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Biocomputational prediction of small non-coding RNAs in Streptomyces.

Pánek J, Bobek J, Mikulík K, Basler M, Vohradský J.

BMC Genomics. 2008 May 13;9:217.PMID: 18477385 [PubMed - indexed for MEDLINE]Related articlesFree article

Prediction of Sinorhizobium meliloti sRNA genes and experimental detection in strain 2011.

Valverde C, Livny J, Schlüter JP, Reinkensmeier J, Becker A, Parisi G.

BMC Genomics. 2008 Sep 16;9:416.PMID: 18793445 [PubMed - indexed for MEDLINE]Related articlesFree article

Identification of small noncoding RNAs in Helicobacter pylori by a bioinformatics-based approach.

Xiao B, Li W, Guo G, Li B, Liu Z, Jia K, Guo Y, Mao X, Zou Q.

Curr Microbiol. 2009 Mar;58(3):258-63. Epub 2009 Jan 3.PMID: 19123032 [PubMed - indexed for MEDLINE]Related articles

Identification of chromosomal alpha-proteobacterial small RNAs by comparative genome analysis and detection in Sinorhizobium meliloti strain 1021.

Ulvé VM, Sevin EW, Chéron A, Barloy-Hubler F.

BMC Genomics. 2007 Dec 19;8:467.PMID: 18093320 [PubMed - indexed for MEDLINE]Related articlesFree article

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

Livny J, Teonadi H, Livny M, Waldor MK.

PLoS One. 2008 Sep 12;3(9):e3197. Erratum in: PLoS ONE. 2008;3(11). doi: 10.1371/annotation/a03e1870-1dd7-4c16-8c46-2268eeb2a50a. PMID: 18787707 [PubMed - indexed for MEDLINE]Related articlesFree article

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

Livny J, Fogel MA, Davis BM, Waldor MK.

Nucleic Acids Res. 2005 Jul 26;33(13):4096-105. Print 2005.PMID: 16049021 [PubMed - indexed for MEDLINE]Related articlesFree article

Small non-coding RNAs in Streptomyces coelicolor.

Swiercz JP, Hindra, Bobek J, Bobek J, Haiser HJ, Di Berardo C, Tjaden B, Elliot MA.

Nucleic Acids Res. 2008 Dec;36(22):7240-51. Epub 2008 Nov 12.PMID: 19008244 [PubMed - indexed for MEDLINE]Related articlesFree article

Identification of bacterial small non-coding RNAs: experimental approaches.

Altuvia S.

Curr Opin Microbiol. 2007 Jun;10(3):257-61. Epub 2007 Jun 5. Review.PMID: 17553733 [PubMed - indexed for MEDLINE]Related articles

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

Livny J, Brencic A, Lory S, Waldor MK.

Nucleic Acids Res. 2006;34(12):3484-93.PMID: 16870723 [PubMed - indexed for MEDLINE]Related articlesFree article

Biocomputational prediction of non-coding RNAs in model cyanobacteria.

Voss B, Georg J, Schön V, Ude S, Hess WR.

BMC Genomics. 2009 Mar 23;10:123.PMID: 19309518 [PubMed - indexed for MEDLINE]Related articlesFree article

How to find small non-coding RNAs in bacteria.

Vogel J, Sharma CM.

Biol Chem. 2005 Dec;386(12):1219-38. Review.PMID: 16336117 [PubMed - indexed for MEDLINE]Related articles

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 [PubMed - indexed for MEDLINE]Related articles

Comparative genomics of small RNAs in bacterial genomes.

Luban S, Kihara D.

OMICS. 2007 Spring;11(1):58-73.PMID: 17411396 [PubMed - indexed for MEDLINE]Related articles

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

Huang HY, Chang HY, Chou CH, Tseng CP, Ho SY, Yang CD, Ju YW, Huang HD.

Nucleic Acids Res. 2009 Jan;37(Database issue):D150-4. Epub 2008 Nov 16.PMID: 19015153 [PubMed - indexed for MEDLINE]Related articlesFree article

Identification of differentially expressed small non-coding RNAs in the legume endosymbiont Sinorhizobium meliloti by comparative genomics.

del Val C, Rivas E, Torres-Quesada O, Toro N, Jiménez-Zurdo JI.

Mol Microbiol. 2007 Dec;66(5):1080-91. Epub 2007 Oct 25.PMID: 17971083 [PubMed - indexed for MEDLINE]Related articlesFree article

Genome-wide search reveals a novel GacA-regulated small RNA in Pseudomonas species.

González N, Heeb S, Valverde C, Kay E, Reimmann C, Junier T, Haas D.

BMC Genomics. 2008 Apr 13;9:167.PMID: 18405392 [PubMed - indexed for MEDLINE]Related articlesFree article

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

Vogel J, Bartels V, Tang TH, Churakov G, Slagter-Jäger JG, Hüttenhofer A, Wagner EG.

Nucleic Acids Res. 2003 Nov 15;31(22):6435-43.PMID: 14602901 [PubMed - indexed for MEDLINE]Related articlesFree article

Detection of small RNAs in Pseudomonas aeruginosa by RNomics and structure-based bioinformatic tools.

Sonnleitner E, Sorger-Domenigg T, Madej MJ, Findeiss S, Hackermüller J, Hüttenhofer A, Stadler PF, Bläsi U, Moll I.

Microbiology. 2008 Oct;154(Pt 10):3175-87.PMID: 18832323 [PubMed - indexed for MEDLINE]Related articlesFree article

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

Chen S, Lesnik EA, Hall TA, Sampath R, Griffey RH, Ecker DJ, Blyn LB.

Biosystems. 2002 Mar-May;65(2-3):157-77.PMID: 12069726 [PubMed - indexed for MEDLINE]Related articles

Computational approaches for the discovery of bacterial small RNAs.

Kulkarni RV, Kulkarni PR.

Methods. 2007 Oct;43(2):131-9.PMID: 17889800 [PubMed - indexed for MEDLINE]Related articles