreu-Cervera A, Lewis J, Mao X, Li L, Snedecor ER, Takemaru KI, Qin C, Schneider-Maunoury S, Shroyer KR, Hannun YA, Koch PJ, Clark RA, Payne AS, Kowalczyk AP, Chen J", "protein_xref_refseq", "NP_001300630.1" ], [ "F8VQB6-1", "30389913", "Myh10 deficiency leads to defective extracellular matrix remodeling and pulmonary disease.", "Nature communications", "2018 Nov 2", "Kim HT, Yin W, Jin YJ, Panza P, Gunawan F, Grohmann B, Buettner C, Sokol AM, Preussner J, Guenther S, Kostin S, Ruppert C, Bhagwat AM, Ma X, Graumann J, Looso M, Guenther A, Adelstein RS, Offermanns S, Stainier DYR", "protein_xref_refseq", "NP_062345.2" ], [ "Q6GQS1-1", "30623988", "Extracellular ATP and glutamate drive pyruvate production and energy demand to regulate mitochondrial respiration in astrocytes.", "Glia", "2019 Apr", "Juaristi I, Llorente-Folch I, Satrustegui J, Del Arco A", "protein_xref_refseq", "NP_080153.2" ], [ "Q91ZT5-1", "12226475", "A molecular profile of a hematopoietic stem cell niche.", "Proceedings of the National Academy of Sciences of the United States of America", "2002 Oct 1", "Hackney JA, Charbord P, Brunk BP, Stoeckert CJ, Lemischka IR, Moore KA", "protein_xref_refseq", "NP_001288747.1" ], [ "Q9JI67-1", "23012479", "Impact of lactobacilli on orally acquired listeriosis.", "Proceedings of the National Academy of Sciences of the United States of America", "2012 Oct 9", "Archambaud C, Nahori MA, Soubigou G, Becavin C, Laval L, Lechat P, Smokvina T, Langella P, Lecuit M, Cossart P", "protein_xref_refseq", "NP_001116465.1" ], [ "Q6P1D5-1", "19696195", "Full-length sequence of mouse acupuncture-induced 1-L (aig1l) gene including its transcriptional start site.", "Evidence-based complementary and alternative medicine : eCAM", "2011", "Ohta M, Sugano A, Goto S, Yusoff S, Hirota Y, Funakoshi K, Miura K, Maeda E, Takaoka N, Sato N, Ishizuka H, Arizono N, Nishio H, Takaoka Y", "protein_xref_refseq", 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the HMG-box superfamily, is transiently expressed in developing granule neurons.", "Brain research. Molecular brain research", "2002 Oct 15", "Lee CJ, Chan WI, Cheung M, Cheng YC, Appleby VJ, Orme AT, Scotting PJ", "protein_xref_refseq", "NP_001289740.1" ], [ "P62245-1", "27434733", "Karyopherin Alpha 1 Regulates Satellite Cell Proliferation and Survival by Modulating Nuclear Import.", "Stem cells (Dayton, Ohio)", "2016 Nov", "Choo HJ, Cutler A, Rother F, Bader M, Pavlath GK", "protein_xref_refseq", "NP_733769.1" ], [ "Q9Z0J1-1", "15093608", "Involvement of histone deacetylation in ras-induced down-regulation of the metastasis suppressor RECK.", "Cellular signalling", "2004 Jun", "Chang HC, Liu LT, Hung WC", "protein_xref_refseq", "NP_057887.2" ], [ "P34960-1", "30959793", "Delayed Astrogliosis Associated with Reduced M1 Microglia Activation in Matrix Metalloproteinase 12 Knockout Mice during Theiler's Murine Encephalomyelitis.", "International journal of molecular sciences", "2019 Apr 5", "Hansmann F, Zhang N, Herder V, Leitzen E, Baumgartner W", "protein_xref_refseq", "NP_001307005.1" ], [ "O88502-1", "23509299", "Phosphodiesterase-8A binds to and regulates Raf-1 kinase.", "Proceedings of the National Academy of Sciences of the United States of America", "2013 Apr 16", "Brown KM, Day JP, Huston E, Zimmermann B, Hampel K, Christian F, Romano D, Terhzaz S, Lee LC, Willis MJ, Morton DB, Beavo JA, Shimizu-Albergine M, Davies SA, Kolch W, Houslay MD, Baillie GS", "protein_xref_refseq", "NP_032829.1" ], [ "Q8R5F7-1", "12819136", "Comparative analysis of apoptosis and inflammation genes of mice and humans.", "Genome research", "2003 Jun", "Reed JC, Doctor K, Rojas A, Zapata JM, Stehlik C, Fiorentino L, Damiano J, Roth W, Matsuzawa S, Newman R, Takayama S, Marusawa H, Xu F, Salvesen G, Godzik A", "protein_xref_refseq", "NP_001157949.1" ], [ "Q8BZN4-1", "18307533", "Susceptibility of Snark-deficient mice to azoxymethane-induced colorectal tumorigenesis and the formation of aberrant crypt foci.", "Cancer science", "2008 Apr", "Tsuchihara K, Ogura T, Fujioka R, Fujii S, Kuga W, Saito M, Ochiya T, Ochiai A, Esumi