Comparison of DNA sequences from different species is a fundamental method for identifying functional elements in genomes. Here, we describe the VISTA family of tools created to assist biologists in carrying out this task. Our first VISTA server at http://www-gsd.lbl.gov/vista/ was launched in the summer of 2000 and was designed to align long genomic sequences and visualize these alignments wit...

Computational Tools for Cyber–Physical Systems by Humberto Gonzalez Doctor of Philosophy in Electrical Engineering and Computer Sciences University of California, Berkeley Professor S. Shankar Sastry, Chair Cyber–Physical systems, which is the class of dynamical systems where physical and computational components interact in a tight coordination, are found in many applications, from large–scale...

In this review, novel non-standard techniques for the computation of cohomology classes on toric varieties are summarized. After an introduction of the basic definitions and properties of toric geometry, we discuss a specific computational algorithm for the determination of the dimension of line-bundle valued cohomology groups on toric varieties. Applications to the computation of chiral massle...