Genomicus update 2015: KaryoView and MatrixView provide a genome-wide perspective to multispecies comparative genomics.
Bottom Line: The interface to enter the database has been improved, two pairwise genome comparison tools are now available (KaryoView and MatrixView) and the multiple genome comparison tools (PhyloView and AlignView) propose three new kinds of representation and a more intuitive menu.This allows the analysis of 68 extant animal genomes, as well as 58 ancestral reconstructed genomes.The Genomicus server also provides access to ancestral gene orders, to facilitate evolutionary and comparative genomics studies, as well as computationally predicted regulatory interactions, thanks to the representation of conserved non-coding elements with their putative gene targets.
Affiliation: Ecole Normale Supérieure, Institut de Biologie de l'ENS, IBENS, Paris F-75005, France Inserm U1024, Paris F-75005, France CNRS, UMR 8197, Paris F-75005, France email@example.com.Show MeSH
Mentions: The second new feature (Figure 3), available in both PhyloView and AlignView, is the ability to use the colors of genes to represent the percentage of sequence identity between homologs of the reference genome instead of orthology (Figure 3B). A second new option is to show the dN/dS ratio computed from multiple alignments of coding sequences from genes of the same family (Figure 3C).
Affiliation: Ecole Normale Supérieure, Institut de Biologie de l'ENS, IBENS, Paris F-75005, France Inserm U1024, Paris F-75005, France CNRS, UMR 8197, Paris F-75005, France firstname.lastname@example.org.