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Items: 1 to 20 of 179

1.

Comparative genomics boosts target prediction for bacterial small RNAs.

Wright PR, Richter AS, Papenfort K, Mann M, Vogel J, Hess WR, Backofen R, Georg J.

Proc Natl Acad Sci U S A. 2013 Sep 10;110(37):E3487-96. doi: 10.1073/pnas.1303248110. Epub 2013 Aug 26.

2.

Evolutionary patterns of Escherichia coli small RNAs and their regulatory interactions.

Peer A, Margalit H.

RNA. 2014 Jul;20(7):994-1003. doi: 10.1261/rna.043133.113. Epub 2014 May 27.

3.

Accessibility and conservation: general features of bacterial small RNA-mRNA interactions?

Richter AS, Backofen R.

RNA Biol. 2012 Jul;9(7):954-65. doi: 10.4161/rna.20294. Epub 2012 Jul 1.

4.

Computational approaches for the discovery of bacterial small RNAs.

Kulkarni RV, Kulkarni PR.

Methods. 2007 Oct;43(2):131-9.

PMID:
17889800
5.

[Research progress of prediction of bacterial sRNA genes and their targets--a review].

Wang L, Zhao Y, Li W.

Wei Sheng Wu Xue Bao. 2009 Jan;49(1):1-5. Chinese.

PMID:
19388256
6.

Modularity of Escherichia coli sRNA regulation revealed by sRNA-target and protein network analysis.

Wu TH, Chang IY, Chu LC, Huang HC, Ng WV.

BMC Bioinformatics. 2010 Oct 15;11 Suppl 7:S11. doi: 10.1186/1471-2105-11-S7-S11.

7.
8.

Translational control and target recognition by Escherichia coli small RNAs in vivo.

Urban JH, Vogel J.

Nucleic Acids Res. 2007;35(3):1018-37. Epub 2007 Jan 30.

9.

Dynamics of Salmonella small RNA expression in non-growing bacteria located inside eukaryotic cells.

Ortega AD, Gonzalo-Asensio J, García-del Portillo F.

RNA Biol. 2012 Apr;9(4):469-88. doi: 10.4161/rna.19317. Epub 2012 Feb 16.

PMID:
22336761
10.

Target prediction for small, noncoding RNAs in bacteria.

Tjaden B, Goodwin SS, Opdyke JA, Guillier M, Fu DX, Gottesman S, Storz G.

Nucleic Acids Res. 2006 May 22;34(9):2791-802. Print 2006.

11.

Identification of small RNAs in Francisella tularensis.

Postic G, Frapy E, Dupuis M, Dubail I, Livny J, Charbit A, Meibom KL.

BMC Genomics. 2010 Nov 10;11:625. doi: 10.1186/1471-2164-11-625.

12.

Dynamic features of gene expression control by small regulatory RNAs.

Mitarai N, Benjamin JA, Krishna S, Semsey S, Csiszovszki Z, Massé E, Sneppen K.

Proc Natl Acad Sci U S A. 2009 Jun 30;106(26):10655-9. doi: 10.1073/pnas.0901466106. Epub 2009 Jun 16.

13.

Genome rearrangements can make and break small RNA genes.

Raghavan R, Kacharia FR, Millar JA, Sislak CD, Ochman H.

Genome Biol Evol. 2015 Jan 18;7(2):557-66. doi: 10.1093/gbe/evv009.

14.

Accessibility and evolutionary conservation mark bacterial small-rna target-binding regions.

Peer A, Margalit H.

J Bacteriol. 2011 Apr;193(7):1690-701. doi: 10.1128/JB.01419-10. Epub 2011 Jan 28.

15.

sTarPicker: a method for efficient prediction of bacterial sRNA targets based on a two-step model for hybridization.

Ying X, Cao Y, Wu J, Liu Q, Cha L, Li W.

PLoS One. 2011;6(7):e22705. doi: 10.1371/journal.pone.0022705. Epub 2011 Jul 22.

16.

sRNAscanner: a computational tool for intergenic small RNA detection in bacterial genomes.

Sridhar J, Sambaturu N, Sabarinathan R, Ou HY, Deng Z, Sekar K, Rafi ZA, Rajakumar K.

PLoS One. 2010 Aug 5;5(8):e11970. doi: 10.1371/journal.pone.0011970. Erratum in: PLoS One. 2010;5(9). doi: 10.1371/annotation/71408e55-e1d3-4950-9c3b-d3a3ad66a1ff. Narmada, Suryanarayanan Ramkumar [corrected to Sambaturu, Narmada].

17.

Small RNA gene identification and mRNA target predictions in bacteria.

Pichon C, Felden B.

Bioinformatics. 2008 Dec 15;24(24):2807-13. doi: 10.1093/bioinformatics/btn560. Epub 2008 Oct 29. Review.

PMID:
18974076
18.

Target identification of small noncoding RNAs in bacteria.

Vogel J, Wagner EG.

Curr Opin Microbiol. 2007 Jun;10(3):262-70. Epub 2007 Jun 15. Review.

PMID:
17574901
19.

Evolutionary dynamics of small RNAs in 27 Escherichia coli and Shigella genomes.

Skippington E, Ragan MA.

Genome Biol Evol. 2012;4(3):330-45. doi: 10.1093/gbe/evs001. Epub 2012 Jan 4.

20.

Evidence for an autonomous 5' target recognition domain in an Hfq-associated small RNA.

Papenfort K, Bouvier M, Mika F, Sharma CM, Vogel J.

Proc Natl Acad Sci U S A. 2010 Nov 23;107(47):20435-40. doi: 10.1073/pnas.1009784107. Epub 2010 Nov 8.

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