TRFolder: computational prediction of novel telomerase RNA structures in yeast genomes. (1st January 2011)

• Record Type: Journal Article
• Authors: Guo, Leilei; Zhang, Dong; Wang, Yingfeng; Malmberg, Russell L.; McEachern, Michael J.; Cai, Liming
• Is Part Of: International journal of bioinformatics research and applications. Volume 7:Number 1(2011)
• Page Start: 63
• Page End: 81
• Publication Date: 2011-01-01
• Subjects: yeast telomerase RNA -- RNA pseudoknot -- RNA secondary structure prediction -- telomerase RNA core structure -- telomeric template -- pairwise complementary alignment; Bioinformatics -- Periodicals; 570.285
• DOI: 10.1504/IJBRA.2011.039170
• Languages: English
• ISSNs: 1744-5485

Abstract

The identification of Telomerase RNAs (TRs) has been difficult owing to their rapid evolutionary divergence. The common core structure found in all known TRs contains a pseudoknot and a triple helix, which are beyond the capability of existing RNA-structure-profiling techniques. We describe a novel approach to predict the structure of key TR features and to aid the identification of TRs in genomes, using a program we developed, TRFolder. We applied our method to confirm and improve previously studied core structures from Saccharomyces and Kluyveromyces TRs. We made novel structural predictions of core elements of the TRs from Schizosaccharomyces pombe, Candida albicans, and several other yeast species.