Models translation using statistical and computational methods. TASEP is based on an efficient initiation rate approximation scheme combined with a novel Monte Carlo simulation strategy inside an optimization algorithm. It can capture the high-level physical interaction between ribosomes and transcripts by describing the ribosomes as travelling on the mRNAs. This tool requires specification of hundred gene translation initiation rates prior to simulation in case of large models.
Computer Science Division, University of California, Berkeley, CA, USA; Department of Statistics, University of California, Berkeley, CA, USA; Department of Mathematics, University of Pennsylvania, PA, USA
TASEP funding source(s)
Supported by a Math+X Research Grant from the Simons Foundation and a Packard Fellowship for Science and Engineering.