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Results: 1 to 20 of 105

Similar articles for PubMed (Select 19237465)

1.

Single-pass classification of all noncoding sequences in a bacterial genome using phylogenetic profiles.

Marchais A, Naville M, Bohn C, Bouloc P, Gautheret D.

Genome Res. 2009 Jun;19(6):1084-92. doi: 10.1101/gr.089714.108. Epub 2009 Feb 23.

2.

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. doi: 10.1186/1471-2164-10-123.

3.

NAPP: the Nucleic Acid Phylogenetic Profile Database.

Ott A, Idali A, Marchais A, Gautheret D.

Nucleic Acids Res. 2012 Jan;40(Database issue):D205-9. doi: 10.1093/nar/gkr807. Epub 2011 Oct 8.

4.

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. doi: 10.1371/journal.pone.0003197. Erratum in: PLoS ONE. 2008;3(11). doi: 10.1371/annotation/a03e1870-1dd7-4c16-8c46-2268eeb2a50a.

5.

nocoRNAc: characterization of non-coding RNAs in prokaryotes.

Herbig A, Nieselt K.

BMC Bioinformatics. 2011 Jan 31;12:40. doi: 10.1186/1471-2105-12-40.

6.

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.

7.

Genome-wide detection of novel regulatory RNAs in E. coli.

Raghavan R, Groisman EA, Ochman H.

Genome Res. 2011 Sep;21(9):1487-97. doi: 10.1101/gr.119370.110. Epub 2011 Jun 10.

8.

De novo computational prediction of non-coding RNA genes in prokaryotic genomes.

Tran TT, Zhou F, Marshburn S, Stead M, Kushner SR, Xu Y.

Bioinformatics. 2009 Nov 15;25(22):2897-905. doi: 10.1093/bioinformatics/btp537. Epub 2009 Sep 10.

9.

Noncoding RNA gene detection using comparative sequence analysis.

Rivas E, Eddy SR.

BMC Bioinformatics. 2001;2:8. Epub 2001 Oct 10.

10.

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

Rivas E, Klein RJ, Jones TA, Eddy SR.

Curr Biol. 2001 Sep 4;11(17):1369-73.

11.

Prediction of small, noncoding RNAs in bacteria using heterogeneous data.

Tjaden B.

J Math Biol. 2008 Jan;56(1-2):183-200. Epub 2007 Mar 13.

PMID:
17354017
12.

Computational approaches to discovering noncoding RNA.

Krzyzanowski PM, Muro EM, Andrade-Navarro MA.

Wiley Interdiscip Rev RNA. 2012 Jul-Aug;3(4):567-79. doi: 10.1002/wrna.1121. Epub 2012 May 3. Review.

PMID:
22555938
13.

Identification of cyanobacterial non-coding RNAs by comparative genome analysis.

Axmann IM, Kensche P, Vogel J, Kohl S, Herzel H, Hess WR.

Genome Biol. 2005;6(9):R73. Epub 2005 Aug 17.

14.

Identification of putative noncoding RNA genes in the Burkholderia cenocepacia J2315 genome.

Coenye T, Drevinek P, Mahenthiralingam E, Shah SA, Gill RT, Vandamme P, Ussery DW.

FEMS Microbiol Lett. 2007 Nov;276(1):83-92.

15.

CsrA interacting small RNAs in Haemophilus spp genomes: a theoretical analysis.

Sridhar J, Sekar K, Rafi ZA.

Arch Microbiol. 2009 May;191(5):451-9. doi: 10.1007/s00203-009-0474-y. Epub 2009 Apr 7.

PMID:
19350225
16.

Searching genomes for noncoding RNA using FastR.

Zhang S, Haas B, Eskin E, Bafna V.

IEEE/ACM Trans Comput Biol Bioinform. 2005 Oct-Dec;2(4):366-79.

PMID:
17044173
17.

Searching for non-coding RNAs in genomic sequences using ncRNAscout.

Bao M, Cervantes Cervantes M, Zhong L, Wang JT.

Genomics Proteomics Bioinformatics. 2012 Apr;10(2):114-21. doi: 10.1016/j.gpb.2012.05.004. Epub 2012 Jun 9.

18.

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].

19.

Genome-wide detection of predicted non-coding RNAs in Rhizobium etli expressed during free-living and host-associated growth using a high-resolution tiling array.

Vercruysse M, Fauvart M, Cloots L, Engelen K, Thijs IM, Marchal K, Michiels J.

BMC Genomics. 2010 Jan 20;11:53. doi: 10.1186/1471-2164-11-53.

20.

Genome-scale NCRNA homology search using a Hamming distance-based filtration strategy.

Sun Y, Aljawad O, Lei J, Liu A.

BMC Bioinformatics. 2012 Mar 21;13 Suppl 3:S12. doi: 10.1186/1471-2105-13-S3-S12.

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