Modeling and Comparison of Biological Sequences and Structures
: M. Nikolski.
: Comparative genomics, Systems biology, NGS, Metagenomics, Big data, Graph algorithms, Data mining, Information visualization
Our team aims at both developing novel efficient bioinformatics algorithms and making use of them for biological data analysis.
Our research focuses on algorithms and formal models for the study of complex systems, designed to help biologists understand the relations between genomes, their genetic elements, and the behavior of the resulting cellular systems.
Our work can be situated in two distinct but related subjects: algorithms for pattern recognition, inference, and search for optimal solutions in large search spaces; and modeling, for building rigorous descriptions of complex dynamic systems and establishing formal properties about their behaviors.
Biological structures that we study are mainly: genomic and protein sequences, ARN, biological networks (metabolic and signaling) as well as stochastic mult-scale models of cellular behavior.
We are strongly involved in three initiatives for developing international standards: Hupo PSI (Protein Standards Initiative), MIASE (Minimum Information About a Simulation Experiment) and Cosmos (COordination Of Standards In MetabOlomicS).
- FP7 Coordinated Action COSMOS COordination Of Standards In MetabOlomicS, 2012-2015
- ANR Chaire d’Excellence ABRIWG Apricot Whole Genome Sequence Genotyping, 2011-2014
- Infrastructure d’Avenir IFB Institut Francais de Bioinformatique, 2012-2022