@article {2020|2117,
	title = {Aggregation of disease-related peptides.},
	journal = {Prog Mol Biol Transl Sci},
	volume = {170},
	year = {2020},
	month = {2020},
	pages = {435-460},
	abstract = {<p>Protein misfolding and aggregation of amyloid proteins is the fundamental cause of more than 20 diseases. Molecular mechanisms of the self-assembly and the formation of the toxic aggregates are still elusive. Computer simulations have been intensively used to study the aggregation of amyloid peptides of various amino acid lengths related to neurodegenerative diseases. We review atomistic and coarse-grained simulations of short amyloid peptides aimed at determining their transient oligomeric structures and the early and late aggregation steps.</p>
},
	issn = {1878-0814},
	doi = {10.1016/bs.pmbts.2019.12.002},
	author = {Phuong Hoang Nguyen and Sterpone, Fabio and Philippe Derreumaux}
}
@article {2019|2109,
	title = {Amyloid-β (29{\textendash}42) Dimeric Conformations in Membranes Rich in Omega-3 and Omega-6 Polyunsaturated Fatty Acids},
	journal = {The Journal of Physical Chemistry B},
	volume = {123},
	year = {2019},
	pages = {2687{\textendash}2696},
	author = {Lu, Yan and Shi, Xiao-Feng and Phuong Hoang Nguyen and Sterpone, Fabio and Salsbury Jr, Freddie R and Philippe Derreumaux}
}
@article {2018|2113,
	title = {Amyloid-β/drug interactions from computer simulations and cell-based assays},
	journal = {Journal of Alzheimer{\textquoteright}s Disease},
	volume = {64},
	year = {2018},
	pages = {S659{\textendash}S672},
	author = {Phuong Hoang Nguyen and Del Castillo-Frias, Maria P and Berthoumieux, Olivia and Faller, Peter and Doig, Andrew J and Philippe Derreumaux}
}
@conference {2016|1606,
	title = {Alzheimer{\textquoteright}s Disease: Insights into Amyloid Fibril Formation from Lattice Monte Carlo Simulations},
	booktitle = {Biophys. J.},
	volume = {110},
	number = {3, 1},
	year = {2016},
	note = {60th Annual Meeting of the Biophysical-Society, Los Angeles, CA, FEB 27-MAR 02, 2016},
	month = {feb},
	pages = {219A},
	publisher = {Biophys Soc},
	organization = {Biophys Soc},
	issn = {0006-3495},
	author = {Thanh-Thuy Tran and Phuong Hoang Nguyen and Philippe Derreumaux}
}
@article {2015|1716,
	title = {Ab initio RNA folding},
	journal = {Journal of Physics-condensed Matter},
	volume = {27},
	number = {23},
	year = {2015},
	month = {jun},
	pages = {233102},
	doi = {10.1088/0953-8984/27/23/233102},
	author = {Cragnolini, Tristan and Philippe Derreumaux and Pasquali, Samuela}
}
@article {2015|1634,
	title = {Amyloid beta Protein and Alzheimer{\textquoteright}s Disease: When Computer Simulations Complement Experimental Studies},
	journal = {Chem. Rev.},
	volume = {115},
	number = {9},
	year = {2015},
	month = {may},
	pages = {3518{\textendash}3563},
	doi = {10.1021/cr500638n},
	author = {Nasica-Labouze, Jessica and Phuong Hoang Nguyen and Fabio Sterpone and Berthoumieu, Olivia and Buchete, Nicolae-Viorel and Cote, Sebastien and De Simone, Alfonso and Doig, Andrew J. and Faller, Peter and Garcia, Angel and Laio, Alessandro and Li, Mai Suan and Melchionna, Simone and Mousseau, Normand and Mu, Yuguang and Paravastu, Anant and Pasquali, Samuela and Rosenman, David J. and Strodel, Birgit and Tarus, Bogdan and Viles, John H. and Zhang, Tong and Wang, Chunyu and Philippe Derreumaux}
}
@article {2015|1910,