H", "protein_xref_refseq", "NP_001181954.1" ], [ "Q60772-1", "9244355", "Expression of the p16INK4a tumor suppressor versus other INK4 family members during mouse development and aging.", "Oncogene", "1997 Jul 10", "Zindy F, Quelle DE, Roussel MF, Sherr CJ", "protein_xref_refseq", "NP_001288297.1" ], [ "A9Q751-1", "18039845", "Primary ciliary dyskinesia in mice lacking the novel ciliary protein Pcdp1.", "Molecular and cellular biology", "2008 Feb", "Lee L, Campagna DR, Pinkus JL, Mulhern H, Wyatt TA, Sisson JH, Pavlik JA, Pinkus GS, Fleming MD", "protein_xref_refseq", "NP_001108546.1" ], [ "Q01231-1", "1318884", "Molecular cloning and functional expression of mouse connexin40, a second gap junction gene preferentially expressed in lung.", "The Journal of cell biology", "1992 Jun", "Hennemann H, Suchyna T, Lichtenberg-Frate H, Jungbluth S, Dahl E, Schwarz J, Nicholson BJ, Willecke K", "protein_xref_refseq", "NP_001258557.1" ], [ "Q8BIV3-1", "12466305", "Assembly, verification, and initial annotation of the NIA mouse 7.4K cDNA clone set.", "Genome research", "2002 Dec", "VanBuren V, Piao Y, Dudekula DB, Qian Y, Carter MG, Martin PR, Stagg CA, Bassey UC, Aiba K, Hamatani T, Kargul GJ, Luo AG, Kelso J, Hide W, Ko MS", "protein_xref_refseq", "NP_808389.2" ], [ "E9PY62-1", "26807827", "Caspr3-Deficient Mice Exhibit Low Motor Learning during the Early Phase of the Accelerated Rotarod Task.", "PloS one", "2016", "Hirata H, Takahashi A, Shimoda Y, Koide T", "protein_xref_refseq", "NP_001074598.1" ], [ "Q9CPU9-1", "26342034", "Ctr2 Regulates Mast Cell Maturation by Affecting the Storage and Expression of Tryptase and Proteoglycans.", "Journal of immunology (Baltimore, Md. : 1950)", "2015 Oct 15", "Ohrvik H, Logeman B, Noguchi G, Eriksson I, Kjellen L, Thiele DJ, Pejler G", "protein_xref_refseq", "NP_001277447.1" ], [ "Q9JJC6-1", "27626380", "High-throughput discovery of novel developmental phenotypes.", "Nature", "2016 Sep 22", "Dickinson ME, Flenniken AM, Ji X, Teboul L, Wong MD, White JK, Meehan TF, Weninger WJ, Westerberg H, Adissu H, Baker CN, Bower L, Brown JM, Caddle LB, Chiani F, Clary D, Cleak J, Daly MJ, Denegre JM, Doe B, Dolan ME, Edie SM, Fuchs H, Gailus-Durner V, Galli A, Gambadoro A, Gallegos J, Guo S, Horner NR, Hsu CW, Johnson SJ, Kalaga S, Keith LC, Lanoue L, Lawson TN, Lek M, Mark M, Marschall S, Mason J, McElwee ML, Newbigging S, Nutter LM, Peterson KA, Ramirez-Solis R, Rowland DJ, Ryder E, Samocha KE, Seavitt JR, Selloum M, Szoke-Kovacs Z, Tamura M, Trainor AG, Tudose I, Wakana S, Warren J, Wendling O, West DB, Wong L, Yoshiki A, MacArthur DG, Tocchini-Valentini GP, Gao X, Flicek P, Bradley A, Skarnes WC, Justice MJ, Parkinson HE, Moore M, Wells S, Braun RE, Svenson KL, de Angelis MH, Herault Y, Mohun T, Mallon AM, Henkelman RM, Brown SD, Adams DJ, Lloyd KC, McKerlie C, Beaudet AL, Bucan M, Murray SA", "protein_xref_refseq", "NP_067405.1" ] ] }, "readme": "Name\n - Mouse Protein Citations (RefSeq)\n\nVersion\n - 1.5.30\n\nCreated on\n - 2019-09-06T14:06:38.962804\n\nModified on\n - 2020-04-10T12:45:40.582715\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 Citations (RefSeq) datasets contains mouse [taxid:10090] UniProtKB accessions mapped to publication information (pmid, title, journal name, publication, date, authors of corresponding RefSeq accessions. 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: \"16249\"\n Name: \"xref_id\"\n Description: \"\"\n Unique Values: \"16249\"\n Name: \"title\"\n Description: \"Title of the published article in the journal\"\n Unique Values: \"45675\"\n Name: \"journal_name\"\n Description: \"The name of the journal in which the article is published\"\n Unique Values: \"1528\"\n Name: \"authors\"\n Description: \"Authors of the associated publications\"\n Unique Values: \"45433\"\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: \"6801\"\n Name: \"pmid\"\n Description: \"NCBI PubMed database Identifier\"\n Unique Values: \"45677\"\n Name: \"xref_key\"\n Description: \"\"\n Unique Values: \"1\"", "downloadurl": "/ln2data/releases/data/v-1.5.30/reviewed/mouse_protein_citations_refseq.csv" }