Novel robust biomarkers for human bladder cancer based on activation of intracellular signaling pathways

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dc.contributor.authorLezhnina, Ksenia
dc.contributor.authorKovalchuk, Olga
dc.contributor.authorZhavoronkov, Alexander A.
dc.contributor.authorKorzinkin, Mikhail B.
dc.contributor.authorZabolotneva, Anastasia A.
dc.contributor.authorShegay, Peter V.
dc.contributor.authorSokov, Dmitry G.
dc.contributor.authorGaifullin, Nurshat M.
dc.contributor.authorRusakov, Igor G.
dc.contributor.authorAliper, Alexander M.
dc.contributor.authorRoumiantsev, Sergey A.
dc.contributor.authorAlekseev, Boris Y.
dc.contributor.authorBorisov, Nikolay M.
dc.contributor.authorBuzdin, Anton A.
dc.date.accessioned2019-01-23T19:59:55Z
dc.date.available2019-01-23T19:59:55Z
dc.date.issued2014
dc.descriptionSherpa Romeo blue journal. Open access article. Creative Commons Attribution 3.0 License (CC BY 3.0) applies.en_US
dc.description.abstractWe recently proposed a new bioinformatic algorithm called OncoFinder for quantifying the activation of intracellular signaling pathways. It was proved advantageous for minimizing errors of high-throughput gene expression analyses and showed strong potential for identifying new biomarkers. Here, for the first time, we applied OncoFinder for normal and cancerous tissues of the human bladder to identify biomarkers of bladder cancer. Using Illumina HT12v4 microarrays, we profiled gene expression in 17 cancer and seven non-cancerous bladder tissue samples. These experiments were done in two independent laboratories located in Russia and Canada. We calculated pathway activation strength values for the investigated transcriptomes and identified signaling pathways that were regulated differently in bladder cancer (BC) tissues compared with normal controls. We found, for both experimental datasets, 44 signaling pathways that serve as excellent new biomarkers of BC, supported by high area under the curve (AUC) values. We conclude that the OncoFinder approach is highly efficient in finding new biomarkers for cancer. These markers are mathematical functions involving multiple gene products, which distinguishes them from “traditional” expression biomarkers that only assess concentrations of single genes.en_US
dc.description.peer-reviewYesen_US
dc.identifier.citationLezhnina, K., Kovalchuk, O., Zhavoronkov, A. A., Korzinkin, M. B., Zabolotneva, A. A., Shegay, P. V.,...& Buzdin, A. A. (2014). Novel robust biomarkers for human bladder cancer based on activation of intracellular signaling pathways. Oncotarget, 5(19), 9022-9032. https://doi.org/10.18632/oncotarget.2493en_US
dc.identifier.urihttps://hdl.handle.net/10133/5271
dc.language.isoen_USen_US
dc.publisherImpact Journals
dc.publisher.departmentDepartment of Biological Sciencesen_US
dc.publisher.facultyArts and Scienceen_US
dc.publisher.institutionPathway Pharmaceuticalsen_US
dc.publisher.institutionD. Rogachyov Federal Research Center of Pediatric Hematology, Oncology and Immunologyen_US
dc.publisher.institutionUniversity of Lethbridgeen_US
dc.publisher.institutionCanada Cancer and Aging Research Laboratories Ltd.en_US
dc.publisher.institutionJohn Hopkins Universityen_US
dc.publisher.institutionMoscow Institute of Physics and Technologyen_US
dc.publisher.institutionShemyakn-Ovchinnikov Institute of Bioorganic Chemistryen_US
dc.publisher.institutionP.A. Herzen Moscow Oncological Research Instituteen_US
dc.publisher.institutionMoscow 1st Oncological Hospitalen_US
dc.publisher.institutionLomonosov Moscow State Universityen_US
dc.publisher.institutionRussian Medical Postgraduate Academyen_US
dc.publisher.institutionA.I. Burnasyan Federal Medical Biophysical Centeren_US
dc.publisher.urlhttps://doi.org/10.18632/oncotarget.2493
dc.subjectBladder canceren_US
dc.subjectIntracellular signaling pathway activationen_US
dc.subjectGene expressionen_US
dc.subjectTranscriptome profilingen_US
dc.subjectMolecular markersen_US
dc.subjectAUCen_US
dc.subjectBiomarkersen_US
dc.subjectMicroarrayen_US
dc.subject.lcshBladder--Cancer
dc.subject.lcshBladder--Cancer--Research
dc.titleNovel robust biomarkers for human bladder cancer based on activation of intracellular signaling pathwaysen_US
dc.typeArticleen_US
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