About us

The team MABioVis develops a scientific vision inspired by the synergy now taking place between information sciences, life sciences, social sciences and economics. The combination of experimental techniques for high-speed and advanced computational methods allows to tackle problems of unprecedented size, and gives birth to scientific issues emerging in a variety of fields such as biology and quantitative geography.

In the different areas that we study, the data can be modeled by complex systems defined as sets of interacting entities. Members of the MABioVis team contribute to the development and study of formalisms, models and algorithms providing results on both extraction and data management, but also on the construction, analysis and understanding of these complex systems. The results obtained and the ties with academic and industrial partners show that we have been successful at addressing this challenge in biology (life systems) and quantitative geography (urban networks).

Several members of our group are also a part of the PLEIADE and MNEMOSYNE projects from INRIA. Some members of our group are involved in the management of the Bordeaux Bioinformatics Center - CBiB (within the Bordeaux Functional Genomics Center) which is an ISO 9001 certified core facility. It provides access to biological data analysis and programming expertise as well as access to high-performance computing resources for wet labs. The resources serve scientists and private labs to master the bioinformatics needs of their research in an efficient and cost-effective manner. CBiB is recognized at the national and international levels as member of French Bioinformatics Institute (IFB).

Our team is actively involved in the rapid development of Synthetic Biology activities in Bordeaux (SB2).

Meet the team

Members

Team member

Alexandre Frédéric

INRIA Research director

Team member

Allali Julien

Associate professor

Team member

Auber David

Associate professor

Team member

Audoin Arnaud

Engineer

Team member

Blin Guillaume

Full professor

Team member

Bon Elisabeth

Associate professor

Team member

Bourqui Romain

Associate professor

Team member

Carrère Maxime

PhD student

Team member

Delassus Rémi

PhD student

Team member

Delest Maylis

Full professor

Team member

Dulucq Serge

Full professor

Team member

Durrens Pascal

CNRS Research scientist

Team member

Dutour Isabelle

Associate professor

Team member

Gasparoux Marie

PhD student

Team member

Giot Romain

Associate professor

Team member

Haolin Ren

PhD student

Team member

Hinaut Xavier

INRIA Research scientist

Team member

Hinge Antoine

PhD student

Team member

Hume Thomas

PhD student

Team member

Issa Razanne

Postdoctorate

Team member

Laumond Antoine

PhD student

Team member

Layel Bruno Thiao

PhD student

Team member

Luqman Muzzamil

Postdoctorate

Team member

Maabout Sofian

Associate professor

Team member

Mary Patrick

Engineer

Team member

Melançon Guy

Full professor

Team member

Nikolski Macha

CNRS Research director

Team member

Perrot Alexandre

PhD student

Team member

Pinaud Bruno

Associate professor

Team member

Raffinot Mathieu

CNRS Research scientist

Team member

Rougier Nicolas

INRIA Research scientist

Team member

Rudewicz Justine

PhD student

Team member

Sansen Joris

PhD student

Team member

Sherman David

INRIA Research director

Team member

Thébault Patricia

Associate professor

Team member

Topalidou Meropi

PhD student

Team member

Uricaru Raluca

Associate professor

Team member

Vallet Jason

PhD student

Associate members

Team member

Alain Franc

INRA Research director

Team member

Carvajal Carlos

PhD student

Team member

Diallo Gayo

Associate Professor

Team member

Fleur Mougin

Associate Professor

Team member

Kassab Randa

Post doctorate

Team member

Vieville Thierry

INRIA Research director

Former members

  • Benjamin Renoust (former PhD)  - JSPS/JFLI Postdoctoral Fellow at National Institute of Informatics of Tokyo
  • Bourgeade Laetitia (former PhD)  - Postdoctoral Fellow at INSERM VINCO U916
  • Calcas Xavier (former Engineer)  - Dassault Systèmes in Velizy
  • De Daruvar Antoine (former Full professor)  -  Full professor at Institut des Sciences de la Vigne et du Vin
  • Dyrka Witold (former Postdoctorate)  - 
  • Pascal Ferraro (former Associate Professor)  - Engineer at Simbals (http://www.simbals.com/)
  • Zhukova Anna (former PhD)  - Postdoctoral Fellow at IBGC CNRS UMR 5095

Publications

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Themes

CoBalt

- Computational Biology

The research conducted in CoBalt takes its source in many areas in biology or bio-informatics and from biological data: genomic and protein sequences, RNA, biological interaction networks, metabolic and signaling pathways. We aim at the development of new algorithms and formal models for the analysis of genomes, networks, and more generally the study of complex systems. We ultimately support biologists in their understanding of the structure and the history of genomes. We thus address challenges initiated from problems in bioinformatics while encompassing issues in computer science: algorithmic recognition and inference patterns, data mining and classification, modeling of complex dynamical systems, prediction and comparison of networks, comparative genomics in a broad sense. Full details

EVADoMe

- Visual Analytics & Interactive Exploration of Massive Data

The research conducted in EVADoMe is based on three main lines of research: data mining, graph drawing and visual interactive exploration of data. Data mining can be viewed as an upstream process for visual data analysis. Graph drawing consists in emebedding the vertices of a graph in a geometrical space (a 2D Euclidean space is commonly used in information visualization). When designing a visualization system, often starting from user tasks and available data, one must decide of a proper visual representation coupled with task-relevant interactions. We have investigated the use of GPU’s to improve interactivity when exploring sophisticated graph drawing for large graphs (typically using curves for edges). Full details

Open positions

Engineer position

Postdoctorate position

Full professor position

Master thesis position

PhD thesis position

Contact

Equipe MABioVis

Laboratoire Bordelais de Recherche en Informatique (LaBRI)
Unité Mixte de Recherche CNRS (UMR 5800)
351, cours de la Libération F-33405 Talence cedex
www

MABioVis leader

Guillaume Blin
Guillaume [dot] Blin [at] labri [dot] fr
Phone: +33 540 003 506

MABioVis deputy leader

Sofian Maabout
Sofian [dot] Maabout [at] labri [dot] fr
Phone: +33 540 003 527

EVADoMe group leader

Romain Bourqui
Romain [dot] Bourqui [at] labri [dot] fr
Phone: +33 540 003 530

CoBalt group leader

Guillaume Blin
Guillaume [dot] Blin [at] labri [dot] fr
Phone: +33 540 003 506