A volcano plot displays unstandardized signal (eg log-fold-change) against noise-
adjusted/standardized signal (eg t-statistic or-log10 (p-value) from the t-test). We review the …

De novo assembly of RNA-seq data enables researchers to study transcriptomes without the
need for a genome sequence; this approach can be usefully applied, for instance, in …

Early-life microbial exposure is of particular importance to growth, immune system
development and long-lasting health. Hence, early microbiota composition is a promising …

Next generation sequencing technology provides a powerful tool for measuring gene
expression (mRNA) levels in the form of RNA-sequence data. Method development for …

RNA-Seq technology is becoming widely used in various transcriptomics studies; however,
analyzing and interpreting the RNA-Seq data face serious challenges. With the development …

Large-scale RNAseq has substantially changed the transcriptomics field, as it enables an
unprecedented amount of high resolution data to be acquired. However, the analysis of …

The ascomycete fungus Tolypocladium inflatum, a pathogen of beetle larvae, is best known
as the producer of the immunosuppressant drug cyclosporin. The draft genome of T. inflatum …

Environmental stresses profoundly altered accumulation of nonsense mRNAs including
intron-retaining (IR) transcripts in Arabidopsis. Temporal patterns of stress-induced IR …

Background Recent mapping of eukaryotic transcriptomes and spliceomes using massively
parallel RNA sequencing (RNA-seq) has revealed that the extent of alternative splicing has …

RNA-Seq is a widely used technology that allows an efficient genome-wide quantification of
gene expressions for, for example, differential expression (DE) analysis. After a brief review …