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...
Given an undirected graph with nonnegative costs on the edges, the routing cost of any of its spanning trees is the sum over all pairs of vertices of the cost of the path between t...
Bang Ye Wu, Giuseppe Lancia, Vineet Bafna, Kun-Mao...
Background: Hidden Markov Models (HMMs) have proven very useful in computational biology for such applications as sequence pattern matching, gene-finding, and structure prediction...
Many bioinformatics applications would benefit from comparing proteins based on their biological role rather than their sequence. In most biological databases, proteins are alrea...
Background: The accumulation of high-throughput data greatly promotes computational investigation of gene function in the context of complex biological systems. However, a biologi...