Visualizing Biological Membrane Organization and Dynamics

Biological membranes are fascinating. Santiago Ramón y Cajal, who received the Nobel prize in 1906 together with Camillo Golgi for their work on the nervous system, wrote “[…]in the study of this membrane[…] I felt more profoundly than in any other subject of study the shuddering sensation of the un...

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Published inJournal of molecular biology Vol. 431; no. 10; pp. 1889 - 1919
Main Author Baaden, Marc
Format Journal Article
LanguageEnglish
Published England Elsevier Ltd 03.05.2019
Elsevier
Subjects
Animals
Biochemistry, Molecular Biology
Biophysics
Cell Membrane - chemistry
Cell Membrane - ultrastructure
computer simulation
Humans
insects
Life Sciences
lipid bilayer
Lipid Bilayers - chemistry
Microscopy, Atomic Force - methods
Microscopy, Electron, Transmission - methods
Molecular Dynamics Simulation
molecular visualization
natural selection
retina
sensation
vertebrates
NMR
ESR
MD
EM
AFM
lipid bilayer
molecular visualization
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Abstract Biological membranes are fascinating. Santiago Ramón y Cajal, who received the Nobel prize in 1906 together with Camillo Golgi for their work on the nervous system, wrote “[…]in the study of this membrane[…] I felt more profoundly than in any other subject of study the shuddering sensation of the unfathomable mystery of life”††The full quotation is “I must not conceal the fact that in the study of this membrane I for the first time felt my faith in Darwinism (hypothesis of natural selection) weakened, being amazed and confounded by the supreme constructive ingenuity revealed not only in the retina and in the dioptric apparatus of the vertebrates but even in the meanest insect eye. There, in fine, I felt more profoundly than in any other subject of study the shuddering sensation of the unfathomable mystery of life.” from the autobiography Recollections of My Life.. The visualization and conceptualization of these biological objects have profoundly shaped many aspects of modern biology, drawing inspiration from experiments, computer simulations, and the imagination of scientists and artists. The aim of this review is to provide a fresh look on current ideas of biological membrane organization and dynamics by discussing selected examples across fields. [Display omitted] •Visualization of biological membranes has determined key aspects of modern biology.•Experimental, computational, and illustrative approaches shape our understanding.•Membrane dynamics spans multiple timescales and length scales.•Complexities in composition in scales and in diversity are a major challenge.•Describing membrane energetics and energy flow may be the next step.
AbstractList Biological membranes are fascinating. Santiago Ramón y Cajal, who received the Nobel prize in 1906 together with Camillo Golgi for their work on the nervous system, wrote "[…]in the study of this membrane[…] I felt more profoundly than in any other subject of study the shuddering sensation of the unfathomable mystery of life" . The visualization and conceptualization of these biological objects have profoundly shaped many aspects of modern biology, drawing inspiration from experiments, computer simulations, and the imagination of scientists and artists. The aim of this review is to provide a fresh look on current ideas of biological membrane organization and dynamics by discussing selected examples across fields.
Biological membranes are fascinating. Santiago Ramón y Cajal, who received the Nobel prize in 1906 together with Camillo Golgi for their work on the nervous system, wrote “[…]in the study of this membrane[…] I felt more profoundly than in any other subject of study the shuddering sensation of the unfathomable mystery of life”††The full quotation is “I must not conceal the fact that in the study of this membrane I for the first time felt my faith in Darwinism (hypothesis of natural selection) weakened, being amazed and confounded by the supreme constructive ingenuity revealed not only in the retina and in the dioptric apparatus of the vertebrates but even in the meanest insect eye. There, in fine, I felt more profoundly than in any other subject of study the shuddering sensation of the unfathomable mystery of life.” from the autobiography Recollections of My Life.. The visualization and conceptualization of these biological objects have profoundly shaped many aspects of modern biology, drawing inspiration from experiments, computer simulations, and the imagination of scientists and artists. The aim of this review is to provide a fresh look on current ideas of biological membrane organization and dynamics by discussing selected examples across fields.
Biological membranes are fascinating. Santiago Ramón y Cajal, who received the Nobel prize in 1906 together with Camillo Golgi for their work on the nervous system, wrote "[…]in the study of this membrane[…] I felt more profoundly than in any other subject of study the shuddering sensation of the unfathomable mystery of life"†. The visualization and conceptualization of these biological objects have profoundly shaped many aspects of modern biology, drawing inspiration from experiments, computer simulations, and the imagination of scientists and artists. The aim of this review is to provide a fresh look on current ideas of biological membrane organization and dynamics by discussing selected examples across fields.Biological membranes are fascinating. Santiago Ramón y Cajal, who received the Nobel prize in 1906 together with Camillo Golgi for their work on the nervous system, wrote "[…]in the study of this membrane[…] I felt more profoundly than in any other subject of study the shuddering sensation of the unfathomable mystery of life"†. The visualization and conceptualization of these biological objects have profoundly shaped many aspects of modern biology, drawing inspiration from experiments, computer simulations, and the imagination of scientists and artists. The aim of this review is to provide a fresh look on current ideas of biological membrane organization and dynamics by discussing selected examples across fields.
Biological membranes are fascinating. Santiago Ramón y Cajal, who received the Nobel prize in 1906 together with Camillo Golgi for their work on the nervous system, wrote “[…]in the study of this membrane[…] I felt more profoundly than in any other subject of study the shuddering sensation of the unfathomable mystery of life”††The full quotation is “I must not conceal the fact that in the study of this membrane I for the first time felt my faith in Darwinism (hypothesis of natural selection) weakened, being amazed and confounded by the supreme constructive ingenuity revealed not only in the retina and in the dioptric apparatus of the vertebrates but even in the meanest insect eye. There, in fine, I felt more profoundly than in any other subject of study the shuddering sensation of the unfathomable mystery of life.” from the autobiography Recollections of My Life.. The visualization and conceptualization of these biological objects have profoundly shaped many aspects of modern biology, drawing inspiration from experiments, computer simulations, and the imagination of scientists and artists. The aim of this review is to provide a fresh look on current ideas of biological membrane organization and dynamics by discussing selected examples across fields. [Display omitted] •Visualization of biological membranes has determined key aspects of modern biology.•Experimental, computational, and illustrative approaches shape our understanding.•Membrane dynamics spans multiple timescales and length scales.•Complexities in composition in scales and in diversity are a major challenge.•Describing membrane energetics and energy flow may be the next step.
Biological membranes are fascinating. Santiago Ramón y Cajal, who received the Nobel prize in 1906 together with Camillo Golgi for their work on the nervous system, wrote “[…]in the study of this membrane[…] I felt more profoundly than in any other subject of study the shuddering sensation of the unfathomable mystery of life”†. The visualization and conceptualization of these biological objects have profoundly shaped many aspects of modern biology, drawing inspiration from experiments, computer simulations, and the imagination of scientists and artists. The aim of this review is to provide a fresh look on current ideas of biological membrane organization and dynamics by discussing selected examples across fields.
Author Baaden, Marc
Author_xml – sequence: 1
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  email: baaden@smplinux.de
  organization: Laboratoire de Biochimie Théorique, CNRS, UPR9080, Univ Paris Diderot, Sorbonne Paris Cité, PSL Research University, 13 rue Pierre et Marie Curie, 75005 Paris, France
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Cites_doi 10.1083/jcb.45.3.649
10.1021/acs.jpcb.8b09391
10.1371/journal.pone.0176799
10.1021/ja0569104
10.1016/j.bpj.2017.10.017
10.1073/pnas.93.25.14532
10.1002/cbic.201100020
10.1038/nmeth.4300
10.1523/JNEUROSCI.2381-12.2013
10.1023/A:1020528716621
10.1080/08927022.2018.1447108
