{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,10,20]],"date-time":"2025-10-20T18:33:59Z","timestamp":1760985239690},"reference-count":65,"publisher":"Public Library of Science (PLoS)","issue":"1","license":[{"start":{"date-parts":[[2015,1,8]],"date-time":"2015-01-08T00:00:00Z","timestamp":1420675200000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":["www.plosone.org"],"crossmark-restriction":false},"short-container-title":["PLoS ONE"],"DOI":"10.1371\/journal.pone.0116404","type":"journal-article","created":{"date-parts":[[2015,1,8]],"date-time":"2015-01-08T20:47:35Z","timestamp":1420750055000},"page":"e0116404","update-policy":"http:\/\/dx.doi.org\/10.1371\/journal.pone.corrections_policy","source":"Crossref","is-referenced-by-count":11,"title":["Protein Interactome of Muscle Invasive Bladder Cancer"],"prefix":"10.1371","volume":"10","author":[{"given":"Akshay","family":"Bhat","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Andreas","family":"Heinzel","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Bernd","family":"Mayer","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Paul","family":"Perco","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Irmgard","family":"M\u00fchlberger","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Holger","family":"Husi","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Axel S.","family":"Merseburger","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jerome","family":"Zoidakis","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Antonia","family":"Vlahou","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Joost P.","family":"Schanstra","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Harald","family":"Mischak","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Vera","family":"Jankowski","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"340","published-online":{"date-parts":[[2015,1,8]]},"reference":[{"key":"ref1","doi-asserted-by":"crossref","first-page":"11","DOI":"10.3322\/caac.21166","article-title":"Cancer statistics, 2013","volume":"63","author":"R Siegel","year":"2013","journal-title":"CA Cancer J Clin"},{"key":"ref2","first-page":"97","article-title":"Current therapeutic strategies for invasive and metastatic bladder cancer","volume":"4","author":"P Vishnu","year":"2011","journal-title":"Onco Targets Ther"},{"key":"ref3","doi-asserted-by":"crossref","first-page":"251","DOI":"10.1146\/annurev.pathol.4.110807.092230","article-title":"Molecular pathogenesis and diagnostics of bladder cancer","volume":"4","author":"AP Mitra","year":"2009","journal-title":"Annu Rev Pathol"},{"key":"ref4","doi-asserted-by":"crossref","first-page":"68","DOI":"10.1111\/j.1464-410X.2012.11661.x","article-title":"Do differences in clinical symptoms and referral patterns contribute to the gender gap in bladder cancer?","volume":"112","author":"A Henning","year":"2013","journal-title":"BJU Int"},{"key":"ref5","doi-asserted-by":"crossref","first-page":"716","DOI":"10.1016\/j.urolonc.2009.11.007","article-title":"Does preoperative symptom classification impact prognosis in patients with clinically localized upper-tract urothelial carcinoma managed by radical nephroureterectomy?","volume":"29","author":"JD Raman","year":"2011","journal-title":"Urol Oncol"},{"key":"ref6","doi-asserted-by":"crossref","first-page":"395","DOI":"10.2174\/138920212801619232","article-title":"Bladder cancer: a simple model becomes complex","volume":"13","author":"GB Di Pierro","year":"2012","journal-title":"Curr Genomics"},{"key":"ref7","doi-asserted-by":"crossref","first-page":"287","DOI":"10.1590\/S1415-47572013005000015","article-title":"Bioinformatics analysis of the gene expression profile in Bladder carcinoma","volume":"36","author":"J Xiao","year":"2013","journal-title":"Genet Mol Biol"},{"key":"ref8","doi-asserted-by":"crossref","first-page":"245","DOI":"10.4103\/0970-1591.82845","article-title":"Emerging optical techniques in advanced cystoscopy for bladder cancer diagnosis: A review of the current literature","volume":"27","author":"CC Cauberg