Feng Ding
Title
Cited by
Cited by
Year
Eris: an automated estimator of protein stability
S Yin, F Ding, NV Dokholyan
Nature methods 4 (6), 466-468, 2007
3442007
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
3162002
Status of GPCR modeling and docking as reflected by community-wide GPCR Dock 2010 assessment
I Kufareva, M Rueda, V Katritch, G Dock, RC Stevens, R Abagyan
Structure 19 (8), 1108-1126, 2011
3082011
Community-wide assessment of GPCR structure modelling and ligand docking: GPCR Dock 2008
M Michino, E Abola, G Dock, CL Brooks III, JS Dixon, J Moult, RC Stevens
Nature Reviews Drug Discovery 8 (6), 455, 2009
2842009
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
2652003
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
2542008
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
2442008
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
2252004
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
1982012
Emergence of protein fold families through rational design
F Ding, NV Dokholyan
PLoS Comput Biol 2 (7), e85, 2006
1982006
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
1912011
iFoldRNA: three-dimensional RNA structure prediction and folding
S Sharma, F Ding, NV Dokholyan
Bioinformatics 24 (17), 1951-1952, 2008
1902008
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
1782002
Engineered allosteric activation of kinases in living cells
AV Karginov, F Ding, P Kota, NV Dokholyan, KM Hahn
Nature biotechnology 28 (7), 743, 2010
1722010
Folding Trp-cage to NMR resolution native structure using a coarse-grained protein model
F Ding, SV Buldyrev, NV Dokholyan
Biophysical journal 88 (1), 147-155, 2005
1622005
Modeling backbone flexibility improves protein stability estimation
S Yin, F Ding, NV Dokholyan
Structure 15 (12), 1567-1576, 2007
1572007
Direct molecular dynamics observation of protein folding transition state ensemble
F Ding, NV Dokholyan, SV Buldyrev, HE Stanley, EI Shakhnovich
Biophysical journal 83 (6), 3525-3532, 2002
1472002
Dynamical roles of metal ions and the disulfide bond in Cu, Zn superoxide dismutase folding and aggregation
F Ding, NV Dokholyan
Proceedings of the National Academy of Sciences 105 (50), 19696-19701, 2008
1402008
Implications of peptide assemblies in amyloid diseases
PC Ke, MA Sani, F Ding, A Kakinen, I Javed, F Separovic, TP Davis, ...
Chemical Society Reviews 46 (21), 6492-6531, 2017
1352017
Discrete molecular dynamics: an efficient and versatile simulation method for fine protein characterization
D Shirvanyants, F Ding, D Tsao, S Ramachandran, NV Dokholyan
The journal of physical chemistry B 116 (29), 8375-8382, 2012
1302012
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Articles 1–20