Deciphering the RNA landscape by RNAome sequencing

摘要: Current RNA expression profiling methods rely on enrichment steps for specific classes, thereby not detecting all species in an unperturbed manner. We report strand-specific RNAome sequencing that determines of small and large RNAs from rRNA-depleted total a single sequence run. Since current analysis pipelines cannot reliably analyze simultaneously, we developed TRAP, Total Rna Analysis Pipeline, robust interface is also compatible with existing protocols. quantitatively preserved allowing cross-class comparisons facilitates the identification relationships between different classes. demonstrate strength mouse embryonic stem cells treated cisplatin. MicroRNA mRNA significantly correlated replicates was concordance both gene arrays generated same samples. Moreover, detected additional classes such as enhancer RNAs, anti-sense novel numerous differentially expressed undetectable by other methods. At level complete identified global repression microRNA isoform after cisplatin treatment whereas mRNAs were unchanged. These characteristics will improve well studies biology covered