My research consists mainly in biological data analysis, modelling, and methodological developments. The themes I work on tend to be very diverse, and highly dependent of my collaborations. One central theme of my research is the interaction and co-evolution between hosts and pathogens, either bacteria or viruses. One signature that I focus on in particular is codon usage and nucleotide composition, their causes, and their functions in these interactions.
I work on many different projects. If you are interested by any of them, as a student, a potential collaborator, or just to know if you could apply the methods to your own research, feel free to contact me.
- Meloidogyne genome structure Using genome composition statistics to better understand Meloidogyne nematodes genome structure (collaboration with EGJ Danchin in ISA)
- Soil metagenomes mining Searching for partners of Meloidogyne phytoparasites nematodes in soil metagenomes (collaboration with EGJ Danchin in ISA)
- Buchnera and aphid methylome Methylome analysis of Buchnera and its aphid host (collaboration with A. Robichon in ISA)
As a simple data analyst helper, or in more involved ways, I have participated in quite a lot of differents projects as a collaborator -- I have even been described as a "research mercenary"! Most of them led to
publications, and some not. I do not maintain a list of all of them, but the main thematics were:
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Genome composition and codon usage bias,
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Host-pathogen interactions, in particular virus-host interactions and coevolution,
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Biological networks,
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Transposons,
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Multiple other topics including marine ecology, yeast genomics, cancer transcriptomics...