-
3
-
-
36849039429
-
-
10.1038/nature06407
-
K. A. Henzler-Wildman, M. Lei, V. Thai, S. J. Kerns, M. Karplus, and D. Kern, Nature (London) 450, 913 (2007). 10.1038/nature06407
-
(2007)
Nature (London)
, vol.450
, pp. 913
-
-
Henzler-Wildman, K.A.1
Lei, M.2
Thai, V.3
Kerns, S.J.4
Karplus, M.5
Kern, D.6
-
4
-
-
77953080085
-
-
10.1085/jg200910373
-
R. O. Dror, M. O. Jensen, D. W. Borhani, and D. E. Shaw, J. Gen. Physiol. 135, 555 (2010). 10.1085/jgp.200910373
-
(2010)
J. Gen. Physiol.
, vol.135
, pp. 555
-
-
Dror, R.O.1
Jensen, M.O.2
Borhani, D.W.3
Shaw, D.E.4
-
5
-
-
33745611125
-
-
10.1073/pnas.0603553103
-
P. Das, M. Moll, H. Stamati, L. E. Kavraki, and C. Clementi, Proc. Natl. Acad. Sci. U.S.A. 103, 9885 (2006). 10.1073/pnas.0603553103
-
(2006)
Proc. Natl. Acad. Sci. U.S.A.
, vol.103
, pp. 9885
-
-
Das, P.1
Moll, M.2
Stamati, H.3
Kavraki, L.E.4
Clementi, C.5
-
6
-
-
49749151039
-
-
10.1063/1.2968610
-
W. M. Brown, S. Martin, S. N. Pollock, E. a. Coutsias, and J.-P. Watson, J. Chem. Phys. 129, 064118 (2008). 10.1063/1.2968610
-
(2008)
J. Chem. Phys.
, vol.129
, pp. 064118
-
-
Brown, W.M.1
Martin, S.2
Pollock, S.N.3
Coutsias, E.A.4
Watson, J.-P.5
-
7
-
-
77956391259
-
-
10.1073/pnas.1003293107
-
A. L. Ferguson, A. Z. Panagiotopoulos, P. G. Debenedetti, and I. G. Kevrekidis, Proc. Natl. Acad. Sci. U.S.A. 107, 13597 (2010). 10.1073/pnas.1003293107
-
(2010)
Proc. Natl. Acad. Sci. U.S.A.
, vol.107
, pp. 13597
-
-
Ferguson, A.L.1
Panagiotopoulos, A.Z.2
Debenedetti, P.G.3
Kevrekidis, I.G.4
-
8
-
-
49749112240
-
-
Information Science and Statistics, edited by M. I. Jordan, R. Nowak, and B. Schölkopf (Springer, New York, NY).
-
J. A. Lee and M. Verleysen, Nonlinear Dimensionality Reduction, Information Science and Statistics, edited by, M. I. Jordan, R. Nowak, and, B. Schölkopf, (Springer, New York, NY, 2007).
-
(2007)
Nonlinear Dimensionality Reduction
-
-
Lee, J.A.1
Verleysen, M.2
-
10
-
-
4243754128
-
-
10.1103/PhysRevLett.78.2690
-
C. Jarzynski, Phys. Rev. Lett. 78, 2690 (1997). 10.1103/PhysRevLett.78. 2690
-
(1997)
Phys. Rev. Lett.
, vol.78
, pp. 2690
-
-
Jarzynski, C.1
-
12
-
-
34548680131
-
-
Springer Series in Chemical Physics Vol., edited by C. Chipot and A. Pohorille (Springer, Berlin).
-
C. Chipot and A. Pohorille, Free Energy Calculations, Springer Series in Chemical Physics Vol. 86, edited by, C. Chipot, and, A. Pohorille, (Springer, Berlin, 2007).
