AIMC Topic: RNA, Small Untranslated

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sRNAdeep: a novel tool for bacterial sRNA prediction based on DistilBERT encoding mode and deep learning algorithms.

BMC genomics
BACKGROUND: Bacterial small regulatory RNA (sRNA) plays a crucial role in cell metabolism and could be used as a new potential drug target in the treatment of pathogen-induced disease. However, experimental methods for identifying sRNAs still require...

LSTM4piRNA: Efficient piRNA Detection in Large-Scale Genome Databases Using a Deep Learning-Based LSTM Network.

International journal of molecular sciences
Piwi-interacting RNAs (piRNAs) are a new class of small, non-coding RNAs, crucial in the regulation of gene expression. Recent research has revealed links between piRNAs, viral defense mechanisms, and certain human cancers. Due to their clinical pote...

sRNARFTarget: a fast machine-learning-based approach for transcriptome-wide sRNA target prediction.

RNA biology
Bacterial small regulatory RNAs (sRNAs) are key regulators of gene expression in many processes related to adaptive responses. A multitude of sRNAs have been identified in many bacterial species; however, their function has yet to be elucidated. A ke...

An improved method for identification of small non-coding RNAs in bacteria using support vector machine.

Scientific reports
Bacterial small non-coding RNAs (sRNAs) are not translated into proteins, but act as functional RNAs. They are involved in diverse biological processes like virulence, stress response and quorum sensing. Several high-throughput techniques have enable...

Improving prediction of bacterial sRNA regulatory targets with expression data.

NAR genomics and bioinformatics
Small regulatory RNAs (sRNAs) are widespread in bacteria. However, characterizing the targets of sRNA regulation in a way that scales with the increasing number of identified sRNAs has proven challenging. Computational methods offer one means for eff...

GNNs and ensemble models enhance the prediction of new sRNA-mRNA interactions in unseen conditions.

BMC bioinformatics
Bacterial small RNAs (sRNAs) are pivotal in post-transcriptional regulation, affecting functions like virulence, metabolism, and gene expression by binding specific mRNA targets. Identifying these targets is crucial to understanding sRNA regulation a...

Mirnovo: genome-free prediction of microRNAs from small RNA sequencing data and single-cells using decision forests.

Nucleic acids research
The discovery of microRNAs (miRNAs) remains an important problem, particularly given the growth of high-throughput sequencing, cell sorting and single cell biology. While a large number of miRNAs have already been annotated, there may well be large n...