Dec 1, 2023 · We present a new method, TargetRNA3, for predicting targets of small RNA regulators and show that it outperforms existing approaches. TargetRNA3 is available at …

Feb 28, 2023 · Regulation of porin expression in bacteria is complex and often involves small-RNA regulators. Several small-RNA regulators have been described for Burkholderia …

In bacteria and archaea, small RNAs (sRNAs) regulate complex networks through antisense interactions with target mRNAs in trans, and riboswitches regulate gene expression in cis …

Two decades after the first genome-wide screens showed small RNAs (sRNAs) to be a widespread feature of bacterial genomes, these short noncoding transcripts remain enigmatic. …

Jan 7, 2025 · RNA-free Arabidopsis AGO1 interacts with the autophagy cargo receptor ATI1 by direct contact with specific N-coil amino acid residues whose mutation reduces the …

We focus on two case studies (1) sRNA-mRNA annealing with Hfq protein and (2) structural rearrangements within an mRNA upon sRNA binding. These protocols can be easily adapted …

Mar 22, 2018 · We have developed a method, termed target-enrichment of sRNAs (TEsR), that enables targeted sequencing of rare sRNAs and diverse precursor and mature forms of …

May 6, 2015 · Here, we provide a simple benchmark for bacterial sRNA target prediction based on trusted E. coli sRNA/target pairs. We use this benchmark to assess the most recent RNA …

Feb 20, 2012 · We successfully applied INTARNA to the prediction of bacterial sRNA targets and determined the exact locations of the interactions with a higher accuracy than competing …

May 4, 2022 · Hundreds of bacterial small RNAs (sRNAs) require the Hfq chaperone to regulate mRNA expression. Hfq is limiting, thus competition among sRNAs for binding to Hfq shapes …