10.1371/journal.pcbi.1003034
10.1021/acsnano.6b05601
10.1016/j.bbamem.2013.03.004
10.1016/j.bpj.2009.08.025
10.1073/pnas.1315180110
10.1515/jib-2018-0043
10.1016/j.bpj.2014.04.024
10.1002/jcc.21172
10.1017/S0033583500003735
10.1038/271182a0
10.1016/S0969-2126(99)80118-X
10.1039/C3FD00145H
10.1016/j.bbamem.2015.02.025
10.1021/bi00469a001
10.1529/biophysj.106.085118
10.1038/180134a0
10.1021/jp036508g
10.1038/s41598-018-31422-5
10.1002/smll.201202640
10.1016/j.bpj.2013.06.052
10.1038/417515a
10.1101/cshperspect.a004697
10.1016/j.optcom.2018.02.058
10.1088/1361-6463/aacb98
10.1093/bioinformatics/btu037
10.1002/jcc.23702
10.1016/j.str.2011.10.002
10.1016/j.jsb.2007.11.003
10.1126/science.168.3939.1580
10.1016/j.jsb.2006.10.004
10.1038/nmat1333
10.1529/biophysj.106.100743
10.1016/j.sbi.2012.01.011
10.1038/386129a0
10.1073/pnas.0803720105
10.1007/s00249-002-0207-5
10.1021/cb800012x
10.1039/C4CS00048J
10.1529/biophysj.105.063784
10.1016/S0006-3495(92)81848-9
10.1073/pnas.95.20.11673
10.1016/j.sbi.2009.02.011
10.1126/science.1251652
10.1038/nature07596
10.1007/s10822-013-9684-0
10.1039/c3cs60093a
10.1083/jcb.105.4.1623
10.1021/jp102543j
10.1016/S0165-6147(00)01584-4
10.1038/nnano.2012.109
10.1002/(SICI)1097-0134(199601)24:1<92::AID-PROT7>3.0.CO;2-Q
10.1146/annurev.cellbio.14.1.111
10.1038/nmeth.3204
10.1117/1.JEI.23.1.011007
10.1016/S0006-3495(99)77066-9
10.1007/BF01872892
10.1126/science.1161302
10.7554/eLife.14618
10.1529/biophysj.103.034322
10.1016/S0304-4157(97)00008-7
10.1242/jcs.7.2.319
10.1016/0005-2736(76)90092-4
10.1038/scientificamerican0282-58
10.1016/j.jmb.2016.05.024
10.1021/la5004353
10.1073/pnas.051629298
10.1016/j.bbamem.2009.09.015
10.1073/pnas.82.18.6153
10.1021/ja507832e
10.1016/S0021-9258(19)42341-7
10.1016/S0959-440X(00)00228-1
10.1242/jcs.s3-105.71.319
10.1038/nrd1776
10.1016/S0968-0004(00)01746-1
10.1016/S0006-3495(93)81427-9
10.1038/287317a0
10.1021/ct500477k
10.1126/science.288.5463.143
10.1016/0263-7855(96)00018-5
10.1103/PhysRevLett.93.256001
10.1038/417523a
10.1016/j.bpj.2018.07.012
10.1007/s10763-009-9171-1
10.1529/biophysj.108.132563
10.1093/glycob/cwu133
10.1038/348624a0
10.1007/s002329900201
10.1002/jcc.21396
10.1016/j.sbi.2007.03.004
10.1187/cbe.11-08-0071
10.1515/jib-2018-0006
10.1021/bi00620a008
10.1021/ct900086b
10.1529/biophysj.104.046821
10.1093/bioinformatics/btw563
10.1093/bioinformatics/bts357
10.1038/349475a0
10.1007/s00249-005-0013-y
10.1016/j.bbamem.2016.02.036
10.1073/pnas.0601597103
10.1007/BF00762300
10.1088/0953-8984/18/28/S06
10.1002/jcc.21787
10.1021/jp810440c
10.1021/acs.jpclett.7b02818
10.1039/C4FD90024C
10.1073/pnas.1222097110
10.1109/TVCG.2017.2744258
10.1016/j.bbamem.2016.02.007
10.1371/journal.pbio.0050308
10.1073/pnas.55.5.1048
10.1371/journal.pone.0028637
10.1021/acs.jctc.6b01076
10.1038/257028a0
10.1021/ja036138+
10.1038/nrm3874
10.5210/jbc.v40i1.6627
10.1016/j.bpj.2016.11.010
10.1063/1.443321
10.1074/jbc.M706162200
10.1016/j.sbi.2008.02.003
10.1126/science.8211140
10.1016/j.bbamem.2004.05.012
10.1126/science.277.5333.1845
10.1021/ct400727q
10.1529/biophysj.105.067959
10.1021/bi00210a010
10.1016/j.sbi.2016.06.007
10.1016/j.sbi.2015.03.007
10.1021/acs.jpclett.7b02432
10.1016/j.bpj.2014.04.030
10.1021/ar0100529
10.1371/journal.pone.0015611
10.1371/journal.pone.0144814
10.1529/biophysj.108.138677
10.1016/j.bpj.2012.11.3837
10.1529/biophysj.104.055061
10.1371/journal.pone.0002604
10.5936/csbj.201302014
10.1016/j.bpj.2017.08.011
10.1038/318618a0
10.1073/pnas.0905217106
10.1021/jp048098h
10.1021/jp044629q
10.1073/pnas.1222033110
10.1016/0022-2836(70)90407-9
10.1371/journal.pone.0057990
10.1186/1471-2091-5-10
10.1016/S0022-2836(64)80115-7
10.1038/nature04395
10.1016/S0006-3495(97)78139-6
10.1016/bs.ctm.2015.10.002
10.1039/C3FD00131H
10.1073/pnas.93.14.7008
10.1002/cphc.200900216
10.1529/biophysj.104.050617
10.1515/jib-2018-0004
10.1016/j.bpj.2012.03.048
10.1038/35036519
10.1063/1.1865992
10.1016/j.bpj.2009.04.013
10.1021/ct3001816
10.1128/JB.01919-07
10.1016/j.bbagen.2005.04.005
10.1016/j.bbamem.2004.05.010
10.1002/wcms.1169
10.1016/S0006-3495(85)83882-0
10.1021/ci600553y
10.1074/jbc.C400312200
10.1038/nrm.2017.16
10.1126/science.1076184
10.1146/annurev.physchem.59.032607.093550
10.1073/pnas.91.24.11631
10.1021/ct4010307
10.1002/bmb.20636
10.1515/jib-2018-0003
10.1021/jz502513w
10.1038/nmeth.1176
10.1002/bmb.20345
10.1073/pnas.1619578114
10.1016/j.sbi.2017.04.004
10.1126/science.175.4023.720
10.1007/s10858-011-9523-3
10.1002/bmb.21076
10.1146/annurev.biophys.28.1.319
10.7554/eLife.04247
10.1021/j100133a034
10.1529/biophysj.104.058727
10.1073/pnas.0708066104
10.1021/jp9107206
10.1093/emboj/19.5.892
10.1073/pnas.93.7.2926
10.1016/j.bpj.2012.11.3836
10.3109/09687688.2012.700490
10.1146/annurev.biophys.26.1.373
10.1016/0005-2736(70)90060-X
10.1021/acs.jctc.5b00209
10.1021/bi00609a021
10.1016/S0006-3495(00)76304-1
10.1038/nrm1017
10.1016/j.str.2015.05.006
10.1016/j.sbi.2015.03.015
10.1371/journal.pcbi.1002892
10.1021/ct3003157
10.1021/jp0103474
10.1021/jp809604k
10.1194/jlr.M009449
10.1126/science.1214984
10.1016/B978-0-12-024915-2.50007-4
10.1007/BF01033631
10.1021/jp511083z
10.1016/j.sbi.2018.07.003
10.1021/la049302v
10.1021/ja303286e
10.1016/j.cell.2006.10.030
10.7554/eLife.01671
10.1016/j.str.2015.12.011
10.1016/S0962-8924(00)01787-6
10.1083/jcb.62.1.1
10.1073/pnas.1206325109
10.1021/ar010167c
10.1073/pnas.1508483112
10.1021/jp412203t
10.1021/bi035480w
10.1021/la000476w
10.1016/j.str.2014.12.019
10.1016/0092-8674(92)90143-Z
10.1016/j.bbamem.2008.10.006
10.3389/fcell.2016.00098
10.1038/s41467-018-05255-9
10.1021/acs.nanolett.7b02973
10.1093/femsre/fux037
10.1016/j.str.2010.12.023
10.1016/j.str.2005.01.012
10.1002/bmb.20494
10.1016/j.bpj.2015.06.050
10.1371/journal.pone.0000880
10.1371/journal.pcbi.1005955
10.1021/jp101759q
10.1126/sciadv.aao5603
10.1038/247438a0
10.1021/jacs.5b08048
10.1038/nrm1102
10.1126/science.aaq1392
10.1186/1471-2105-13-S4-S16
10.1126/science.2916118
10.1039/C4FD00017J
10.1021/jp010238p
10.1038/nrm2934
10.1021/acs.jpcb.7b00672
10.1083/jcb.119.5.1183
10.1111/j.1749-6632.1980.tb21315.x
10.1006/jsbi.1999.4180
10.1038/nature04396
10.1016/1047-8477(90)90089-U
10.1038/35036052
10.1016/S1359-0294(96)80047-1
10.1021/ci1003619
10.1016/S0006-3495(92)81849-0
10.1126/science.1174621
10.1038/nature04394
10.1021/acs.jpcb.6b05102
10.1038/nsb990
10.1038/s41557-018-0127-3
10.1126/science.309.5743.1990
10.1016/S0005-2736(99)00205-9
10.1146/annurev.biophys.34.040204.144637
10.1021/ci400172g
10.1074/jbc.M204669200
10.1038/ncomms5916
10.1038/nrm2977
10.1039/C6SM01186A
10.1016/j.cell.2008.06.013
10.1016/j.cell.2008.11.020
10.1016/S0006-3495(03)74903-0
10.1016/j.tcb.2010.08.005
10.1006/jmbi.1995.0292
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Thu Apr 24 23:06:23 EDT 2025
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Keywords NMR
ESR
MD
EM
AFM
lipid bilayer
molecular visualization
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References Colom, Derivery, Soleimanpour, Tomba, Molin, Sakai (bb0650) 2018; 10
Goodsell (bb1465) 2011; 39
Hiller, Garces, Malia, Orekhov, Colombini, Wagner (bb0140) 2008; 321
van der Wel, Vahid, Saric, Idema, Heinrich, Kraft (bb0515) 2016; 6
Tieleman, Marrink, Berendsen (bb0735) 1997; 1331
Goodsell (bb1460) 2016; 40
Goodsell, Johnson (bb1445) 2007; 5
Jo, Kim, Im (bb0765) 2007; 2
Colom, Redondo-Morata, Chiaruttini, Roux, Scheuring (bb0490) 2017; 114
Parton (bb0570) 2003; 4
Phez, Faurie, Golzio, Teissie, Rols (bb0590) 2005; 1724
Sommer, Bender, Hoppe, Gamroth, Jelonek (bb0865) 2014; 23
Tarek (bb1015) 2005; 88
McGill (bb1405) 2008; 133
Iwasa (bb1400) 2015; 31
Eggeling, Ringemann, Medda, Schwarzmann, Sandhoff, Polyakova (bb0450) 2009; 457
Hsieh, Spindler, Ehrig, Sandoghdar (bb0465) 2014; 118
Essen, Siegert, Lehmann, Oesterhelt (bb0390) 1998; 95
Marrink, De Vries, Mark (bb1065) 2004; 108
White, Wimley (bb0125) 1999; 28
Wiener, White (bb0215) 1992; 61
Stansfeld (bb0835) 2017; 45
Triba, Devaux, Warschawski (bb0700) 2006; 91
West, Brown, Schmid (bb1265) 2009; 96
Schonherr, Johnson, Lenz, Frank, Boxer (bb0410) 2004; 20
Zimmer (bb1490) 2014; 10
Parkin, Chavent, Khalid (bb0815) 2015; 109
Bond, Holyoake, Ivetac, Khalid, Sansom (bb1075) 2007; 157
Card, Mackinlay, Shneiderman (bb0005) 1999
Wenk (bb0200) 2005; 4
Grime, Voth (bb1200) 2013; 10
Engelman (bb0165) 2005; 438
Rundgren, Tibell (bb1495) 2010; 8
Milanesi, Sheynis, Xue, Orlova, Hellewell, Jelinek (bb0415) 2012; 109
Zoppe (bb1395) 2017; 14
Aksimentiev, Schulten (bb0875) 2005; 88
Brown, London (bb0190) 1998; 14
Sezgin, Levental, Mayor, Eggeling (bb0565) 2017; 18
Sun, Tristram-Nagle, Suter, Nagle (bb0220) 1996; 93
Im, Liang, Olson, Zhou, Vajda, Vakser (bb0775) 2016; 428
König, Sackmann (bb0715) 1996; 1
Doutreligne, Cragnolini, Pasquali, Derreumaux, Baaden (bb1530) 2014
Hsu, Samsudin, Shearer, Khalid (bb1100) 2017; 8
Risselada, Kutzner, Grubmuller (bb1110) 2011; 12
Fowler, Hélie, Duncan, Chavent, Koldsø, Sansom (bb1180) 2016; 12
Medalia, Weber, Frangakis, Nicastro, Gerisch, Baumeister (bb0130) 2002; 298
Wen, Mahinthichaichan, Trebesch, Jiang, Zhao, Shinn (bb0810) 2018; 51
Seelig, Waespesarcevic (bb0695) 1978; 17
Rothberg, Heuser, Donzell, Ying, Glenney, Anderson (bb0295) 1992; 68
Schutz, Kada, Pastushenko, Schindler (bb0445) 2000; 19
