We develop and use bioinformatics tools for genomics and transcriptomics projects related to fundamental research questions such as:
- deep-learning approaches to predict gene expression and thus the impact of regulatory mutations on gene expression.
- genome annotation and more specifically the identification of long non-coding RNAs (lncRNAs) from short and long transcriptomic data (SR- and LR-RNAseq).
- comparative genomics, the study of directional selection and evolution in canines
We provide bioinformatics programs and web servers such as :
- BLIMP: Basenji Like IMpacting variants Predictor 
- FEELnc: a program which annotate and classify lncRNAs 
- Autograph: a web server dedicated to comparative genomics 
- DoG_CNV: a database of variants of type Copy Number Variations
- a study of dog loci that control phenotypic traits common or specific to dog breeds
 Kergal et al, Gene Expression in dogs prediction using Deep Learning (2022). https://github.com/ckergal/BLIMP
 Wucher, V. et al. FEELnc: a tool for long non-coding RNA annotation and its application to the dog transcriptome. Nucleic Acids Res gkw1306 (2017). doi:10.1093/nar/gkw1306
 Derrien, T., André, C., Galibert, F. & Hitte, C. AutoGRAPH: an interactive web server for automating and visualizing comparative genome maps. Bioinformatics 23, 498-499 (2007).
 Berglund, J. et al. Novel origins of copy number variation in the dog genome. Genome Biol 13, R73 (2012).
 Vaysse, A. et al. Identification of genomic regions associated with phenotypic variation between dog breeds using selection mapping. PLoS Genet 7, e1002316 (2011).