GenScale is a bioinformatics research team. Its main goal is to develop scalable methods, tools, and software for
processing genomic data. Our research is motivated by the fast development of next-generation sequencing (NGS) and third-generation (TGS) technologies that provide very challenging problems both in terms of bioinformatics and computer sciences.

• Data structures
  • Indexing the mass of genomic data
  • Focus on the de-Bruijn graph structure.
  • Provide end-user and optimized library
• Algorithms
  • Optimized (time and memory) tools dedicated to NGS processing
  • Data compression, genome assembly, variant detection, metagenomics, GWAS (genome-wide association Study)

• Parallelism
  • Combine several levels of parallelism
  • Use existing techniques such as multithreading or MapReduce
  • Constrained algorithmic development, in particular, targeting hardware accelerators
• Applications
  • Participate in biology-oriented projects
  • INRAe, CEA, National Museum, Hospitals, …

Administrative assistant

• Marie Le Roïc

Academic and research staff

• Susete Alves-Carvalho, IE INRAE
• Rumen Andonov, Prof. univ. Rennes 1
• Karel Brinda, Inria Researcher
• Charles Deltel, IR Inria
• Dominique Lavenier, DR CNRS
• Claire Lemaitre, CR Inria
• Fabrice Legeai, IR INRAE
• Jacques Nicolas, DR Inria
• Pierre Peterlongo, DR Inria (team leader)
• Emeline Roux, Ass. Prof., Univ. Rennes1
• Riccardo Vicedomini, CR CNRS

Visitors

• List of visitors

Former members

• List of Former members
• List of Internship Students

Ph.D. students

• Victor Epain, Inria / INRAe
• Garance Gourdel, ENS
• Khodor Hannoush, ITN Alpaca
• Meven Mognol, CIFRE , UPMEM
• Lucas Robidou, ANR SeqDigger
• Roland Faure, UR1
• Sandra Romain,  ANR Divalps

Engineers

• Olivier Boullé, IE Inria, MolecularXiv
• Julien Leblanc, IE CNRS, dnarXiv
• Anne Guichard, Enginneer, ANR Supergene
• Gildas Robine, IE CNRS, ANR GenoPIM
• Loren Dejoies, Post-doc Inria, AEX Barde

2023 Internship Students

• Siegfried Dubois
• Léo Laffeach (ENS project)
• Victor Levallois
• Nicolas Maurice