Ab Initio Identification of Novel Regulatory Elements in the Genome of Trypanosoma brucei by Bayesian Inference on Sequence Segmentation 英文参考文献.docVIP

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Ab Initio Identification of Novel Regulatory Elements in the Genome of Trypanosoma brucei by Bayesian Inference on Sequence Segmentation 英文参考文献.doc

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Ab Initio Identification of Novel Regulatory Elements in the Genome of Trypanosoma brucei by Bayesian Inference on Sequence Segmentation 英文参考文献

AbInitioIdentificationofNovelRegulatoryElementsin theGenomeofTrypanosomabruceibyBayesian InferenceonSequenceSegmentation StevenKelly1,2,3*,BillWickstead4,5,PhilipK.Maini2,3,KeithGull3,4 1DepartmentofPlantSciences,UniversityofOxford,Oxford,UnitedKingdom,2CentreforMathematicalBiology,MathematicalInstitute,UniversityofOxford,Oxford, UnitedKingdom,3OxfordCentreforInteractiveSystemsBiology,DepartmentofBiochemistry,UniversityofOxford,Oxford,UnitedKingdom,4SirWilliamDunnSchoolof Pathology, University of Oxford, Oxford, United Kingdom, 5Centre for Genetics and Genomics, The University of Nottingham, Queen’s Medical Centre, Nottingham, UnitedKingdom Abstract Background: The rapid increase in the availability of genome information has created considerable demand for both comparativeandabinitiopredictivebioinformaticanalyses.Thebiologylaidbareinthegenomesofmanyorganismsis oftennovel,presentingnewchallengesforbioinformaticinterrogation.Aparadigmforthisisthecollectedgenomesofthe kinetoplastidparasites,agroupwhichincludesTrypanosomabruceithecausativeagentofhumanAfricantrypanosomiasis. Thesegenomes,thoughoutwardlysimpleinorganisationandgenecontent,havehistoricallychallengedmanytheoriesfor geneexpressionregulationineukaryotes. Methodology/PrincipleFindings:HereweutiliseaBayesianapproachtoidentifylocalchangesinnucleotidecomposition inthegenomeofT.brucei.Weshowthatthereareseveralelementswhicharefoundatthestartsandendsofmulticopy genearraysandthattherearecompositionalelementsthatarecommontoallintergenicregions.Wealsoshowthatthereis acomposition-inversionelementthatoccursatthepositionofthetrans-splicesite. Conclusions/Significance:ThenatureoftheelementsdiscoveredreinforcesthehypothesisthatcontextdependantRNA secondarystructurehasanimportantinfluenceongeneexpressionregulationinTrypanosomabrucei. Citation:KellyS,WicksteadB,MainiPK,GullK(2011)AbInitioIdentificationofNovelRegulatoryElementsintheGenomeofTrypanosomabruceibyBayesian InferenceonSequenceSegmentation.PLoSONE6(10):e25666.doi:10