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Related Experiment Video

Updated: May 19, 2026

A Fast and Reliable Pipeline for Bacterial Transcriptome Analysis Case study: Serine-dependent Gene Regulation in Streptococcus pneumoniae

A Fast and Reliable Pipeline for Bacterial Transcriptome Analysis Case study: Serine-dependent Gene Regulation in Streptococcus pneumoniae

Published on: April 25, 2015

sRNAdb: a small non-coding RNA database for gram-positive bacteria.

Jordan Pischimarov¹, Carsten Kuenne, André Billion

¹Institute of Medical Microbiology, Justus-Liebig-University, Schubertstrasse 81, Giessen, D-35392, Germany.

|August 14, 2012

Summary

This summary is machine-generated.

sRNAdb is a new database for small non-coding RNAs (sRNAs) in gram-positive bacteria, offering analysis and visualization tools. It addresses the lack of specialized resources for these crucial regulatory molecules.

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MS2-Affinity Purification Coupled with RNA Sequencing in Gram-Positive Bacteria

MS2-Affinity Purification Coupled with RNA Sequencing in Gram-Positive Bacteria

Published on: February 23, 2021

Area of Science:

Microbiology
Bioinformatics
Genomics

Background:

Small non-coding RNA molecules (sRNAs) are critical regulators of gene expression in bacteria.
Existing databases for sRNAs are limited, with no dedicated resource for gram-positive bacteria.
The number of identified sRNAs has rapidly increased, necessitating better organization and analysis tools.

Purpose of the Study:

To develop a comprehensive database (sRNAdb) for small non-coding RNAs (sRNAs) from gram-positive bacteria.
To provide tools for analyzing and visualizing the functional and phylogenetic relationships of sRNAs.
To address the gap in publicly available resources for gram-positive bacterial sRNAs.

Main Methods:

Compiled experimental and bioinformatics data to build the sRNAdb.
Developed a client-server based approach for data analysis and visualization.
Created offline versions of the database with analysis and visualization tools for local installation.

Main Results:

sRNAdb provides a user-friendly platform for comparative analysis of sRNAs in gram-positive bacteria.
The database integrates experimental and bioinformatics data for a comprehensive view of sRNAs.
Included tools facilitate the visualization of gene loci surrounding sRNAs.

Conclusions:

sRNAdb enables comprehensive comparative analysis of sRNAs from sequenced gram-positive prokaryotic replicons.
Offline versions with analysis and visualization tools support customized bioinformatics analyses.
The database serves as a valuable resource for researchers studying gene regulation in gram-positive bacteria.