-
(2007)
Free Energy Calculations
, vol.86
-
-
Chipot, C.1
Pohorille, A.2
-
14
-
-
0000220710
-
Nudged elastic band method for finding minimum energy paths of transition
-
in, edited by B. J. Berne, G. Ciccotti, and D. F. Coker (World Scientific), Cha
-
H. Jónsson, G. Mills, and K. W. Jacobsen, " Nudged elastic band method for finding minimum energy paths of transition.," in Classical and Quantum Dynamics in Condensed Phase Simulations, edited by, B. J. Berne, G. Ciccotti, and, D. F. Coker, (World Scientific, 1998), Chap., pp. 385-404.
-
(1998)
Classical and Quantum Dynamics in Condensed Phase Simulations
, pp. 385-404
-
-
Jónsson, H.1
Mills, G.2
Jacobsen, K.W.3
-
15
-
-
0036696910
-
-
10.1103/PhysRevB.66.052301
-
W. E, W. Ren, and E. Vanden-Eijnden, Phys. Rev. B 66, 052301 (2002). 10.1103/PhysRevB.66.052301
-
(2002)
Phys. Rev. B
, vol.66
, pp. 052301
-
-
Ren, W.1
Vanden-Eijnden, E.2
-
17
-
-
33746187786
-
-
10.1063/1.2013256
-
W. Ren, E. Vanden-Eijnden, P. Maragakis, and W. E, J. Chem. Phys. 123, 134109 (2005). 10.1063/1.2013256
-
(2005)
J. Chem. Phys.
, vol.123
, pp. 134109
-
-
Ren, W.1
Vanden-Eijnden, E.2
Maragakis, P.3
-
23
-
-
0030934380
-
-
10.1038/386299a0
-
H. Noji, R. Yasuda, M. Yoshida, and K. Kinosita, Nature (London) 386, 299 (1997). 10.1038/386299a0
-
(1997)
Nature (London)
, vol.386
, pp. 299
-
-
Noji, H.1
Yasuda, R.2
Yoshida, M.3
Kinosita, K.4
-
24
-
-
0034704222
-
-
10.1126/science.290.5500.2323
-
S. T. Roweis and L. K. Saul, Science (N.Y.) 290, 2323 (2000). 10.1126/science.290.5500.2323
-
(2000)
Science (N.Y.)
, vol.290
, pp. 2323
-
-
Roweis, S.T.1
Saul, L.K.2
-
26
-
-
55149095503
-
-
10.1137/070696325
-
R. R. Coifman, I. G. Kevrekidis, S. Lafon, M. Maggioni, and B. Nadler, Multiscale Model. Simul. 7, 842 (2008). 10.1137/070696325
-
(2008)
Multiscale Model. Simul.
, vol.7
, pp. 842
-
-
Coifman, R.R.1
Kevrekidis, I.G.2
Lafon, S.3
Maggioni, M.4
Nadler, B.5
-
27
-
-
79953320021
-
-
10.1063/1.3569857
-
M. a. Rohrdanz, W. Zheng, M. Maggioni, and C. Clementi, J. Chem. Phys. 134, 124116 (2011). 10.1063/1.3569857
-
(2011)
J. Chem. Phys.
, vol.134
, pp. 124116
-
-
Rohrdanz, M.A.1
Zheng, W.2
Maggioni, M.3
Clementi, C.4
-
29
-
-
84887006810
-
-
10018 10.1109/T-C.1969.222678
-
J. Sammon, IEEE Trans. Comput. C-18, 401 (1969). 10.1109/T-C.1969.222678
-
(1969)
IEEE Trans. Comput.
, pp. 401
-
-
Sammon, J.1
-
32
-
-
79954557298
-
-
10.1063/1.3574394
-
A. L. Ferguson, A. Z. Panagiotopoulos, P. G. Debenedetti, and I. G. Kevrekidis, J. Chem. Phys. 134, 135103 (2011). 10.1063/1.3574394
-
(2011)
J. Chem. Phys.
, vol.134
, pp. 135103
-
-
Ferguson, A.L.1
Panagiotopoulos, A.Z.2
Debenedetti, P.G.3
Kevrekidis, I.G.4
-
37
-
-
84868091322
-
-
10.1073/pnas.1213977109
-
M. Arroyo, L. Heltai, D. Millán, and A. DeSimone, Proc. Natl. Acad. Sci. U.S.A. 109, 17874 (2012). 10.1073/pnas.1213977109
-
(2012)
Proc. Natl. Acad. Sci. U.S.A.
