Department of Computer Science Ben-Gurion University

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Department of Computer Science Ben-Gurion University Biological Application: RNAs Research Focus: Searching for Novel Riboswitches in Newly Sequenced Genomes Danny Barash† Department of Computer Science Ben-Gurion University †email: dbarash@cs.bgu.ac.il Research focus on riboswitches Bioinformatics

What are Riboswitches? Vitamin B1 biosynthesis in bacteria: With TPP Terminator Vitamin B1 biosynthesis in bacteria: TPP-mediated attentuation control: E. Nudler and coworkers: (Mironov et al., Cell, 2002) Thiamine pyrophosphate are the metabolites that alter conformation. Aptamer Research focus on riboswitches Bioinformatics

What are Riboswitches? Vitamin B1 biosynthesis in bacteria: Without TPP Vitamin B1 biosynthesis in bacteria: TPP-mediated attentuation control: E. Nudler and coworkers: (Mironov et al., Cell, 2002) Thiamine pyrophosphate are the metabolites that alter conformation. Anti-terminator Aptamer Research focus on riboswitches Bioinformatics

Searching for riboswitches in eukaryotes by their aptamer Sequence is not enough, need structure considerations! Research focus on riboswitches Bioinformatics

Searching for riboswitches in eukaryotes by their aptamer (Cohen et al., In Silico Biology, 2008) – a riboswitch in plants? Known consensus in bacteria Our 3-stem junction candidate in plants Research focus on riboswitches Bioinformatics