Evelyne","year":"2011","journal-title":"Indian J Urol"},{"key":"ref9","doi-asserted-by":"crossref","first-page":"12","DOI":"10.1186\/1741-7015-11-12","article-title":"Collectives of diagnostic biomarkers identify high-risk subpopulations of hematuria patients: exploiting heterogeneity in large-scale biomarker data","volume":"11","author":"F Emmert-Streib","year":"2013","journal-title":"BMC Med"},{"key":"ref10","doi-asserted-by":"crossref","first-page":"420","DOI":"10.1097\/MOU.0b013e32834956d6","article-title":"Biomarkers for prognosis and treatment selection in advanced bladder cancer patients","volume":"21","author":"Y Ru","year":"2011","journal-title":"Curr Opin Urol"},{"key":"ref11","doi-asserted-by":"crossref","first-page":"7","DOI":"10.1111\/j.1464-410X.2005.05557.x","article-title":"Molecular staging of bladder cancer","volume":"96","author":"AP Mitra","year":"2005","journal-title":"BJU Int"},{"key":"ref12","doi-asserted-by":"crossref","first-page":"e55414","DOI":"10.1371\/journal.pone.0055414","article-title":"Expression microarray meta-analysis identifies genes associated with Ras\/MAPK and related pathways in progression of muscle-invasive bladder transition cell carcinoma","volume":"8","author":"JA Ewald","year":"2013","journal-title":"PLoS One"},{"key":"ref13","doi-asserted-by":"crossref","first-page":"3995","DOI":"10.1093\/ndt\/gfs489","article-title":"Systems biology: building a useful model from multiple markers and profiles","volume":"27","author":"P Mayer","year":"2012","journal-title":"Nephrol Dial Transplant"},{"key":"ref14","doi-asserted-by":"crossref","first-page":"2","DOI":"10.1093\/carcin\/bgp261","article-title":"Cancer systems biology: a network modeling perspective","volume":"31","author":"PK Kreeger","year":"2010","journal-title":"Carcinogenesis"},{"key":"ref15","doi-asserted-by":"crossref","DOI":"10.4161\/epi.25927","article-title":"Alterations of DNA methylome in human bladder cancer","volume":"8","author":"A Besaratinia","year":"2013","journal-title":"Epigenetics"},{"key":"ref16","doi-asserted-by":"crossref","first-page":"275","DOI":"10.1186\/1471-2407-13-275","article-title":"Diagnostic markers of urothelial cancer based on DNA methylation analysis","volume":"13","author":"Y Chihara","year":"2013","journal-title":"BMC Cancer"},{"key":"ref17","doi-asserted-by":"crossref","first-page":"e76438","DOI":"10.1371\/journal.pone.0076438","article-title":"A pilot study using next-generation sequencing in advanced cancers: feasibility and challenges","volume":"8","author":"GJ Weiss","year":"2013","journal-title":"PLoS One"},{"key":"ref18","doi-asserted-by":"crossref","first-page":"9","DOI":"10.1002\/prca.201000058","article-title":"CE-MS in biomarker discovery, validation, and clinical application","volume":"5","author":"H Mischak","year":"2011","journal-title":"Proteomics Clin Appl"},{"key":"ref19","doi-asserted-by":"crossref","first-page":"163","DOI":"10.1016\/j.chroma.2013.10.002","article-title":"Searching for urine biomarkers of bladder cancer recurrence using a liquid chromatography-mass spectrometry and capillary electrophoresis-mass spectrometry metabolomics approach","volume":"1318","author":"JV Alberice","year":"2013","journal-title":"J Chromatogr A"},{"key":"ref20","article-title":"The Human Gene Compendium","year":"2013"},{"key":"ref21","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1016\/S1476-5586(04)80047-2","article-title":"ONCOMINE: a cancer microarray database and integrated data-mining platform","volume":"6","author":"DR Rhodes","year":"2004","journal-title":"Neoplasia"},{"key":"ref22","doi-asserted-by":"crossref","first-page":"D514","DOI":"10.1093\/nar\/gki033","article-title":"Online Mendelian Inheritance in Man (OMIM), a knowledgebase of human genes and genetic disorders","volume":"33","author":"A Hamosh","year":"2005","journal-title":"Nucleic Acids Res"},{"key":"ref23","doi-asserted-by":"crossref","first-page":"479","DOI":"10.1007\/978-1-61779-027-0_22","article-title":"Omics-bioinformatics in the context of clinical data","volume":"719","author":"G