Eco-evolutionary dynamics of adapting pathogens and host immunity

no code implementations • 11 Feb 2024 • Pierre Barrat-Charlaix, Richard A. Neher

We show that depending on strain cross-immunity, heterogeneity of the host population, and durability of immune responses, escape variants initially grow exponentially, but lose their growth advantage before reaching high frequencies.

Global multivariate model learning from hierarchically correlated data

no code implementations • 11 Feb 2021 • Edwin Rodriguez Horta, Alejandro Lage, Martin Weigt, Pierre Barrat-Charlaix

The naive application of inverse statistical physics techniques therefore leads to systematic biases and an effective reduction of the sample size.

Disordered Systems and Neural Networks Statistical Mechanics Quantitative Methods

Sparse generative modeling via parameter-reduction of Boltzmann machines: application to protein-sequence families

no code implementations • 23 Nov 2020 • Pierre Barrat-Charlaix, Anna Paola Muntoni, Kai Shimagaki, Martin Weigt, Francesco Zamponi

For example, pairwise Potts models (PM), which are instances of the BM class, provide accurate statistical models of families of evolutionarily related protein sequences.