(Q28673041)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24089717%20AND%20SRC:MED&resulttype=core&format=json

26 February 2020

title

Quantitative comparison of alternative methods for coarse-graining biological networks (English)

1 reference

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26 February 2020

3

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26 February 2020

author name string

Gregory R Bowman

series ordinal

1

1 reference

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26 February 2020

Luming Meng

series ordinal

2

1 reference

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26 February 2020

language of work or name

English

0 references

publication date

1 September 2013

1 reference

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Journal of Chemical Physics

26 February 2020

published in

1 reference

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26 February 2020

volume

139

1 reference

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26 February 2020

issue

12

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26 February 2020

page(s)

121905

1 reference

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A role for both conformational selection and induced fit in ligand binding by the LAO protein

26 February 2020

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3724791

Modeling conformational ensembles of slow functional motions in Pin1-WW

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3724791

Taming the complexity of protein folding

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3724791

GROMACS: fast, flexible, and free

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3724791

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

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3724791

Identifying Metastable States of Folding Proteins

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3724791

EMMA: A Software Package for Markov Model Building and Analysis.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3724791

A two-state model for the dynamics of the pyrophosphate ion release in bacterial RNA polymerase

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3724791

Improved coarse-graining of Markov state models via explicit consideration of statistical uncertainty

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3724791

Simple few-state models reveal hidden complexity in protein folding

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3724791

Equilibrium fluctuations of a single folded protein reveal a multitude of potential cryptic allosteric sites

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3724791

Dynamics of pyrophosphate ion release and its coupled trigger loop motion from closed to open state in RNA polymerase II.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3724791

MSMBuilder2: Modeling Conformational Dynamics at the Picosecond to Millisecond Scale

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3724791

Complete reconstruction of an enzyme-inhibitor binding process by molecular dynamics simulations.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3724791

Mechanisms of protein-ligand association and its modulation by protein mutations

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3724791

Network models for molecular kinetics and their initial applications to human health

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3724791

Functional versus folding landscapes: the same yet different

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3724791

Constructing multi-resolution Markov State Models (MSMs) to elucidate RNA hairpin folding mechanisms

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3724791

Progress and challenges in the automated construction of Markov state models for full protein systems

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3724791

Using generalized ensemble simulations and Markov state models to identify conformational states

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3724791

Heterogeneity even at the speed limit of folding: large-scale molecular dynamics study of a fast-folding variant of the villin headpiece

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3724791

COMPUTING: Screen Savers of the World Unite!

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3724791

Sub-microsecond protein folding

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3724791

Markov models of molecular kinetics: generation and validation

3 June 2018

1 reference

Bayesian comparison of Markov models of molecular dynamics with detailed balance constraint

21 January 2018

1 reference

Hierarchical analysis of conformational dynamics in biomolecules: transition networks of metastable states.

21 January 2018

1 reference

Coarse master equations for peptide folding dynamics.

21 January 2018

1 reference

Allosteric inhibition through core disruption

21 January 2018

1 reference

Automatic discovery of metastable states for the construction of Markov models of macromolecular conformational dynamics

21 January 2018

1 reference

College Admissions and the Stability of Marriage

21 January 2018

1 reference

Using information theory to search for co-evolving residues in proteins

21 January 2018

1 reference

Simulating the T-Jump-Triggered Unfolding Dynamics of trpzip2 Peptide and Its Time-Resolved IR and Two-Dimensional IR Signals Using the Markov State Model Approach

21 January 2018

1 reference

Hierarchical Nyström methods for constructing Markov state models for conformational dynamics

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3724791

27 November 2018

Identifiers

DOI

10.1063/1.4812768

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24089717%20AND%20SRC:MED&resulttype=core&format=json

26 February 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24089717%20AND%20SRC:MED&resulttype=core&format=json

26 February 2020

PubMed publication ID

24089717

1 reference