	title = {Are coarse-grained models apt to detect protein thermal stability? The case of \{OPEP\} force field},
	journal = {J. Non-cryst. Solids},
	volume = {407},
	year = {2015},
	note = {7th IDMRCS: Relaxation in Complex Systems},
	pages = {494{\textendash}501},
	keywords = {Conformational substates network},
	doi = {10.1016/j.jnoncrysol.2014.07.005},
	url = {http://www.sciencedirect.com/science/article/pii/S0022309314002889},
	author = {Maria Kalimeri and Philippe Derreumaux and Fabio Sterpone}
}
@article {2014|1888,
	title = {Amyloid oligomer structure characterization from simulations: A general method},
	journal = {J. Chem. Phys.},
	volume = {140},
	number = {9},
	year = {2014},
	month = {mar},
	pages = {094105},
	doi = {10.1063/1.4866902},
	author = {Phuong Hoang Nguyen and Li, Mai Suan and Philippe Derreumaux}
}
@article {2014|1380,
	title = {Atomic and Dynamic Insights into the Beneficial Effect of the 1,4-Naphthoquinon-2-yl-L-tryptophan Inhibitor on Alzheimer{\textquoteright}s A beta 1-42 Dimer in Terms of Aggregation and Toxicity},
	journal = {Acs Chem. Neurosci.},
	volume = {5},
	number = {2},
	year = {2014},
	month = {feb},
	pages = {148{\textendash}159},
	author = {Zhang, Tong and Xu, Weixin and Mu, Yuguang and Philippe Derreumaux}
}
@article {2011|1891,
	title = {Assessing the Quality of the OPEP Coarse-Grained Force Field},
	journal = {J. Chem. Theory Comput.},
	volume = {7},
	number = {6},
	year = {2011},
	month = {jun},
	pages = {1928{\textendash}1934},
	doi = {10.1021/ct100646f},
	author = {Barducci, Alessandro and Bonomi, Massimiliano and Philippe Derreumaux}
}
@article {2006|1981,
	title = {Aggregating the amyloid A beta(11-25) peptide into a four-stranded beta-sheet structure},
	journal = {Proteins: Struct., Funct., Bioinf.},
	volume = {65},
	number = {4},
	year = {2006},
	month = {dec},
	pages = {877{\textendash}888},
	doi = {10.1002/prot.21134},
	author = {Boucher, Genevive and Mousseau, Normand and Philippe Derreumaux}
}
@article {2006|1983,
	title = {ARTIST: An activated method in internal coordinate space for sampling protein energy landscapes},
	journal = {Proteins: Struct., Funct., Bioinf.},
	volume = {63},
	number = {4},
	year = {2006},
	month = {jun},
	pages = {967{\textendash}975},
	doi = {10.1002/prot.20938},
	author = {Yun, MR and Lavery, R and Mousseau, N and Zakrzewska, K and Philippe Derreumaux}
}
@article {2004|1867,
	title = {The antitumor properties of the alpha 3(IV)-(185-203) peptide from the NC1 domain of type IV collagen (tumstatin) are conformation-dependent},
	journal = {J. Biol. Chem.},
	volume = {279},
	number = {3},
	year = {2004},
	month = {jan},
	pages = {2091{\textendash}2100},
	doi = {10.1074/jbc.M307736200},
	author = {Floquet, N and Pasco, S and Ramont, L and Philippe Derreumaux and Laronze, JY and Nuzillard, JM and Maquart, FX and Alix, AJP and Monboisse, JC}
}
@article {2000|1997,
	title = {Ab initio polypeptide structure prediction},
	journal = {Theor. Chem. Acc.},
	volume = {104},
	number = {1},
	year = {2000},
	month = {may},
	pages = {1{\textendash}6},
	doi = {10.1007/s002149900095},
	author = {Philippe Derreumaux}
}
@article {1999|1803,
	title = {Ab initio prediction of polypeptide structure from its sequence},
	journal = {Comput. Phys. Commun.},
	volume = {122},
	number = {Sp. Iss. SI},
	year = {1999},
	month = {sep},
	pages = {139{\textendash}140},
	doi = {10.1016/S0010-4655(99)00299-4},
	author = {Philippe Derreumaux}
}