, vol.109
, pp. 17874
-
-
Arroyo, M.1
Heltai, L.2
Millán, D.3
Desimone, A.4
-
40
-
-
79960044304
-
-
10.1021/ja200461n
-
R. B. Fenwick, S. Esteban-Martín, B. Richter, D. Lee, K. F. a. Walter, D. Milovanovic, S. Becker, N. Lakomek, C. Griesinger, and X. Salvatella, J. Am. Chem. Soc. 133, 10336 (2011). 10.1021/ja200461n
-
(2011)
J. Am. Chem. Soc.
, vol.133
, pp. 10336
-
-
Fenwick, R.B.1
Esteban-Martín, S.2
Richter, B.3
Lee, D.4
Walter, K.F.A.5
Milovanovic, D.6
Becker, S.7
Lakomek, N.8
Griesinger, C.9
Salvatella, X.10
-
41
-
-
27344436659
-
-
10.1002/jcc.20289
-
J. C. Phillips, R. Braun, W. Wang, J. Gumbart, E. Tajkhorshid, E. Villa, C. Chipot, R. D. Skeel, L. Kalé, and K. Schulten, J. Comput. Chem. 26, 1781 (2005). 10.1002/jcc.20289
-
(2005)
J. Comput. Chem.
, vol.26
, pp. 1781
-
-
Phillips, J.C.1
Braun, R.2
Wang, W.3
Gumbart, J.4
Tajkhorshid, E.5
Villa, E.6
Chipot, C.7
Skeel, R.D.8
Kalé, L.9
Schulten, K.10
-
42
-
-
27344454932
-
-
10.1002/jcc.20291
-
D. Van Der Spoel, E. Lindahl, B. Hess, G. Groenhof, A. E. Mark, and H. J. C. Berendsen, J. Comput. Chem. 26, 1701 (2005). 10.1002/jcc.20291
-
(2005)
J. Comput. Chem.
, vol.26
, pp. 1701
-
-
Van Der Spoel, D.1
Lindahl, E.2
Hess, B.3
Groenhof, G.4
Mark, A.E.5
Berendsen, H.J.C.6
-
43
-
-
69349100797
-
-
10.1016/j.cpc.2009.05.011
-
M. Bonomi, D. Branduardi, G. Bussi, C. Camilloni, D. Provasi, P. Raiteri, D. Donadio, F. Marinelli, F. Pietrucci, and R. a. Broglia, Comput. Phys. Commun. 180, 1961 (2009). 10.1016/j.cpc.2009.05.011
-
(2009)
Comput. Phys. Commun.
, vol.180
, pp. 1961
-
-
Bonomi, M.1
Branduardi, D.2
Bussi, G.3
Camilloni, C.4
Provasi, D.5
Raiteri, P.6
Donadio, D.7
Marinelli, F.8
Pietrucci, F.9
Broglia, R.A.10
-
45
-
-
54249091171
-
-
10.1021/ja803652f
-
M. Bonomi, D. Branduardi, F. L. Gervasio, and M. Parrinello, J. Am. Chem. Soc. 130, 13938 (2008). 10.1021/ja803652f
-
(2008)
J. Am. Chem. Soc.
, vol.130
, pp. 13938
-
-
Bonomi, M.1
Branduardi, D.2
Gervasio, F.L.3
Parrinello, M.4
-
46
-
-
0000577041
-
-
10.1103/PhysRevLett.68.2696
-
A. García, Phys. Rev. Lett. 68, 2696 (1992). 10.1103/PhysRevLett. 68.2696
-
(1992)
Phys. Rev. Lett.
