Wordom: a program for efficient analysis of molecular dynamics simulations
Posted: August 27, 2007 Filed under: geek, papers Leave a comment »Seeber M, Cecchini M, Rao F, Settanni G, and Caflisch A. Bioinf. (2007) doi:10.1093/bioinformatics/btm378
Uncovering the topology of configuration space networks
Posted: August 26, 2007 Filed under: analytic_results, CSN, networks, papers, protein_folding Leave a comment »Gfeller D, De Los Rios P, Morton de Lachapelle D, Caldarelli G, and Rao F. Phys. Rev. E (2007) 76:026113
Complex network analysis of free-energy landscapes
Posted: February 6, 2007 Filed under: analytic_results, clusterization, CSN, networks, papers, protein_folding, transition_state Leave a comment »Gfeller D, De Los Rios P, Caflisch A, Rao F. PNAS (2007) 104:1817-22
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Estimation of folding probabilities and phi values from molecular dynamics simulations of reversible Peptide folding
Posted: January 1, 2007 Filed under: book_chapter, papers, protein_folding, transition_state, Uncategorized Leave a comment »Rao F, Settanni G, Caflisch A. In Y. Bai and R. Nussinov, editors, Methods Mol Biol. (2007) 350:225-49
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Local modularity measure for network clusterizations
Posted: November 7, 2005 Filed under: clusterization, networks, papers Leave a comment »Muff S, Rao F, Caflisch A. Phys Rev E (2005) 72:056107
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Estimation of protein folding probability from equilibrium simulations
Posted: May 8, 2005 Filed under: papers, protein_folding, transition_state Leave a comment »Rao F, Settanni G, Guarnera E, Caflisch A. J Chem Phys (2005) 122:184901
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Φ-Value analysis by molecular dynamics simulations of reversible folding
Posted: January 18, 2005 Filed under: papers, protein_folding, transition_state Leave a comment »G Settanni, F Rao, A Caflisch. PNAS (2005) 102:628–633
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Replica exchange molecular dynamics simulations of amyloid peptide aggregation
Posted: December 1, 2004 Filed under: aggregation, papers, replica_exchange 5 Comments »Cecchini M, Rao F, Seeber M, Caflisch A. J Chem Phys (2004) 121:10748-56
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The protein folding network
Posted: September 3, 2004 Filed under: CSN, networks, papers, protein_folding 1 Comment »F Rao, A Caflisch – J. Mol. Biol (2004), 342: 299–306
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Frequency-domain study of alpha-relaxation in the Random Orthogonal Model
Posted: January 1, 2004 Filed under: papers, physics Leave a comment »Rao F, Crisanti A and Ritort F. Phil Mag (2004) 84:1389
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Replica exchange molecular dynamics simulations of reversible folding
Posted: August 16, 2003 Filed under: papers, protein_folding, replica_exchange Leave a comment »F. Rao and A. Caflisch. (2003) J Chem Phys 119:4035-4042
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Frequency-domain study of relaxation in a spin glass model for the structural glass transition
Posted: January 1, 2003 Filed under: papers, physics Leave a comment »Rao F, Crisanti A and Ritort F. Europhys. Lett. (2003) 62:869
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