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...
Many automated learning procedures lack interpretability, operating effectively as a black box: providing a prediction tool but no explanation of the underlying dynamics that driv...
Background: The enumeration of tetrameric and other sequence motifs that are positively or negatively correlated with in vivo antisense DNA effects has been a useful addition to t...
Donald M. Gray, Carla W. Gray, Byong-Hoon Yoo, Tzu...
We develop a new framework for inferring models of transcriptional regulation. The models in this approach, which we call physical models, are constructed on the basis of verifiab...
Background: The goal of information integration in systems biology is to combine information from a number of databases and data sets, which are obtained from both high and low th...
Michael Baitaluk, Xufei Qian, Shubhada Godbole, Al...