| The Rosetta all-atom energy function for macromolecular modeling and design RF Alford, A Leaver-Fay, JR Jeliazkov, MJ O’Meara, FP DiMaio, H Park, ... Journal of chemical theory and computation 13 (6), 3031-3048, 2017 | 1404 | 2017 |
| Macromolecular modeling and design in Rosetta: recent methods and frameworks JK Leman, BD Weitzner, SM Lewis, J Adolf-Bryfogle, N Alam, RF Alford, ... Nature methods 17 (7), 665-680, 2020 | 670 | 2020 |
| Modeling and docking of antibody structures with Rosetta BD Weitzner*, JR Jeliazkov*, S Lyskov*, N Marze, D Kuroda, R Frick, ... Nature protocols 12 (2), 401, 2017 | 278 | 2017 |
| Targeting the CoREST complex with dual histone deacetylase and demethylase inhibitors JH Kalin, M Wu, AV Gomez, Y Song, J Das, D Hayward, N Adejola, M Wu, ... Nature communications 9 (1), 53, 2018 | 215 | 2018 |
| A compact vocabulary of paratope-epitope interactions enables predictability of antibody-antigen binding R Akbar, PA Robert, M Pavlović, JR Jeliazkov, I Snapkov, A Slabodkin, ... Cell Reports 34 (11), 2021 | 168 | 2021 |
| An expanded benchmark for antibody-antigen docking and affinity prediction reveals insights into antibody recognition determinants JD Guest, T Vreven, J Zhou, I Moal, JR Jeliazkov, JJ Gray, Z Weng, ... Structure 29 (6), 606-621. e5, 2021 | 98 | 2021 |
| Plasma cells are the most abundant gluten peptide MHC-expressing cells in inflamed intestinal tissues from patients with celiac disease LS Høydahl, L Richter, R Frick, O Snir, KS Gunnarsen, OJB Landsverk, ... Gastroenterology 156 (5), 1428-1439. e10, 2019 | 82 | 2019 |
| Acidic C-terminal domains autoregulate the RNA chaperone Hfq A Santiago-Frangos, JR Jeliazkov, JJ Gray, SA Woodson Elife 6, e27049, 2017 | 66 | 2017 |
| Repertoire analysis of antibody CDR-H3 loops suggests affinity maturation does not typically result in rigidification JR Jeliazkov*, A Sljoka*, D Kuroda, N Tsuchimura, N Katoh, K Tsumoto, ... Frontiers in immunology 9, 413, 2018 | 61 | 2018 |
| Better together: Elements of successful scientific software development in a distributed collaborative community J Koehler Leman, BD Weitzner, PD Renfrew, SM Lewis, R Moretti, ... PLoS computational biology 16 (5), e1007507, 2020 | 35 | 2020 |
| The structural basis of PTEN regulation by multi-site phosphorylation DR Dempsey, T Viennet, R Iwase, E Park, S Henriquez, Z Chen, ... Nature structural & molecular biology 28 (10), 858-868, 2021 | 27 | 2021 |
| Robustification of rosettaantibody and rosetta snugdock JR Jeliazkov, R Frick, J Zhou, JJ Gray PloS one 16 (3), e0234282, 2021 | 27 | 2021 |
| A high-affinity human TCR-like antibody detects celiac disease gluten peptide–MHC complexes and inhibits T cell activation R Frick, LS Høydahl, J Petersen, MF Du Pré, S Kumari, G Berntsen, ... Science immunology 6 (62), eabg4925, 2021 | 24 | 2021 |
| Caulobacter crescentus Hfq structure reveals a conserved mechanism of RNA annealing regulation A Santiago-Frangos, KS Fröhlich, JR Jeliazkov, EM Małecka, G Marino, ... Proceedings of the National Academy of Sciences 116 (22), 10978-10987, 2019 | 22 | 2019 |
| Modeling oblong proteins and water‐mediated interfaces with RosettaDock in CAPRI rounds 28–35 NA Marze*, JR Jeliazkov*, SS Roy Burman, SE Boyken, F DiMaio, JJ Gray Proteins: Structure, Function, and Bioinformatics 85 (3), 479-486, 2017 | 22 | 2017 |
| Ensuring scientific reproducibility in bio-macromolecular modeling via extensive, automated benchmarks J Koehler Leman, S Lyskov, SM Lewis, J Adolf-Bryfogle, RF Alford, ... Nature communications 12 (1), 6947, 2021 | 17 | 2021 |
| Novel sampling strategies and a coarse‐grained score function for docking homomers, flexible heteromers, and oligosaccharides using Rosetta in CAPRI rounds 37–45 SS Roy Burman, ML Nance, JR Jeliazkov, JW Labonte, JH Lubin, ... Proteins: Structure, Function, and Bioinformatics 88 (8), 973-985, 2020 | 17 | 2020 |
| Directed evolution for high functional production and stability of a challenging G protein-coupled receptor Y Waltenspühl, JR Jeliazkov, L Kummer, A Plückthun Scientific Reports 11 (1), 8630, 2021 | 13 | 2021 |
| ESMFold hallucinates native-like protein sequences JR Jeliazkov, D del Alamo, JD Karpiak bioRxiv, 2023.05. 23.541774, 2023 | 11 | 2023 |
| Non-H3 CDR template selection in antibody modeling through machine learning X Long, JR Jeliazkov, JJ Gray PeerJ 7, e6179, 2019 | 11 | 2019 |
