Ken A. Dill

32 papers A* 1A 1B 2Misc 1Journal 27
YearRankTypeTitle / Venue / Authors
2025 J jnl
MELD in Action: Harnessing Data to Accelerate Molecular Dynamics.
J. Chem. Inf. Model.
Jokent T. Gaza, Emiliano Brini, Justin L. MacCallum, Ken A. Dill, Alberto Pérez
2023 J jnl
MELD-Bracket Ranks Binding Affinities of Diverse Sets of Ligands.
J. Chem. Inf. Model.
Sridip Parui, James C. Robertson, Sandeep Somani, Gary Tresadern, Cong Liu, Ken A. Dill
2020 J jnl
Inferring a network from dynamical signals at its nodes.
PLoS Comput. Biol.
Corey Weistuch, Luca Agozzino, Lilianne R. Mujica-Parodi, Ken A. Dill
2020 J jnl
Proteostasis is adaptive: Balancing chaperone holdases against foldases.
PLoS Comput. Biol.
Adam M. R. de Graff, David E. Mosedale, Tilly Sharp, Ken A. Dill, David J. Grainger
2020 J jnl
Sampling and refinement protocols for template-based macrocycle docking: 2018 D3R Grand Challenge 4.
J. Comput. Aided Mol. Des.
Sergei Kotelnikov, Andrey Alekseenko, Cong Liu, Mikhail Ignatov, Dzmitry Padhorny, Emiliano Brini, Mark Lukin, Evangelos A. Coutsias, Ken A. Dill, Dima Kozakov
2019 J jnl
Monte Carlo on the manifold and MD refinement for binding pose prediction of protein-ligand complexes: 2017 D3R Grand Challenge.
J. Comput. Aided Mol. Des.
Mikhail Ignatov, Cong Liu, Andrey Alekseenko, Zhuyezi Sun, Dzmitry Padhorny, Sergei Kotelnikov, Andrey M. Kazennov, Ivan Grebenkin, Yaroslav Kholodov, Istvan Kolosvari, Alberto Pérez, Ken A. Dill, Dima Kozakov
2017 J jnl
Citation histories of papers: sometimes the rich get richer, sometimes they don't.
CoRR
Michael J. Hazoglu, Vivek Kulkarni, Steven Skiena, Ken A. Dill
2016 J jnl
Adapting the semi-explicit assembly solvation model for estimating water-cyclohexane partitioning with the SAMPL5 molecules.
J. Comput. Aided Mol. Des.
Emiliano Brini, S. Shanaka Paranahewage, Christopher J. Fennell, Ken A. Dill
2015 J jnl
Reply to C. Tsallis' "Conceptual Inadequacy of the Shore and Johnson Axioms for Wide Classes of Complex Systems".
Entropy
Steve Pressé, Kingshuk Ghosh, Julian Lee, Ken A. Dill
2014 J jnl
Testing the semi-explicit assembly model of aqueous solvation in the SAMPL4 challenge.
J. Comput. Aided Mol. Des.
Libo Li, Ken A. Dill, Christopher J. Fennell
2012 J jnl
Testing the semi-explicit assembly solvation model in the SAMPL3 community blind test.
J. Comput. Aided Mol. Des.
Charles W. Kehoe, Christopher J. Fennell, Ken A. Dill
2011 J jnl
Power-law distribution functions derived from maximum entropy and a symmetry relationship
CoRR
G. J. Peterson, Ken A. Dill
2010 J jnl
Nonuniversal power law scaling in the probability distribution of scientific citations
CoRR
G. J. Peterson, Steve Pressé, Ken A. Dill
2009 J jnl
Predicting Peptide Structures in Native Proteins from Physical Simulations of Fragments.
PLoS Comput. Biol.
Vincent A. Voelz, M. Scott Shell, Ken A. Dill
2006 J jnl
A Grammatical Theory for the Conformational Changes of Simple Helix Bundles.
J. Comput. Biol.
David Chiang, Aravind K. Joshi, Ken A. Dill
2006 J jnl
Correction: Folding Very Short Peptides Using Molecular Dynamics.
PLoS Comput. Biol.
Bosco K. Ho, Ken A. Dill
2006 J jnl
Folding Very Short Peptides Using Molecular Dynamics.
PLoS Comput. Biol.
Bosco K. Ho, Ken A. Dill
2006 J jnl
Long-Time Protein Folding Dynamics from Short-Time Molecular Dynamics Simulations.
Multiscale Model. Simul.
John D. Chodera, William C. Swope, Jed W. Pitera, Ken A. Dill
2006 A* conf
Protein folding and chart parsing.
EMNLP
Julia Hockenmaier, Aravind K. Joshi, Ken A. Dill
2006 J jnl
Special Section On Multiscale Modeling In Biology.
Multiscale Model. Simul.
Tamar Schlick, Ken A. Dill
2005 J jnl
Rotational superposition and least squares: The SVD and quaternions approaches yield identical results. Reply to the preceding comment by G. Kneller.
J. Comput. Chem.
Evangelos A. Coutsias, Chaok Seok, Ken A. Dill
2004 J jnl
A kinematic view of loop closure.
J. Comput. Chem.
Evangelos A. Coutsias, Chaok Seok, Matthew P. Jacobson, Ken A. Dill
2004 J jnl
Using quaternions to calculate RMSD.
J. Comput. Chem.
Evangelos A. Coutsias, Chaok Seok, Ken A. Dill
2003 Misc conf
A Path Planning-Based Study of Protein Folding with a Case Study of Hairpin Formation in Protein G and L.
Pacific Symposium on Biocomputing
Guang Song, Shawna L. Thomas, Ken A. Dill, J. Martin Scholtz, Nancy M. Amato
2003 J jnl
MOPED: Method for optimizing physical energy parameters using decoys.
J. Comput. Chem.
Chaok Seok, J. Ben Rosen, John D. Chodera, Ken A. Dill
2003 J jnl
Using Motion Planning to Map Protein Folding Landscapes and Analyze Folding Kinetics of Known Native Structures.
J. Comput. Biol.
Nancy M. Amato, Ken A. Dill, Guang Song
2002 J jnl
The elastic net algorithm and protein structure prediction.
J. Comput. Chem.
Keith D. Ball, Burak Erman, Ken A. Dill
2002 B conf
Using motion planning to map protein folding landscapes and analyze folding kinetics of known native structures.
RECOMB
Nancy M. Amato, Ken A. Dill, Guang Song
1999 J jnl
Comparing search strategies for finding global optima on energy landscapes.
J. Comput. Chem.
K. W. Foreman, Andrew T. Phillips, J. Ben Rosen, Ken A. Dill
1998 A conf
The Large Scale Parallelization of a Conformational 3D Protein Structure Prediction Application.
SC
Philip F. LoCascio, Kaizhi Yue, Peter Cummings, Ken A. Dill
1997 J jnl
Protein Structure and Energy Landscape Dependence on Sequence Using a Continuous Energy Function.
J. Comput. Biol.
Ken A. Dill, Andrew T. Phillips, J. Ben Rosen
1997 B conf
Protein structure prediction and potential energy landscape analysis using continuous global minimization.
RECOMB
Ken A. Dill, Andrew T. Phillips, J. Ben Rosen