The first edition of Meet-EU was launched last Friday! Students enrolled in Bioinformatics Master programs from the 4EU+ alliance will join their efforts to predict chromatin organisation from Hi-C data. The LCQB is involved in the organisation of this edition, and in the training of the students!The full opening session is available at: https://www.youtube.com/watch?v=-x5gzjqB6ms&feature=youtu.be.
Our paper "COVTree: Coevolution in OVerlapped sequences by Tree analysis server" has been cited among the papers founded by ANRS in the context of "Journée mondiale contre l’hépatite 2020 : l’ANRS toujours engagée"
The new book "Mathematical modelling of evolution. One-locus and multi-locus theory and recombination" by Igor Rouzine appeared in the Mathematical and Life Science Series of De Gruyter. Chp 1. Thought experiments based on a basic model of stochastic evolution of a single genomic site, with random mutation, directional natural selection, and random genetic drift. Chp 2. more advanced theory for a large number of linked loci. Chp 3. Genetic recombination and advantage of sexual reproduction for adaptation.These models are directly applicable to both asexual and sexual populations, including virus populations in an animal host and a population of hosts.Link to the bookLink to the book series
ANRS communicates today on our new webserver COVTree, designed to predict coevolving residues in overlapping genes and to detect mirrored coevolution.Link to the article
Interested in phylogenetic reconstruction based on synteny rather than protein sequence? PhyChro is out in MBE. This is the last piece of a huge work, CHROnicle , done in collaboration by the Analytical Genomics and the Biology of Genomes teams.
Overlapping genes are commonplace in viruses and play an important role in their function and evolution. Coevolution in OVerlapped sequences by Tree analysis (COVTree) is a web server providing the online analysis of coevolving amino-acid pairs in overlapping genes, where residues might be located inside or outside the overlapping region.
We propose PhyloSofS, the first automated tool to reconstruct plausible evolutionary scenarios explaining a set of observed transcripts, and to generate 3D molecular models of the protein isoforms. We apply it to the JNK family (60 transcripts, 7 trees) to identify AS events of ancient origin and relate their functional outcome with changes in the protein dynamics. We also show that PhyloSofS can help identify new potential therapeutic targets.Link to the paper
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