Nicolas Guillaudeux’s PhD defense on “Comparing genes’ structures for predicting coding alternative transcripts in human, mouse and dog” will take place on 16th december 2021 14:00 (UTC+1).
The defense will be broadcasted live on youtube https://youtu.be/7HuFFPMFM9U
Committee:
- BERARD Sèverine, Maîtresse de conférences, Université de Montpellier (rapportrice)
- LAINE Elodie, Maîtresse de conférences, Sorbonne Université (rapportrice)
- DIOT Christian, Directeur de recherche INRAE, Rennes (examinateur)
- LARTILLOT Nicolas, Directeur de recherche CNRS, Lyon (examinateur)
- VARRE Jean-Stéphane, Professeur, Université de Lille (examinateur)
- BELLEANNEE Catherine, Maîtresse de conférences, Université de Rennes 1 (encadrante)
- BLANQUART Samuel, Chargé de recherche Inria, Rennes (encadrant)
- DAMERON Olivier, Professeur, Université de Rennes 1 (directeur de thèse)
Keywords: Bioinformatics, comparative genomics, alternative splicing, alternative transcription, orthology, transcript prediction
Abstract:
Living organisms are capable of expressing several alternative transcripts (or RNAs) from a single gene. These transcripts are responsible for the regulatory mechanisms of the organism, some of them are translated into protein. Today, detecting the set of transcripts that can be expressed by a gene is an open problem which many computational methods such as RNA sequencing, spliced sequence alignment methods or comparative genomics methods try to address. This thesis proposes a comparative genomics method to compare the sequence of genes shared by several species. The result is a method for predicting transcripts on a multi-species scale, based on a graph structure. This method was applied to three species (human, mouse, and dog). It allowed to predict a relevant number of transcripts as well as to identify a set of genes that are conserved between the three species and that share both the same exonic structures and the same CDS.