Mayer","year":"2011","journal-title":"Methods Mol Biol"},{"key":"ref24","doi-asserted-by":"crossref","first-page":"105","DOI":"10.1089\/omi.2010.0023","article-title":"Biomarkers in the age of omics: time for a systems biology approach","volume":"15","author":"MS Abu-Asab","year":"2011","journal-title":"OMICS"},{"key":"ref25","doi-asserted-by":"crossref","first-page":"e1000807","DOI":"10.1371\/journal.pcbi.1000807","article-title":"Protein-protein interactions essentials: key concepts to building and analyzing interactome networks","volume":"6","author":"J De Las Rivas","year":"2010","journal-title":"PLoS Comput Biol"},{"key":"ref26","first-page":"48","article-title":"The Kyoto encyclopedia of genes and genomes--KEGG","volume":"17","author":"J Wixon","year":"2000","journal-title":"Yeast"},{"key":"ref27","doi-asserted-by":"crossref","first-page":"D377","DOI":"10.1093\/nar\/gks1118","article-title":"PANTHER in 2013: modeling the evolution of gene function, and other gene attributes, in the context of phylogenetic trees","volume":"41","author":"H Mi","year":"2013","journal-title":"Nucleic Acids Res"},{"key":"ref28","doi-asserted-by":"crossref","first-page":"D691","DOI":"10.1093\/nar\/gkq1018","article-title":"Reactome: a database of reactions, pathways and biological processes","volume":"39","author":"D Croft","year":"2011","journal-title":"Nucleic Acids Res"},{"key":"ref29","doi-asserted-by":"crossref","first-page":"288","DOI":"10.1093\/bioinformatics\/btn615","article-title":"AmiGO: online access to ontology and annotation data","volume":"25","author":"S Carbon","year":"2009","journal-title":"Bioinformatics"},{"key":"ref30","doi-asserted-by":"crossref","first-page":"D991","DOI":"10.1093\/nar\/gks1193","article-title":"NCBI GEO: archive for functional genomics data sets--update","volume":"41","author":"T Barrett","year":"2013","journal-title":"Nucleic Acids Res"},{"key":"ref31","doi-asserted-by":"crossref","first-page":"D987","DOI":"10.1093\/nar\/gks1174","article-title":"ArrayExpress update--trends in database growth and links to data analysis tools","volume":"41","author":"G Rustici","year":"2013","journal-title":"Nucleic Acids Res"},{"key":"ref32","doi-asserted-by":"crossref","first-page":"D26","DOI":"10.1093\/nar\/gkl993","article-title":"Entrez Gene: gene-centered information at NCBI","volume":"35","author":"D Maglott","year":"2007","journal-title":"Nucleic Acids Res"},{"key":"ref33","doi-asserted-by":"crossref","first-page":"D841","DOI":"10.1093\/nar\/gkr1088","article-title":"The IntAct molecular interaction database in 2012","volume":"40","author":"S Kerrien","year":"2012","journal-title":"Nucleic Acids Res"},{"key":"ref34","doi-asserted-by":"crossref","first-page":"D698","DOI":"10.1093\/nar\/gkq1116","article-title":"The BioGRID Interaction Database: 2011 update","volume":"39","author":"C Stark","year":"2011","journal-title":"Nucleic Acids Res"},{"key":"ref35","doi-asserted-by":"crossref","first-page":"1091","DOI":"10.1093\/bioinformatics\/btp101","article-title":"ClueGO: a Cytoscape plug-in to decipher functionally grouped gene ontology and pathway annotation networks","volume":"25","author":"G Bindea","year":"2009","journal-title":"Bioinformatics"},{"key":"ref36","doi-asserted-by":"crossref","first-page":"661","DOI":"10.1093\/bioinformatics\/btt019","article-title":"CluePedia Cytoscape plugin: pathway insights using integrated experimental and in silico data","volume":"29","author":"G Bindea","year":"2013","journal-title":"Bioinformatics"},{"key":"ref37","doi-asserted-by":"crossref","first-page":"1190","DOI":"10.1093\/bioinformatics\/btr101","article-title":"A comprehensive protein-centric ID mapping service for molecular data integration","volume":"27","author":"H Huang","year":"2011","journal-title":"Bioinformatics"},{"key":"ref38","doi-asserted-by":"crossref","first-page":"D521","DOI":"10.1093\/nar\/gkl923","article-title":"HMDB: the Human Metabolome Database","volume":"35","author":"DS Wishart","year":"2007","journal-title":"Nucleic Acids Res"},{"key":"ref39","doi-asserted-by":"crossref","first-page":"D152","DOI":"10.1093\/nar\/gkq1027","article-title":"miRBase: integrating microRNA annotation and deep-sequencing data","volume":"39","author":"A Kozomara","year":"2011","journal-title":"Nucleic Acids Res"},{"key":"ref40","doi-asserted-by":"crossref","first-page":"D154","DOI":"10.1093\/nar\/gkm952","article-title":"miRBase: tools for microRNA genomics","volume":"36","author":"S Griffiths-Jones","year":"2008","journal-title":"Nucleic Acids Res"},{"key":"ref41","doi-asserted-by":"crossref","first-page":"1720","DOI":"10.1039\/b903109j","article-title":"A dependency graph approach for the analysis of differential gene expression profiles","volume":"5","author":"A Bernthaler","year":"2009","journal-title":"Mol Biosyst"},{"key":"ref42","doi-asserted-by":"crossref","first-page":"2","DOI":"10.1186\/1752-0509-2-2","article-title":"Linking the ovarian cancer transcriptome and immunome","volume":"2","author":"R Rapberger","year":"2008","journal-title":"BMC Syst Biol"},{"key":"ref43","doi-asserted-by":"crossref","first-page":"46ps42","DOI":"10.1126\/scitranslmed.3001249","article-title":"Recommendations for biomarker identification and qualification in clinical proteomics","volume":"2","author":"H Mischak","year":"2010","journal-title":"Sci Transl Med"},{"key":"ref44","doi-asserted-by":"crossref","first-page":"384","DOI":"10.1002\/prca.201200121","article-title":"Network views for personalized medicine","volume":"7","author":"A Vlahou","year":"2013","journal-title":"Proteomics Clin Appl"},{"key":"ref45","doi-asserted-by":"crossref","first-page":"M111.009449","DOI":"10.1074\/mcp.M111.009449","article-title":"Profilin 1 is a Potential Biomarker for Bladder Cancer Aggressiveness","volume":"11","author":"M Frantzi","year":"2012","journal-title":"Mol Cell Proteomics"},{"key":"ref46","doi-asserted-by":"crossref","first-page":"524","DOI":"10.1002\/bies.200900181","article-title":"High-throughput DNA sequencing--concepts and limitations","volume":"32","author":"M Kircher","year":"2010","journal-title":"Bioessays"},{"key":"ref47","doi-asserted-by":"crossref","first-page":"1250","DOI":"10.1016\/j.jchromb.2008.10.048","article-title":"Technical, bioinformatical and statistical aspects of liquid chromatography-mass spectrometry (LC-MS) and capillary electrophoresis-mass spectrometry (CE-MS) based clinical proteomics: a critical assessment","volume":"877","author":"M Dakna","year":"2009","journal-title":"J Chromatogr B Analyt Technol Biomed Life Sci"},{"key":"ref48","doi-asserted-by":"crossref","first-page":"7","DOI":"10.1186\/2001-1326-3-7","article-title":"Clinical proteomic biomarkers: relevant issues on study design & technical considerations in biomarker development","volume":"3","author":"M Frantzi","year":"2014","journal-title":"Clin Transl Med"},{"key":"ref49","doi-asserted-by":"crossref","first-page":"930","DOI":"10.1093\/bioinformatics\/btg113","article-title":"Pathways database system: an integrated system for biological pathways","volume":"19","author":"L Krishnamurthy","year":"2003","journal-title":"Bioinformatics"},{"key":"ref50","doi-asserted-by":"crossref","first-page":"337","DOI":"10.1038\/nrg1065","article-title":"Integrating biological databases","volume":"4","author":"LD Stein","year":"2003","journal-title":"Nat Rev Genet"},{"key":"ref51","doi-asserted-by":"crossref","first-page":"482","DOI":"10.1038\/nrg1872","article-title":"Addressing the problems with life-science databases for traditional uses and systems biology","volume":"7","author":"S Philippi","year":"2006","journal-title":"Nat Rev Genet"},{"key":"ref52","doi-asserted-by":"crossref","first-page":"315","DOI":"10.1038\/nature12965","article-title":"Comprehensive molecular characterization of urothelial bladder carcinoma","volume":"507","year":"2014","journal-title":"Nature"},{"key":"ref53","doi-asserted-by":"crossref","first-page":"713","DOI":"10.1038\/nrc1697","article-title":"Urothelial tumorigenesis: a tale of divergent pathways","volume":"5","author":"X-R Wu","year":"2005","journal-title":"Nat Rev