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Items: 1 to 20 of 103

1.

Non-coding RNA prediction and verification in Saccharomyces cerevisiae.

Kavanaugh LA, Dietrich FS.

PLoS Genet. 2009 Jan;5(1):e1000321. doi: 10.1371/journal.pgen.1000321. Epub 2009 Jan 2.

2.

Comparative analysis of structured RNAs in S. cerevisiae indicates a multitude of different functions.

Steigele S, Huber W, Stocsits C, Stadler PF, Nieselt K.

BMC Biol. 2007 Jun 18;5:25.

3.
4.

XUTs are a class of Xrn1-sensitive antisense regulatory non-coding RNA in yeast.

van Dijk EL, Chen CL, d'Aubenton-Carafa Y, Gourvennec S, Kwapisz M, Roche V, Bertrand C, Silvain M, Legoix-Né P, Loeillet S, Nicolas A, Thermes C, Morillon A.

Nature. 2011 Jun 22;475(7354):114-7. doi: 10.1038/nature10118.

PMID:
21697827
5.

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.

6.

Genome-wide analysis of mRNA lengths in Saccharomyces cerevisiae.

Hurowitz EH, Brown PO.

Genome Biol. 2003;5(1):R2. Epub 2003 Dec 22.

7.

Plant noncoding RNA gene discovery by "single-genome comparative genomics".

Chen CJ, Zhou H, Chen YQ, Qu LH, Gautheret D.

RNA. 2011 Mar;17(3):390-400. doi: 10.1261/rna.2426511. Epub 2011 Jan 10.

8.

Chain-RNA: a comparative ncRNA search tool based on the two-dimensional chain algorithm.

Lei J, Techa-Angkoon P, Sun Y.

IEEE/ACM Trans Comput Biol Bioinform. 2013 Mar-Apr;10(2):274-85. doi: 10.1109/TCBB.2012.137.

PMID:
23929857
9.

Detection of RNA structures in porcine EST data and related mammals.

Seemann SE, Gilchrist MJ, Hofacker IL, Stadler PF, Gorodkin J.

BMC Genomics. 2007 Sep 10;8:316.

10.
11.

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.

12.

Evolutionary modeling and prediction of non-coding RNAs in Drosophila.

Bradley RK, Uzilov AV, Skinner ME, Bendaña YR, Barquist L, Holmes I.

PLoS One. 2009 Aug 11;4(8):e6478. doi: 10.1371/journal.pone.0006478.

13.

Comparative structural analysis of nuclear RNase P RNAs from yeast.

Tranguch AJ, Engelke DR.

J Biol Chem. 1993 Jul 5;268(19):14045-55.

14.

Enrichment of unstable non-coding RNAs and their genome-wide identification.

Neil H, Jacquier A.

Methods Mol Biol. 2011;759:87-106. doi: 10.1007/978-1-61779-173-4_6.

PMID:
21863483
15.

Discovery of Novel ncRNA Sequences in Multiple Genome Alignments on the Basis of Conserved and Stable Secondary Structures.

Fu Y, Xu ZZ, Lu ZJ, Zhao S, Mathews DH.

PLoS One. 2015 Jun 15;10(6):e0130200. doi: 10.1371/journal.pone.0130200. eCollection 2015.

16.

Surveying Saccharomyces genomes to identify functional elements by comparative DNA sequence analysis.

Cliften PF, Hillier LW, Fulton L, Graves T, Miner T, Gish WR, Waterston RH, Johnston M.

Genome Res. 2001 Jul;11(7):1175-86.

17.

Noncanonical transcript forms in yeast and their regulation during environmental stress.

Yoon OK, Brem RB.

RNA. 2010 Jun;16(6):1256-67. doi: 10.1261/rna.2038810. Epub 2010 Apr 26.

18.

A comparative genome-wide study of ncRNAs in trypanosomatids.

Doniger T, Katz R, Wachtel C, Michaeli S, Unger R.

BMC Genomics. 2010 Nov 4;11:615. doi: 10.1186/1471-2164-11-615.

19.

Bidirectional promoters generate pervasive transcription in yeast.

Xu Z, Wei W, Gagneur J, Perocchi F, Clauder-Münster S, Camblong J, Guffanti E, Stutz F, Huber W, Steinmetz LM.

Nature. 2009 Feb 19;457(7232):1033-7. doi: 10.1038/nature07728. Epub 2009 Jan 25.

20.

Gene loops enhance transcriptional directionality.

Tan-Wong SM, Zaugg JB, Camblong J, Xu Z, Zhang DW, Mischo HE, Ansari AZ, Luscombe NM, Steinmetz LM, Proudfoot NJ.

Science. 2012 Nov 2;338(6107):671-5. doi: 10.1126/science.1224350. Epub 2012 Sep 27.

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