QServer A Biclustering Server for Prediction and Assessment of Co-Expressed Gene Clusters 英文参考文献.docVIP

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QServer A Biclustering Server for Prediction and Assessment of Co-Expressed Gene Clusters 英文参考文献.doc

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QServer A Biclustering Server for Prediction and Assessment of Co-Expressed Gene Clusters 英文参考文献

QServer:ABiclusteringServerforPredictionand AssessmentofCo-ExpressedGeneClusters FengfengZhou1,2.,QinMa2.,GuojunLi2,3,YingXu2,4 * 1Research Center for Biomedical Information Technology, Institute of Biomedical and Health Engineering, Shenzhen Institutes of Advanced Technology, Chinese AcademyofSciences,Shenzhen,People’sRepublicofChina,2ComputationalSystemsBiologyLaboratory,DepartmentofBiochemistryandMolecularBiology,Instituteof Bioinformatics,BioEnergyScienceCenter(BESC),UniversityofGeorgia,Athens,Georgia,UnitedStatesofAmerica,3SchoolofMathematics,ShandongUniversity,Jinan, China,4CollegeofComputerScienceandTechnology,JilinUniversity,Changchun,China Abstract Background:Biclusteringisapowerfultechniqueforidentificationofco-expressedgenegroupsunderany(unspecified) substantial subset of given experimental conditions, which can be used for elucidation of transcriptionally co-regulated genes. Results: We have previously developed a biclustering algorithm, QUBIC, which can solve more general biclustering problems than previous biclustering algorithms. To fully utilize the analysis power the algorithm provides, we have developed a web server, QServer, for prediction, computational validation and analyses of co-expressed gene clusters. Specifically,theQServerhasthefollowingcapabilitiesinadditiontobiclusteringbyQUBIC:(i)predictionandassessmentof conserved cis regulatory motifs in promoter sequences of the predicted co-expressed genes; (ii) functional enrichment analysesofthepredictedco-expressedgeneclustersusingGeneOntology(GO)terms,and(iii)visualizationcapabilitiesin supportofinteractivebiclusteringanalyses.QServersupportsthebiclusteringandfunctionalanalysisforawiderangeof organisms, including human, mouse, Arabidopsis, bacteria and archaea, whose underlying genome database will be continuouslyupdated. Conclusion: We believe that QServer provides an easy-to-use and highly effective platform useful for hypothesis formulationandtestingrelatedtotranscriptionco-regulation. Cit