Cancer"},{"key":"ref54","doi-asserted-by":"crossref","first-page":"429","DOI":"10.1016\/j.urolonc.2010.04.008","article-title":"Molecular genetics of bladder cancer: Emerging mechanisms of tumor initiation and progression","volume":"28","author":"DJ McConkey","year":"2010","journal-title":"Urol Oncol"},{"key":"ref55","doi-asserted-by":"crossref","first-page":"1545","DOI":"10.1098\/rstb.2006.1894","article-title":"Neurotrophin-regulated signalling pathways","volume":"361","author":"LF Reichardt","year":"2006","journal-title":"Philos Trans R Soc Lond B Biol Sci"},{"key":"ref56","doi-asserted-by":"crossref","first-page":"5962","DOI":"10.1158\/1078-0432.CCR-08-0651","article-title":"On Trk--the TrkB signal transduction pathway is an increasingly important target in cancer biology","volume":"15","author":"CJ Thiele","year":"2009","journal-title":"Clin Cancer Res"},{"key":"ref57","doi-asserted-by":"crossref","first-page":"639","DOI":"10.1038\/aja.2010.89","article-title":"Androgen receptor signaling and mutations in prostate cancer","volume":"12","author":"S Koochekpour","year":"2010","journal-title":"Asian J Androl"},{"key":"ref58","doi-asserted-by":"crossref","first-page":"202","DOI":"10.1186\/1471-2407-7-202","article-title":"Neurotrophin receptors expression and JNK pathway activation in human astrocytomas","volume":"7","author":"M Assimakopoulou","year":"2007","journal-title":"BMC Cancer"},{"key":"ref59","doi-asserted-by":"crossref","first-page":"835","DOI":"10.1038\/nrc2521","article-title":"Derailed endocytosis: an emerging feature of cancer","volume":"8","author":"Y Mosesson","year":"2008","journal-title":"Nat Rev Cancer"},{"key":"ref60","doi-asserted-by":"crossref","first-page":"156","DOI":"10.1016\/j.ceb.2004.02.003","article-title":"Endocytosis and cancer","volume":"16","author":"S Polo","year":"2004","journal-title":"Curr Opin Cell Biol"},{"key":"ref61","doi-asserted-by":"crossref","first-page":"4400","DOI":"10.1158\/1078-0432.CCR-07-0287","article-title":"Decreased DOC-2\/DAB2 expression in urothelial carcinoma of the bladder","volume":"13","author":"JA Karam","year":"2007","journal-title":"Clin Cancer Res"},{"key":"ref62","doi-asserted-by":"crossref","first-page":"167","DOI":"10.1006\/scbi.2000.0367","article-title":"Regulation of the cytoskeleton by Rho-family GTPases: implications for tumour cell invasion","volume":"11","author":"LS Price","year":"2001","journal-title":"Semin Cancer Biol"},{"key":"ref63","doi-asserted-by":"crossref","first-page":"690","DOI":"10.1038\/onc.2013.20","article-title":"Selective regulation of p38\u03b2 protein and signaling by integrin-linked kinase mediates bladder cancer cell migration","volume":"33","author":"L Yu","year":"2014","journal-title":"Oncogene"},{"key":"ref64","doi-asserted-by":"crossref","first-page":"3625","DOI":"10.1158\/0008-5472.CAN-12-3879","article-title":"ATF3 suppresses metastasis of bladder cancer by regulating gelsolin-mediated remodeling of the actin cytoskeleton","volume":"73","author":"X Yuan","year":"2013","journal-title":"Cancer Res"},{"key":"ref65","first-page":"2632","article-title":"Significant association of Rho\/ROCK pathway with invasion and metastasis of bladder cancer","volume":"9","author":"T Kamai","year":"2003","journal-title":"Clin Cancer Res"}],"container-title":["PLOS ONE"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/dx.plos.org\/10.1371\/journal.pone.0116404","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2020,5,9]],"date-time":"2020-05-09T03:18:15Z","timestamp":1588994295000},"score":1,"resource":{"primary":{"URL":"https:\/\/dx.plos.org\/10.1371\/journal.pone.0116404"}},"subtitle":[],"editor":[{"given":"Francisco X.","family":"Real","sequence":"first","affiliation":[],"role":[{"role":"editor","vocabulary":"crossref"}]}],"short-title":[],"issued":{"date-parts":[[2015,1,8]]},"references-count":65,"journal-issue":{"issue":"1","published-online":{"date-parts":[[2015,1,8]]}},"URL":"https:\/\/doi.org\/10.1371\/journal.pone.0116404","relation":{},"ISSN":["1932-6203"],"issn-type":[{"value":"1932-6203","type":"electronic"}],"subject":[],"published":{"date-parts":[[2015,1,8]]}}}