Olivier Rivoire

This paper introduces a new regularization strategy for generative protein models that improves the inference of multiscale sequence statistics, enabling the generation of functional and diverse protein sequences.

The paper investigates adaptive dependencies between enzymes in bacterial folate metabolism, showing that DHFR and TYMS form a modular unit that can adapt independently from the rest of the genome.

The paper identifies conserved co-expression units in bacterial genomes beyond operons, showing that gene regulation can occur through segment-level feedback mechanisms.

This paper introduces statistical coupling analysis (SCA) to decompose proteins into functional sectors and presents new methods for sector analysis in a Python software package.