Odile Lecompte
Professor at Strasbourg University
Ecole Supérieure de Biotechnologie de Strasbourg (ESBS)
Head of the Evolutionary and Medical Genomics theme of the CSTB (Complex Systems and translational Bioinformatics) team of ICUBE
Contact
CSTB - ICUBE UMR7357 Centre de Recherche en Biomédecine de Strasbourg 1 Rue Eugène Boeckel 67000 Strasbourg France Tél : +33 (0)3 68 85 32 96 odile.lecompte@unistra.fr
Research
My research activities are focused on comparative and integrative genomics. They combine the study of biological systems and data science with the development of strategies and tools necessary to extract knowledge from massive data. They are largely based on the exploitation of the evolutionary message provided by the comparison of homologous sequences.
Development of open resources for comparative genomics
We develop the OrthoInspector program for predicting orthology relationships between genes. The associated OrthoInspector website provides orthology relationships for more than 4000 species and offers tools for data exploration and visualization, allowing phylogenetic profiling or evolutionary characterization of genes associated with a function, a process or a cellular component. This work led me to join the international consortium Quest for Orthologs which aims at developing standards in comparative genomics.
- MyGeneFriends
To facilitate big data exploitation by biomedical researchers and clinicians, we created MyGeneFriends, a social network for three types of agents: genes, human and genetic diseases. Leveraging social networks like Facebook conventions, MyGeneFriends enables simple and intuitive interaction with data through appropriate visualization tools and evaluation of the degree of relationship ("friendship") between agents. MyGeneFriends suggests new friends and relevant publications, allows agents to monitor the activity of their friends, and dynamically personalizes the information according to user's interests. The network is available at: lbgi.fr/mygenefriends.
- CilioCode
The project aims at developing an innovative 'omics' profiling methodology for the 20000 human genes in order to characterize genotypes/phenotypes relationships in the context of ciliopathies. The ciliopathies cover many diseases involving a dysgenesis or dysfunction of cilia, organelles essential for many cellular processes (division, signaling, environmental detection...). Symptoms can be observed in tissues/organs closely dependant of cilia (retina, kidney ...) or can be more general (obesity, diabetes). The wide range of symptoms (over a dozen) and the phenotypic differences observed between ciliopathies make these rare genetic diseases a valuable model to study the link between genes and phenotypes.
Thesis in progress: Y. Nevers From « Big data » to genotype/phenotype relationship. Application to ciliopathies.
Student supervision
- PhD supervisor
2006-2009 N. Gagnière (co-supervisor: O. Poch, IGBMC) Développement d’une suite logicielle pour l’analyse et l’annotation intégrative automatiques de transcrits et de protéines. Application aux banques d’ADNc de l’annélide polychète Alvinella pompejana. (pdf)
2007-2010 Y.N. Anno (co-supervisor: P. Carbon, IBMC) Establishment of a biostatistics-based bioinformatics platform for integration and analysis of genomic, epigenetic and phylogenetic data - Application to hSTAF/ZNF143 transcription factor binding sites. (pdf)
2012-2015 A. Allot (co-supervisor: O. Poch, ICUBE) MyGeneFriends: towards a new relationship between researchers and BigData (pdf)
2015- Y. Nevers From « Big data » to genotype/phenotype relationship. Application to ciliopathies.
2017- A. Defosset Systemic and evolutionary study of multiciliation genes in Vertebrates.
- Encadrement de stage de Master M2S4
E. Perrodou (2004), N. Gagnière (2006), Y.N. Anno (2007), B. Linard (2009) A. Allot (2012), A. Nicol (2013), Y. Nevers (2015), A. Defosset (2017)
Teaching
- ESBS and Ecole Européenne de Chimie, Polymères et Matériaux (ECPM)
Bioinformatics (L3) - Engineering Students in Biotechnology and in Chembiotech
Genomics (M1) - Engineering Students in Biotechnology
UE Comparative and integrative genomics (M2) – Engineering Students in Biotechnology and M2 students from Faculty of Life Sciences
- Master Biologie Structurale, Bioinformatique, Biotechnologies (ESBS/Fac. Sciences de la Vie)
UE Macromolecular sequence analysis(M1)
UE Structure and analysis of genomes and epigenomes (M1)
UE Transcriptomes and Protéomes (M2)
- Other formations
Doctoral school of Life Sciences and Health: Practical courses in Bioinformatics (summer school)
Double Cursus Medecine-Sciences: Introduction to Bioinformatics (L2, Faculty of Medecine)
Continuing education: "From «big data» to a target gene validation"
Other professional duties
- Elected member of the ESBS Council
- Elected member of UDS Expert committee (section 64)
- Responsible of the third year of ESBS
- Responsible of 6 teaching units
- Responsible of the summer chool « Practical courses in Bioinformatics » of the Doctoral school of Life Sciences and Health (UDS)
- Responsible of the continuing educationdu course « From «big data» to a target gene validation – Practical initiation to translational bioinformatics»
- Editorial board member for three international journals
Publications
My full publication list in international pee-reviewed journals is available on PubMed. My publications since 2011 are available on the laboratoire site.
Contact
Odile Lecompte CSTB - ICUBE UMR7357 Faculté de Médecine Bâtiment 3, 5ème étage 11 rue Humann 67085 Strasbourg Tél : +33 (0)3 68 85 32 96 odile.lecompte@unistra.fr