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© Pierre Gounon
Virus influenza purifié, agent de la grippe. Ce virus enveloppé possède un génome fragmenté : 8 segments d'ARN négatif protégés par une nucléocapside.

About

Mathias VANDENBOGAERT

 Data Scientist (Life Sciences)
Bio-Informatics: High-Throughput « omics »

My research activities involve basic and applied research in the field of computational big data “omics”-biology.

My experience was consolidated through today over 15 years of experience in the field of computational biology, including 13 in the field of high-throughput data screening for public health at the Institut Pasteur. By training, I have a university Master’s degree in biotechnology, along with a PhD doctoral degree in computer science (INRIA/LaBRI). I obtained two postdoctoral fellowships in the field of statistical analysis of genomic data (University of Basel, Switzerland & École Normale Supérieure, Paris).

I currently work in the Unit of Research and Expertise Environment and Infectious Risks. My main activities range from data analysis of high-throughput sequencing data, to the design and development of analytical tools for characterizing new pathogens in the context of emerging diseases, and genetics involving microbial populations (with a special focus on advanced phylogenetic analyses).

The area of expertise of the research laboratories I’ve been working with, involve major forecasting players, in terms of bleeding-edge health-related applications. They have followed the evolution pursued in the field of biotechnology, with the migration to high-speed technologies, notably in the field of high-throughput sequencing (HTS/NGS) for biology and the wealth of metadata and text resources they deliver. I am very much interested in automated data processing in this very field of biology and human public health.

Project-wise, my work is geared towards upgrading daily-use HTS as a complementary tool to more traditional public health diagnostics.

My current activities focus on metagenomics, involving methods that provide public health sciences with the ability to detect a plethora of known and unknown viromes in clinical samples. In this context, Next-generation sequencing (NGS/HTS) technologies have a tremendous impact, taking into account currently available and possible future platforms and bioinformatics. The massive data produced by NGS presents a significant challenge for data analysis and management. As such, advanced bioinformatic tools have become essential for the successful application of NGS technology.

Projects

CV

Professional Experience

June 2006 – June 2012 : Mass-Spectrometry Proteomics and Genomics Bio-informatics – Systems Biology Lab, Institut Pasteur, Paris.

May 2005 – May 2006 : Post-doc Bio-informatics — Ecole Normale Supérieure, Paris.

May 2004 – May 2005 : Post-doc Systems Biology — University Basel, Switzerland.

Education

Ph.D. (March 2004), computer science, Laboratoire bordelais de Recherche en Informatique (LABRI, Université de Bordeaux I, France), and Institut National de Recherche en Informatique et Automatique (I.N.R.I.A. Rocquencourt, France).

“Algorithms and statistical metrics or assessing the significance of functional motifs in biological regulatory sequences.” – Promotors: Dr. M. Régnier, Prof. Dr. S. Dulucq).

M.Sc. (June 2000), Laboratory of Protein Biochemistry and Protein Engineering, University of Ghent, Belgium.

“Cloning and expression of the Chlorobium limicola forma thiosulfatophylum cytochrome c-551 gene and its influence in the thio- sulfate consuming gene-cluster” – Promoteurs: Prof. Dr. J. Van Beeumen, Dr. ir. F. Verté; Laboratory for  Biochemistry, microbiology et physiology.

Publications

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