AAAAAAAAAAAA60SAGO40S60S60SAAAAAAAAAA40S40SPolIITFTFGenomicDNATFTFTFTFTFRBPRBPRBPRBPRBPRBPSmallRNASequencinge.g.,microRNA/Piwi-interactingRNAprofilingArgonaute(Ago)HITS-CLIPMappinginteractionsbetweenmicroRNAsandmRNAs5´UTR3´UTRStartcodonStopcodonCDSCDSRibosomeProfilingSequencingribosome-protectedmRNAfragmentsMappingribosomefootprintswithintranscriptsatnucleotidelevelresolutionmRNADEGRADATIONTRANSLATIONSUPPRESSIONRNA-inducedsilencingcomplex(RISC)microRNAACTIVETRANSLATIONRibosomeProteinmRNAEXPORTConstitutivelysplicedexonAlternativelysplicedexonNascentRNANascentRNASPLICINGTRANSCRIPTIONTRANSCRIPTIONRNA-bindingproteinsCpGMETHYLATIONNucleosomeCapCGTACH3H3K36me3ChromosomeSNPPolymeraseIIcomplexTranscriptionfactorsPolymeraseIIPolymeraseIIIntronPoly(A)tailCrosslinkingImmunoprecipitationSequencing(CLIP-Seq/HITS-CLIP)Transcriptome-wideRNA-bindingprotein(RBP)mapsModifiedClipForSite-specificCrosslinkingPhotoactivatableribonucleoside-enhancedCLIP(PAR-CLIP)IndividualnucleotideresolutionCLIP(iCLIP)Eg.NovaRNA-bindingregulatorymapChromatinImmunoprecipitationSequencing(ChIP-Seq)Nucleosomecomponent,Transcriptionfactor(TF),RNApolymeraseII(PolII)occupancyHistonemethylationoracetylationMethyl-Seq/Bisulfite-Seq(DNAmethylationstatus)DNase-Seq(DNasehypersensitivity)Relativeenrichment5´UTR3´UTRIntronExonAlt.ExonRNAPolII/TFH3K36me3H2K27acTranscriptomeSequencing/RNA-SeqTotalRNA,totalRNAminusrRNA,poly(A)-selectedRNAGeneexpressionprofilingLongnoncodingRNAprofilingAlternativesplicingandtrans-splicingprofilingAlternativepolyadenylationprofilingMappingtranscriptioninitiationsitesMappingRNAeditingsites(coupledwithDNA-Seq)TargetedRNA-Seq,DirectRNA-Seq,Strand-specificRNA-Seq,NascentRNA-SeqReadsmappedtoexonsReadsmappedtojunctionsGenomeSequencing/ResequencingGenome-widepolymorphismandmutationmappingGenomeassembly5´UTR1044Cell146,September16,2011©2011ElsevierInc.DOI10.1016/j.cell.2011.09.002Seeonlineversionforlegendandreferences.SnapShot:High–ThroughputSequencingApplicationsHongHan,1RazvanNutiu,1J...
