Statistical Genomics and Biological Physics

Reviens Avec Tes Prélèvements et analyse les Big Data avec nous

MetaSUB Paris : Cartographier la Diversité Microbienne du Métro Parisien. An article by Marie Pinhas (UPMC) in french to explain the involvement of the lab in the MetaSUB project. 

Martin Weigt co-organizes the conference "Statistical physics methods in biology and computer science", a satellite of StatPhys2016, Ecole Normale Superieure, Paris, July 11-16, 2016. It will cover recent progress on the use of methods from statistical mechanics of disordered systems for high dimensional problems related to biology and computer science. Organizers: Simona Cocco, Florent Krzakala, Remi Monasson, Guilhem Semerjian, Martin Weigt, Lenka Zdeborova. 

We published a new generation domain annotation approach, demonstrating that "multi-source" domain modelling is more appropriate than "mono-source" domain modelling for capturing remote homology. We re-annotate the Plasmodium falciparum genome.

To the Software

A.E. Fortunato, M. Jaubert, J.P. Bouly, M. Thaler and A. Falciatore from the Diatom Functional Genomics team in collaboration with J.S. Bernardes (Statistical Genomics and Biological Physics), A. Carbone (Analytical Genomics) and other international collaborators published on The Plant Cell the paper “Diatom Phytochromes Reveal the Existence of Far-Red-Light-Based Sensing in the Ocean.”  Full text paper.

Plant Cell Editor’s comment on this work.

EJ Molinelli, A Korkut, W Wang, ML Miller, NP Gauthier, X Jing, P Kaushik, Q He, G Mills, DB Solit, CA Pratilas, M Weigt, A Braunstein, A Pagnani, R Zecchina, C Sander, "Perturbation Biology: Inferring Signaling Networks in Cellular Systems", PLoS Comp. Biol. 9(12): e1003290 (2013).

S. Cocco, R. Monasson, M. Weigt, "From principal component to direct coupling analysis of coevolution in proteins: Low-eigenvalue modes are needed for structure prediction", PLoS Comp. Biol. 9(8): e1003176 (2013).

The project COEVSTAT (co-PI Martin Weigt, Statistical Genomics and Biological Physics team) has been selected for funding by the Agence Nationale de la Recherche (ANR).

A PhD scholarship has been allocated by the Institut des Systèmes Complexes to the Statistical Genomics and Biological Physics team (co-direction with R. Monasson, LPTENS)

The Direct Coupling Analysis - dca.upmc.fr - website is online now! It offers information on DCA and downloadable software. A DCA webservice will follow soon.