| Learning from prepandemic data to forecast viral escape NN Thadani, S Gurev, P Notin, N Youssef, NJ Rollins, D Ritter, C Sander, ... Nature 622 (7984), 818-825, 2023 | 105 | 2023 |
| Shifting balance on a static mutation–selection landscape: a novel scenario of positive selection CT Jones, N Youssef, E Susko, JP Bielawski Molecular biology and evolution 34 (2), 391-407, 2016 | 37 | 2016 |
| Phenomenological load on model parameters can lead to false biological conclusions CT Jones, N Youssef, E Susko, JP Bielawski Molecular biology and evolution 35 (6), 1473-1488, 2018 | 29 | 2018 |
| Introduction to genome biology and diversity N Youssef, A Budd, JP Bielawski Evolutionary Genomics: Statistical and Computational Methods, 3-31, 2019 | 25 | 2019 |
| A phenotype–genotype codon model for detecting adaptive evolution CT Jones, N Youssef, E Susko, JP Bielawski Systematic biology 69 (4), 722-738, 2020 | 13 | 2020 |
| An unusual evolutionary strategy: the origins, genetic repertoire, and implications of doubly uniparental inheritance of mitochondrial DNA in bivalves DT Stewart, S Breton, EE Chase, BM Robicheau, S Bettinazzi, E Pante, ... Evolutionary biology—a transdisciplinary approach, 301-323, 2020 | 13 | 2020 |
| Consequences of stability-induced epistasis for substitution rates N Youssef, E Susko, JP Bielawski Molecular Biology and Evolution 37 (11), 3131-3148, 2020 | 8 | 2020 |
| Shifts in amino acid preferences as proteins evolve: a synthesis of experimental and theoretical work N Youssef, E Susko, AJ Roger, JP Bielawski Protein Science 30 (10), 2009-2028, 2021 | 7 | 2021 |
| Evolution of amino acid propensities under stability-mediated epistasis N Youssef, E Susko, AJ Roger, JP Bielawski Molecular Biology and Evolution 39 (3), msac030, 2022 | 6 | 2022 |
| Evolutionary biology—A transdisciplinary approach DT Stewart, S Breton, EE Chase, BM Robicheau, S Bettinazzi, E Pante, ... Springer International Publishing, 2020 | 6 | 2020 |
| Expanding the search for sperm transmission elements in the mitochondrial genomes of bivalve mollusks DT Stewart, BM Robicheau, N Youssef, MA Garrido-Ramos, EE Chase, ... Genes 12 (8), 1211, 2021 | 5 | 2021 |
| Protein design for evaluating vaccines against future viral variation N Youssef, S Gurev, F Ghantous, K Brock, J Jaimes, NN Thadani, ... bioRxiv, 2023.10. 08.561389, 2023 | 4* | 2023 |
| Deep mutational scanning of hepatitis B virus reveals a mechanism for cis-preferential reverse transcription Y Yu, MA Kass, M Zhang, N Youssef, CA Freije, KP Brock, LC Aguado, ... Cell 187 (11), 2735-2745. e12, 2024 | | 2024 |
| Future-proof vaccine design with a generative model of antibody cross-reactivity N Youssef, S Gurev, HR Pierce-Hoffman, AA Cohen, LF Caldera, ... ICML'24 Workshop ML for Life and Material Science: From Theory to Industry …, 2024 | | 2024 |
| Future-proof vaccine design with a generative model of antibody cross-reactivity S Gurev, N Youssef, HR Pierce-Hoffman, DS Marks ICLR 2024 Workshop on Generative and Experimental Perspectives for …, 2024 | | 2024 |
| Evolutionary Dynamics Under a Stability-constrained Model N Youssef Dalhousie University, 2021 | | 2021 |
| The ups and downs of amino acid co-evolution: evolutionary Stokes and anti-Stokes shifts N Youssef, E Susko, AJ Roger, JP Bielawski bioRxiv, 2020.08. 31.271775, 2020 | | 2020 |
| Tradeoffs of alignment-based and protein language models for predicting viral mutation effects N Youssef, S Gurev, N Jain, DS Marks | | |
| Alignment-based and protein foundation models for viral evolution, vaccines and vectors S Gurev, N Youssef, N Jain, DS Marks NeurIPS 2024 Workshop on AI for New Drug Modalities, 0 | | |
