The sRNAMap currently collects 397 sRNA genes, 62 regulator/sRNA regulations and 60 sRNA/target regulations in seventy microbial genomes. The detailed list of genome is given in Table S4.

SEA (also SEAweb) is a searchable database for the expression of small RNA (miRNA, piRNA, snoRNA, snRNA, siRNA) and pathogens. Publically available sRNA sequencing datasets were analysed with Oasis 2 pipelines and the results are stored here for easy and comparable search.

Jun 17, 2021 · The CoryneRegNet sRNA integration pipeline consists of seven steps: sRNA collection and prediction, homology detection, alignment, sRNA classification, filter, structure prediction and target prediction.

Nov 1, 2024 · This guide will introduce you to the basics of our recommended workflow for sRNA analysis, both fastq-processing (e.g. adapter trimming and generating sequence counts) and post-fastq analysis (e.g filtering, genome and sRNA alignment, differential expression and …

Aug 10, 2012 · The class of small non-coding RNA molecules (sRNA) regulates gene expression by different mechanisms and enables bacteria to mount a physiological response due to adaptation to the environment or infection.

Jan 24, 2024 · Tailored to the unique requirements of such samples, the proposed pipeline addresses various challenges, including filtering potential RNAs from reagents and environment, classifying small RNA types, managing small RNA annotation overlap, conducting differential expression assays, analysing isomiRs, and presenting an approach to identify the sou...

A comprehensive database of experimentally confirmed sRNA targets would be helpful in understanding sRNA functions systematically and provide support for developing prediction models. Here we report on such a database—sRNATarBase.

Apr 5, 2023 · SUPPLEMENTARY TABLES . Table S1. Statistics for sRNA-seq analysis. Condition Replicate Barcode Raw Reads . Conidia 1 ATCACG 8,846,270 Conidia 2 CGATGT 3,733,570 Conidia 3 TGACCA 17,100,200 24 h Mycelium 1 ACAGTG 15,884,500 24 h Mycelium 2 GCCAAT 12,093,800 24 h Mycelium 3 ACTTGA 1,282,660 ...

In the 1960s, the abbreviation sRNA was used to refer to "soluble RNA," which is now known as transfer RNA or tRNA (for an example of the abbreviation used in this sense, see [14]).It is now known that most bacterial sRNAs are encoded by free-standing genes located in the intergenic regions (IGR) between two known genes. [3] [6] However, a class of sRNAs are shown to be derived from the 3'-UTR ...

Apr 12, 2023 · sInterBase is a comprehensive and easy-to-operate web-based platform for mining experimentally identified sRNA–mRNA interactions in Escherichia coli.