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Bacterial small regulatory RNA databases | Non-coding RNA data analysis

Bacterial sRNAs are a class of small regulatory RNAs of about 40–500 nt in length (Huang et al., 2009). They comprise three groups (Cao et al., 2010). The first group includes cis-acting sRNAs, which perfectly match their targets with…
RegulonDB
Dataset

RegulonDB

A relational database that offers, in an organized and computable form, updated…

A relational database that offers, in an organized and computable form, updated knowledge on transcriptional regulation in Escherichia coli K-12. Its electronic format enables researchers to compare…

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Rfam
Dataset

Rfam

A collection of non-coding RNA families represented by manually curated…

A collection of non-coding RNA families represented by manually curated sequence alignments, consensus secondary structures and annotation gathered from corresponding Wikipedia, taxonomy and ontology…

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NPInter
Dataset

NPInter Noncoding RNAs and Protein related biomacromolecules Interaction

Catalogs experimentally determined functional interactions between ncRNAs and…

Catalogs experimentally determined functional interactions between ncRNAs and proteins, mRNAs or genomic DNA sequences. NPInter integrates the diverse body of experimental knowledge about functional…

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PopitschEtAl201…
Dataset

PopitschEtAl2017

Provides several informations about antisense and intragenic Small regulatory…

Provides several informations about antisense and intragenic Small regulatory RNAs (sRNAs). This database allows users to consult data about small RNAs in Borrelia burgdorferi that are important for…

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NAPP
Web

NAPP Nucleic Acids Phylogenetic Profiling

A clustering method that efficiently identifies noncoding RNA (ncRNA) elements…

A clustering method that efficiently identifies noncoding RNA (ncRNA) elements in a bacterial genome. This web server enables users to retrieve RNA-rich clusters from any genome in a list of 1000+…

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sRNAdb
Dataset

sRNAdb

Allows a user-friendly and comprehensive comparative analysis of small…

Allows a user-friendly and comprehensive comparative analysis of small non-coding RNAs (sRNAs) from available sequenced gram-positive prokaryotic replicons. Offline versions including analysis and…

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sRNAMap
Dataset

sRNAMap

An integrated and comprehensive database comprising plentiful information about…

An integrated and comprehensive database comprising plentiful information about small non-coding RNA (sRNA). The sRNAMap provides a variety of interfaces and graphical visualization to present the…

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ECSBrowser
Dataset

ECSBrowser Escherichia coli Small RNA Browser

Provides an overview of small RNA (sRNA) in E. coli. ECSBrowser is a…

Provides an overview of small RNA (sRNA) in E. coli. ECSBrowser is a comprehensive screening for E. coli sRNAs using a deep sequencing approach. It shows that many as-yet-undiscovered sRNAs are…

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BSRD
Dataset

BSRD Bacterial Small Regulatory RNA Database

A comprehensive bacterial sRNAs database, as a repository for published…

A comprehensive bacterial sRNAs database, as a repository for published bacterial sRNA sequences with annotations and expression profiles. BSRD contains over nine times more experimentally validated…

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sRNATarBase
Dataset

sRNATarBase

Contains 771 sRNA-target entries manually collected from 213 papers, and 23 290…

Contains 771 sRNA-target entries manually collected from 213 papers, and 23 290 and 11 750 predicted targets from sRNATarget and sTarPicker, respectively. sRNATarBase 3.0 not only holds the largest…

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