Lv, Tek, Da Silva, Empereur-mot, Chavent, Baaden (bb1315) 2013; 8
Branton (bb0290) 1966; 55
Lingwood, Simons (bb0265) 2010; 327
Fernandez, Adeishvili, Wuthrich (bb0145) 2001; 98
Cicchetti, Biernacki, Farquharson, Allen (bb0655) 2004; 43
Reddy, Shorthouse, Parton, Jefferys, Fowler, Chavent (bb1140) 2015; 23
Schmidt, Schutz, Baumgartner, Gruber, Schindler (bb0625) 1996; 93
Bond, Sansom (bb1070) 2006; 128
Brown (bb1260) 2003; 84
Deisenhofer, Epp, Miki, Huber, Michel (bb0085) 1985; 318
Bloom, Evans, Mouritsen (bb0680) 1991; 24
van der Wel, Vahid, Saric, Idema, Heinrich, Kraft (bb0520) 2016; 6
Tanimura, Nezu, Morita, Turner, Tojyo (bb0660) 2004; 279
Shi, Voth (bb1245) 2005; 89
Wu, Lin, Yen, Hsieh (bb0470) 2016; 6
Simons, Gerl (bb0560) 2010; 11
Khalili-Araghi, Gumbart, Wen, Sotomayor, Tajkhorshid, Schulten (bb0925) 2009; 19
Brandt, Cavellini, Kuhlbrandt, Cohen (bb0420) 2016; 5
Biere, Ghaffar, Doebbe, Jäger, Rothe, Friedrich (bb0795) 2018; 15
Lindahl, Sansom (bb0920) 2008; 18
van Eerden, de Jong, de Vries, Wassenaar, Marrink (bb0955) 2015; 1848
Sterpone, Melchionna, Tuffery, Pasquali, Mousseau, Cragnolini (bb1170) 2014; 43
Saiz, Klein (bb1030) 2002; 35
Galla, Hartmann, Theilen, Sackmann (bb1390) 1979; 48
Johnson, Autin, Goodsell, Sanner, Olson (bb1415) 2011; 19
Singer, Nicolson (bb0035) 1972; 175
Ingólfsson, Arnarez, Periole, Marrink (bb0860) 2016; 129
Michaud-Agrawal, Denning, Woolf, Beckstein (bb1360) 2011; 32
Kox, Michels, Wiegel (bb0055) 1980; 287
Bassolino-Klimas, Alper, Stouch (bb0070) 1993; 32
Bassereau, Jin, Baumgart, Deserno, Dimova, Frolov (bb0315) 2018; 51
Reinert, Steim (bb0030) 1970; 168
Manley, Gillette, Patterson, Shroff, Hess, Betzig (bb0630) 2008; 5
Brannigan, Lin, Brown (bb1160) 2006; 35
Madsen, Sinitskiy, Li, Voth (bb1205) 2017; 13
Simons, Toomre (bb0195) 2000; 1
Egger, Ohnesorge, Weisenhorn, Heyn, Drake, Prater (bb0225) 1990; 103
Sharma, Kim, Stansfeld, Sansom, Lindau (bb0830) 2015; 10
Giocondi, Yamamoto, Lesniewska, Milhiet, Ando, Le Grimellec (bb0270) 2010; 1798
Seelig, Seelig (bb0690) 1977; 16
Cotterill (bb0050) 1976; 433
Deamer, Leonard, Tardieu, Branton (bb0320) 1970; 219
Belrhali, Nollert, Royant, Menzel, Rosenbusch, Landau (bb0360) 1999; 7
Marrink, de Vries, Tieleman (bb0915) 2009; 1788
Cooper, Oliver-Hoyo (bb1500) 2017; 45
Chavent, Duncan, Rassam, Birkholz, Hélie, Reddy (bb1175) 2018; 9
Schneider, Geissler (bb1035) 2013; 4
Arnarez, Uusitalo, Masman, Ingolfsson, de Jong, Melo (bb1150) 2015; 11
Klauda, Venable, Freites, O'Connor, Tobias, Mondragon-Ramirez (bb0885) 2010; 114
Mitchell (bb0040) 1957; 180
Goodsell (bb1450) 2005; 13
de Wit, Danial, Kukura, Wallace (bb0620) 2015; 112
Huang, Zhuo, Chou, Lin, Chang, Hsieh (bb0615) 2017; 11
Marrink, Mark (bb1115) 2003; 125
Engelman (bb0025) 1970; 47
Winkler, Regmi, Flauraud, Brugger, Rigneault, Wenger (bb0535) 2018; 9
Shi, Shen, Kiel, Wang, Wang, Melia (bb0430) 2012; 335
Schutz, Schindler, Schmidt (bb0475) 1997; 73
Koldsø, Sansom (bb1105) 2015; 137
Vamparys, Gautier, Vanni, Bennett, Tieleman, Antonny (bb0850) 2013; 104
Ulmschneider, Ulmschneider (bb0895) 2009; 5
Honigmann, Sadeghi, Keller, Hell, Eggeling, Vink (bb0345) 2014; 3
Bangham, Horne (bb0310) 1964; 8
Lindahl, Edholm (bb0985) 2000; 79
Mironov, Polishchuk, Luini (bb0440) 2000; 10
Catoire, Damian, Baaden, Guittet, Baneres (bb1310) 2011; 50
Sund, Swanson, Axelrod (bb0645) 1999; 77
Vanni, Vamparys, Gautier, Drin, Etchebest, Fuchs (bb1330) 2013; 104
Shevchenko, Simons (bb0205) 2010; 11
Heymann, Muller, Landau, Rosenbusch, Pebay-Peyroula, Buldt (bb0380) 1999; 128
Terstappen, Reggiani (bb0175) 2001; 22
Marrink, Tieleman (bb1040) 2013; 42
Fu, Comer, Cai, Chipot (bb1025) 2015; 6
Liu, Upadhyayula, Milkie, Singh, Wang, Swinburne (bb0575) 2018; 360
Yuen, Cartwright, Jacob, Acm (bb1435) 2016
Sezgin, Schwille (bb0500) 2012; 29
Izeddin, Specht, Lelek, Darzacq, Triller, Zimmer (bb0550) 2011; 6
Periole, Knepp, Sakmar, Marrink, Huber (bb1185) 2012; 134
Ackerman, Feigenson (bb1085) 2015; 119
Gramling (bb1485) 2005; 309
Lee (bb1380) 2004; 1666
Deutsch, Krause, Rosenthal (bb0300) 1964; 3
Saslowsky, Lawrence, Ren, Brown, Henderson, Edwardson (bb0235) 2002; 277
Yu, Schulten (bb1215) 2013; 9
Smit, Hilbers, Esselink, Rupert, Van Os, Schlijper (bb0980) 1990; 348
Wang, Deserno (bb1155) 2010; 114
Benz, Castro-Roman, Tobias, White (bb0730) 2005; 88
Perilla, Goh, Cassidy, Liu, Bernardi, Rudack (bb0940) 2015; 31
Wu, Cheng, Jo, Rui, Song, Dávila-Contreras (bb0770) 2014; 35
Sharma (bb0995) 2013; 110
Kasson, Kelley, Singhal, Vrljic, Brunger, Pande (bb1125) 2006; 103
Saxton, Jacobson (bb0600) 1997; 26
Chavent, Duncan, Sansom (bb0945) 2016; 40
Baoukina, Marrink, Tieleman (bb1095) 2012; 102
Goodsell (bb1455) 2012; 40
Maes, Martinez, Druart, Laurent, Guégan, Marchand (bb1520) 2018; 15
Berquand, Mingeot-Leclercq, Dufrene (bb0480) 2004; 1664
Kumar, Hoh (bb0405) 2000; 16
Popot, Engelman (bb0090) 1990; 29
Shelley, Shelley, Reeder, Bandyopadhyay, Klein (bb0100) 2001; 105
Bechinger (bb0185) 1999; 1462
Angermuller, Fahimi (bb0280) 1982; 14
Margineanu, Hotta, Vallee, Van der Auweraer, Ameloot, Stefan (bb0585) 2007; 93
Wiener, White (bb0245) 1992; 61
Jain, White (bb1385) 1977; 15
Casuso, Khao, Chami, Paul-Gilloteaux, Husain, Duneau (bb0485) 2012; 7
Yesylevskyy (bb0745) 2007; 47
Andrei, Callieri, Zini, Loni, Maraziti, Pan (bb1305) 2012; 13
Jo, Lim, Klauda, Im (bb0760) 2009; 97
Jenkinson, McGill (bb1475) 2012; 11
Gullingsrud, Schulten (bb0880) 2004; 86
Johnson, Goodsell, Autin, Forli, Sanner, Olson (bb0790) 2014; 169
Edidin (bb1375) 2003; 4
Bowie (bb0120) 2005; 438
Jefferys, Sansom, Fowler (bb1335) 2014; 169
Murata, Mitsuoka, Hirai, Walz, Agre, Heymann (bb0150) 2000; 407
Klein, Autin, Kozlíková, Goodsell, Olson, Gröller (bb0870) 2018; 24
Wendoloski, Kimatian, Schutt, Salemme (bb0970) 1989; 243
Buldt, Gally, Seelig, Seelig, Zaccai (bb0240) 1978; 271
Goodsell (bb1470) 2009; 37
Brown (bb1250) 2008; 59
Perez, Tubiana, Imberty, Baaden (bb1300) 2015; 25
Lu, Voth (bb1190) 2009; 113
Mauer, Peltomaki, Poblete, Gompper, Fedosov (bb1220) 2017; 12
Woolf, Roux (bb1010) 1994; 91
Sankaran, Manna, Guo, Kraut, Wohland (bb0635) 2009; 97
Man, Truong, Li, Wang, Van-Oanh, Derreumaux (bb1020) 2018; 123
Simons, Garoff, Helenius (bb0255) 1982; 246
Humphrey, Dalke, Schulten (bb0755) 1996; 14
Sadegh, Higgins, Mannion, Tamkun, Krapf (bb0455) 2017; 7
Bunnell, Jaeger, Fitzsimons, Prins, Ervasti (bb0340) 2008; 3
Javanainen, Martinez-Seara (bb0750) 2016; 1858
Shillcock, Lipowsky (bb1210) 2005; 4
Shinoda, DeVane, Klein (bb1050) 2012; 22
Lipowsky (bb0275) 1991; 349
Stansfeld, Sansom (bb0930) 2011; 19
Telenius, Vattulainen, Monticelli (bb1275) 2009
Takamori, Holt, Stenius, Lemke, Gronborg, Riedel (bb0170) 2006; 127
Berkowitz (bb0720) 2016
Veatch, Cicuta, Sengupta, Honerkamp-Smith, Holowka, Baird (bb0505) 2008; 3
Jiang, Lee, Chen, Cadene, Chait, MacKinnon (bb0155) 2002; 417
Muller, Buldt, Engel (bb0365) 1995; 249
Pebay-Peyroula, Rosenbusch (bb0395) 2001; 11
Marrink, Mark (bb0990) 2001; 105
Tamm, McConnell (bb0325) 1985; 47
Steck (bb1370) 1974; 62
Kusumi, Nakada, Ritchie, Murase, Suzuki, Murakoshi (bb0460) 2005; 34
Poger, Van Gunsteren, Mark (bb0890) 2010; 31
van Meer, Stelzer, Wijnaendts-van-Resandt, Simons (bb0250) 1987; 105
Ingolfsson, Carpenter, Bhatia, Bremer, Marrink, Lightstone (bb0820) 2017; 113
Arkhipov, Yin, Schulten (bb1225) 2008; 95
Izvekov, Voth (bb1080) 2005; 109
Mateos-Gil, Letschert, Doose, Sauer (bb0545) 2016; 4
Earnest, Watanabe, Stone, Mahamid, Baumeister, Villa (bb0135) 2017; 121
Simons, Sampaio (bb0260) 2011; 3
Durrieu, Bond, Sansom, Lavery, Baaden (bb1120) 2009; 10
Vogele, Hummer (bb1195) 2016; 120
Guixa-Gonzalez, Rodriguez-Espigares, Ramirez-Anguita, Carrio-Gaspar, Martinez-Seara, Giorgino (bb1355) 2014; 30
Di Rienzo, Gratton, Beltram, Cardarelli (bb0605) 2013; 110
Parasassi, Krasnowska, Bagatolli, Gratton (bb0640) 1998; 8
Lyman, Hsieh, Eggeling (bb0525) 2018; 115
Zhang, Chipman, Corver, Johnson, Zhang,
Wawrezinieck (10.1016/j.jmb.2019.02.018_bb0530) 2005; 89
Rothberg (10.1016/j.jmb.2019.02.018_bb0295) 1992; 68
Ulmschneider (10.1016/j.jmb.2019.02.018_bb0895) 2009; 5
Biere (10.1016/j.jmb.2019.02.018_bb0795) 2018; 15
Vanni (10.1016/j.jmb.2019.02.018_bb1330) 2013; 104
Ayton (10.1016/j.jmb.2019.02.018_bb1045) 2007; 17
Di Rienzo (10.1016/j.jmb.2019.02.018_bb0605) 2013; 110
Fowler (10.1016/j.jmb.2019.02.018_bb1180) 2016; 12
Zuber (10.1016/j.jmb.2019.02.018_bb0305) 2008; 190
Samsudin (10.1016/j.jmb.2019.02.018_bb1000) 2017; 113
Simons (10.1016/j.jmb.2019.02.018_bb0560) 2010; 11
Periole (10.1016/j.jmb.2019.02.018_bb1185) 2012; 134
Popot (10.1016/j.jmb.2019.02.018_bb0090) 1990; 29
Azimzadeh Irani (10.1016/j.jmb.2019.02.018_bb0965) 2018; 44
Sterpone (10.1016/j.jmb.2019.02.018_bb1170) 2014; 43
Shi (10.1016/j.jmb.2019.02.018_bb1245) 2005; 89
Johnson (10.1016/j.jmb.2019.02.018_bb1415) 2011; 19
Reinert (10.1016/j.jmb.2019.02.018_bb0030) 1970; 168
Baoukina (10.1016/j.jmb.2019.02.018_bb1095) 2012; 102
Pebay-Peyroula (10.1016/j.jmb.2019.02.018_bb0395) 2001; 11
Kocsis (10.1016/j.jmb.2019.02.018_bb0675) 2018; 4
Goodsell (10.1016/j.jmb.2019.02.018_bb1445) 2007; 5
Watts (10.1016/j.jmb.2019.02.018_bb0400) 1987; 19
Michaud-Agrawal (10.1016/j.jmb.2019.02.018_bb1360) 2011; 32
Smit (10.1016/j.jmb.2019.02.018_bb0980) 1990; 348
Winkler (10.1016/j.jmb.2019.02.018_bb0535) 2018; 9