, vol.68
, pp. 2696
-
-
García, A.1
-
47
-
-
33846382040
-
-
10.1103/PhysRevLett.98.028102
-
R. Hegger, A. Altis, P. Nguyen, and G. Stock, Phys. Rev. Lett. 98, 028102 (2007). 10.1103/PhysRevLett.98.028102
-
(2007)
Phys. Rev. Lett.
, vol.98
, pp. 028102
-
-
Hegger, R.1
Altis, A.2
Nguyen, P.3
Stock, G.4
-
53
-
-
0003982971
-
-
2nd ed. (Springer Science+Business Media, LLC, New York, NY)
-
J. Nocedal and S. Wright, Numerical Optimization, 2nd ed. (Springer Science+Business Media, LLC, New York, NY, 2006), p. 664.
-
(2006)
Numerical Optimization
, pp. 664
-
-
Nocedal, J.1
Wright, S.2
-
56
-
-
0041784950
-
-
10.1021/jp973084f
-
A. D. MacKerell, D. Bashford, R. L. Dunbrack, J. D. Evanseck, M. J. Field, S. Fischer, J. Gao, H. Guo, S. Ha, D. Joseph-McCarthy, L. Kuchnir, K. Kuczera, F. T. K. Lau, C. Mattos, S. Michnick, T. Ngo, D. T. Nguyen, B. Prodhom, W. E. Reiher, B. Roux, M. Schlenkrich, J. C. Smith, R. Stote, J. Straub, M. Watanabe, J. Wiórkiewicz-Kuczera, D. Yin, and M. Karplus, J. Phys. Chem. B 102, 3586 (1998). 10.1021/jp973084f
-
(1998)
J. Phys. Chem. B
, vol.102
, pp. 3586
-
-
Mackerell, A.D.1
Bashford, D.2
Dunbrack, R.L.3
Evanseck, J.D.4
Field, M.J.5
Fischer, S.6
Gao, J.7
Guo, H.8
Ha, S.9
Joseph-Mccarthy, D.10
Kuchnir, L.11
Kuczera, K.12
Lau, F.T.K.13
Mattos, C.14
Michnick, S.15
Ngo, T.16
Nguyen, D.T.17
Prodhom, B.18
Reiher, W.E.19
Roux, B.20
Schlenkrich, M.21
Smith, J.C.22
Stote, R.23
Straub, J.24
Watanabe, M.25
Wiórkiewicz- Kuczera, J.26
Yin, D.27
Karplus, M.28
more..
-
57
-
-
33645961739
-
-
10.1063/1.470117
-
U. Essmann, L. Perera, M. L. Berkowitz, T. Darden, H. Lee, and L. G. Pedersen, J. Chem. Phys. 103, 8577 (1995). 10.1063/1.470117
-
(1995)
J. Chem. Phys.
, vol.103
, pp. 8577
-
-
Essmann, U.1
Perera, L.2
Berkowitz, M.L.3
Darden, T.4
Lee, H.5
Pedersen, L.G.6
-
61
-
-
84964743023
-
-
10.1140/epjp/i2013-13010-8
-
D. Frenkel, Eur. Phys. J. Plus 128, 10 (2013). 10.1140/epjp/i2013-13010-8
-
(2013)
Eur. Phys. J. Plus
, vol.128
, pp. 10
-
-
Frenkel, D.1
-
63
-
-
84944202588
-
-
in, Lecture Notes in Computer Science Vol. (Springer Berlin/Heidelberg), 10.1007/3-540-45054-8-36
-
T. Papadopoulo and M. I. A. Lourakis, in Computer Vision-ECCV 2000, Lecture Notes in Computer Science Vol. 1842 (Springer Berlin/Heidelberg, 2000), p. 554. 10.1007/3-540-45054-8-36
-
(2000)
Computer Vision - ECCV 2000
, vol.1842
, pp. 554
-
-
Papadopoulo, T.1
Lourakis, M.I.A.2
|