VISTA: computational tools for comparative genomics

VISTA: computational tools for comparative genomics

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 Brassica–Arabidopsis Comparative Genomics

Recent advances, such as the availability of extensive genome survey sequence (GSS) data and draft physical maps, are radically transforming the means by which we can dissect Brassica genome structure and systematically relate it to the Arabidopsis model. Hitherto, our view of the co-linearities between these closely related genomes had been largely inferred from comparative RFLP data, necessit...

Comparative and Computational Methods for Microbial Genomics

Title of Dissertation: COMPARATIVE AND COMPUTATIONAL METHODS FOR MICROBIAL GENOMICS Derrick Edward Wood, Doctor of Philosophy, 2014 Directed by: Professor Steven L. Salzberg Department of Computer Science Through the study of genomic sequences, researchers are able to learn much about the workings of life. As sequencing technology has improved over the past decade, the number of genomes that ha...

PLATCOM: a Platform for Computational Comparative Genomics

MOTIVATION As more whole genome sequences become available, comparing multiple genomes at the sequence level can provide insight into new biological discovery. However, there are significant challenges for genome comparison. The challenge includes requirement for computational resources owing to the large volume of genome data. More importantly, since the choice of genomes to be compared is ent...

Computational Comparative Genomics : Genes , Regulation ,