MicroRNAs (miRNAs) are endogenous small RNAs that can regulate target mRNAs by
binding to their 3′‐UTRs. A single miRNA can regulate many mRNA targets, and several …

Background The prediction of a consensus structure for a set of related RNAs is an important
first step for subsequent analyses. RNAalifold, which computes the minimum energy …

The RFAM database defines families of ncRNAs by means of sequence similarities that are
sufficient to establish homology. In some cases, such as microRNAs and box H/ACA …

Major improvements have been made in mRNA quantification and internal standard
selection over the last decade. Our aim in this paper is to present the main developments …

Motivation: Clustering according to sequence–structure similarity has now become a
generally accepted scheme for ncRNA annotation. Its application to complete genomic …

Unlike tRNAs and microRNAs, both classes of snoRNAs, which direct two distinct types of
chemical modifications of uracil residues, have proved to be surprisingly difficult to find in …

Motivation Recent studies have revealed that large numbers of non-coding RNAs are
transcribed in humans, but only a few of them have been identified with their functions …

The cloning of cDNAs, copies of cellular RNA, is one of the classical technologies in
molecular biology. Over the past 30 years cDNA cloning technologies have been improved …

Many non-coding RNA genes and cis-acting regulatory elements of mRNAs contain RNA
secondary structures that are critical for their function. Such functional RNAs can be …

Proteins serve important regulatory and effector functions inside cells. However, the recent
discovery that plants and animals have thousands of genes that encode non-protein-coding …