(Q51863638)

14 April 2018

title

Perturbational formulation of principal component analysis in molecular dynamics simulation. (English)

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14 April 2018

principal component analysis

main subject

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Hiroki R Ueda

4

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author name string

Yohei M Koyama

series ordinal

1

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14 April 2018

Tetsuya J Kobayashi

series ordinal

2

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Shuji Tomoda

series ordinal

3

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language of work or name

English

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publication date

7 October 2008

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14 April 2018

published in

Physical Review E

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volume

78

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14 April 2018

issue

4 Pt 2

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page(s)

046702

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Relating protein motion to catalysis

cites work

1 reference

https://api.crossref.org/works/10.1103%2FPHYSREVE.78.046702

Dynamic personalities of proteins

21 January 2018

1 reference

https://api.crossref.org/works/10.1103%2FPHYSREVE.78.046702

Essential dynamics of proteins

21 January 2018

1 reference

https://api.crossref.org/works/10.1103%2FPHYSREVE.78.046702

Investigating protein dynamics in collective coordinate space

21 January 2018

1 reference

https://api.crossref.org/works/10.1103%2FPHYSREVE.78.046702

Collective protein dynamics in relation to function

21 January 2018

1 reference

https://api.crossref.org/works/10.1103%2FPHYSREVE.78.046702

Are there non-trivial dynamic cross-correlations in proteins?

21 January 2018

1 reference

https://api.crossref.org/works/10.1103%2FPHYSREVE.78.046702

Dihedral angle principal component analysis of molecular dynamics simulations.

21 January 2018

1 reference

https://api.crossref.org/works/10.1103%2FPHYSREVE.78.046702

Quantifying allosteric effects in proteins.

21 January 2018

1 reference

https://api.crossref.org/works/10.1103%2FPHYSREVE.78.046702

Interactions in native binding sites cause a large change in protein dynamics.

21 January 2018

1 reference

https://api.crossref.org/works/10.1103%2FPHYSREVE.78.046702

On Information and Sufficiency

21 January 2018

1 reference

https://api.crossref.org/works/10.1103%2FPHYSREVE.78.046702

Force fields for protein simulations

21 January 2018

1 reference

https://api.crossref.org/works/10.1103%2FPHYSREVE.78.046702

A point-charge force field for molecular mechanics simulations of proteins based on condensed-phase quantum mechanical calculations

21 January 2018

1 reference

https://api.crossref.org/works/10.1103%2FPHYSREVE.78.046702

VMD: visual molecular dynamics

21 January 2018

1 reference

https://api.crossref.org/works/10.1103%2FPHYSREVE.78.046702

Generalized-ensemble algorithms: enhanced sampling techniques for Monte Carlo and molecular dynamics simulations

21 January 2018

1 reference

https://api.crossref.org/works/10.1103%2FPHYSREVE.78.046702

Scalable molecular dynamics with NAMD

21 January 2018

1 reference

https://api.crossref.org/works/10.1103%2FPHYSREVE.78.046702

Anton, a special-purpose machine for molecular dynamics simulation

21 January 2018

1 reference

https://api.crossref.org/works/10.1103%2FPHYSREVE.78.046702

Nonlinear Component Analysis as a Kernel Eigenvalue Problem

21 January 2018

1 reference

https://api.crossref.org/works/10.1103%2FPHYSREVE.78.046702

A global geometric framework for nonlinear dimensionality reduction

21 January 2018

1 reference

https://api.crossref.org/works/10.1103%2FPHYSREVE.78.046702

Nonlinear dimensionality reduction by locally linear embedding

21 January 2018

1 reference

https://api.crossref.org/works/10.1103%2FPHYSREVE.78.046702

Is allostery an intrinsic property of all dynamic proteins?

21 January 2018

1 reference

https://api.crossref.org/works/10.1103%2FPHYSREVE.78.046702

A Measure of Asymptotic Efficiency for Tests of a Hypothesis Based on the sum of Observations

21 January 2018

1 reference

https://api.crossref.org/works/10.1103%2FPHYSREVE.78.046702

Fluctuation and Cross-correlation Analysis of Protein Motions Observed in Nanosecond Molecular Dynamics Simulations

21 January 2018

1 reference

https://api.crossref.org/works/10.1103%2FPHYSREVE.78.046702

10.1103/PHYSREVE.78.046702

21 January 2018

Identifiers

DOI

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14 April 2018

ADS bibcode

2008PhRvE..78d6702K

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14 April 2018