Pucadyil (10.1016/j.jmb.2019.02.018_bb0595) 2008; 135
Colom (10.1016/j.jmb.2019.02.018_bb0490) 2017; 114
Tanimura (10.1016/j.jmb.2019.02.018_bb0660) 2004; 279
Sezgin (10.1016/j.jmb.2019.02.018_bb0500) 2012; 29
Jo (10.1016/j.jmb.2019.02.018_bb0765) 2007; 2
Vamparys (10.1016/j.jmb.2019.02.018_bb0850) 2013; 104
Lu (10.1016/j.jmb.2019.02.018_bb1190) 2009; 113
Saslowsky (10.1016/j.jmb.2019.02.018_bb0235) 2002; 277
Quehenberger (10.1016/j.jmb.2019.02.018_bb0210) 2010; 51
Leung (10.1016/j.jmb.2019.02.018_bb0375) 2014; 3
Berkowitz (10.1016/j.jmb.2019.02.018_bb0720) 2016
Poger (10.1016/j.jmb.2019.02.018_bb0890) 2010; 31
Lelimousin (10.1016/j.jmb.2019.02.018_bb1295) 2013; 9
Lee (10.1016/j.jmb.2019.02.018_bb1380) 2004; 1666
Mateos-Gil (10.1016/j.jmb.2019.02.018_bb0545) 2016; 4
Lin (10.1016/j.jmb.2019.02.018_bb1255) 2004; 93
Yuen (10.1016/j.jmb.2019.02.018_bb1435) 2016
Jo (10.1016/j.jmb.2019.02.018_bb0760) 2009; 97
Edidin (10.1016/j.jmb.2019.02.018_bb1375) 2003; 4
Chavent (10.1016/j.jmb.2019.02.018_bb0945) 2016; 40
Kuhlbrandt (10.1016/j.jmb.2019.02.018_bb0425) 2014; 343
Woolf (10.1016/j.jmb.2019.02.018_bb0095) 1996; 24
van Meer (10.1016/j.jmb.2019.02.018_bb0250) 1987; 105
Regmi (10.1016/j.jmb.2019.02.018_bb0540) 2017; 17
Goodsell (10.1016/j.jmb.2019.02.018_bb1470) 2009; 37
Frye (10.1016/j.jmb.2019.02.018_bb0015) 1970; 7
Wu (10.1016/j.jmb.2019.02.018_bb0960) 2014; 106
Parasassi (10.1016/j.jmb.2019.02.018_bb0640) 1998; 8
Shevchenko (10.1016/j.jmb.2019.02.018_bb0205) 2010; 11
Madsen (10.1016/j.jmb.2019.02.018_bb1205) 2017; 13
Sezgin (10.1016/j.jmb.2019.02.018_bb0565) 2017; 18
Wu (10.1016/j.jmb.2019.02.018_bb0770) 2014; 35
Branton (10.1016/j.jmb.2019.02.018_bb0290) 1966; 55
Terstappen (10.1016/j.jmb.2019.02.018_bb0175) 2001; 22
Angermuller (10.1016/j.jmb.2019.02.018_bb0280) 1982; 14
Rosevear (10.1016/j.jmb.2019.02.018_bb1365) 1968; 19
Ingolfsson (10.1016/j.jmb.2019.02.018_bb0825) 2014; 136
Manley (10.1016/j.jmb.2019.02.018_bb0630) 2008; 5
Schneider (10.1016/j.jmb.2019.02.018_bb1240) 2013; 105
Vanni (10.1016/j.jmb.2019.02.018_bb0845) 2014; 5
Bennett (10.1016/j.jmb.2019.02.018_bb0935) 2013; 1828
Zgorski (10.1016/j.jmb.2019.02.018_bb1165) 2016; 111
Jain (10.1016/j.jmb.2019.02.018_bb1385) 1977; 15
Johnson (10.1016/j.jmb.2019.02.018_bb1430) 2014; 15
Poo (10.1016/j.jmb.2019.02.018_bb0020) 1974; 247
Berquand (10.1016/j.jmb.2019.02.018_bb0480) 2004; 1664
Tanizaki (10.1016/j.jmb.2019.02.018_bb1235) 2005; 122
Bassereau (10.1016/j.jmb.2019.02.018_bb0315) 2018; 51
Brown (10.1016/j.jmb.2019.02.018_bb1250) 2008; 59
Reddy (10.1016/j.jmb.2019.02.018_bb1135) 2016; 1858
de Wit (10.1016/j.jmb.2019.02.018_bb0620) 2015; 112
Fyfe (10.1016/j.jmb.2019.02.018_bb0385) 2001; 26
van der Wel (10.1016/j.jmb.2019.02.018_bb0515) 2016; 6
Lingwood (10.1016/j.jmb.2019.02.018_bb0265) 2010; 327
McMahon (10.1016/j.jmb.2019.02.018_bb0285) 2005; 438
Hsieh (10.1016/j.jmb.2019.02.018_bb0610) 2018; 422
Marrink (10.1016/j.jmb.2019.02.018_bb0990) 2001; 105
Stansfeld (10.1016/j.jmb.2019.02.018_bb0840) 2015; 23
Bunnell (10.1016/j.jmb.2019.02.018_bb0340) 2008; 3
Brandt (10.1016/j.jmb.2019.02.018_bb0420) 2016; 5
Durrieu (10.1016/j.jmb.2019.02.018_bb1120) 2009; 10
Esque (10.1016/j.jmb.2019.02.018_bb1345) 2018; 8
Bangham (10.1016/j.jmb.2019.02.018_bb0310) 1964; 8
Allen (10.1016/j.jmb.2019.02.018_bb1350) 2009; 30
Nair (10.1016/j.jmb.2019.02.018_bb0080) 2013; 110
Koldsø (10.1016/j.jmb.2019.02.018_bb1105) 2015; 137
Reddy (10.1016/j.jmb.2019.02.018_bb1130) 2016; 24
Heller (10.1016/j.jmb.2019.02.018_bb0060) 1993; 97
Eggeling (10.1016/j.jmb.2019.02.018_bb0450) 2009; 457
Lyman (10.1016/j.jmb.2019.02.018_bb0525) 2018; 115
Mitchell (10.1016/j.jmb.2019.02.018_bb0040) 1957; 180
Cotterill (10.1016/j.jmb.2019.02.018_bb0050) 1976; 433
Seelig (10.1016/j.jmb.2019.02.018_bb0695) 1978; 17
Oesterhelt (10.1016/j.jmb.2019.02.018_bb0495) 2000; 288
Cicchetti (10.1016/j.jmb.2019.02.018_bb0655) 2004; 43
Dahl (10.1016/j.jmb.2019.02.018_bb1340) 2012; 28
Deisenhofer (10.1016/j.jmb.2019.02.018_bb0085) 1985; 318
Simons (10.1016/j.jmb.2019.02.018_bb0255) 1982; 246
Nair (10.1016/j.jmb.2019.02.018_bb0555) 2013; 33
Klein (10.1016/j.jmb.2019.02.018_bb0870) 2018; 24
Gullingsrud (10.1016/j.jmb.2019.02.018_bb0880) 2004; 86
Medalia (10.1016/j.jmb.2019.02.018_bb0130) 2002; 298
Tieleman (10.1016/j.jmb.2019.02.018_bb0735) 1997; 1331
Grime (10.1016/j.jmb.2019.02.018_bb0665) 2008; 105
Goldstein (10.1016/j.jmb.2019.02.018_bb0075) 1974; 249
Fernandez (10.1016/j.jmb.2019.02.018_bb0145) 2001; 98
Zoppe (10.1016/j.jmb.2019.02.018_bb1395) 2017; 14
Triba (10.1016/j.jmb.2019.02.018_bb0705) 2005; 88
Humphrey (10.1016/j.jmb.2019.02.018_bb0755) 1996; 14
Woolf (10.1016/j.jmb.2019.02.018_bb1010) 1994; 91
Van der Ploeg (10.1016/j.jmb.2019.02.018_bb0065) 1982; 76
Khalili-Araghi (10.1016/j.jmb.2019.02.018_bb0925) 2009; 19
Brown (10.1016/j.jmb.2019.02.018_bb1260) 2003; 84
Iwasa (10.1016/j.jmb.2019.02.018_bb1400) 2015; 31
Wiener (10.1016/j.jmb.2019.02.018_bb0215) 1992; 61
Schneider (10.1016/j.jmb.2019.02.018_bb1035) 2013; 4
Hirst (10.1016/j.jmb.2019.02.018_bb1525) 2014; 169
Marrink (10.1016/j.jmb.2019.02.018_bb1115) 2003; 125
Ackerman (10.1016/j.jmb.2019.02.018_bb1085) 2015; 119
Bassolino-Klimas (10.1016/j.jmb.2019.02.018_bb0070) 1993; 32
Ingolfsson (10.1016/j.jmb.2019.02.018_bb0910) 2014; 4
West (10.1016/j.jmb.2019.02.018_bb1265) 2009; 96
de Kruijff (10.1016/j.jmb.2019.02.018_bb0105) 1997; 386
Liu (10.1016/j.jmb.2019.02.018_bb0575) 2018; 360
Schutz (10.1016/j.jmb.2019.02.018_bb0445) 2000; 19
Seelig (10.1016/j.jmb.2019.02.018_bb0690) 1977; 16
Ries (10.1016/j.jmb.2019.02.018_bb0670) 2004; 108
Klauda (10.1016/j.jmb.2019.02.018_bb0885) 2010; 114
Shinoda (10.1016/j.jmb.2019.02.018_bb1050) 2012; 22
Yu (10.1016/j.jmb.2019.02.018_bb1215) 2013; 9
Engelman (10.1016/j.jmb.2019.02.018_bb0025) 1970; 47
Landau (10.1016/j.jmb.2019.02.018_bb0110) 1996; 93
Milanesi (10.1016/j.jmb.2019.02.018_bb0415) 2012; 109
van Zanten (10.1016/j.jmb.2019.02.018_bb0350) 2009; 106
Arkhipov (10.1016/j.jmb.2019.02.018_bb1225) 2008; 95
Sommer (10.1016/j.jmb.2019.02.018_bb1510) 2018; 15
Murata (10.1016/j.jmb.2019.02.018_bb0150) 2000; 407
Triba (10.1016/j.jmb.2019.02.018_bb0700) 2006; 91
Man (10.1016/j.jmb.2019.02.018_bb1020) 2018; 123
Kox (10.1016/j.jmb.2019.02.018_bb0055) 1980; 287
Brannigan (10.1016/j.jmb.2019.02.018_bb1160) 2006; 35
Hess (10.1016/j.jmb.2019.02.018_bb0335) 2007; 104
Takamori (10.1016/j.jmb.2019.02.018_bb0170) 2006; 127
Schonherr (10.1016/j.jmb.2019.02.018_bb0410) 2004; 20
Schutz (10.1016/j.jmb.2019.02.018_bb0475) 1997; 73
Zimmer (10.1016/j.jmb.2019.02.018_bb1490) 2014; 10
Colom (10.1016/j.jmb.2019.02.018_bb0650) 2018; 10
Belrhali (10.1016/j.jmb.2019.02.018_bb0360) 1999; 7
Parkin (10.1016/j.jmb.2019.02.018_bb0815) 2015; 109
Perez (10.1016/j.jmb.2019.02.018_bb1300) 2015; 25
Catoire (10.1016/j.jmb.2019.02.018_bb1310) 2011; 50
Sommer (10.1016/j.jmb.2019.02.018_bb0800) 2013; 5
Shi (10.1016/j.jmb.2019.02.018_bb0430) 2012; 335
Goodsell (10.1016/j.jmb.2019.02.018_bb1455) 2012; 40
Muller (10.1016/j.jmb.2019.02.018_bb0365) 1995; 249
Izeddin (10.1016/j.jmb.2019.02.018_bb0550) 2011; 6
Benz (10.1016/j.jmb.2019.02.018_bb0730) 2005; 88
Wassenaar (10.1016/j.jmb.2019.02.018_bb0785) 2015; 11
Stansfeld (10.1016/j.jmb.2019.02.018_bb0930) 2011; 19
Wang (10.1016/j.jmb.2019.02.018_bb1155) 2010; 114
Bowie (10.1016/j.jmb.2019.02.018_bb0120) 2005; 438
Kusumi (10.1016/j.jmb.2019.02.018_bb0460) 2005; 34
Huang (10.1016/j.jmb.2019.02.018_bb0615) 2017; 11
van Eerden (10.1016/j.jmb.2019.02.018_bb0955) 2015; 1848
Singer (10.1016/j.jmb.2019.02.018_bb0035) 1972; 175
Lindahl (10.1016/j.jmb.2019.02.018_bb0920) 2008; 18
Honigmann (10.1016/j.jmb.2019.02.018_bb0345) 2014; 3
Sharma (10.1016/j.jmb.2019.02.018_bb0830) 2015; 10
Miles (10.1016/j.jmb.2019.02.018_bb0370) 1997; 277
Heymann (10.1016/j.jmb.2019.02.018_bb0380) 1999; 128
Arnarez (10.1016/j.jmb.2019.02.018_bb1150) 2015; 11
Sommer (10.1016/j.jmb.2019.02.018_bb0865) 2014; 23
Izvekov (10.1016/j.jmb.2019.02.018_bb1145) 2009; 113
Goodsell (10.1016/j.jmb.2019.02.018_bb1465) 2011; 39
Goodsell (10.1016/j.jmb.2019.02.018_bb1460) 2016; 40
Giocondi (10.1016/j.jmb.2019.02.018_bb0270) 2010; 1798
Darré (10.1016/j.jmb.2019.02.018_bb1285) 2012; 8
Tieleman (10.1016/j.jmb.2019.02.018_bb0115) 2004; 5
Buldt (10.1016/j.jmb.2019.02.018_bb0240) 1978; 271
Izvekov (10.1016/j.jmb.2019.02.018_bb1080) 2005; 109
Risselada (10.1016/j.jmb.2019.02.018_bb1110) 2011; 12
Sund (10.1016/j.jmb.2019.02.018_bb0645) 1999; 77
Piggot (10.1016/j.jmb.2019.02.018_bb0905) 2012; 8
Jost (10.1016/j.jmb.2019.02.018_bb0685) 1980; 348
Bond (10.1016/j.jmb.2019.02.018_bb1070) 2006; 128
Doutreligne (10.1016/j.jmb.2019.02.018_bb1530) 2014
Essen (10.1016/j.jmb.2019.02.018_bb0390) 1998; 95
Marrink (10.1016/j.jmb.2019.02.018_bb1065) 2004; 108
Guixa-Gonzalez (10.1016/j.jmb.2019.02.018_bb1355) 2014; 30
Galla (10.1016/j.jmb.2019.02.018_bb1390) 1
References_xml – volume: 108
  start-page: 16040
  year: 2004
  end-page: 16049
  ident: bb0670
  article-title: Black lipid membranes: visualizing the structure, dynamics, and substrate dependence of membranes
  publication-title: J. Phys. Chem. B
– volume: 59
  start-page: 685
  year: 2008
  end-page: 712
  ident: bb1250
  article-title: Elastic modeling of biomembranes and lipid bilayers
  publication-title: Annu. Rev. Phys. Chem.
