| ProtGPT2 is a deep unsupervised language model for protein design N Ferruz, S Schmidt, B Höcker Nature Communications, 2022 | 551 | 2022 |
| Emergence of Multiple EGFR Extracellular Mutations during Cetuximab Treatment in Colorectal Cancer S Arena, B Bellosillo, G Siravegna, A Martínez, I Canadas, L Lazzari, ... Clinical cancer research 21 (9), 2157-2166, 2015 | 297 | 2015 |
| Controllable protein design with language models N Ferruz, B Höcker Nature Machine Intelligence 4 (6), 521-532, 2022 | 170 | 2022 |
| From sequence to function through structure: Deep learning for protein design N Ferruz, M Heinzinger, M Akdel, A Goncearenco, L Naef, C Dallago Computational and Structural Biotechnology Journal 21, 238-250, 2023 | 85 | 2023 |
| ProteinTools: a toolkit to analyze protein structures N Ferruz, S Schmidt, B Höcker Nucleic acids research 49 (W1), W559-W566, 2021 | 76 | 2021 |
| Binding kinetics in drug discovery N Ferruz, G De Fabritiis Molecular Informatics 35 (6-7), 216-226, 2016 | 56 | 2016 |
| Dopamine D3 receptor antagonist reveals a cryptic pocket in aminergic GPCRs N Ferruz, S Doerr, MA Vanase-Frawley, Y Zou, X Chen, ES Marr, ... Scientific Reports 8 (1), 897, 2018 | 54 | 2018 |
| Strategies for designing non-natural enzymes and binders H Lechner, N Ferruz, B Höcker Current Opinion in Chemical Biology 47, 67-76, 2018 | 48 | 2018 |
| Identification and analysis of natural building blocks for evolution-guided fragment-based protein design N Ferruz, F Lobos, D Lemm, S Toledo-Patino, JA Farías-Rico, S Schmidt, ... Journal of molecular biology 432 (13), 3898-3914, 2020 | 41 | 2020 |
| Insights from fragment hit binding assays by molecular simulations N Ferruz, MJ Harvey, J Mestres, G De Fabritiis Journal of chemical information and modeling 55 (10), 2200-2205, 2015 | 32 | 2015 |
| Conditional language models enable the efficient design of proficient enzymes G Munsamy, R Illanes-Vicioso, S Funcillo, IT Nakou, S Lindner, G Ayres, ... bioRxiv, 2024.05. 03.592223, 2024 | 31* | 2024 |
| Multibody cofactor and substrate molecular recognition in the myo-inositol monophosphatase enzyme N Ferruz, G Tresadern, A Pineda-Lucena, G De Fabritiis Scientific Reports 6 (1), 30275, 2016 | 28 | 2016 |
| Protlego: A Python package for the analysis and design of chimeric proteins N Ferruz, J Noske, B Höcker Bioinformatics, 2021 | 20 | 2021 |
| Computational modeling of an epidermal growth factor receptor single-mutation resistance to cetuximab in colorectal cancer treatment I Buch, N Ferruz, G De Fabritiis Journal of chemical information and modeling 53 (12), 3123-3126, 2013 | 17 | 2013 |
| A comprehensive binding study illustrates ligand recognition in the periplasmic binding protein PotF P Kröger, S Shanmugaratnam, N Ferruz, K Schweimer, B Höcker Structure 29 (5), 433-443. e4, 2021 | 13 | 2021 |
| Reranking docking poses using molecular simulations and approximate free energy methods G Lauro, N Ferruz, S Fulle, MJ Harvey, PW Finn, G De Fabritiis Journal of chemical information and modeling 54 (8), 2185-2189, 2014 | 13 | 2014 |
| Fuzzle 2.0: Ligand Binding in Natural Protein Building Blocks N Ferruz, F Michel, F Lobos, S Schmidt, B Höcker Frontiers in Molecular Biosciences, 2021 | 9 | 2021 |
| Anniversary AI reflections N Ferruz, M Zitnik, PY Oudeyer, E Hine, N Sengupta, Y Shi, D Mincu, ... Nature Machine Intelligence 6 (1), 6-12, 2024 | 8 | 2024 |
| What does it take for an ‘AlphaFold Moment’in functional protein engineering and design? RA Chica, N Ferruz Nature Biotechnology 42 (2), 173-174, 2024 | 6 | 2024 |
| Dreaming ideal protein structures N Ferruz, B Höcker Nature Biotechnology 40 (2), 171-172, 2022 | 6 | 2022 |
