Odile Lecompte

Associate Professor HDR at the Ecole Supérieure de Biotechnologie de Strasbourg (ESBS) within the University of Strasbourg
Team : CSTB (Complex Systems and translational Bioinformatics) of ICUBE (UMR 7357)

Research

My research activities, at IGBMC and at ICUBE since 2013, combines development of approaches and tools needed to analyse omics data and their application to the study of biological systems. These approaches are largely based on the exploitation of the evolutionary message provided by comparative genomic approaches. These transverse developments are operated in three ways:

Annotation and massive exploitation of "omics" data (annotation and comparison of prokaryotic genomes, development of proteogenomics approach, analysis of transcriptomes from Metazoa)
Targeted studies of gene and protein networks (protein complexes involved in membrane trafficking, translation, transcription and regulatory networks) through comparative and integrative approaches,
Study of genotypes/phenotypes relationships, in particular in rare genetic diseases.

My main current projects are related to the emergent domains of personal genomics and translational bioinformatics.

OrthoInspector

We developed an original algorithm for rapid detection of orthology and inparalogy relationships between genes which are central in comparative and evolutionary genomics. Compared to existing methods, OrthoInspector improves detection sensitivity, with a minimum loss of specificity. The software is suitable for the treatment of thousands of proteomes. The package includes visualization tools to facilitate comparative analysis of genomes or protein family. Databases of precalculated orthology relationships are also available. The software and databases are accessible on the OrthoInspector website.

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 objective is to develop an innovative methodology for "omics" profiling "omics" of human genes in terms of ciliopathies to characterize the relationship genotypes / phenotypes. The ciliopathies represent a broad group of diseases related to dysfunction or dysgenesis of the eyelash, organelle involved in many cellular processes such as signaling, sensing the environment or cell division. The ciliopathies and affect tissues / organs directly related to cilia (retina, kidney ...) but can also be associated with obesity or diabetes. They are a model system for the study of the wide range of symptoms observed, the phenotypic differences between ciliopathies and many missing links between genes and phenotypes.
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
2015- Y. Nevers From « Big data » to genotype/phenotype relationship. Application to ciliopathies.

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)

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 section 64 Expert committee
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