sRNATarBase: a comprehensive database of bacterial sRNA targets verified by experiments (Q24630235)

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13 February 2020

title

sRNATarBase: a comprehensive database of bacterial sRNA targets verified by experiments (English)

1 reference

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13 February 2020

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1

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13 February 2020

author name string

Jiayao Wu

2

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13 February 2020

Qian Liu

3

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13 February 2020

Yalin Zhao

4

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13 February 2020

Xiaomin Ying

5

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13 February 2020

Lei Cha

6

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13 February 2020

Ligui Wang

7

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13 February 2020

Wuju Li

8

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13 February 2020

language of work or name

English

0 references

publication date

15 September 2010

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13 February 2020

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13 February 2020

volume

16

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13 February 2020

issue

11

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13 February 2020

page(s)

2051-2057

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Seed-based INTARNA prediction combined with GFP-reporter system identifies mRNA targets of the small RNA Yfr1

13 February 2020

cites work

1 reference

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Small RNA-induced differential degradation of the polycistronic mRNA iscRSUA

7 April 2017

1 reference

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VARNA: Interactive drawing and editing of the RNA secondary structure

7 April 2017

1 reference

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7 April 2017

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IntaRNA: efficient prediction of bacterial sRNA targets incorporating target site accessibility and seed regions

7 April 2017

1 reference

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A new Vibrio cholerae sRNA modulates colonization and affects release of outer membrane vesicles

7 April 2017

1 reference

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

7 April 2017

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Identification of cyanobacterial non-coding RNAs by comparative genome analysis

7 April 2017

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The Escherichia coli OxyS regulatory RNA represses fhlA translation by blocking ribosome binding

7 April 2017

1 reference

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DsrA RNA regulates translation of RpoS message by an anti-antisense mechanism, independent of its action as an antisilencer of transcription

7 April 2017

1 reference

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Vienna RNA secondary structure server

7 April 2017

1 reference

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Specific and pleiotropic patterns of mRNA regulation by ArcZ, a conserved, Hfq-dependent small RNA

7 April 2017

1 reference

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A conserved small RNA promotes discoordinate expression of the glmUS operon mRNA to activate GlmS synthesis

7 April 2017

1 reference

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The small RNA RyhB activates the translation of shiA mRNA encoding a permease of shikimate, a compound involved in siderophore synthesis

7 April 2017

1 reference

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Control of Fur synthesis by the non-coding RNA RyhB and iron-responsive decoding

7 April 2017

1 reference

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

7 April 2017

1 reference

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Effect of RyhB small RNA on global iron use in Escherichia coli

7 April 2017

1 reference

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The Universal Protein Resource (UniProt) in 2010

7 April 2017

1 reference

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Computational prediction of sRNAs and their targets in bacteria.

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957045

Activation of gene expression by small RNA.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957045

Experimental approaches for the discovery and characterization of regulatory small RNA.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957045

sRNATarget: a web server for prediction of bacterial sRNA targets.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957045

sRNAMap: genomic maps for small non-coding RNAs, their regulators and their targets in microbial genomes

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957045

Small RNA gene identification and mRNA target predictions in bacteria

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957045

High-throughput, kingdom-wide prediction and annotation of bacterial non-coding RNAs

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957045

TargetRNA: a tool for predicting targets of small RNA action in bacteria

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957045

RegulonDB (version 6.0): gene regulation model of Escherichia coli K-12 beyond transcription, active (experimental) annotated promoters and Textpresso navigation.

27 September 2017

1 reference

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Target identification of small noncoding RNAs in bacteria

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957045

Small RNAs controlling iron metabolism

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957045

Small noncoding RNAs controlling pathogenesis

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957045

Small RNAs controlling outer membrane porins

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957045

Multiple small RNAs act additively to integrate sensory information and control quorum sensing in Vibrio harveyi.

27 September 2017

1 reference

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Small non-coding RNAs and the bacterial outer membrane

27 September 2017

1 reference

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The role of RNAs in the regulation of virulence-gene expression.

27 September 2017

1 reference

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CsrA and three redundant small RNAs regulate quorum sensing in Vibrio cholerae.

27 September 2017

1 reference

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Kill the messenger: bacterial antisense RNA promotes mRNA decay.

27 September 2017

1 reference

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MPIDB: the microbial protein interaction database

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957045

Construction of two mathematical models for prediction of bacterial sRNA targets.

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957045

Identifying Hfq-binding small RNA targets in Escherichia coli.

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957045

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

28 November 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/20843985

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1261/RNA.2193110

2 references

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:20843985%20AND%20SRC:MED&resulttype=core&format=json

13 February 2020

1 reference

2 references

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13 February 2020

PubMed publication ID

20843985

2 references