| Evaluating protein transfer learning with TAPE R Rao, N Bhattacharya, N Thomas, Y Duan, P Chen, J Canny, P Abbeel, ... Advances in neural information processing systems 32, 2019 | 1256 | 2019 |
| Simulating 500 million years of evolution with a language model T Hayes, R Rao, H Akin, NJ Sofroniew, D Oktay, Z Lin, R Verkuil, VQ Tran, ... Science 387 (6736), 850-858, 2025 | 809 | 2025 |
| Whole-genome sequencing reveals a complex African population demographic history and signatures of local adaptation S Fan, JP Spence, Y Feng, MEB Hansen, J Terhorst, MH Beltrame, ... Cell 186 (5), 923-939. e14, 2023 | 97 | 2023 |
| Interpreting potts and transformer protein models through the lens of simplified attention N Bhattacharya, N Thomas, R Rao, J Dauparas, PK Koo, D Baker, ... PACIFIC SYMPOSIUM ON BIOCOMPUTING 2022, 34-45, 2021 | 64* | 2021 |
| End-to-end learning of multiple sequence alignments with differentiable Smith–Waterman S Petti, N Bhattacharya, R Rao, J Dauparas, N Thomas, J Zhou, AM Rush, ... Bioinformatics 39 (1), btac724, 2023 | 50 | 2023 |
| Engineering highly active nuclease enzymes with machine learning and high-throughput screening N Thomas, D Belanger, C Xu, H Lee, K Hirano, K Iwai, V Polic, KD Nyberg, ... Cell Systems 16 (3), 2025 | 32* | 2025 |
| Functional genomics of OCTN2 variants informs protein-specific variant effect predictor for Carnitine Transporter Deficiency ML Koleske, G McInnes, JEH Brown, N Thomas, K Hutchinson, MY Chin, ... Proceedings of the National Academy of Sciences 119 (46), e2210247119, 2022 | 28 | 2022 |
| Simulating 500 million years of evolution with a language model, July 2024 T Hayes, R Rao, H Akin, NJ Sofroniew, D Oktay, Z Lin, R Verkuil, VQ Tran, ... URL https://www. biorxiv. org/content/10.1101/2024.07 1, v1, 2024 | 23 | 2024 |
| Tuned Fitness Landscapes for Benchmarking Model-Guided Protein Design N Thomas, A Agarwala, D Belanger, YS Song, LJ Colwell BioRxiv, 2022.10. 28.514293, 2022 | 6 | 2022 |
| On a finite branch and bound algorithm for the global minimization of a concave power law over a polytope VI Manousiouthakis, N Thomas, AM Justanieah Journal of optimization theory and applications 151 (1), 121-134, 2011 | 6 | 2011 |
| Minding the gaps: The importance of navigating holes in protein fitness landscapes N Thomas, LJ Colwell Cell Systems 12 (11), 1019-1020, 2021 | 4 | 2021 |
| Browsing in the Library of Babel: Leveraging Evolutionary Information to Improve Protein Modeling N Thomas University of California, Berkeley, 2022 | | 2022 |
| evolutionaryscale/esm: v3. 2.3 Z Lin, C Mishra, J Gong, N Thomas, I Mathur, T Sercu, S Chan, S Candido, ... Zenodo, 0 | | |
Roshan RaoResearch ScientistVerified email at evolutionaryscale.ai
