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Results: 17

1.

Computational models of protein kinematics and dynamics: beyond simulation.

Gipson B, Hsu D, Kavraki LE, Latombe JC.

Annu Rev Anal Chem (Palo Alto Calif). 2012;5:273-91. doi: 10.1146/annurev-anchem-062011-143024. Epub 2012 Apr 9. Review.

PMID:
22524225
2.

Sampling-based exploration of folded state of a protein under kinematic and geometric constraints.

Yao P, Zhang L, Latombe JC.

Proteins. 2012 Jan;80(1):25-43. doi: 10.1002/prot.23134. Epub 2011 Oct 4.

PMID:
21971749
3.

Learning probabilistic models of hydrogen bond stability from molecular dynamics simulation trajectories.

Chikalov I, Yao P, Moshkov M, Latombe JC.

BMC Bioinformatics. 2011 Feb 15;12 Suppl 1:S34. doi: 10.1186/1471-2105-12-S1-S34.

4.

Markov dynamic models for long-timescale protein motion.

Chiang TH, Hsu D, Latombe JC.

Bioinformatics. 2010 Jun 15;26(12):i269-77. doi: 10.1093/bioinformatics/btq177.

5.

Modeling discrete heterogeneity in X-ray diffraction data by fitting multi-conformers.

van den Bedem H, Dhanik A, Latombe JC, Deacon AM.

Acta Crystallogr D Biol Crystallogr. 2009 Oct;65(Pt 10):1107-17. doi: 10.1107/S0907444909030613. Epub 2009 Sep 16.

6.

Efficient algorithms to explore conformation spaces of flexible protein loops.

Yao P, Dhanik A, Marz N, Propper R, Kou C, Liu G, van den Bedem H, Latombe JC, Halperin-Landsberg I, Altman RB.

IEEE/ACM Trans Comput Biol Bioinform. 2008 Oct-Dec;5(4):534-45. doi: 10.1109/TCBB.2008.96.

7.

Using stochastic roadmap simulation to predict experimental quantities in protein folding kinetics: folding rates and phi-values.

Chiang TH, Apaydin MS, Brutlag DL, Hsu D, Latombe JC.

J Comput Biol. 2007 Jun;14(5):578-93.

PMID:
17683262
8.

On the structure of the inverse kinematics map of a fragment of protein backbone.

Milgram RJ, Liu G, Latombe JC.

J Comput Chem. 2008 Jan 15;29(1):50-68.

PMID:
17542001
9.

Algorithm and data structures for efficient energy maintenance during Monte Carlo simulation of proteins.

Lotan I, Schwarzer F, Halperin D, Latombe JC.

J Comput Biol. 2004;11(5):902-32.

PMID:
15700409
10.

Real-space protein-model completion: an inverse-kinematics approach.

van den Bedem H, Lotan I, Latombe JC, Deacon AM.

Acta Crystallogr D Biol Crystallogr. 2005 Jan;61(Pt 1):2-13. Epub 2004 Dec 17.

PMID:
15608370
11.

Stochastic roadmap simulation: an efficient representation and algorithm for analyzing molecular motion.

Apaydin MS, Brutlag DL, Guestrin C, Hsu D, Latombe JC, Varma C.

J Comput Biol. 2003;10(3-4):257-81.

PMID:
12935328
12.

Using robotics to fold proteins and dock ligands.

Brutlag D, Apaydin S, Guestrin C, Hsu D, Varma C, Singh A, Latombe JC.

Bioinformatics. 2002;18 Suppl 2:S74.

13.

Stochastic roadmap simulation for the study of ligand-protein interactions.

Apaydin MS, Guestrin CE, Varma C, Brutlag DL, Latombe JC.

Bioinformatics. 2002;18 Suppl 2:S18-26.

14.

Algorithmic tools for real-time microsurgery simulation.

Brown J, Sorkin S, Latombe JC, Montgomery K, Stephanides M.

Med Image Anal. 2002 Sep;6(3):289-300.

PMID:
12270233
15.

Simulated learning environments in anatomy and surgery delivered via the next generation internet.

Dev P, Heinrichs WL, Srivastava S, Montgomery KN, Senger S, Temkin B, Hasser C, Latombe JC, Heegaard J, Youngblood P, Friedman CP, Waldron K.

Stud Health Technol Inform. 2001;84(Pt 2):1014-8.

PMID:
11604884
16.

A motion planning approach to flexible ligand binding.

Singh AP, Latombe JC, Brutlag DL.

Proc Int Conf Intell Syst Mol Biol. 1999:252-61.

PMID:
10786308
17.

CARABEAMER: a treatment planner for a robotic radiosurgical system with general kinematics.

Tombropoulos RZ, Adler JR, Latombe JC.

Med Image Anal. 1999 Sep;3(3):237-64.

PMID:
10710294
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