PhD defence of Kévin Caye on 12/11/17

Thesis defense of Kévin Caye, BCM team, on 12/11/17 at 2 pm :

“Matrix factorization methods for population genomics and association mapping”

- Olivier François, UGA Professor, TIMC-IMAG lab, Grenoble
- Olivier Michel, UGA Professor, GIPSA-Lab, Grenoble
- Jean-Luc Bosson, UGA PU-PH, TIMC-IMAG lab, Grenoble

Jury :
- Michael BLUM, CNRS research Dir, UGA, TIMC-IMAG, Grenoble, President
- Christophe AMBROISE, Professor UEVE, LaMME, Évry, Reviewer
- Charles BOUVEYRON, Professor UCA, Dieudonné, Asclepios, Nice, Reviewer
- Thomas BURGER, CNRS, CEA, Grenoble, Examiner

Place : Bâtiment Boucherle, 109 Faculté de Médecine et de Pharmacie, 38700 La Tronche


Key-words : optimization, matrix factorization, genetic structure of populations, admixture, association study, confounding factors, bioinformatics

Abstract : We present statistical methods based on matrix factorization problems.
A first method allows efficient inference of population structure from genetic data and including geographic proximity information.
A second method corrects the association studies for confounding factors. We present in this manuscript the models, as well as the theoretical aspects of the inference algorithms. Moreover, using numerical simulations, we compare the performance of our methods with those of existing methods.
Finally, we use our methods on real biological data. Our methods have been implemented and distributed as R packages : tess3r and lfmm.