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Bio3d: an R package for the comparative analysis of protein structures

Bioinformatics, 2006-11, Vol.22 (21), p.2695-2696

2006

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Recognition Dynamics of p53 and MDM2: Implications for Peptide Design

The journal of physical chemistry. B, 2016-01, Vol.120 (2), p.320-328

2016

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Design of peptide-based coronavirus inhibitors that target disruption of 3CLpro protease self-association

Molecular systems design & engineering, 2022-08, Vol.7 (9), p.1138-1153

2022

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Activating the p53 anti-cancer pathway by targeting the MDM2/MDMX dimer interface with short peptide segments: a computational peptide design experiment

Molecular systems design & engineering, 2022-08, Vol.7 (8), p.996-16

2022

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Peptide Inhibitors of Viral Assembly: A Novel Route to Broad-Spectrum Antivirals

Journal of chemical information and modeling, 2012-03, Vol.52 (3), p.770-776

2012

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On the origin of the stereoselective affinity of Nutlin-3 geometrical isomers for the MDM2 protein

Cell cycle (Georgetown, Tex.), 2013-12, Vol.12 (24), p.3727-3735

2013

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Mutation in myosin heavy chain 6 causes atrial septal defect

Nature genetics, 2005-04, Vol.37 (4), p.423-428

2005

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Characterization of the Ligand Receptor Encounter Complex and Its Potential for in Silico Kinetics-Based Drug Development

Journal of chemical theory and computation, 2012-01, Vol.8 (1), p.314-321

2012

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The Impact of Viral RNA on the Association Rates of Capsid Protein Assembly: Bacteriophage MS2 as a Case Study

Journal of molecular biology, 2010-07, Vol.400 (4), p.935-947

2010

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Artificial Biochemical Networks: Evolving Dynamical Systems to Control Dynamical Systems

IEEE transactions on evolutionary computation, 2014-04, Vol.18 (2), p.145-166

2014

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On the Origin of Order in the Genome Organization of ssRNA Viruses

Biophysical journal, 2011-08, Vol.101 (4), p.774-780

2011

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Disruption of 3CLpro protease self-association by short peptides as a potential route to broad spectrum coronavirus inhibitors

Journal of biomolecular structure & dynamics, 2022-01, Vol.40 (24), p.13901-13911

2022

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Artificial Epigenetic Networks: Automatic Decomposition of Dynamical Control Tasks Using Topological Self-Modification

IEEE transaction on neural networks and learning systems, 2017-01, Vol.28 (1), p.218-230

2017

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The physical determinants of the DNA conformational landscape: an analysis of the potential energy surface of single-strand dinucleotides in the conformational space of duplex DNA

Nucleic acids research, 2005-01, Vol.33 (18), p.5749

2005

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The incorporation of epigenetics in artificial gene regulatory networks

BioSystems, 2013-05, Vol.112 (2), p.56-62

2013

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A spatiotemporal characterization of the effect of p53 phosphorylation on its interaction with MDM2

Cell cycle (Georgetown, Tex.), 2015-01, Vol.14 (2), p.179-188

2015

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Multivariate Analysis of Conserved Sequence–Structure Relationships in Kinesins: Coupling of the Active Site and a Tubulin-binding Sub-domain

Journal of molecular biology, 2007-05, Vol.368 (5), p.1231-1248

2007

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Conserved Two-Step Regulatory Mechanism of Human Epithelial Differentiation

Stem cell reports, 2014-02, Vol.2 (2), p.180-188

2014

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Biochemical connectionism

Natural computing, 2013-12, Vol.12 (4), p.453-472

2013

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Locally accessible conformations of proteins: Multiple molecular dynamics simulations of crambin

Protein science, 1998-03, Vol.7 (3), p.649-666

1998

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Computational models of signalling networks for non-linear control

BioSystems, 2013-05, Vol.112 (2), p.122-130

2013

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On the interaction mechanisms of a p53 peptide and nutlin with the MDM2 and MDMX proteins: A Brownian dynamics study

Cell cycle (Georgetown, Tex.), 2013-02, Vol.12 (3), p.394-404

2013

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Temperature Effects on Protein Motions: A Molecular Dynamics Study of RNase-Sa

The journal of physical chemistry. B, 2000-11, Vol.104 (44), p.10387-10397

2000

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Dynamics of Rnase Sa: A Simulation Perspective Complementary to NMR/X-ray

The journal of physical chemistry. B, 2002-06, Vol.106 (23), p.6038-6048

2002

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Structural Consequences of the B5 Histidine → Tyrosine Mutation in Human Insulin Characterized by X-ray Crystallography and Conformational Analysis

Biochemistry (Easton), 1999-09, Vol.38 (37), p.12041-12051

1999

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Bio3d: an R package for the comparative analysis of protein structures

Recognition Dynamics of p53 and MDM2: Implications for Peptide Design

Design of peptide-based coronavirus inhibitors that target disruption of 3CLpro protease self-association

Activating the p53 anti-cancer pathway by targeting the MDM2/MDMX dimer interface with short peptide segments: a computational peptide design experiment

Peptide Inhibitors of Viral Assembly: A Novel Route to Broad-Spectrum Antivirals

On the origin of the stereoselective affinity of Nutlin-3 geometrical isomers for the MDM2 protein

Mutation in myosin heavy chain 6 causes atrial septal defect

Characterization of the Ligand Receptor Encounter Complex and Its Potential for in Silico Kinetics-Based Drug Development

The Impact of Viral RNA on the Association Rates of Capsid Protein Assembly: Bacteriophage MS2 as a Case Study

Artificial Biochemical Networks: Evolving Dynamical Systems to Control Dynamical Systems

On the Origin of Order in the Genome Organization of ssRNA Viruses

Disruption of 3CLpro protease self-association by short peptides as a potential route to broad spectrum coronavirus inhibitors

Artificial Epigenetic Networks: Automatic Decomposition of Dynamical Control Tasks Using Topological Self-Modification

The physical determinants of the DNA conformational landscape: an analysis of the potential energy surface of single-strand dinucleotides in the conformational space of duplex DNA

The incorporation of epigenetics in artificial gene regulatory networks

A spatiotemporal characterization of the effect of p53 phosphorylation on its interaction with MDM2

Multivariate Analysis of Conserved Sequence–Structure Relationships in Kinesins: Coupling of the Active Site and a Tubulin-binding Sub-domain

Conserved Two-Step Regulatory Mechanism of Human Epithelial Differentiation

Biochemical connectionism

Locally accessible conformations of proteins: Multiple molecular dynamics simulations of crambin

Computational models of signalling networks for non-linear control

On the interaction mechanisms of a p53 peptide and nutlin with the MDM2 and MDMX proteins: A Brownian dynamics study

Temperature Effects on Protein Motions: A Molecular Dynamics Study of RNase-Sa

Dynamics of Rnase Sa: A Simulation Perspective Complementary to NMR/X-ray

Structural Consequences of the B5 Histidine → Tyrosine Mutation in Human Insulin Characterized by X-ray Crystallography and Conformational Analysis

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