Affymetrix生物芯片解决方案概述.docx
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Affymetrix生物芯片解决方案概述.docx
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Affymetrix生物芯片解决方案概述
Affymetrix生物芯片解决方案概述
Affymetrix公司作为全球销量第一的基因芯片厂家,以其完备的芯片设计,稳定可靠的分析结果和强大的生物信息学分析能力,帮助研究人员在最短的时间内获得大量可靠的结果,为后续研究提供重要的线索和帮助。
Affymetrix公司目前已经在纳斯达克上市,在基因芯片领域中成为行业标准。
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胚胎及成体干细胞表达谱分析 SCIENCEVOL3022003
Commenton"'Stemness':
TranscriptionalProfilingofEmbryonicandAdultStemCells"and"AStemCellMolecularSignature"(I)
Abstract
Ramalho-Santosetal.
(1)andIvanovaetal.
(2),comparingthesamethree"stemcells"—embryonicstemcells(ESCs);neuralstemcells(NSCs),referredtoasneuralprogenitor/stemcells(NPCs)inthepresentstudy;andhematopoieticstemcells(HSCs)—withtheirdifferentiatedcounterparts,eachidentifiedalistofcommonlyexpressed"stemness"genes,proposedtobeimportantforconferringthefunctionalcharacteristicsofstemcells.Theabilitytocaptureexpressionprofilesofcellsusingmicroarraysoffersthepossibilityofdefiningastemcellbyitsconstellationofactivegenes.Anintriguingquestion,however,iswhetherthefunctionalcommonalities(self-renewalandpluripotency)(3)amongstemcellscanbedefinedatthegeneticlevel.Doallstemcellsexpressasimilarsetof"stemness"genesnecessaryfortheiruniqueproperties,ordodifferentstemcellsexpressdifferentsetsofgenesthatconferstemness?
拟南芥基因组插入突变表达谱分析 SCIENCEVOL3012003
Genome-WideInsertionalMutagenesisofArabidopsisthaliana
Abstract
Over225,000independentAgrobacteriumtransferredDNA(T-DNA)insertioneventsinthegenomeofthereferenceplantArabidopsisthalianahavebeencreatedthatrepresentnearsaturationofthegenespace.Thepreciselocationsweredeterminedformorethan88,000T-DNAinsertions,whichresultedintheidentificationofmutationsinmorethan21,700ofthe29,454predictedArabidopsisgenes.Genome-wideanalysisofthedistributionofintegrationeventsrevealedtheexistenceofalargeintegrationsitebiasatboththechromosomeandgenelevels.Insertionmutationswereidentifiedingenesthatareregulatedinresponsetotheplanthormoneethylene.
寡核苷酸微阵列技术对结肠腺瘤、腺癌的基因表达谱分析 CancerResearch61(7),3124-30,2001
Transcriptionalgeneexpressionprofilesofcolorectaladenoma,adenocarcinoma,andnormaltissueexaminedbyoligonucleotidearrays
Abstract
Usinganoligonucleotidearraycontainingsequencescomplementaryto3200full-lengthhumancDNAsand3400expressedsequencetags(GeneChip,Affymetrix),mRNAexpressionpatternswereprobedin18colonadenocarcinomasand4adenomas.Pairednormaltissuewasavailableandanalyzedforeachofthetumors.Relativelyfewchangesintranscriptexpressionareassociatedwithcoloncancer.Nineteentranscripts(0.48%ofthosedetected)hadatleast4–10.5-foldhighermRNAexpressionincarcinomacomparedwithpairednormalsamples,whereas47transcripts(1.3%ofthosedetected)hadatleast4–38-foldorlowerexpressioninthetumortissuecomparedwiththenormalsamples.Someofthesedifferenceswereconfirmedbyreversetranscription-PCR.Manyofthesetranscriptswerealreadyknowntobeabnormallyexpressedinneoplastictissueingeneral,orcoloncancerinparticular,andseveralofthesedifferenceswerealsoobservedinpremalignantadenomasamples.Atwo-wayhierarchicalclusteringalgorithmsuccessfullydistinguishedadenomafromadenocarcinomaandnormaltissue,generatingaphylogenetictreethatappropriatelyrepresentedtheclinicalrelationshipbetweenthethreetissuetypesincludedintheanalysis.Thissupportstheconceptthatgenome-wideexpressionprofilingmaypermitamolecularclassificationofsolidtumors.
利用DNA微阵列监测药物代谢及毒理相关基因的表达 PhysiologicalGenomics5(4),161-70,2001
MonitoringexpressionofgenesinvolvedindrugmetabolismandtoxicologyusingDNAmicroarrays.
Abstract
OligonucleotideDNAmicroarrayswereinvestigatedforutilityinmeasuringglobalexpressionprofilesofdrugmetabolismgenes.Thisstudywasperformedtoinvestigatethefeasibilityofusingmicroarraytechnologytominimizethelong,expensiveprocessoftestingdrugcandidatesforsafetyinanimals.Inanevaluationofhybridizationspecificity,microarraytechnologyfromAffymetrixdistinguishedgenesuptoathresholdof90%DNAidentity.OligonucleotidesrepresentinghumancytochromeP-450geneCYP3A5showedheterologoushybridizationtoCYP3A4andCYP3A7RNAs.ThesegenescouldbeclearlydistinguishedbyselectingasubsetofoligonucleotidesthathybridizedselectivelytoCYP3A5.Furthervalidationofthetechnologywasperformedbymeasuringgeneexpressionprofilesinliversofratstreatedwithvehicle,3-methylcholanthrene(3MC),phenobarbital,dexamethasone,orclofibrateandbyconfirmingdataforsixgenesusingquantitativeRT-PCR.Responsesofdrugmetabolismgenes,includingCYPs,epoxidehydrolases(EHs),UDP-glucuronosyltransferases(UGTs),glutathionesulfotransferases(GSTs),sulfotransferases(STs),drugtransportergenes,andperoxisomalgenes,tothesewell-studiedcompoundsagreedwellwith,andextended,publishedobservations.Additionalgeneregulatoryresponseswerenotedthatcharacterizemetaboliceffectsorstressresponsestothesecompounds.Thusmicroarraytechnologycanprovideafacileoverviewofgeneexpressionresponsesrelevanttodrugmetabolismandtoxicology.