– volume: 18
  start-page: 425
  year: 2008
  end-page: 431
  ident: bb0920
  article-title: Membrane proteins: molecular dynamics simulations
  publication-title: Curr. Opin. Struct. Biol.
– volume: 247
  start-page: 438
  year: 1974
  ident: bb0020
  article-title: Lateral diffusion of rhodopsin in the photoreceptor membrane
  publication-title: Nature
– volume: 12
  start-page: 7792
  year: 2016
  end-page: 7803
  ident: bb1180
  article-title: Membrane stiffness is modified by integral membrane proteins
  publication-title: Soft Matter
– volume: 1788
  start-page: 149
  year: 2009
  end-page: 168
  ident: bb0915
  article-title: Lipids on the move: simulations of membrane pores, domains, stalks and curves
  publication-title: Biochim. Biophys. Acta
– volume: 2
  start-page: e880
  year: 2007
  ident: bb0765
  article-title: Automated builder and database of protein/membrane complexes for molecular dynamics simulations
  publication-title: PLoS One
– volume: 17
  start-page: 6295
  year: 2017
  end-page: 6302
  ident: bb0540
  article-title: Planar optical nanoantennas resolve cholesterol-dependent nanoscale heterogeneities in the plasma membrane of living cells
  publication-title: Nano Lett.
– volume: 19
  start-page: 293
  year: 2011
  end-page: 303
  ident: bb1415
  article-title: ePMV embeds molecular modeling into professional animation software environments
  publication-title: Structure
– volume: 33
  start-page: 13204
  year: 2013
  end-page: 13224
  ident: bb0555
  article-title: Super-resolution imaging reveals that AMPA receptors inside synapses are dynamically organized in nanodomains regulated by PSD95
  publication-title: J. Neurosci.
– volume: 417
  start-page: 523
  year: 2002
  end-page: 526
  ident: bb0155
  article-title: The open pore conformation of potassium channels
  publication-title: Nature
– volume: 169
  start-page: 23
  year: 2014
  end-page: 44
  ident: bb0790
  article-title: 3D molecular models of whole HIV-1 virions generated with cellPACK
  publication-title: Faraday Discuss.
– volume: 106
  start-page: 18557
  year: 2009
  end-page: 18562
  ident: bb0350
  article-title: Hotspots of GPI-anchored proteins and integrin nanoclusters function as nucleation sites for cell adhesion
  publication-title: Proc. Natl. Acad. Sci. U. S. A.
– volume: 136
  start-page: 14554
  year: 2014
  end-page: 14559
  ident: bb0825
  article-title: Lipid organization of the plasma membrane
  publication-title: J. Am. Chem. Soc.
– year: 2007
  ident: bb0950
  article-title: There's plenty of room in the middle: multi-scale modelling of biological systems
  publication-title: Recent Adv In Structural Bioinformatics, Research Signpost India
– volume: 13
  start-page: S16
  year: 2012
  ident: bb1305
  article-title: Intuitive representation of surface properties of biomolecules using BioBlender
  publication-title: BMC Bioinforma.
– volume: 3
  start-page: 319
  year: 1964
  end-page: 323
  ident: bb0300
  article-title: An electron microscopical study of isolated mitochondrial membranes treated with osmium tetroxide, potassium permanganate, and formaldehyde
  publication-title: J Cell Sci.
– volume: 8
  start-page: 365
  year: 1998
  end-page: 373
  ident: bb0640
  article-title: Laurdan and Prodan as polarity-sensitive fluorescent membrane probes
  publication-title: J. Fluoresc.
– volume: 77
  start-page: 2266
  year: 1999
  end-page: 2283
  ident: bb0645
  article-title: Cell membrane orientation visualized by polarized total internal reflection fluorescence
  publication-title: Biophys. J.
– volume: 28
  start-page: 2193
  year: 2012
  end-page: 2194
  ident: bb1340
  article-title: Bendix: intuitive helix geometry analysis and abstraction
  publication-title: Bioinformatics
– volume: 110
  start-page: 14829
  year: 2013
  end-page: 14832
  ident: bb0080
  article-title: Brown and Goldstein: the cholesterol chronicles
  publication-title: Proc. Natl. Acad. Sci. U. S. A.
– volume: 1858
  start-page: 2468
  year: 2016
  end-page: 2482
  ident: bb0750
  article-title: Efficient preparation and analysis of membrane and membrane protein systems
  publication-title: Biochim. Biophys. Acta
– volume: 298
  start-page: 1209
  year: 2002
  end-page: 1213
  ident: bb0130
  article-title: Macromolecular architecture in eukaryotic cells visualized by cryoelectron tomography
  publication-title: Science
– volume: 428
  start-page: 2943
  year: 2016
  end-page: 2964
  ident: bb0775
  article-title: Challenges in structural approaches to cell modeling
  publication-title: J. Mol. Biol.
– volume: 190
  start-page: 5672
  year: 2008
  end-page: 5680
  ident: bb0305
  article-title: Direct visualization of the outer membrane of mycobacteria and corynebacteria in their native state
  publication-title: J. Bacteriol.
– volume: 12
  year: 2017
  ident: bb1220
  article-title: Static and dynamic light scattering by red blood cells: a numerical study
  publication-title: PLoS One
– volume: 5
  start-page: 155
  year: 2008
  end-page: 157
  ident: bb0630
  article-title: High-density mapping of single-molecule trajectories with photoactivated localization microscopy
  publication-title: Nat. Methods
– volume: 18
  start-page: S1191
  year: 2006
  ident: bb1230
  article-title: The computational route from bilayer membranes to vesicle fusion
  publication-title: J. Phys. Condens. Matter
– volume: 262
  start-page: 223
  year: 1993
  end-page: 226
  ident: bb0975
  article-title: Molecular dynamics simulations of a lipid bilayer and of hexadecane: an investigation of membrane fluidity
  publication-title: Science
– volume: 16
  start-page: 9936
  year: 2000
  end-page: 9940
  ident: bb0405
  article-title: Direct visualization of vesicle–bilayer complexes by atomic force microscopy
  publication-title: Langmuir
– volume: 10
  start-page: 865
  year: 2014
  end-page: 879
  ident: bb0900
  article-title: Lipid14: the amber lipid force field
  publication-title: J. Chem. Theory Comput.
– volume: 119
  start-page: 1183
  year: 1992
  end-page: 1191
  ident: bb0355
  article-title: Direct visualization of the dystrophin network on skeletal muscle fiber membrane
  publication-title: J. Cell Biol.
– volume: 97
  start-page: 50
  year: 2009
  end-page: 58
  ident: bb0760
  article-title: CHARMM-GUI membrane builder for mixed bilayers and its application to yeast membranes
  publication-title: Biophys. J.
– volume: 8
  start-page: 5513
  year: 2017
  end-page: 5518
  ident: bb1100
  article-title: It is complicated: curvature, diffusion, and lipid sorting within the two membranes of
  publication-title: J. Phys. Chem. Lett.
– volume: 23
  year: 2014
  ident: bb0865
  article-title: Stereoscopic cell visualization: from mesoscopic to molecular scale
  publication-title: J. Electron. Imaging
– volume: 135
  start-page: 1263
  year: 2008
  end-page: 1275
  ident: bb0595
  article-title: Real-time visualization of dynamin-catalyzed membrane fission and vesicle release
  publication-title: Cell
– volume: 6
  year: 2016
  ident: bb0470
  article-title: Nanoscopic substructures of raft-mimetic liquid-ordered membrane domains revealed by high-speed single-particle tracking
  publication-title: Sci. Rep.
– volume: 31
  start-page: 64
  year: 2015
  end-page: 74
  ident: bb0940
  article-title: Molecular dynamics simulations of large macromolecular complexes
  publication-title: Curr. Opin. Struct. Biol.
– volume: 4
  start-page: 555
  year: 2013
  ident: bb1035
  article-title: Coarse-grained computer simulation of dynamics in thylakoid membranes: methods and opportunities
  publication-title: Front. Plant Sci.
– volume: 113
  start-page: 4443
  year: 2009
  end-page: 4455
  ident: bb1145
  article-title: Solvent-free lipid bilayer model using multiscale coarse-graining
  publication-title: J. Phys. Chem. B
– volume: 37
  start-page: 325
  year: 2009
  end-page: 332
  ident: bb1470
  publication-title: Biochem. Mol. Biol. Educ.
– volume: 157
  start-page: 593
  year: 2007
  end-page: 605
  ident: bb1075
  article-title: Coarse-grained molecular dynamics simulations of membrane proteins and peptides
  publication-title: J. Struct. Biol.
– volume: 113
  start-page: 1501
  year: 2009
  end-page: 1510
  ident: bb1190
  article-title: Systematic coarse-graining of a multicomponent lipid bilayer
  publication-title: J. Phys. Chem. B
– volume: 19
  start-page: 581
  year: 1968
  end-page: 594
  ident: bb1365
  article-title: Liquid crystals: the mesomorphic phases of surfactant compositions
  publication-title: J. Soc. Cosmet. Chem.
– volume: 1462
  start-page: 157
  year: 1999
  end-page: 183
  ident: bb0185
  article-title: The structure, dynamics and orientation of antimicrobial peptides in membranes by multidimensional solid-state NMR spectroscopy
  publication-title: Biochim. Biophys. Acta Biomembr.
– volume: 22
  start-page: 23
  year: 2001
  end-page: 26
  ident: bb0175
  article-title: In silico research in drug discovery
  publication-title: Trends Pharmacol. Sci.
– volume: 26
  start-page: 373
  year: 1997
  end-page: 399
  ident: bb0600
  article-title: Single-particle tracking: applications to membrane dynamics
  publication-title: Annu. Rev. Biophys. Biomol. Struct.
– volume: 1
  start-page: 31
  year: 2000
  end-page: 39
  ident: bb0195
  article-title: Lipid rafts and signal transduction
  publication-title: Nat. Rev. Mol. Cell Biol.
– volume: 1798
  start-page: 703
  year: 2010
  end-page: 718
  ident: bb0270
  article-title: Surface topography of membrane domains
  publication-title: Biochim. Biophys. Acta
– volume: 249
  start-page: 5153
  year: 1974
  end-page: 5162
  ident: bb0075
  article-title: Binding and degradation of low density lipoproteins by cultured human fibroblasts. Comparison of cells from a normal subject and from a patient with homozygous familial hypercholesterolemia
  publication-title: J. Biol. Chem.
– volume: 127
  start-page: 831
  year: 2006
  end-page: 846
  ident: bb0170
  article-title: Molecular anatomy of a trafficking organelle
  publication-title: Cell
– volume: 15
  start-page: 1
  year: 1977
  end-page: 60
  ident: bb1385
  article-title: Long-range order in biomembranes
  publication-title: Adv. Lipid Res.
– volume: 118
  start-page: 1545
  year: 2014
  end-page: 1554
  ident: bb0465
  article-title: Tracking single particles on supported lipid membranes: multimobility diffusion and nanoscopic confinement
  publication-title: J. Phys. Chem. B
– volume: 10
  start-page: 907
  year: 2003
  end-page: 912
  ident: bb0435
  article-title: Visualization of membrane protein domains by cryo-electron microscopy of dengue virus
  publication-title: Nat. Struct. Biol.
– volume: 29
  start-page: 144
  year: 2012
  end-page: 154
  ident: bb0500
  article-title: Model membrane platforms to study protein-membrane interactions
  publication-title: Mol. Membr. Biol.
– volume: 15
  year: 2018
  ident: bb0795
  article-title: Heuristic modeling and 3D stereoscopic visualization of a
  publication-title: J. Integr. Bioinforma.
