Background: Existing tools for multiple-sequence alignment focus on aligning protein sequence or protein-coding DNA sequence, and are often based on extensions to Needleman-Wunsch...
Consider data consisting of pairwise measurements, such as presence or absence of links between pairs of objects. These data arise, for instance, in the analysis of protein intera...
Edoardo Airoldi, David M. Blei, Stephen E. Fienber...
Background: We present a novel method of protein fold decoy discrimination using machine learning, more specifically using neural networks. Here, decoy discrimination is represent...
Background: Quantitative descriptions of amino acid similarity, expressed as probabilistic models of evolutionary interchangeability, are central to many mainstream bioinformatic ...
Blazej Bulka, Marie desJardins, Stephen J. Freelan...
Motivation: Finding a good network null model for protein-protein interaction (PPI) networks is a fundamental issue. Such a model would provide insights into the interplay between...