(Q44932493)

7 December 2017

Computational approaches for the discovery of bacterial small RNAs (English)

1 reference

7 December 2017

Rahul V Kulkarni

1

1 reference

PubMed ID

17889800

7 December 2017

Prajna R Kulkarni

series ordinal

2

1 reference

7 December 2017

1 October 2007

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7 December 2017

1 reference

7 December 2017

43

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7 December 2017

2

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7 December 2017

131-139

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Non–coding RNA genes and the modern RNA world

7 December 2017

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

A survey of small RNA-encoding genes in Escherichia coli

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Small non-coding RNAs, co-ordinators of adaptation processes in Escherichia coli: the RpoS paradigm

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Small non-coding RNAs and the bacterial outer membrane

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Bacterial small RNA regulators

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

The small RNA regulators of Escherichia coli: roles and mechanisms*

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Regulatory roles for small RNAs in bacteria

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Small RNAs in bacteria: diverse regulators of gene expression in response to environmental changes

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Small RNAs in Escherichia coli.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

An abundance of RNA regulators

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Small RNA regulators of translation: mechanisms of action and approaches for identifying new small RNAs.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Modulating the outer membrane with small RNAs

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Micros for microbes: non-coding regulatory RNAs in bacteria

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Non-coding RNAs: hope or hype?

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Coupled degradation of a small regulatory RNA and its mRNA targets in Escherichia coli

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Controlling mRNA stability and translation with small, noncoding RNAs

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

The small RNA, DsrA, is essential for the low temperature expression of RpoS during exponential growth in Escherichia coli

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Hfq is necessary for regulation by the untranslated RNA DsrA

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

The RNA molecule CsrB binds to the global regulatory protein CsrA and antagonizes its activity in Escherichia coli

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

A novel sRNA component of the carbon storage regulatory system of Escherichia coli

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Global regulation by the small RNA-binding protein CsrA and the non-coding RNA molecule CsrB

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Indole signalling contributes to the stable maintenance of Escherichia coli multicopy plasmids.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Tryptophanase in sRNA control of the Escherichia coli cell cycle.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

How to find small non-coding RNAs in bacteria

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Novel small RNA-encoding genes in the intergenic regions of Escherichia coli

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Identification of novel small RNAs using comparative genomics and microarrays

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Computational identification of noncoding RNAs in E. coli by comparative genomics

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

A computational approach to identify genes for functional RNAs in genomic sequences

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

RNomics in Escherichia coli detects new sRNA species and indicates parallel transcriptional output in bacteria

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Identification of cyanobacterial non-coding RNAs by comparative genome analysis

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

sRNAPredict: an integrative computational approach to identify sRNAs in bacterial genomes

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Identification of tandem duplicate regulatory small RNAs in Pseudomonas aeruginosa involved in iron homeostasis

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

The small RNA chaperone Hfq and multiple small RNAs control quorum sensing in Vibrio harveyi and Vibrio cholerae

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Experimental approaches to identify non-coding RNAs

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

RNomics: identification and function of small, non-messenger RNAs

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Detection of 5'- and 3'-UTR-derived small RNAs and cis-encoded antisense RNAs in Escherichia coli

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

A bioinformatics based approach to discover small RNA genes in the Escherichia coli genome

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Searching for RNA genes using base-composition statistics

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Noncoding RNA genes identified in AT-rich hyperthermophiles

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Intergenic sequence inspector: searching and identifying bacterial RNAs

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Fast and reliable prediction of noncoding RNAs

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Predicting non-coding RNA genes in Escherichia coli with boosted genetic programming

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Identification of 17 Pseudomonas aeruginosa sRNAs and prediction of sRNA-encoding genes in 10 diverse pathogens using the bioinformatic tool sRNAPredict2

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Consensus folding of aligned sequences as a new measure for the detection of functional RNAs by comparative genomics

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Prediction of non-coding and antisense RNA genes in Escherichia coli with Gapped Markov Model.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

PSoL: a positive sample only learning algorithm for finding non-coding RNA genes.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Identifying DNA and protein patterns with statistically significant alignments of multiple sequences

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Regulatory sequence analysis tools

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

A comprehensive library of DNA-binding site matrices for 55 proteins applied to the complete Escherichia coli K-12 genome

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Regulation of quorum sensing in Vibrio harveyi by LuxO and sigma-54.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Searching for patterns in genomic data

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Identification of the Hfq-binding site on DsrA RNA: Hfq binds without altering DsrA secondary structure

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

RNA sequence and secondary structure participate in high-affinity CsrA-RNA interaction

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

A repeated GGA motif is critical for the activity and stability of the riboregulator RsmY of Pseudomonas fluorescens

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Mfold web server for nucleic acid folding and hybridization prediction

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Prediction of CsrA-regulating small RNAs in bacteria and their experimental verification in Vibrio fischeri

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

The etiological agent of Lyme disease, Borrelia burgdorferi, appears to contain only a few small RNA molecules

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Target prediction for small, noncoding RNAs in bacteria

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Constitutive Activation of the Escherichia coli Pho Regulon Upregulates rpoS Translation in an Hfq-Dependent Fashion

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Tandem DNA recognition by PhoB, a two-component signal transduction transcriptional activator

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Remodelling of the Escherichia coli outer membrane by two small regulatory RNAs

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

Genetic evidence suggests that the intergenic region between pstA and pstB plays a role in the regulation of rpoS translation during phosphate limitation

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMETH.2007.04.001

10.1016/J.YMETH.2007.04.001

7 January 2021

Identifiers

DOI

1 reference

7 December 2017

1 reference

PubMed ID

17889800