Alignment-free k-mer-based algorithms in whole genome sequence comparisons remain an ongoing challenge. Here, we explore the possibility to use Topic Modeling for organism whole-genome comparisons. We analyzed 30 complete genomes from three bacterial families by topic modeling. For this, each genome was considered as a document and 13-mer nucleotide representations as words. Latent Dirichlet allocation was used as the probabilistic modeling of the corpus. We where able to identify the topic distribution among analyzed genomes, which is highly consistent with traditional hierarchical classification. It is possible that topic modeling may be applied to establish relationships between genome’s composition and biological phenomena.

A code biology analysis of the regulatory regions in cell lines Análisis de biología de códigos de las regiones reguladoras en líneas celulares

The Gas Diffusion Layer (GDL) provides a transport route for the reactant species from the flow channels to the catalytic layer in a fuel cell. The components design requires that the species present a uniform diffusion towards the electrodes and that the formed products are shifted as faster as possible, to avoid the increase of the ohmic resistance due to the blocking of the active sites, or it constitutes a bottleneck that the performance decrease fast. This work presents a solution proposal for the continuity equation in incomprenssible fluids in a 3D model of a gas diffuser layer with titanium wired mesh characteristics of a fuel cell using "OpenFOAM" open source software. The aim of the study is to show that under different scales or size of the gas diffusion layer there are significant changes in the velocities of propagation of the reactant species towards the active area of the fuel cell.