Analysis and integration of heterogeneous large-scale genomics data : application to B cell differentiation and follicular lymphoma non coding mutations Marine Louarn

To cite this version:

Marine Louarn. Analysis and integration of heterogeneous large-scale genomics data : application to B cell differentiation and follicular lymphoma non coding mutations. Bioinformatics [q-bio.QM]. Université Rennes 1, 2020. English. ￿NNT : 2020REN1S088￿. ￿tel-03244465￿

HAL Id: tel-03244465 https://tel.archives-ouvertes.fr/tel-03244465 Submitted on 1 Jun 2021

HAL is a multi-disciplinary open access L’archive ouverte pluridisciplinaire HAL, est archive for the deposit and dissemination of sci- destinée au dépôt et à la diffusion de documents entific research documents, whether they are pub- scientifiques de niveau recherche, publiés ou non, lished or not. The documents may come from émanant des établissements d’enseignement et de teaching and research institutions in France or recherche français ou étrangers, des laboratoires abroad, or from public or private research centers. publics ou privés. THÈSE DE DOCTORAT DE

L’UNIVERSITE DE RENNES 1

Ecole Doctorale N° 601 Mathématiques et Sciences et Technologies de l’Information et de la Communication Spécialité : Informatique Par « Marine LOUARN » « Analysis and integration of heterogeneous large-scale genomics data »

«Application to B cell differentiation and Follicular Lymphoma non coding mutations»

Thèse présentée et soutenue à RENNES, le 26 Novembre 2020 Unité de recherche : INSERM et IRISA Thèse N° :

Rapporteurs avant soutenance : Adrien COULET MCU, LORIA Nancy Lydie LANE Chercheuse, SIB Lausanne, Suisse Composition du jury : Président : Prénom Nom Fonction et établissement d’exercice Examinateurs : Salvatore SPICUGLIA Directeur de recherche, INSERM U1090 Marseille Sarah COHEN BOULAKIA Professeure, LRI Orsay Fabrice CHATONNET Ingénieur de recherche, CHU Rennes Olivier DAMERON Professeur, Université Rennes1 Rennes

Dir. de thèse : Anne SIEGEL Directrice de recherche CNRS, IRISA Rennes

Co-dir. de thèse : Thierry FEST PU-PH, INSERM / CHU Rennes

“I’m sure there are words that are simply in there ’cause I like them. I know I couldn’t justify each and every one of them.”

Neil GAIMAN

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ACKNOWLEDGEMENT

I would like to sincerely thank Lydie Lana and Adrien Coulet for accepting to review this thesis. I would also like to thank Salvatore Spicuglia and Sarah Cohen Boulakia for accepting to be part of my jury. I would also like to thank Anne Siegel, Olivier Dameron, Fabrice Chatonnet and Thierry Fest for offering me that internship - which now feels likes ages ago - that lead to this Ph.D. That you for the mentoring, the support and the push to better myself scientifically. A huge thank to the Dyliss team, but also GenOuest and GenScale, it has been a pleasure working with you guys, laughing together during breaks and thanks for the overall good atmosphere that made those three and a half year a lot more fun. A special thank for Xavier, for his continuous support on AskOmics and for answering my numerous questions. And special thank to the ’Midi les docto- rants’ group, with all our silly yet fascinating discussions about basically everything, and for some of my best laugh also. They are too many names to give a full list but from the bottom of my heart, thanks you ! You made this thesis a lot more fun. Thanks also for hearing me venting when everything was going wrong. Thanks to the INSERM group for enduring my computer sciences presentation and helping me better understand the biological context under my thesis. Merci Arty et Céleste pour la Boirlothe devenue traditionnelle. Merci a tous les amis qui m’ont aidée à rendre ses années inoubliables, que ce soit sur cette campagne de D&D qui dure depuis aussi longtemps que ma thèse maintenant ou simplement autour d’un verre ou d’un mug. Un merci tout spécial à Pol, comme tu m’