@article {699,
	title = {Effective Force Coarse-Graining},
	journal = {Phys. Chem. Chem. Phys.},
	volume = {11},
	year = {2009},
	pages = {2002-2015},
	doi = {10.1039/B819182D},
	author = {Wang, Y. and Noid, W. G. and Liu, P. and G. A. Voth}
}
@article {521,
	title = {The Multiscale Coarse-graining Method. IV. Transferring Coarse-grained Potentials Between Temperatures},
	journal = {J. Chem. Phys.},
	volume = {131},
	year = {2009},
	pages = {024103},
	doi = {10.1063/1.3167797},
	author = {Krishna, V. and Noid, W. G. and G. A. Voth}
}
@article {583,
	title = {The Multiscale Coarse-graining Method I: A Rigorous Bridge between Atomistic and Coarse-grained Models},
	journal = {J. Chem. Phys.},
	volume = {128},
	year = {2008},
	pages = {244114},
	doi = {10.1063/1.2938860},
	author = {Noid, W. G. and Chu, J.-W. and Ayton, G. S. and Krishna, V. and Izvekov, S. and G. A. Voth and Das, A. and Andersen, H. C.}
}
@article {585,
	title = {The Multiscale Coarse-graining Method. II. Numerical Implementation for Coarse-grained Molecular Models},
	journal = {J. Chem. Phys.},
	volume = {128},
	year = {2008},
	pages = {244115},
	doi = {10.1063/1.2938857},
	author = {Noid, W. G. and Liu, P. and Wang, Y. and Chu, J.-W. and Ayton, G. S. and Izvekov, S. and Andersen, H. C. and G. A. Voth}
}
@article {367,
	title = {Multiscale Simulation of Membranes and Membrane Proteins: Connecting Molecular Interactions to Mesoscopic Behavior},
	journal = {Current Topics in Membranes},
	volume = {60},
	year = {2008},
	pages = {181-225},
	doi = {10.1016/S1063-5823(08)00007-0},
	author = {Ayton, G. S. and Izvekov, S. and Noid, W. G. and G. A. Voth}
}
@article {724,
	title = {A Systematic Methodology for Defining Coarse-grained Sites in Large Biomolecules},
	journal = {Biophys. J.},
	volume = {95},
	year = {2008},
	pages = {5073-5083},
	doi = {10.1529/biophysj.108.139626},
	author = {Zhang, Z. and Lu, L. and Noid, W. G. and Krishna, V. and Pfaendtner, J. and G. A. Voth}
}
@article {584,
	title = {Multiscale Coarse-graining and Structural Correlations: Connections to Liquid State Theory},
	journal = {J Phys Chem B},
	volume = {111},
	number = {16},
	year = {2007},
	note = {Noid, W G Chu, Jhih-Wei Ayton, Gary S Voth, Gregory A 1 S10 RR17214-01/RR/NCRR NIH HHS/United States 5F32GM076839-02/GM/NIGMS NIH HHS/United States F32 GM076839-02/GM/NIGMS NIH HHS/United States Research Support, N.I.H., Extramural Research Support, U.S. Gov{\textquoteright}t, Non-P.H.S. United States The journal of physical chemistry. B J Phys Chem B. 2007 Apr 26;111(16):4116-27. Epub 2007 Mar 30.},
	pages = {4116-27},
	abstract = {<p>A statistical mechanical framework elucidates the significance of structural correlations between coarse-grained (CG) sites in the multiscale coarse-graining (MS-CG) method (Izvekov, S.; Voth, G. A. J. Phys. Chem. B 2005, 109, 2469; J. Chem. Phys. 2005, 123, 134105). If no approximations are made, then the MS-CG method yields a many-body multidimensional potential of mean force describing the interactions between CG sites. However, numerical applications of the MS-CG method typically employ a set of pair potentials to describe nonbonded interactions. The analogy between coarse-graining and the inverse problem of liquid-state theory clarifies the general significance of three-particle correlations for the development of such CG pair potentials. It is demonstrated that the MS-CG methodology incorporates critical three-body correlation effects and that, for isotropic homogeneous systems evolving under a central pair potential, the MS-CG equations are a discretized representation of the well-known Yvon-Born-Green equation. Numerical calculations validate the theory and illustrate the role of these structural correlations in the MS-CG method.</p>},
	keywords = {*Models, Theoretical},
	doi = {10.1021/jp068549t},
	author = {Noid, W. G. and Chu, J. W. and Ayton, G. S. and G. A. Voth}
}
@article {373,
	title = {Multiscale Modeling of Biomolecular Systems: in Serial and in Parallel},
	journal = {Curr Opin Struct Biol},
	volume = {17},
	number = {2},
	year = {2007},
	note = {Ayton, Gary S Noid, Will G Voth, Gregory A 5 F32 GM076839-02/GM/NIGMS NIH HHS/United States GM063796/GM/NIGMS NIH HHS/United States Research Support, N.I.H., Extramural Research Support, U.S. Gov{\textquoteright}t, Non-P.H.S. Review England Current opinion in structural biology Curr Opin Struct Biol. 2007 Apr;17(2):192-8. Epub 2007 Mar 23.},
	pages = {192-8},
	abstract = {<p>Considerable progress has been recently achieved in the multiscale modeling of complex biological processes. Multiscale models have now investigated the structure and dynamics of lipid membranes, proteins, peptides and DNA over length and time scales ranging from the atomic to the macroscopic. Serial multiscale methods that parameterize low-resolution coarse-grained models with data from high-resolution models have studied long time or length scale phenomena that cannot be investigated with atomically detailed models. Parallel multiscale methods that directly couple high- and low-resolution models have efficiently explored slow structural transitions and the importance of long-wavelength fluctuations for biological molecules. The success of such models relies upon new theories and methods for constructing accurate multiscale bridges that transfer information between models with different resolutions.</p>},
	keywords = {Computer Simulation DNA/chemistry Membrane Lipids/chemistry *Models, Molecular Peptides/chemistry Proteins/chemistry *Systems Biology},
	doi = {10.1016/j.sbi.2007.03.004},
	author = {Ayton, G. S. and Noid, W. G. and G. A. Voth}
}
@article {372,
	title = {Systematic Coarse-graining of Biomolecular and Soft Matter Systems},
	journal = {MRS Bulletin},
	volume = {32},
	year = {2007},
	pages = {929-934},
	doi = {10.1557/mrs2007.190},
	author = {Ayton, G. S. and Noid, W. G. and G. A. Voth}
}
