Direct inference of protein-DNA interactions using compressed sensing methods.

ABSTRACT: Compressed sensing has revolutionized signal acquisition, by enabling complex signals to be measured with remarkable fidelity using a small number of so-called incoherent sensors. We show that molecular interactions, e.g., protein-DNA interactions, can be analyzed in a directly analogous manner and with similarly remarkable results. Specifically, mesoscopic molecular interactions act as incoherent sensors that measure the energies of microscopic interactions between atoms. We combine concepts from compressed sensing and statistical mechanics to determine the interatomic interaction energies of a molecular system exclusively from experimental measurements, resulting in a "de novo" energy potential. In contrast, conventional methods for estimating energy potentials are based on theoretical m

SUBMITTER: AlQuraishi M 

PROVIDER: S-EPMC3169146 | biostudies-literature | 2011 Sep

REPOSITORIES: biostudies-literature