Séminaire externe - Anaïs Baudot

Anaïs Baudot
Marseille Medical Genetics

Multi-omics data integration methods to study rare genetic diseases

Invitée par : Christophe HELIGON

 

Anais_Baudot

 

https://www.marseille-medical-genetics.org/a-baudot/

Lien de connexion Zoom : 
Participer à la réunion Zoom : https://univ-rennes1-fr.zoom.us/j/92137147628

ID de réunion : 921 3714 7628
Code secret : 794160

 

Résumé :

The technological advances and accumulation of biomedical datasets are yielding unprecedented opportunities to better understand genetic diseases but necessitate proper exploration and integration methods to unravel a complete picture of biological systems. I will discuss about the computational strategies we recently developed, using i) multilayer networks to integrate a large range of interactions, and associated exploration algorithms and ii) dimensionality reduction to extract biological knowledge simultaneously from multiple omics. On the application side, I will discuss about the analysis of rare genetic diseases, which raise various challenges: many patients are undiagnosed, phenotypes can be highly heterogeneous, and only a few treatments exist.

Selected associated publications & preprints
· Cantini, L., Zakeri, P., Hernandez, C., Naldi, A., Thieffry, D., Remy, E., Baudot, A., 2021. Benchmarking joint multi-omics dimensionality reduction approaches for the study of cancer. Nature Communications 12. https://doi.org/10.1038/s41467-020-20430-7

· Novoa-del-Toro, E.-M., Mezura-Montes, E., Vignes, M., Magdinier, F., Tichit, L., Baudot, A., 2020. A Multi-Objective Genetic Algorithm to Find Active Modules in Multiplex Biological Networks. bioRxiv 2020.05.25.114215. https://doi.org/10.1101/2020.05.25.114215

· Pio-Lopez, L., Valdeolivas, A., Tichit, L., Remy, É., Baudot, A., 2020. MultiVERSE: a multiplex and multiplex-heterogeneous network embedding approach. https://arxiv.org/abs/2008.10085

· Valdeolivas A, Tichit L, Navarro C, Perrin S, Odelin G, Levy N, et al. Random Walk with Restart on Multiplex and Heterogeneous Biological Networks. Bioinformatics. 2018 Jul 18. https://academic.oup.com/bioinformatics/article/35/3/497/5055408

 

 

Anaïs Baudot completed her PhD in Bioinformatics in 2007, in the Developmental Biology Institute from the Aix/Marseille University. She made a postdoc in the laboratory of Prof. Alfonso Valencia in the Spanish National Cancer Research Centre (CNIO, Madrid, Spain), and was recruited by the CNRS in 2010. After 8 years in the Marseille Mathematics Institute, she joined in 2018 the Marseille Medical Genetics Unit to create the team "Networks and Systems Biology for Diseases". Her main interests are to develop computational approaches to study human diseases, with a particular emphasis on data integration, rare diseases and disease comorbidities.