第七屆亞太生物信息學大會論文集

第七屆亞太生物信息學大會論文集

作者：[美]Michael S.Waterman、Michae
定價：290元
印次：1-1
ISBN：9787302190486
出版日期：2009.01.01
印刷日期：2008.12.23

目錄

Table of Contents

Category

Subcategory

Pages (papers; posters)

A - DNA sequence processing

A1. Sequence alignment and evolution

A2. Sequence assembly

12; 823

141

B - Expression and regulation

B1. Gene expression, microarray data analysis and disease classification

B2. Gene regulation

185; 837

325; 844

C - non-coding RNAs

C1. miRNAs and RNAi

C2. RNA structure

374; 856

426;864

D-Proteinsandproteomics

D1.Proteinstructure,locationandfunction

D2.Massspectrometrydataprocessing

464;867

556;885

E-Pathwaysandnetworks

E1.Pathways

E2.Networksandsystemsbiology

588;889

631;891

F-Genomicvariationsandcomplexdiseases

F1.Diseaseclassificationandmetabolismmodeling

F2.Associationstudyandgenomicvariation

673;908

717;915

Preface:IntroductiontoAPBC2009

MichaelQ.Zhang,MichaelS.Waterman,XuegongZhang

1

OralPresentations

Keynote

DavidJ.Lipman:AMolecularPictureofSeasonalInfluenza

4

Keynote

MichaelS.Waterman:SequenceAnalysisUsingEulerianGraphs

5

Invited

MichaelB.Eisen:UnderstandingandExploitingtheEvolutionofDrosophilaRegulatorySequences

6

Invited

BailinHao:IndependentVerificationof16SrRNABasedProkaryoticPhylogenyByCompositionVectorApproach

8

Invited

JohnMattick:ANewUnderstandingoftheHumanGenome

9

Invited

PavelPevzner:EULER:FromAssemblingShortDNAReadstoShotgunProteinSequencingbyAssemblingMassSpectra

10

Invited

MartinVingron:AMolecularPictureofseawndlnfluenza

11

A-DNASequences

A1.Sequencealignmentandevolution

A1-01

Genomealiquotingwithdoublecutandjoin.RobertWarrenandDavidSankoff.

12

A1-02

PathogenicBacillusanthracisintheprogressivegenelossesandgainsinadaptiveevolution.GongXinYu.

22

A1-03

SE:Analgorithmforderivingsequencealignmentfromapairofsuperimposedstructures.Chin-HsienTai,JamesJ.Vincent,ChanghoonKimandByungkookLee.

32

A1-04

ComPhy:prokaryoticcompositedistancephylogeniesinferredfromwhole-genomegenesets.GuanNingLin,ZhipengCai,GuohuiLin,SounakChakrabortyandDongXu.

40

A1-05

Maximumindependentsetsofcommutingandnoninterferinginversions.KristerSwenson,YokukiTo,JijunTangandBernardMoret.

53

A1-06

Inversion-basedgenomicsignatures.KristerSwensonandBernardMoret.

63

A1-07

Tripletsupertreeheuristicsforthetreeoflife.HarrisT.Lin,J.GordonBurleighandOliverEulenstein.

72

A1-08

Sortingbyreversals,blockinterchanges,tandemduplications,anddeletions.MartinBader.

83

A1-09

Improvedalgorithmsforapproximatestringmatching(extendedabstract).DimitrisPapamichailandGeorgiosPapamichail.

94

A1-10

Simultaneousphylogenyreconstructionandmultiplesequencealignment.FengYue,JianShiandJijunTang.

105

A1-11

Methodsforcomparativemetagenomics.DanielHuson,DanielCRichter,SuparnaMitra,AlexanderFAuchandStephanCSchuster.

115

A1-12

DNAmotifalignmentbyevolvingapopulationofMarkovchains.ChengpengBi.

126

A1-13

EfficientEstimationoftheAccuracyoftheMaximumLikelihoodMethodforReconstructionofAncestralStates.BinMaandLouxinZhang.

138

A2.Sequenceassembly

A2-01

Parallelshortsequenceassemblyoftranscriptomes.BenjaminGJackson,PatrickS.SchnableandSrinivasAluru.

141

A2-02

FindingoptimalthresholdforcorrectionerrorreadsinDNAassembling.FrancisY.L.Chin,HenryC.M.Leung,WeilinLiandSiu-MingYiu.

153

A2-03

Crystallizingshort-readassembliesaroundseeds.MohammadSajjadHossain,NavidAzimiandStevenSkiena.

162

A2-04

ShortreadDNAfragmentanchoringalgorithm.WendiWang,PeihengZhang,XinchunLiu.

173

B-ExpressionandRegulation

B1.Geneexpression,microarraydataanalysisanddiseaseclassification

B1-01

REMAS:anewregressionmodeltoidentifyalternativesplicingeventsfromexonarraydata.HaoZheng,XingyiHang,JiZhu,MinpingQian,WubinQu,ChenggangZhang,MinghuaDeng.

185

B1-02

Avotingapproachtoidentifyasmallnumberofhighlypredictivegenesusingmultipleclassifiers.Md.RafiulHassan,M.MarufHossain,JamesBailey,GeoffMacintyre,JoshuaW.K.HoandKotagiriRamamohanarao.

194

B1-03

Knowledgedrivendecompositionoftumorexpressionprofiles.M.H.vanVliet,L.F.A.WesselsandM.J.T.Reinders.

206

B1-04

Network-basedsupportvectormachineforclassificationofmicroarraysamples.YanniZhu,XiaotongShenandWeiPan.

220

B1-05

Usingrandomforestforreliableclassificationandcost-sensitivelearningformedicaldiagnosis.FanYang,Hua-zhenWang,HongMi,Cheng-deLin,Wei-wenCai.

231

B1-06

Astatisticalframeworkforintegratingtwomicroarraydatasetsindifferentialexpressionanalysis.YingleiLai,SarahE.EckenrodeandJin-XiongShe.

245

B1-07

ComparisonofAffymetrixdatanormalizationmethodsusing6,926experimentsacrossfivearraygenerations.ReijaAutio,SamiKilpinen,MattiSaarela,OlliKallioniemi,SampsaHautaniemi,JaakkoAstola.

257

B1-08

Integrativediseaseclassificationbasedoncross-platformmicroarraydata.Chun-ChiLiu,JianjunHu,MrinalKalakrishnan,HaiyanHuang,XianghongJasmineZhou.

269

B1-09

Principalcomponenttests:appliedtotemporalgeneexpressiondata.WenshengZhang,Hong-binFang,JiuzhouSong.

278

B1-10

Biclusteringofgeneexpressiondatausingreactivegreedyrandomizedadaptivesearchprocedure.SmithaDharan,AchuthsankarSNair.

287

B1-11

Mutualinformationestimationrevealsglobalassociationsbetweenstimuliandbiologicalprocesses.TaijiSuzuki,MasashiSugiyama,TakafumiKanamoriandJunSese.

297

B1-12

Humangeneexpressionsensitivityaccordingtolargescalemeta-analysis.PeiHao,SiyuanZheng,JiePing,KangTu,ChristianGieger,RuiWang-Sattler,YangZhong,YixueLi.

310

B1-13

Advancedanalysisandvisualizationofgenecopynumberandexpressiondata.ReijaAutio,MattiSaarela,Anna-KaarinaJ?rvinen,SampsaHautaniemi,JaakkoAstola.

317