Background: Proteins are the primary regulatory agents of transcription even though mRNA expression data alone, from systems like DNA microarrays, are widely used. In addition, th...
Reuben Thomas, Carlos J. Paredes, Sanjay Mehrotra,...
— We study the evolution of cooperation using the Prisoner’s Dilemma as a metaphor of the tensions between cooperators and non-cooperators, and evolutionary game theory as the ...
Background: Codon substitution constitutes a fundamental process in molecular biology that has been studied extensively. However, prior studies rely on various assumptions, e.g. r...
In this paper we present an evolutionary approach for inferring the structure and dynamics in gene circuits from observed expression kinetics. For representing the regulatory inte...
The ability to perform long, accurate molecular dynamics (MD) simulations involving proteins and other biological macromolecules could in principle provide answers to some of the ...
David E. Shaw, Martin M. Deneroff, Ron O. Dror, Je...