Instrumental analysis of RNA modifications

Quantitative analysis of RNA modifications.

RNA modifications impact numerous cellular processes such as pre-mRNA splicing and protein synthesis. The elucidation of the mechanisms by which these modifications impact cellular processes necessitates the ability to both detect and quantify the presence of these modifications within RNA molecules. Here, we present a detailed procedure that allows the detection and quantification of RNA base ...

Chimira: analysis of small RNA sequencing data and microRNA modifications

UNLABELLED Chimira is a web-based system for microRNA (miRNA) analysis from small RNA-Seq data. Sequences are automatically cleaned, trimmed, size selected and mapped directly to miRNA hairpin sequences. This generates count-based miRNA expression data for subsequent statistical analysis. Moreover, it is capable of identifying epi-transcriptomic modifications in the input sequences. Supported m...

RNA modifications go viral

Viral life cycles are often coordinated by precise mechanisms that act on their RNA. For example, the microRNA miR-122 interacts with the viral RNA genome of hepatitis C virus (HCV) and is required for HCV replication [1]. In the past year, several groups have reported a new RNA regulatory control to viral infection—the posttranscriptional RNA modification N6methyladenosine (mA). This reversibl...

Meta-analysis of small RNA-sequencing errors reveals ubiquitous post-transcriptional RNA modifications

Recent advances in DNA-sequencing technology have made it possible to obtain large datasets of small RNA sequences. Here we demonstrate that not all non-perfectly matched small RNA sequences are simple technological sequencing errors, but many hold valuable biological information. Analysis of three small RNA datasets originating from Oryza sativa and Arabidopsis thaliana small RNA-sequencing pr...

Instrumental Analysis of Tetrodotoxin