Multi-omics data integration methods to study rare genetic diseases

EVENT : C3BI Seminars


Main speaker : Anaïs Baudot, from Networks and Systems Biology , Marseille Medical Genetics Unit (MMG)
Date : 11-03-2021 at 02:00 pm
Location : Teams (e-seminars) ,Institut Pasteur, Paris


Link to the seminar:
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https://teams.microsoft.com/l/meetup-join/19%3a8ba527d9b67a49f99a705c485e691b61%40thread.tacv2/1614681436154?context=%7b%22Tid%22%3a%22096815dc-d9eb-4bc3-a5a3-53c77e7d34e2%22%2c%22Oid%22%3a%22ecd024dd-8901-4512-9222-f115faa816ca%22%7d
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ABSTRACT

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


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