The Semantic Body Browser (SBB) is a web application for intuitively exploring the body of an organism from the organ to the sub-cellular level and visualising expression profiles by means of semantically annotated illustrations. It is used to comprehend biological and medical data related to the different body structures while relying on the strong pattern recognition capabilities of human users.
ChimeraUGEM provides tools for the analysis of gene sequences (coding and non-coding), as well as the design of protein coding sequences for optimized expression, based on the Chimera algorithms and codon usage optimization.
FOCUS, an innovative and agile composition based using non-negative least squares to profile and report abundant organisms present in me-tagenomic samples and their relative abundance without sequence length dependencies.
COMODO (COnserved MODules across Organisms) is a coclustering procedure to identify conserved expression modules between two species. The method uses as input microarray data and a gene homology map and provides as output pairs of conserved modules and searches for the pair of modules for which the number of sharing homologs is statistically most significant relative to the size of the linked modules.
Bugs is a simple genetic algorithm program that simulates bacteria-like organisms which move about in a field of “algae” that they eat by moving over them. When they eat enough of the algae, they reproduce by division; if they don’t eat enough, they die. Over time, the initial aimless bugs will evolve into efficient foragers scouring their world for fresh algae.
OrthoNets provides various information about the proteins and interactions – including domain architectures (bottom of figure 1), protein and gene aliases, pubmed identifiers of the publications supporting the interactions, and the experiment type used to detect the interaction. Here the view is focused on the RNA polymerase enzyme LEO1 – so that only the LEO1 node and its recorded interaction partners are displayed.
Biogenesis simulates in a visual fashion the processes involved in the evolution of unicellular organisms at nature. It tries to be a didactic approximation to the ideas of mutation or evolution and can be enjoyed also as an entertainment. It’s intended to serve as a support to show students some basic biological facts.
Joan Queralt Molina (joanq.biogenesis at gmail.com)