Stochastic block coordinate Frank-Wolfe algorithm for large-scale biological network alignment.

ABSTRACT: With increasingly "big" data available in biomedical research, deriving accurate and reproducible biology knowledge from such big data imposes enormous computational challenges. In this paper, motivated by recently developed stochastic block coordinate algorithms, we propose a highly scalable randomized block coordinate Frank-Wolfe algorithm for convex optimization with general compact convex constraints, which has diverse applications in analyzing biomedical data for better understanding cellular and disease mechanisms. We focus on implementing the derived stochastic block coordinate algorithm to align protein-protein interaction networks for identifying conserved functional pathways based on the IsoRank framework. Our derived stochastic block coordinate Frank-Wolfe (SBCFW) algorithm has

SUBMITTER: Wang Y 

PROVIDER: S-EPMC4826425 | biostudies-literature | 2016 Dec

REPOSITORIES: biostudies-literature