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 | 624 | 2020 |
Natural product (−)-gossypol inhibits colon cancer cell growth by targeting RNA-binding protein Musashi-1 L Lan, C Appelman, AR Smith, J Yu, S Larsen, RT Marquez, H Liu, X Wu, ... Molecular oncology 9 (7), 1406-1420, 2015 | 134 | 2015 |
Blind prediction of homo‐and hetero‐protein complexes: The CASP13‐CAPRI experiment MF Lensink, G Brysbaert, N Nadzirin, S Velankar, RAG Chaleil, T Gerguri, ... Proteins: Structure, Function, and Bioinformatics 87 (12), 1200-1221, 2019 | 120 | 2019 |
Prediction of protein assemblies, the next frontier: The CASP14‐CAPRI experiment MF Lensink, G Brysbaert, T Mauri, N Nadzirin, S Velankar, RAG Chaleil, ... Proteins: Structure, Function, and Bioinformatics 89 (12), 1800-1823, 2021 | 94 | 2021 |
Global mapping of antibody recognition of the hepatitis C virus E2 glycoprotein: Implications for vaccine design BG Pierce, ZY Keck, P Lau, C Fauvelle, R Gowthaman, TF Baumert, ... Proceedings of the National Academy of Sciences 113 (45), E6946-E6954, 2016 | 92 | 2016 |
Sequence and structure signatures of cancer mutation hotspots in protein kinases A Dixit, L Yi, R Gowthaman, A Torkamani, NJ Schork, GM Verkhivker PloS one 4 (10), e7485, 2009 | 90 | 2009 |
Targeting the interaction between RNA-binding protein HuR and FOXQ1 suppresses breast cancer invasion and metastasis X Wu, G Gardashova, L Lan, S Han, C Zhong, RT Marquez, L Wei, ... Communications biology 3 (1), 193, 2020 | 85 | 2020 |
TCR3d: The T cell receptor structural repertoire database R Gowthaman, BG Pierce Bioinformatics 35 (24), 5323-5325, 2019 | 85 | 2019 |
Cellular origins and genetic landscape of cutaneous gamma delta T cell lymphomas J Daniels, PG Doukas, MEM Escala, KG Ringbloom, DJH Shih, J Yang, ... Nature communications 11 (1), 1806, 2020 | 81 | 2020 |
CoV3D: a database of high resolution coronavirus protein structures R Gowthaman, JD Guest, R Yin, J Adolf-Bryfogle, WR Schief, BG Pierce Nucleic acids research 49 (D1), D282-D287, 2021 | 72 | 2021 |
TCRmodel: high resolution modeling of T cell receptors from sequence R Gowthaman, BG Pierce Nucleic acids research 46 (W1), W396-W401, 2018 | 61 | 2018 |
Peptide–MHC (pMHC) binding to a human antiviral T cell receptor induces long-range allosteric communication between pMHC-and CD3-binding sites S Rangarajan, Y He, Y Chen, MC Kerzic, B Ma, R Gowthaman, BG Pierce, ... Journal of Biological Chemistry 293 (41), 15991-16005, 2018 | 59 | 2018 |
Structural basis for oligoclonal T cell recognition of a shared p53 cancer neoantigen D Wu, DT Gallagher, R Gowthaman, BG Pierce, RA Mariuzza Nature communications 11 (1), 2908, 2020 | 54 | 2020 |
Natural product derivative Gossypolone inhibits Musashi family of RNA-binding proteins L Lan, H Liu, AR Smith, C Appelman, J Yu, S Larsen, RT Marquez, X Wu, ... BMC cancer 18, 1-14, 2018 | 43 | 2018 |
Structural properties of non-traditional drug targets present new challenges for virtual screening R Gowthaman, EJ Deeds, J Karanicolas Journal of chemical information and modeling 53 (8), 2073-2081, 2013 | 41 | 2013 |
Structural assessment of HLA-A2-restricted SARS-CoV-2 spike epitopes recognized by public and private T-cell receptors D Wu, A Kolesnikov, R Yin, JD Guest, R Gowthaman, A Shmelev, ... Nature Communications 13 (1), 19, 2022 | 30 | 2022 |
TCRmodel2: high-resolution modeling of T cell receptor recognition using deep learning R Yin, HV Ribeiro-Filho, V Lin, R Gowthaman, M Cheung, BG Pierce Nucleic Acids Research 51 (W1), W569-W576, 2023 | 29 | 2023 |
DARC: mapping surface topography by ray-casting for effective virtual screening at protein interaction sites R Gowthaman, SA Miller, S Rogers, J Khowsathit, L Lan, N Bai, ... Journal of medicinal chemistry 59 (9), 4152-4170, 2016 | 27 | 2016 |
Geometrical characterization of T cell receptor binding modes reveals class‐specific binding to maximize access to antigen NK Singh, ET Abualrous, CM Ayres, F Noé, R Gowthaman, BG Pierce, ... Proteins: Structure, Function, and Bioinformatics 88 (3), 503-513, 2020 | 21 | 2020 |
DARC 2.0: improved docking and virtual screening at protein interaction sites R Gowthaman, S Lyskov, J Karanicolas PLOS one 10 (7), e0131612, 2015 | 21 | 2015 |