– volume: 97
  start-page: 2630
  year: 2009
  end-page: 2639
  ident: bb0635
  article-title: Diffusion, transport, and cell membrane organization investigated by imaging fluorescence cross-correlation spectroscopy
  publication-title: Biophys. J.
– volume: 125
  start-page: 11144
  year: 2003
  end-page: 11145
  ident: bb1115
  article-title: The mechanism of vesicle fusion as revealed by molecular dynamics simulations
  publication-title: J. Am. Chem. Soc.
– volume: 88
  start-page: 805
  year: 2005
  end-page: 817
  ident: bb0730
  article-title: Experimental validation of molecular dynamics simulations of lipid bilayers: a new approach
  publication-title: Biophys. J.
– volume: 9
  year: 2018
  ident: bb1175
  article-title: How nanoscale protein interactions determine the mesoscale dynamic organisation of bacterial outer membrane proteins
  publication-title: Nat. Commun.
– volume: 7
  start-page: 525
  year: 2012
  end-page: 529
  ident: bb0485
  article-title: Characterization of the motion of membrane proteins using high-speed atomic force microscopy
  publication-title: Nat. Nanotechnol.
– volume: 82
  start-page: 6153
  year: 1985
  end-page: 6157
  ident: bb0330
  article-title: Visualization of the protein associations in the erythrocyte membrane skeleton
  publication-title: Proc. Natl. Acad. Sci. U. S. A.
– volume: 30
  start-page: 6162
  year: 2014
  end-page: 6170
  ident: bb0725
  article-title: Lipid concentration and molar ratio boundaries for the use of isotropic bicelles
  publication-title: Langmuir
– volume: 24
  start-page: 375
  year: 2016
  end-page: 382
  ident: bb1130
  article-title: The role of the membrane in the structure and biophysical robustness of the dengue virion envelope
  publication-title: Structure
– volume: 13
  start-page: 935
  year: 2017
  end-page: 944
  ident: bb1205
  article-title: Highly coarse-grained representations of transmembrane proteins
  publication-title: J. Chem. Theory Comput.
– volume: 7
  year: 2017
  ident: bb0455
  article-title: Plasma membrane is compartmentalized by a self-similar cortical actin meshwork
  publication-title: Phys. Rev. X
– volume: 76
  start-page: 3271
  year: 1982
  end-page: 3276
  ident: bb0065
  article-title: Molecular dynamics simulation of a bilayer membrane
  publication-title: J. Chem. Phys.
– volume: 51
  start-page: 177
  year: 2018
  end-page: 186
  ident: bb0810
  article-title: Microscopic view of lipids and their diverse biological functions
  publication-title: Curr. Opin. Struct. Biol.
– volume: 51
  start-page: 3299
  year: 2010
  end-page: 3305
  ident: bb0210
  article-title: Lipidomics reveals a remarkable diversity of lipids in human plasma
  publication-title: J. Lipid Res.
– volume: 3
  start-page: a004697
  year: 2011
  ident: bb0260
  article-title: Membrane organization and lipid rafts
  publication-title: Cold Spring Harb. Perspect. Biol.
– volume: 9
  year: 2013
  ident: bb1090
  article-title: Formation of raft-like assemblies within clusters of influenza hemagglutinin observed by MD simulations
  publication-title: PLoS Comput. Biol.
– volume: 8
  start-page: 4593
  year: 2012
  end-page: 4609
  ident: bb0905
  article-title: Molecular dynamics simulations of phosphatidylcholine membranes: a comparative force field study
  publication-title: J. Chem. Theory Comput.
– volume: 243
  start-page: 636
  year: 1989
  end-page: 638
  ident: bb0970
  article-title: Molecular dynamics simulation of a phospholipid micelle
  publication-title: Science
– volume: 309
  start-page: 1990
  year: 2005
  ident: bb1485
  article-title: Illustration
  publication-title: Science
– volume: 249
  start-page: 239
  year: 1995
  end-page: 243
  ident: bb0365
  article-title: Force-induced conformational change of bacteriorhodopsin
  publication-title: J. Mol. Biol.
– volume: 6
  year: 2016
  ident: bb0520
  article-title: Erratum: Lipid membrane-mediated attraction between curvature inducing objects
  publication-title: Sci. Rep.
– volume: 407
  start-page: 599
  year: 2000
  end-page: 605
  ident: bb0150
  article-title: Structural determinants of water permeation through aquaporin-1
  publication-title: Nature
– volume: 11
  start-page: 2144
  year: 2015
  end-page: 2155
  ident: bb0785
  article-title: Computational lipidomics with insane: a versatile tool for generating custom membranes for molecular simulations
  publication-title: J. Chem. Theory Comput.
– volume: 115
  start-page: 595
  year: 2018
  end-page: 604
  ident: bb0525
  article-title: From dynamics to membrane organization: experimental breakthroughs occasion a “modeling manifesto”
  publication-title: Biophys. J.
– volume: 4
  start-page: 414
  year: 2003
  end-page: 418
  ident: bb1375
  article-title: Lipids on the frontier: a century of cell-membrane bilayers
  publication-title: Nat. Rev. Mol. Cell Biol.
– volume: 14
  start-page: 823
  year: 1982
  end-page: 835
  ident: bb0280
  article-title: Imidazole-buffered osmium tetroxide: an excellent stain for visualization of lipids in transmission electron microscopy
  publication-title: Histochem. J.
– volume: 1331
  start-page: 235
  year: 1997
  end-page: 270
  ident: bb0735
  article-title: A computer perspective of membranes: molecular dynamics studies of lipid bilayer systems
  publication-title: Biochim. Biophys. Acta Rev. Biomembr.
– volume: 114
  start-page: 6836
  year: 2010
  end-page: 6849
  ident: bb1060
  article-title: Zwitterionic lipid assemblies: molecular dynamics studies of monolayers, bilayers, and vesicles using a new coarse grain force field
  publication-title: J. Phys. Chem. B
– volume: 114
  start-page: 5449
  year: 2017
  end-page: 5454
  ident: bb0490
  article-title: Dynamic remodeling of the dynamin helix during membrane constriction
  publication-title: Proc. Natl. Acad. Sci. U. S. A.
– volume: 24
  start-page: 293
  year: 1991
  end-page: 397
  ident: bb0680
  article-title: Physical properties of the fluid lipid-bilayer component of cell membranes: a perspective
  publication-title: Q. Rev. Biophys.
– volume: 41
  start-page: 854
  year: 2017
  end-page: 879
  ident: bb1480
  article-title: A visual review of the human pathogen
  publication-title: FEMS Microbiol. Rev.
– volume: 5
  year: 2016
  ident: bb0420
  article-title: A mitofusin-dependent docking ring complex triggers mitochondrial fusion in vitro
  publication-title: Elife
– volume: 438
  start-page: 578
  year: 2005
  end-page: 580
  ident: bb0165
  article-title: Membranes are more mosaic than fluid
  publication-title: Nature
– volume: 386
  start-page: 129
  year: 1997
  end-page: 130
  ident: bb0105
  article-title: Biomembranes. Lipids beyond the bilayer
  publication-title: Nature
– volume: 23
  start-page: 584
  year: 2015
  end-page: 597
  ident: bb1140
  article-title: Nothing to sneeze at: a dynamic and integrative computational model of an influenza A virion
  publication-title: Structure
– volume: 11
  start-page: 427
  year: 2001
  end-page: 432
  ident: bb0395
  article-title: High-resolution structures and dynamics of membrane protein–lipid complexes: a critique
  publication-title: Curr. Opin. Struct. Biol.
– volume: 7
  start-page: 909
  year: 1999
  end-page: 917
  ident: bb0360
  article-title: Protein, lipid and water organization in bacteriorhodopsin crystals: a molecular view of the purple membrane at 1.9 Å resolution
  publication-title: Structure
– start-page: 109
  year: 2014
  end-page: 110
  ident: bb1530
  article-title: UnityMol: interactive scientific visualization for integrative biology
  publication-title: Large Data Analysis and Visualization (LDAV), 2014 IEEE 4th Symposium on: IEEE
– volume: 35
  start-page: 438
  year: 2002
  end-page: 446
  ident: bb0710
  article-title: Lipid bilayers, NMR relaxation, and computer simulations
  publication-title: Acc. Chem. Res.
– volume: 24
  start-page: 92
  year: 1996
  end-page: 114
  ident: bb0095
  article-title: Structure, energetics, and dynamics of lipid–protein interactions: a molecular dynamics study of the gramicidin A channel in a DMPC bilayer
  publication-title: Proteins
– volume: 61
  start-page: 428
  year: 1992
  end-page: 433
  ident: bb0245
  article-title: Structure of a fluid dioleoylphosphatidylcholine bilayer determined by joint refinement of x-ray and neutron diffraction data. II. Distribution and packing of terminal methyl groups
  publication-title: Biophys. J.
– volume: 9
  start-page: 110
  year: 2018
  end-page: 119
  ident: bb0535
  article-title: Optical antenna-based fluorescence correlation spectroscopy to probe the nanoscale dynamics of biological membranes
  publication-title: J. Phys. Chem. Lett.
– volume: 27
  start-page: 845
  year: 2013
  end-page: 858
  ident: bb1280
  article-title: Computational analysis of local membrane properties
  publication-title: J. Comput. Aided Mol. Des.
– volume: 10
  year: 2015
  ident: bb0830
  article-title: A coarse grained model for a lipid membrane with physiological composition and leaflet asymmetry
  publication-title: PLoS One
– volume: 20
  start-page: 699
  year: 2010
  end-page: 704
  ident: bb1410
  article-title: Animating the model figure
  publication-title: Trends Cell Biol.
– volume: 4
  start-page: 162
  year: 2003
  end-page: 167
  ident: bb0570
  article-title: Caveolae—from ultrastructure to molecular mechanisms
  publication-title: Nat. Rev. Mol. Cell Biol.
– volume: 422
  start-page: 69
  year: 2018
  end-page: 74
  ident: bb0610
  article-title: Label-free, ultrasensitive, ultrahigh-speed scattering-based interferometric imaging
  publication-title: Opt. Commun.
– volume: 348
  start-page: 391
  year: 1980
  end-page: 407
  ident: bb0685
  article-title: The lipid–protein interface in biological membranes
  publication-title: Ann. N. Y. Acad. Sci.
– volume: 24
  start-page: 862
  year: 2018
  end-page: 872
  ident: bb0870
  article-title: Instant construction and visualization of crowded biological environments
  publication-title: IEEE Trans. Vis. Comput. Graph.
– volume: 5
  start-page: e308
  year: 2007
  ident: bb1445
  article-title: Filling in the gaps: artistic license in education and outreach
  publication-title: PLoS Biol.
– volume: 93
  start-page: 2926
  year: 1996
  end-page: 2929
  ident: bb0625
  article-title: Imaging of single molecule diffusion
  publication-title: Proc. Natl. Acad. Sci. U. S. A.
– volume: 51
  start-page: 1165
  year: 2011
  end-page: 1182
  ident: bb0780
  article-title: CELLmicrocosmos 2.2 MembraneEditor: a modular interactive shape-based software approach to solve heterogeneous membrane packing problems
  publication-title: J. Chem. Inf. Model.
– volume: 119
  start-page: 4240
  year: 2015
  end-page: 4250
  ident: bb1085
  article-title: Multiscale modeling of four-component lipid mixtures: domain composition, size, alignment, and properties of the phase interface
  publication-title: J. Phys. Chem. B
– volume: 64
  start-page: 676
  year: 1993
  end-page: 685
  ident: bb0580
  article-title: Fluorescence lifetime imaging microscopy (flimscopy). Methodology development and application to studies of endosome fusion in single cells
  publication-title: Biophys. J.
– volume: 112
  start-page: 12299
  year: 2015
  end-page: 12303
  ident: bb0620
  article-title: Dynamic label-free imaging of lipid nanodomains
  publication-title: Proc. Natl. Acad. Sci. U. S. A.
– volume: 19
  start-page: 128
  year: 2009
  end-page: 137
  ident: bb0925
  article-title: Molecular dynamics simulations of membrane channels and transporters
  publication-title: Curr. Opin. Struct. Biol.
– volume: 79
  start-page: 426
  year: 2000
  end-page: 433
  ident: bb0985
  article-title: Mesoscopic undulations and thickness fluctuations in lipid bilayers from molecular dynamics simulations
  publication-title: Biophys. J.
– volume: 93
  start-page: 7008
  year: 1996
  end-page: 7012
  ident: bb0220
  article-title: Structure of the ripple phase in lecithin bilayers
  publication-title: Proc. Natl. Acad. Sci. U. S. A.
– volume: 91
  start-page: 1357
  year: 2006
  end-page: 1367
  ident: bb0700
  article-title: Effects of lipid chain length and unsaturation on bicelles stability. A phosphorus NMR study
  publication-title: Biophys. J.
