Bonsai Team

We are a research group at CRIStAL (Research center in Computer Science, Signal and Automatic Control of Lille, University of Lille and CNRS). Our goal is to define combinatorial models and efficient algorithms for large-scale sequence analysis in molecular biology. This includes high throughput sequencing data analysis, genome annotation, metagenomics, RNAs, genome rearrangements, non ribosomal peptides.

News

February 2025 An associate professor position (maîtresse ou maître de conférences) is available. Contact us if interested to discuss your application. The official application will be possible on the Odyssée server between March 4th and April 4th.
28-29 November 2024 We contribute to six long talks at the next SeqBIM edition held in Rennes, which a national workshop on sequence algorithms.
20 November 2024 Hélène Touzet presents her work at IZAZ 2024 (Integrating ZooMS and zooarchaeology)
October 18th 2024 Congratulations to Lilian Marchand who successfully defended his PhD!
26 September 2024 Karl Baltazart gives a talk at the 1st PAASTA conference on peptide markers for paleoproteomics: Youtube video
23 September 2024 We co-organize a workshop on Methods for Interfacing with Graphs of Genomic Sequences held in Lille.
September 2024 New article in PeerJ, Automated evaluation of multiple sequence alignment methods to handle third generation sequencing errors, C. Rohmer, H. Touzet and A. Limasset
January 2024 An associate professor position (maîtresse ou maître de conférences) is available in our group to work on a research project related to digital health in our research themes. The teaching duties will expect skills on web development and databases. Contact us if interested to discuss your application. The official application will be possible on the Galaxy server between Feb 22nd and March 29th.
20-23 November 2023 We co-organize a 4-day event on bioinformatics in Lille (the GDR BIM days)
19 September 2023 We co-organize a scientific event on paleogenomics and paleoproteomics: PALEOMICS 2023.
June 2023 New article in Genome Biology: a comprehensive survey of long read mapping algorithms, by K Sahlin, T Baudeau, B Cazaux and C Marchet.
May 2023 Chapter in Methods in Molecular Biology: Norine: Bioinformatics Methods and Tools for the Characterization of Newly Discovered Nonribosomal Peptides, Flissi, A., Duban, M., Jacques, P., Leclère, V., Pupin, M.
February 2023 ~~Open postdoc position available!~~ We were looking for a postdoc to work on RNA-seq data indexing, starting in September 2023 (ideally). More info…
22 November 2022 Presentation on FAIR data: “Produire des données FAIR pour les rendre Faciles à trouver, Accessibles, Interopérables et Réutilisables” More info…
November 2022 The CNRS (INS2I) published a news about Norine. More info…
September 2022 Invited talk about Scalable sequence database search using Partitioned Aggregated Bloom Comb-Trees at the Genome Informatics conference in Hinxton (UK).
September 2022 Talk entitled Toward optimal fingerprint indexing for large scale genomics by A Limasset at the Workshop on Algorithms in Bioinformatics (WABI) in Potsdam (Germany). Joint work with C Agret and B Cazaux.
September 2022 Soft skills presentation How to improve communication in students/advisors relationships by C Marchet at the WABI ALPACA workshop in Potsdam (Germany)
September 2022 New preprint: Sneak peek at the tig sequences: useful sequences built from nucleic acid data by C Marchet
July 2022 New preprint: A survey of mapping algorithms in the long-reads era by K Sahlin, T Baudeau, B Cazaux and C Marchet
July 2022 Norine received the Open Science Research Data Award 2022. More info…
July 2022 Presentation of the TnPhyto project at the International Erwinia Workshop (IEW)
July 2022 The book chapter Detecting MicroRNAs in Plant Genomes with miRkwood is available
May 2022 Antoine Limasset gave a talk at RECOMB-SEQ: Scalable sequence database search using Partitioned Aggregated Bloom Comb-Trees
February 2022 Vidjil was awarded an honourable mention at the 2022 Open Science Awards for Open Source Research Software, in the Community category. More info…