Nikolay Dokholyan
Nikolay Dokholyan
G. Thomas Passananti Professor
Verified email at psu.edu - Homepage
Title
Cited by
Cited by
Year
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
3912002
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
3802008
Eris: an automated estimator of protein stability
S Yin, F Ding, NV Dokholyan
Nature methods 4 (6), 466-467, 2007
3352007
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
3122002
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
3121998
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
2542003
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
2432008
Potentiator ivacaftor abrogates pharmacological correction of ΔF508 CFTR in cystic fibrosis
DM Cholon, NL Quinney, ML Fulcher, CR Esther, J Das, NV Dokholyan, ...
Science translational medicine 6 (246), 246ra96-246ra96, 2014
2412014
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
2352008
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
2212004
Mice fed a lipogenic methionine-choline-deficient diet develop hypermetabolism coincident with hepatic suppression of SCD-1
G Rizki, L Arnaboldi, B Gabrielli, J Yan, GS Lee, RK Ng, SM Turner, ...
Journal of lipid research 47 (10), 2280-2290, 2006
2112006
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
1971998
Emergence of protein fold families through rational design
F Ding, NV Dokholyan
PLoS computational biology 2 (7), 2006
1932006
Expanding protein universe and its origin from the biological Big Bang
NV Dokholyan, B Shakhnovich, EI Shakhnovich
Proceedings of the National Academy of Sciences 99 (22), 14132-14136, 2002
1892002
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
1882012
iFoldRNA: three-dimensional RNA structure prediction and folding
S Sharma, F Ding, NV Dokholyan
Bioinformatics 24 (17), 1951-1952, 2008
1852008
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
1752011
Molecular dynamics simulation of the SH3 domain aggregation suggests a generic amyloidogenesis mechanism
F Ding, NV Dokholyan, SV Buldyrev, HE Stanley, EI Shakhnovich
Journal of molecular biology 324 (4), 851-857, 2002
1742002
Understanding hierarchical protein evolution from first principles
NV Dokholyan, EI Shakhnovich
Journal of molecular biology 312 (1), 289-307, 2001
1632001
Engineered allosteric activation of kinases in living cells
AV Karginov, F Ding, P Kota, NV Dokholyan, KM Hahn
Nature biotechnology 28 (7), 743, 2010
1602010
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Articles 1–20