表达图谱分析揭示不同细胞遗传学背景下的急性粒细胞白血病的生物学本质的区别 1124–1129PNASJanuary30,2001vol.98no.3
Expressionprofilingrevealsfundamentalbiologicaldifferencesinacutemyeloidleukemiawithisolatedtrisomy8andnormalcytogenetics
Abstract
Acutemyeloidleukemia(AML)isaheterogeneousgroupofdiseases.Normalcytogenetics(CN)constitutesthesinglelargestgroup,whiletrisomy8(+8)asasoleabnormalityisthemostfrequenttrisomy.Howtrisomycontributestotumorigenesisisunknown.Weusedoligonucleotide-basedDNAmicroarraystostudyglobalgeneexpressioninAML+8patientswith+8asthesolechromosomalabnormalityandAML-CNpatients.CD34+cellspurifiedfromnormalbonemarrow(BM)werealsoanalyzedasarepresentativeheterogeneouspopulationofstemandprogenitorcells.ExpressionpatternsofAMLpatientswereclearlydistinctfromthoseofCD34+cellsofnormalindividuals.WeshowthatAML+8blastsoverexpressgenesonchromosome8,estimatedat32%onaverage,suggestinggene-dosageeffectsunderlyingAML+8.Systematicanalysisbycellularfunctionindicatedup-regulationofgenesinvolvedincelladhesioninbothgroupsofAMLcomparedwithCD34+blastsfromnormalindividuals.Perhapsmostinterestingly,apoptosis-regulatinggenesweresignificantlydown-regulatedinAML+8comparedwithAML-CN.WeconcludethattheclinicalandcytogeneticheterogeneityofAMLisduetofundamentalbiologicaldifferences.
利用SNP微阵列进行小细胞肺癌的杂合性的丢失(LOH)分析 NatureBiotechnology18(9),1001-5,2000
Loss-of-heterozygosityanalysisofsmall-celllungcarcinomasusingsingle-nucleotidepolymorphismarrays
Abstract
Humancancersarisebyacombinationofdiscretemutationsandchromosomalalterations.Lossofheterozygosity(LOH)ofchromosomalregionsbearingmutatedtumorsuppressorgenesisakeyeventintheevolutionofepithelialandmesenchymaltumors.GlobalpatternsofLOHcanbeunderstoodthroughallelotypingoftumorswithpolymorphicgeneticmarkers.Simplesequencelengthpolymorphisms(SSLPs,ormicrosatellites)arereliablegeneticmarkersforstudyingLOH,butonlyamodestnumberofSSLPsareusedinLOHstudiesbecausethegenotypingprocedureisrathertedious.Here,wereporttheuseofahighlyparallelapproachtogenotypelargenumbersofsingle-nucleotidepolymorphisms(SNPs)forLOH,inwhichsamplesaregenotypedfornearly1,500locibyperforming24polymerasechainreactions(PCR),poolingtheresultingamplificationproductsandhybridizingthemixturetoahigh-densityoligonucleotidearray.WecharacterizetheresultsofLOHanalysesonhumansmall-celllungcancer(SCLC)andcontrolDNAsamplesbyhybridization.WeshowthatthepatternsofLOHareconsistentwiththoseobtainedbyanalysiswithbothSSLPsandcomparativegenomichybridization(CGH),whereasamplificationsrarelyaredetectedbytheSNParray.TheresultsvalidatetheuseofSNParrayhybridizationfortumorstudies.
小肠内寄主与微生物之间共生关系的分子水平分析 Science291(5505),881-4,2001
Molecularanalysisofcommensalhost-microbialrelationshipsintheintestine
Abstract
Humanbeingscontaincomplexsocietiesofindigenousmicrobes,yetlittleisknownabouthowresidentbacteriashapeourphysiology.Wecolonizedgerm-freemicewithBacteroidesthetaiotaomicron,aprominentcomponentofthenormalmouseandhumanintestinalmicroflora.GlobalintestinaltranscriptionalresponsestocolonizationwereobservedwithDNAmicroarrays,andthecellularoriginsofselectedresponseswereestablishedbylaser-capturemicrodissection.Theresultsrevealthatthiscommensalbacteriummodulatesexpressionofgenesinvolvedinseveralimportantintestinalfunctions,includingnutrientabsorption,mucosalbarrierfortification,xenobioticmetabolism,angiogenesis,andpostnatalintestinalmaturation.Thesefindingsprovideperspectivesabouttheessentialnatureoftheinteractionsbetweenresidentmicroorganismsandtheirhosts.
生物时钟对拟南芥信号传导途径中相关基因的表达调控 Science290(5499),2110-3,2000
OrchestratedtranscriptionofkeypathwaysinArabidopsisbythecircadianclock
Abstract
Likemostorganisms,plantshaveendogenousbiologicalclocksthatcoordinateinternaleventswiththeexternalenvironment.Weusedhigh
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