– volume: 10
  start-page: 349
  year: 2000
  end-page: 353
  ident: bb0440
  article-title: Visualizing membrane traffic in vivo by combined video fluorescence and 3D electron microscopy
  publication-title: Trends Cell Biol.
– volume: 14
  start-page: 33
  year: 1996
  end-page: 38
  ident: bb0755
  article-title: VMD: visual molecular dynamics
  publication-title: J. Mol. Graph.
– volume: 1666
  start-page: 62
  year: 2004
  end-page: 87
  ident: bb1380
  article-title: How lipids affect the activities of integral membrane proteins
  publication-title: Biochim. Biophys. Acta
– volume: 438
  start-page: 590
  year: 2005
  end-page: 596
  ident: bb0285
  article-title: Membrane curvature and mechanisms of dynamic cell membrane remodelling
  publication-title: Nature
– volume: 19
  start-page: 1562
  year: 2011
  end-page: 1572
  ident: bb0930
  article-title: Molecular simulation approaches to membrane proteins
  publication-title: Structure
– year: 1999
  ident: bb0005
  article-title: Readings in Information Visualization: Using Vision to Think
– volume: 7
  start-page: 319
  year: 1970
  end-page: 335
  ident: bb0015
  article-title: The rapid intermixing of cell surface antigens after formation of mouse–human heterokaryons
  publication-title: J. Cell Sci.
– volume: 23
  start-page: 1350
  year: 2015
  end-page: 1361
  ident: bb0840
  article-title: MemProtMD: automated insertion of membrane protein structures into explicit lipid membranes
  publication-title: Structure
– volume: 88
  start-page: 1887
  year: 2005
  end-page: 1901
  ident: bb0705
  article-title: Reinvestigation by phosphorus NMR of lipid distribution in bicelles
  publication-title: Biophys. J.
– volume: 8
  year: 2013
  ident: bb1315
  article-title: Game on, science—how video game technology may help biologists tackle visualization challenges
  publication-title: PLoS One
– volume: 14
  start-page: 111
  year: 1998
  end-page: 136
  ident: bb0190
  article-title: Functions of lipid rafts in biological membranes
  publication-title: Annu. Rev. Cell Dev. Biol.
– volume: 31
  start-page: 84
  year: 2015
  end-page: 88
  ident: bb1400
  article-title: Bringing macromolecular machinery to life using 3D animation
  publication-title: Curr. Opin. Struct. Biol.
– volume: 110
  start-page: 12307
  year: 2013
  end-page: 12312
  ident: bb0605
  article-title: Fast spatiotemporal correlation spectroscopy to determine protein lateral diffusion laws in live cell membranes
  publication-title: Proc. Natl. Acad. Sci. U. S. A.
– volume: 11
  start-page: 103
  year: 2012
  end-page: 110
  ident: bb1475
  article-title: Visualizing protein interactions and dynamics: evolving a visual language for molecular animation
  publication-title: CBE-Life Sci. Educ.
– volume: 47
  start-page: 1986
  year: 2007
  end-page: 1994
  ident: bb0745
  article-title: ProtSqueeze: simple and effective automated tool for setting up membrane protein simulations
  publication-title: J. Chem. Inf. Model.
– volume: 10
  year: 2014
  ident: bb1490
  article-title: Watch Proteins Do the Jitterbug
– volume: 105
  start-page: 1623
  year: 1987
  end-page: 1635
  ident: bb0250
  article-title: Sorting of sphingolipids in epithelial (Madin–Darby canine kidney) cells
  publication-title: J. Cell Biol.
– volume: 271
  start-page: 182
  year: 1978
  end-page: 184
  ident: bb0240
  article-title: Neutron diffraction studies on selectively deuterated phospholipid bilayers
  publication-title: Nature
– volume: 104
  start-page: 585
  year: 2013
  end-page: 593
  ident: bb0850
  article-title: Conical lipids in flat bilayers induce packing defects similar to that induced by positive curvature
  publication-title: Biophys. J.
– volume: 122
  year: 2005
  ident: bb1235
  article-title: A generalized Born formalism for heterogeneous dielectric environments: application to the implicit modeling of biological membranes
  publication-title: J. Chem. Phys.
– volume: 73
  start-page: 1073
  year: 1997
  end-page: 1080
  ident: bb0475
  article-title: Single-molecule microscopy on model membranes reveals anomalous diffusion
  publication-title: Biophys. J.
– volume: 108
  start-page: 750
  year: 2004
  end-page: 760
  ident: bb1065
  article-title: Coarse grained model for semiquantitative lipid simulations
  publication-title: J. Phys. Chem. B
– volume: 31
  start-page: 217
  year: 2002
  end-page: 227
  ident: bb0740
  article-title: Setting up and optimization of membrane protein simulations
  publication-title: Eur. Biophys. J.
– volume: 102
  start-page: 1866
  year: 2012
  end-page: 1871
  ident: bb1095
  article-title: Molecular structure of membrane tethers
  publication-title: Biophys. J.
– volume: 105
  start-page: 4464
  year: 2001
  end-page: 4470
  ident: bb0100
  article-title: A coarse grain model for phospholipid simulations
  publication-title: J. Phys. Chem. B
– start-page: 317
  year: 2009
  end-page: 338
  ident: bb1275
  article-title: Visualization of complex processes in lipid systems using computer simulations and molecular graphics
  publication-title: Lipidomics
– start-page: 64
  year: 2018
  end-page: 71
  ident: bb1425
  article-title: 3D modelling and visualisation of heterogeneous cell membranes in Blender
  publication-title: Proceedings of the 11th International Symposium on Visual Information Communication and Interaction: ACM
– volume: 33
  start-page: 133
  year: 2016
  end-page: 134
  ident: bb1325
  article-title: FATSLiM: a fast and robust software to analyze MD simulations of membranes
  publication-title: Bioinformatics
– volume: 47
  start-page: 105
  year: 1985
  end-page: 113
  ident: bb0325
  article-title: Supported phospholipid bilayers
  publication-title: Biophys. J.
– year: 2015
  ident: bb0805
  article-title: LipidBuilder: A Framework to Build Realistic Models for Biological Membranes
– volume: 10
  start-page: 423
  year: 2013
  end-page: 431
  ident: bb1200
  article-title: Highly scalable and memory efficient ultra-coarse-grained molecular dynamics simulations
  publication-title: J. Chem. Theory Comput.
– volume: 110
  start-page: 1976
  year: 2013
  end-page: 1977
  ident: bb0995
  article-title: Entropic force between membranes reexamined
  publication-title: Proc. Natl. Acad. Sci.
– volume: 31
  start-page: 27
  year: 2010
  end-page: 32
  ident: bb1420
  article-title: BioBlender: Blender for Biologists
– volume: 5
  start-page: 4916
  year: 2014
  ident: bb0845
  article-title: A sub-nanometre view of how membrane curvature and composition modulate lipid packing and protein recruitment
  publication-title: Nat. Commun.
– volume: 17
  start-page: 192
  year: 2007
  end-page: 198
  ident: bb1045
  article-title: Multiscale modeling of biomolecular systems: in serial and in parallel
  publication-title: Curr. Opin. Struct. Biol.
– volume: 95
  start-page: 11673
  year: 1998
  end-page: 11678
  ident: bb0390
  article-title: Lipid patches in membrane protein oligomers: crystal structure of the bacteriorhodopsin–lipid complex
  publication-title: Proc. Natl. Acad. Sci. U. S. A.
– volume: 104
  start-page: 575
  year: 2013
  end-page: 584
  ident: bb1330
  article-title: Amphipathic lipid packing sensor motifs: probing bilayer defects with hydrophobic residues
  publication-title: Biophys. J.
– volume: 129
  start-page: 257
  year: 2016
  end-page: 268
  ident: bb0860
  article-title: Computational ‘microscopy’ of cellular membranes
  publication-title: J. Cell Sci.
– volume: 16
  start-page: 45
  year: 1977
  end-page: 50
  ident: bb0690
  article-title: Effect of a single cis double bond on the structures of a phospholipid bilayer
  publication-title: Biochemistry
– volume: 3
  start-page: 287
  year: 2008
  end-page: 293
  ident: bb0505
  article-title: Critical fluctuations in plasma membrane vesicles
  publication-title: ACS Chem. Biol.
– volume: 34
  start-page: 351
  year: 2005
  end-page: 378
  ident: bb0460
  article-title: Paradigm shift of the plasma membrane concept from the two-dimensional continuum fluid to the partitioned fluid: high-speed single-molecule tracking of membrane molecules
  publication-title: Annu. Rev. Biophys. Biomol. Struct.
– volume: 8
  year: 2018
  ident: bb1345
  article-title: Analyzing protein topology based on
  publication-title: Sci. Rep.
– volume: 4
  start-page: 594
  year: 2005
  end-page: 610
  ident: bb0200
  article-title: The emerging field of lipidomics
  publication-title: Nat. Rev. Drug Discov.
– volume: 277
  start-page: 1845
  year: 1997
  end-page: 1847
  ident: bb0370
  article-title: Scanning probe microscopy. Probing the future
  publication-title: Science
– volume: 11
  start-page: 2575
  year: 2017
  end-page: 2585
  ident: bb0615
  article-title: Coherent brightfield microscopy provides the spatiotemporal resolution to study early stage viral infection in live cells
  publication-title: ACS Nano
– volume: 20
  start-page: 11600
  year: 2004
  end-page: 11606
  ident: bb0410
  article-title: Vesicle adsorption and lipid bilayer formation on glass studied by atomic force microscopy
  publication-title: Langmuir
– volume: 89
  start-page: 2385
  year: 2005
  end-page: 2394
  ident: bb1245
  article-title: Multi-scale modeling of phase separation in mixed lipid bilayers
  publication-title: Biophys. J.
– volume: 15
  start-page: 690
  year: 2014
  ident: bb1430
  article-title: A guide to the visual analysis and communication of biomolecular structural data
  publication-title: Nat. Rev. Mol. Cell Biol.
– volume: 95
  start-page: 2806
  year: 2008
  end-page: 2821
  ident: bb1225
  article-title: Four-scale description of membrane sculpting by BAR domains
  publication-title: Biophys. J.
– volume: 348
  start-page: 624
  year: 1990
  ident: bb0980
  article-title: Computer simulations of a water/oil interface in the presence of micelles
  publication-title: Nature
– volume: 433
  start-page: 264
  year: 1976
  end-page: 270
  ident: bb0050
  article-title: Computer simulation of model lipid membrane dynamics
  publication-title: Biochim. Biophys. Acta Biomembr.
– volume: 123
  start-page: 71
  year: 2018
  end-page: 78
  ident: bb1020
  article-title: Molecular mechanism of the cell membrane pore formation induced by bubble stable cavitation
  publication-title: J. Phys. Chem. B
– volume: 40
  start-page: 8
  year: 2016
  end-page: 16
  ident: bb0945
  article-title: Molecular dynamics simulations of membrane proteins and their interactions: from nanoscale to mesoscale
  publication-title: Curr. Opin. Struct. Biol.
– volume: 128
  start-page: 2697
  year: 2006
  end-page: 2704
  ident: bb1070
  article-title: Insertion and assembly of membrane proteins via simulation
  publication-title: J. Am. Chem. Soc.
– volume: 14
  year: 2018
  ident: bb1505
  article-title: Ten simple rules to create a serious game, illustrated with examples from structural biology
  publication-title: PLoS Comput. Biol.
– volume: 17
  start-page: 3310
  year: 1978
  end-page: 3315
  ident: bb0695
  article-title: Molecular order in cis and trans unsaturated phospholipid bilayers
  publication-title: Biochemistry
– volume: 277
  start-page: 26966
  year: 2002
  end-page: 26970
  ident: bb0235
  article-title: Placental alkaline phosphatase is efficiently targeted to rafts in supported lipid bilayers
  publication-title: J. Biol. Chem.
– volume: 111
  start-page: 2689
  year: 2016
  end-page: 2697
  ident: bb1165
  article-title: Toward hydrodynamics with solvent free lipid models: STRD Martini
  publication-title: Biophys. J.
– volume: 40
  year: 2016
  ident: bb1460
  article-title: Cellular landscapes in watercolor
  publication-title: J. Biocommun.
– volume: 6
  year: 2011
  ident: bb0550
  article-title: Super-resolution dynamic imaging of dendritic spines using a low-affinity photoconvertible actin probe
  publication-title: PLoS One
– volume: 93
  start-page: 2877
  year: 2007
  end-page: 2891
  ident: bb0585
  article-title: Visualization of membrane rafts using a perylene monoimide derivative and fluorescence lifetime imaging
  publication-title: Biophys. J.
