Amyloid oligomers: A joint experimental/computational perspective on Alzheimer’s disease, Parkinson’s disease, type II diabetes, and amyotrophic lateral sclerosis PH Nguyen, A Ramamoorthy, BR Sahoo, J Zheng, P Faller, JE Straub, ... Chemical reviews 121 (4), 2545-2647, 2021 | 484 | 2021 |
Phenylalanine-508 mediates a cytoplasmic–membrane domain contact in the CFTR 3D structure crucial to assembly and channel function AWR Serohijos, T Hegedűs, AA Aleksandrov, L He, L Cui, NV Dokholyan, ... Proceedings of the National Academy of Sciences 105 (9), 3256-3261, 2008 | 454 | 2008 |
Eris: an automated estimator of protein stability S Yin, F Ding, NV Dokholyan Nature methods 4 (6), 466-467, 2007 | 447 | 2007 |
Small-world view of the amino acids that play a key role in protein folding M Vendruscolo, NV Dokholyan, E Paci, M Karplus Physical Review E 65 (6), 061910, 2002 | 445 | 2002 |
Discrete molecular dynamics studies of the folding of a protein-like model NV Dokholyan, SV Buldyrev, HE Stanley, EI Shakhnovich Folding and design 3 (6), 577-587, 1998 | 370 | 1998 |
Potentiator ivacaftor abrogates pharmacological correction of ΔF508 CFTR in cystic fibrosis DM Cholon, NL Quinney, ML Fulcher, CR Esther Jr, J Das, NV Dokholyan, ... Science translational medicine 6 (246), 246ra96-246ra96, 2014 | 363 | 2014 |
Topological determinants of protein folding NV Dokholyan, L Li, F Ding, EI Shakhnovich Proceedings of the National Academy of Sciences 99 (13), 8637-8641, 2002 | 356 | 2002 |
Mechanism for the α‐helix to β‐hairpin transition F Ding, JM Borreguero, SV Buldyrey, HE Stanley, NV Dokholyan Proteins: Structure, Function, and Bioinformatics 53 (2), 220-228, 2003 | 344 | 2003 |
Ab initio folding of proteins with all-atom discrete molecular dynamics F Ding, D Tsao, H Nie, NV Dokholyan Structure 16 (7), 1010-1018, 2008 | 343 | 2008 |
Automated minimization of steric clashes in protein structures S Ramachandran, P Kota, F Ding, NV Dokholyan Proteins: Structure, Function, and Bioinformatics 79 (1), 261-270, 2011 | 315 | 2011 |
Ab initio RNA folding by discrete molecular dynamics: from structure prediction to folding mechanisms F Ding, S Sharma, P Chalasani, VV Demidov, NE Broude, NV Dokholyan Rna 14 (6), 1164-1173, 2008 | 315 | 2008 |
Allostery in its many disguises: from theory to applications SJ Wodak, E Paci, NV Dokholyan, IN Berezovsky, A Horovitz, J Li, ... Structure 27 (4), 566-578, 2019 | 307 | 2019 |
RNA-Puzzles: a CASP-like evaluation of RNA three-dimensional structure prediction JA Cruz, MF Blanchet, M Boniecki, JM Bujnicki, SJ Chen, S Cao, R Das, ... Rna 18 (4), 610-625, 2012 | 290 | 2012 |
iFoldRNA: three-dimensional RNA structure prediction and folding S Sharma, F Ding, NV Dokholyan Bioinformatics 24 (17), 1951-1952, 2008 | 262 | 2008 |
Molecular dynamics simulation of amyloid β dimer formation B Urbanc, L Cruz, F Ding, D Sammond, S Khare, SV Buldyrev, HE Stanley, ... Biophysical journal 87 (4), 2310-2321, 2004 | 254 | 2004 |
The interface of protein structure, protein biophysics, and molecular evolution DA Liberles, SA Teichmann, I Bahar, U Bastolla, J Bloom, ... Protein Science 21 (6), 769-785, 2012 | 235 | 2012 |
Emergence of protein fold families through rational design F Ding, NV Dokholyan PLoS computational biology 2 (7), e85, 2006 | 234 | 2006 |
Analysis of DNA sequences using methods of statistical physics SV Buldyrev, NV Dokholyan, AL Goldberger, S Havlin, CK Peng, ... Physica A: Statistical Mechanics and its Applications 249 (1-4), 430-438, 1998 | 233 | 1998 |
Controlling allosteric networks in proteins NV Dokholyan Chemical reviews 116 (11), 6463-6487, 2016 | 230 | 2016 |
Engineered allosteric activation of kinases in living cells AV Karginov, F Ding, P Kota, NV Dokholyan, KM Hahn Nature biotechnology 28 (7), 743-747, 2010 | 229 | 2010 |