Cocco, Simona

An evolution-based model for designing chorismate mutase enzymes

Russ, W. P., Figliuzzi, M., Stocker, C., Barrat-Charlaix, P., Socolich, M., Kast, P., Hilvert, D., Monasson, R., Cocco, S., Weigt, M., et al. (2020) · Science

Protein Structure and DynamicsEnzyme Catalysis and Immobilization

Cited by 313

Distinguishing the immunostimulatory properties of noncoding RNAs expressed in cancer cells

Tanne, A., Muniz, L. R., Puzio-Kuter, A., Leonova, K. I., Gudkov, A. V., Ting, D. T., Monasson, R., Cocco, S., Levine, A. J., Bhardwaj, N., et al. (2015) · Proceedings of the National Academy of Sciences

Immune Response and InflammationCancer-related molecular mechanisms research

Cited by 74

Generative and interpretable machine learning for aptamer design and analysis of in vitro sequence selection

Di Gioacchino, A., Procyk, J., Molari, M., Schreck, J. S., Zhou, Y., Liu, Y., Monasson, R., Cocco, S., & Šulc, P. (2022) · PLOS Computational Biology

Advanced biosensing and bioanalysis techniquesRNA and protein synthesis mechanisms

Cited by 45

Generative and interpretable machine learning for aptamer design and analysis of in vitro sequence selection

Di Gioacchino, A., Procyk, J., Molari, M., Schreck, J. S., Zhou, Y., Liu, Y., Monasson, R., Cocco, S., & Šulc, P. (2022) · PLoS Computational Biology

Advanced biosensing and bioanalysis techniquesRNA and protein synthesis mechanisms

Cited by 45

Designing Molecular RNA Switches with Restricted Boltzmann Machines

Fernandez-de-Cossio-Diaz, J., Hardouin, P., du Moutier, F.-X. L., Di Gioacchino, A., Marchand, B., Ponty, Y., Sargueil, B., Monasson, R., & Cocco, S. (2023) · Nature Communications

RNA and protein synthesis mechanismsProtein Structure and Dynamics

Cited by 20

Designing molecular RNA switches with Restricted Boltzmann machines

Fernandez-de-Cossio-Diaz, J., Hardouin, P., Lyonnet du Moutier, F.-X., Di Gioacchino, A., Marchand, B., Ponty, Y., Sargueil, B., Monasson, R., & Cocco, S. (2025) · Nature Communications

RNA and protein synthesis mechanismsProtein Structure and Dynamics

Cited by 20

Computational design of novel Cas9 PAM-interacting domains using evolution-based modelling and structural quality assessment

Malbranke, C., Rostain, W., Depardieu, F., Cocco, S., Monasson, R., & Bikard, D. (2023) · PLoS Computational Biology

Protein Structure and DynamicsCRISPR and Genetic Engineering

Cited by 15

Computational design of novel Cas9 PAM-interacting domains using evolution-based modelling and structural quality assessment

Malbranke, C., Rostain, W., Depardieu, F., Cocco, S., Monasson, R., & Bikard, D. (2023) · PLOS Computational Biology

Protein Structure and DynamicsCRISPR and Genetic Engineering

Cited by 15

Origins and breadth of pairwise epistasis in an α-helix of β-lactamase TEM-1

Birgy, A., Roussel, C., Kemble, H., Mullaert, J., Panigoni, K., Chapron, A., Magnan, M., Jacquier, H., Cocco, S., Monasson, R., et al. (2026) · Nature Communications

Evolution and Genetic DynamicsAntibiotic Resistance in Bacteria

Cited by 2