Exploring the RNA mutational landscape
Speaker: Jerome Waldispuhl, McGill
Date: Wednesday, March 6 2013
Time: 11:30AM to 1:00PM
Refreshments: 11:00AM
Location: Stata Center 32-G575
Host: Bonnie Berger, MIT
Contact: Patrice Macaluso, 617.253.3037, macaluso@csail.mit.edu
Understanding the relationship between RNA sequences and structures is essential to decipher evolutionary processes, predict deleterious mutations and design synthetic molecules.
In this talk, we introduce RNAmutants, the first algorithm for exploring RNA sequence-structures maps in polynomial time and space. Using statistical mechanics and weighted sampling techniques, we explore regions of the mutational landscape preserving the nucleotide composition and show how the GC-content influences the evolutionary accessible structural ensemble. Then, we illustrate the versatility of our techniques and apply them to (i) designing RNA sequences folding into target secondary structures, and (ii) to correcting sequencing errors in structured RNA sequences.
Joint work with Yann Ponty & Vladimir Reinharz.
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