Computational Neurogenomics
We conduct mostly computational research at the interface between molecular neurobiology and bioinformatic methods development.
Stress and activity-dependent transcription
From a biological perspective, we work in close collaboration with the Bohacek lab to study the transcriptional and post-transcriptional control of gene expression in the brain upon stress and neuronal activity. We track the dynamics of stress- and activity-dependent expression across cell types, at the single-cell level, with a special emphasis on how transcription factor networks shape chromatin so as to maintain homeostasis and determine responses to stimuli.
Selected publications:
external page Floriou-Servou et al., 2021 (review)
external page Waag et al., 2025
Development of computational methods
From a methodological perspective, we specialize in the analysis and integration of (bulk and single-cell) transcriptomic and epigenomic data. Some examples of our recent research on that front:
Methods for the analysis of single-cell sequencing data
external page Germain et al., 2022
external page Germain et al., 2025
external page Wang*, Sonder* et al., 2026
TF binding and activity
external page Gerbaldo*, Sonder* et al., 2024
external page Sonder et al., 2026
Non-coding RNA (in collaboration with the Schratt lab)
external page Soutschek et al., 2022
external page And many more collaborative works!
Teaching:
376-1347-00L Bioinformatic Approaches to Regulatory Genomics and Epigenomics