BMC Biology

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

Stephan Steigele, Wolfgang Huber, Claudia Stocsits, Peter F Stadler and Kay Nieselt*

BMC Biology 2007, 5:25 doi:10.1186/1741-7007-5-25

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Experimental annotation of the human pathogen Candida albicans coding and noncoding transcribed regions using high-resolution tiling arrays

Adnane Sellam, Hervé Hogues, Christopher Askew, Faiza Tebbji, Marco van het Hoog, Hugo Lavoie, Carol A Kumamoto, Malcolm Whiteway, André Nantel Genome Biology 2010, 11:R71 (9 July 2010)

The Candida albicans transcriptional landscape reveals antisense transcription, novel open reading frames and non-coding RNAs, whose expression is correlated with RNA polymerase occupancy.

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High-resolution transcription atlas of the mitotic cell cycle in budding yeast

Marina V Granovskaia, Lars J Jensen, Matthew E Ritchie, Joern Toedling, Ye Ning, Peer Bork, Wolfgang Huber, Lars M Steinmetz Genome Biology 2010, 11:R24 (1 March 2010)

A high resolution strand-specific transcriptional atlas of the budding yeast mitotic cell cycle, including both mRNA and non-coding RNA profiles.

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Strategies for measuring evolutionary conservation of RNA secondary structures

Andreas R Gruber, Stephan H Bernhart, Ivo L Hofacker, Stefan Washietl BMC Bioinformatics 2008, 9:122 (26 February 2008)

Simple metrics of folding energy and optimal structures accurately measure evolutionary conservation of RNA secondary structure and should form the basis of tools to predict non-coding RNAs, whereas complex methods fail to improve performance.

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Computational RNomics of Drosophilids

Dominic Rose, Jörg Hackermüller, Stefan Washietl, Kristin Reiche, Jana Hertel, Sven Findeiß, Peter F Stadler, Sonja J Prohaska BMC Genomics 2007, 8:406 (8 November 2007)