Hélène Touzet
CNRS research director
Cité scientifique
59655 Villeneuve d'Ascq Cedex
+33 (0)3 28 77 85 59

Algorithmic bioinformatics

The goal of my work is to develop state-of-the-art algorithms in computational biology to analyze DNA and RNA molecules, and help solving problems in biology and medicine. This covers the following topics: high throughput sequencing, metagenomics, noncoding RNA, proteomics.

ORCID iD: 0000-0001-5305-9987

idHal: helene-touzet

Google scholar profile: google scholar

Software: For the full list, see the Bonsai GitHub repository, and our website

News and resources

GDR Bioinformatique: The next national meeting will take place in Lille, November 20-23 2023 [September 2023]

The software SortMeRNA reached the 2000+ citations! See the paper [September 2023]

PALEOMICS: We organize a one-day workshop on paleogenomics and paleoproteomics, featuring Céline Bon (MNHN), Andaine Seguin-Orlando (CAGT), Patrick Auguste (EEP), Eva-Maria Geigl (Institut Jacques Monod) Nicolas Rascovan (Institut Pasteur) and Fabrice Bray (MSAP) [July 2023]

Tnseek, our pipeline for Tn-seq analysis, was presented at JOBIM and at the International Ewinia workshop [July 2023]

ISMB-ECCB, July 23-27, 2023: The conference is being held in Lyon. I am co-chair of the Bioinformatics of Microbes and Microbiomes area, together with Robert Beiko [June 2023]

Bioinformatics and SARS-CoV-2: discover the popular science dossier published in Interstices (in French) [May 2023]

Paleo-info-evo: Our three-year project Algorithms and evolutionary models for paleoproteomics is accepted by MITI CNRS [March 2023]

Adapter trimming in Nanopore reads: Porechop_ABI: discovering unknown adapters in Oxford Nanopore Technology sequencing reads for downstream trimming is published in Bioinformatics Advances. Porechop_ABI is an extension of the original well-known Porechop (R. Wick). The novelty is that it is able to infer the adapter sequences from the raw reads, without any external information. The algorithm uses approximate k-mers and assembly. We also maintain all other great functionalities of Porechop [November 2022]

reads2genpop : From sequence reads to genomes and populations, Paris, MNHN (France). Program [September 2022]

Plant microRNAs: The book chapter Detecting MicroRNAs in Plant Genomes with miRkwood is available. You can also read the full article in BMC Genomics and discover the software on our server (also on GitHub) [July 2022]

SPIRE 2021: I was co-chair of SPIRE (String Processing and Information Retrieval ) in Lille, with Thierry Lecroq (Université of Rouen). Proceedings are available here [October 2021]

The Special Issue of Algorithms on Computational Biology is available (with Aida Ouangraoua, University of Sherbrooke) [May 2021]

Want to know more about bioinformatics and the contribution of this discipline in the fight against SARS-CoV-2 ? Read our report SARS-CoV-2 Through the Lens of Computational Biology: How bioinformatics is playing a key role in the study of the virus and its origins [March 2021]

Proteomics for archeology and paleotolongy: Our collaborative project with HALMA, MSAP and EEP has been acepted for funding [December 2020]

July 2, 2020: virtual mini-symposium on Long reads at JOBIM 2020 [June 2020]

The TNPhyto project (Genetic traits required by bacterial phytopathogens for plant infection and fitness in non-agricultural habitats using high-throughput transposon sequencing) is funded by the French National Research Agency [July 2019]

Which genome browser to use to visualize my sequences ? We have conducted a comprehensive comparative analysis of seven genome browsers: Artemis, Give, IGB, IGV, Jbrowse, Tablet and UCSC genome browser. Read our report. If you think you already know everything, you can try our quiz [July 2019]

Want to know more about long read correction ? The paper of the ASTER consortium Comparative assessment of long-read error correction software applied to Nanopore RNA-sequencing data is now available in Briefings in Bioinformatics [June 2019]


See the webpage.


I subscribe to an open-access scientific model, and try to make all source code, publication, material and protocols available.
Do not hesitate to contact me by email for any request.