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2
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3
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J Chem Theory Comput. 2009 Mar 10;5(3):615-26. doi: 10.1021/ct8003468. Epub 2009 Feb 20.
4
From Coarse Grained to Atomistic: A Serial Multiscale Approach to Membrane Protein Simulations.
J Chem Theory Comput. 2011 Apr 12;7(4):1157-66. doi: 10.1021/ct100569y. Epub 2011 Mar 16.
5
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J Chem Theory Comput. 2012 Nov 13;8(11):4807-17. doi: 10.1021/ct300675z. Epub 2012 Oct 18.
6
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J Chem Theory Comput. 2011 Nov 8;7(11):3793-802. doi: 10.1021/ct200593t. Epub 2011 Oct 3.
7
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J Chem Theory Comput. 2013 Jan 8;9(1):687-97. doi: 10.1021/ct300646g. Epub 2012 Nov 28.
8
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J Chem Theory Comput. 2014 Feb 11;10(2):676-90. doi: 10.1021/ct400617g. Epub 2014 Jan 21.
9
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Chem Rev. 2015 May 13;115(9):3518-63. doi: 10.1021/cr500638n. Epub 2015 Mar 19.
10
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