– volume: 4
  year: 2018
  ident: bb0675
  article-title: Oriented chiral water wires in artificial transmembrane channels
  publication-title: Sci. Adv.
– volume: 30
  start-page: 1478
  year: 2014
  end-page: 1480
  ident: bb1355
  article-title: MEMBPLUGIN: studying membrane complexity in VMD
  publication-title: Bioinformatics
– volume: 1724
  start-page: 248
  year: 2005
  end-page: 254
  ident: bb0590
  article-title: New insights in the visualization of membrane permeabilization and DNA/membrane interaction of cells submitted to electric pulses
  publication-title: Biochim. Biophys. Acta
– volume: 30
  start-page: 1952
  year: 2009
  end-page: 1958
  ident: bb1350
  article-title: GridMAT
  publication-title: J. Comput. Chem.
– volume: 246
  start-page: 58
  year: 1982
  end-page: 66
  ident: bb0255
  article-title: How an animal virus gets into and out of its host cell
  publication-title: Sci. Am.
– volume: 103
  start-page: 89
  year: 1990
  end-page: 94
  ident: bb0225
  article-title: Wet lipid–protein membranes imaged at submolecular resolution by atomic force microscopy
  publication-title: J. Struct. Biol.
– volume: 1848
  start-page: 1319
  year: 2015
  end-page: 1330
  ident: bb0955
  article-title: Characterization of thylakoid lipid membranes from cyanobacteria and higher plants by molecular dynamics simulations
  publication-title: Biochim. Biophys. Acta Biomembr.
– volume: 93
  year: 2004
  ident: bb1255
  article-title: Brownian dynamics in Fourier space: membrane simulations over long length and time scales
  publication-title: Phys. Rev. Lett.
– volume: 438
  start-page: 581
  year: 2005
  end-page: 589
  ident: bb0120
  article-title: Solving the membrane protein folding problem
  publication-title: Nature
– volume: 6
  year: 2016
  ident: bb0515
  article-title: Lipid membrane-mediated attraction between curvature inducing objects
  publication-title: Sci. Rep.
– volume: 279
  start-page: 38095
  year: 2004
  end-page: 38098
  ident: bb0660
  article-title: Fluorescent biosensor for quantitative real-time measurements of inositol 1,4,5-trisphosphate in single living cells
  publication-title: J. Biol. Chem.
– volume: 29
  start-page: 4031
  year: 1990
  end-page: 4037
  ident: bb0090
  article-title: Membrane protein folding and oligomerization: the two-stage model
  publication-title: Biochemistry
– volume: 11
  start-page: 593
  year: 2010
  end-page: 598
  ident: bb0205
  article-title: Lipidomics: coming to grips with lipid diversity
  publication-title: Nat. Rev. Mol. Cell Biol.
– volume: 4
  start-page: 225
  year: 2014
  end-page: 248
  ident: bb0910
  article-title: The power of coarse graining in biomolecular simulations
  publication-title: Wiley Interdiscip. Rev. Comput. Mol. Sci.
– volume: 4
  start-page: 225
  year: 2005
  ident: bb1210
  article-title: Tension-induced fusion of bilayer membranes and vesicles
  publication-title: Nat. Mater.
– start-page: 1
  year: 2016
  end-page: 25
  ident: bb0720
  article-title: A molecular look at membranes
  publication-title: Current Topics in Membranes
– year: 2016
  ident: bb1435
  article-title: Eukaryo: Virtual Reality Simulation of a Cell
– volume: 168
  start-page: 1580
  year: 1970
  end-page: 1582
  ident: bb0030
  article-title: Calorimetric detection of a membrane-lipid phase transition in living cells
  publication-title: Science
– volume: 9
  start-page: 3639
  year: 2013
  end-page: 3646
  ident: bb1295
  article-title: Membrane perturbation by carbon nanotube insertion: pathways to internalization
  publication-title: Small
– volume: 6
  year: 2011
  ident: bb1055
  article-title: The ELBA force field for coarse-grain modeling of lipid membranes
  publication-title: PLoS One
– start-page: 359
  year: 2004
  end-page: 426
  ident: bb1270
  article-title: Triangulated-surface models of fluctuating membranes
  publication-title: Statistical Mechanics of Membranes and Surfaces
– volume: 169
  start-page: 455
  year: 2014
  end-page: 475
  ident: bb1290
  article-title: Methodologies for the analysis of instantaneous lipid diffusion in MD simulations of large membrane systems
  publication-title: Faraday Discuss.
– volume: 343
  start-page: 1443
  year: 2014
  end-page: 1444
  ident: bb0425
  article-title: Biochemistry. The resolution revolution
  publication-title: Science
– volume: 1828
  start-page: 1765
  year: 2013
  end-page: 1776
  ident: bb0935
  article-title: Computer simulations of lipid membrane domains
  publication-title: Biochim. Biophys. Acta
– volume: 88
  start-page: 4045
  year: 2005
  end-page: 4053
  ident: bb1015
  article-title: Membrane electroporation: a molecular dynamics simulation
  publication-title: Biophys. J.
– volume: 1664
  start-page: 198
  year: 2004
  end-page: 205
  ident: bb0480
  article-title: Real-time imaging of drug–membrane interactions by atomic force microscopy
  publication-title: Biochim. Biophys. Acta
– volume: 43
  start-page: 1939
  year: 2004
  end-page: 1949
  ident: bb0655
  article-title: A ratiometric expressible FRET sensor for phosphoinositides displays a signal change in highly dynamic membrane structures in fibroblasts
  publication-title: Biochemistry
– volume: 113
  start-page: 1496
  year: 2017
  end-page: 1504
  ident: bb1000
  article-title: Braun's lipoprotein facilitates OmpA interaction with the
  publication-title: Biophys. J.
– volume: 335
  start-page: 1355
  year: 2012
  end-page: 1359
  ident: bb0430
  article-title: SNARE proteins: one to fuse and three to keep the nascent fusion pore open
  publication-title: Science
– volume: 25
  start-page: 483
  year: 2015
  end-page: 491
  ident: bb1300
  article-title: Three-dimensional representations of complex carbohydrates and polysaccharides—SweetUnityMol: a video game-based computer graphic software
  publication-title: Glycobiology
– volume: 360
  year: 2018
  ident: bb0575
  article-title: Observing the cell in its native state: Imaging subcellular dynamics in multicellular organisms
  publication-title: Science
– volume: 109
  start-page: 2469
  year: 2005
  end-page: 2473
  ident: bb1080
  article-title: A multiscale coarse-graining method for biomolecular systems
  publication-title: J. Phys. Chem. B
– volume: 288
  start-page: 143
  year: 2000
  end-page: 146
  ident: bb0495
  article-title: Unfolding pathways of individual bacteriorhodopsins
  publication-title: Science
– volume: 91
  start-page: 11631
  year: 1994
  end-page: 11635
  ident: bb1010
  article-title: Molecular dynamics simulation of the gramicidin channel in a phospholipid bilayer
  publication-title: Proc. Natl. Acad. Sci. U. S. A.
– volume: 31
  start-page: 1117
  year: 2010
  end-page: 1125
  ident: bb0890
  article-title: A new force field for simulating phosphatidylcholine bilayers
  publication-title: J. Comput. Chem.
– volume: 35
  start-page: 104
  year: 2006
  end-page: 124
  ident: bb1160
  article-title: Implicit solvent simulation models for biomembranes
  publication-title: Eur. Biophys. J. Biophys. Lett.
– volume: 1
  start-page: 78
  year: 1996
  end-page: 82
  ident: bb0715
  article-title: Molecular and collective dynamics of lipid bilayers
  publication-title: Curr. Opin. Colloid Interface Sci.
– volume: 175
  start-page: 720
  year: 1972
  end-page: 731
  ident: bb0035
  article-title: The fluid mosaic model of the structure of cell membranes
  publication-title: Science
– volume: 417
  start-page: 515
  year: 2002
  end-page: 522
  ident: bb0160
  article-title: Crystal structure and mechanism of a calcium-gated potassium channel
  publication-title: Nature
– volume: 8
  start-page: 3880
  year: 2012
  end-page: 3894
  ident: bb1285
  article-title: Mixing atomistic and coarse grain solvation models for MD simulations: let WT4 handle the bulk
  publication-title: J. Chem. Theory Comput.
– volume: 318
  start-page: 618
  year: 1985
  end-page: 624
  ident: bb0085
  article-title: Structure of the protein subunits in the photosynthetic reaction centre of
  publication-title: Nature
– volume: 121
  start-page: 3871
  year: 2017
  end-page: 3881
  ident: bb0135
  article-title: Challenges of integrating stochastic dynamics and cryo-electron tomograms in whole-cell simulations
  publication-title: J. Phys. Chem. B
– volume: 327
  start-page: 46
  year: 2010
  end-page: 50
  ident: bb0265
  article-title: Lipid rafts as a membrane-organizing principle
  publication-title: Science
– volume: 106
  start-page: 2503
  year: 2014
  end-page: 2510
  ident: bb1005
  article-title: Light harvesting by lamellar chromatophores in
  publication-title: Biophys. J.
– volume: 3
  year: 2014
  ident: bb0345
  article-title: A lipid bound actin meshwork organizes liquid phase separation in model membranes
  publication-title: Elife
– volume: 282
  start-page: 33537
  year: 2007
  end-page: 33544
  ident: bb0510
  article-title: Effect of line tension on the lateral organization of lipid membranes
  publication-title: J. Biol. Chem.
– volume: 162
  start-page: 121
  year: 2008
  end-page: 138
  ident: bb0230
  article-title: Cationic peptide-induced remodelling of model membranes: direct visualization by in situ atomic force microscopy
  publication-title: J. Struct. Biol.
– volume: 4
  start-page: 98
  year: 2016
  ident: bb0545
  article-title: Super-resolution imaging of plasma membrane proteins with click chemistry
  publication-title: Front. Cell Dev. Biol.
– volume: 10
  start-page: 1118
  year: 2018
  end-page: 1125
  ident: bb0650
  article-title: A fluorescent membrane tension probe
  publication-title: Nat. Chem.
– volume: 22
  start-page: 175
  year: 2012
  end-page: 186
  ident: bb1050
  article-title: Computer simulation studies of self-assembling macromolecules
  publication-title: Curr. Opin. Struct. Biol.
– volume: 5
  year: 2013
  ident: bb0800
  article-title: Membrane packing problems: a short review on computational membrane modeling methods and tools
  publication-title: Comput. Struct. Biotechnol. J.
– volume: 106
  start-page: 2493
  year: 2014
  end-page: 2502
  ident: bb0960
  article-title: E. coli outer membrane and interactions with OmpLA
  publication-title: Biophys. J.
– volume: 14
  start-page: 662
  year: 2017
  end-page: 665
  ident: bb1395
  article-title: Towards a perceptive understanding of size in cellular biology
  publication-title: Nat. Methods
– volume: 68
  start-page: 673
  year: 1992
  end-page: 682
  ident: bb0295
  article-title: Caveolin, a protein component of caveolae membrane coats
  publication-title: Cell
– volume: 113
  start-page: 2271
  year: 2017
  end-page: 2280
  ident: bb0820
  article-title: Computational lipidomics of the neuronal plasma membrane
  publication-title: Biophys. J.
– volume: 169
  start-page: 9
  year: 2014
  end-page: 22
  ident: bb1525
  article-title: Molecular simulations and visualization: introduction and overview
  publication-title: Faraday Discuss.
– volume: 19
  start-page: 892
  year: 2000
  end-page: 901
  ident: bb0445
  article-title: Properties of lipid microdomains in a muscle cell membrane visualized by single molecule microscopy
  publication-title: EMBO J.
– volume: 43
  start-page: 4871
  year: 2014
  end-page: 4893
  ident: bb1170
  article-title: The OPEP protein model: from single molecules, amyloid formation, crowding and hydrodynamics to DNA/RNA systems
  publication-title: Chem. Soc. Rev.
– volume: 1858
  start-page: 1610
  year: 2016
  end-page: 1618
  ident: bb1135
  article-title: Computational virology: From the inside out
  publication-title: Biochim. Biophys. Acta
– volume: 120
  start-page: 8722
  year: 2016
  end-page: 8732
  ident: bb1195
  article-title: Divergent diffusion coefficients in simulations of fluids and lipid membranes
  publication-title: J. Phys. Chem. B
– volume: 287
  start-page: 317
  year: 1980
  ident: bb0055
  article-title: Simulation of a lipid monolayer using molecular dynamics
  publication-title: Nature
– volume: 45
  start-page: 491
  year: 2017
  end-page: 500
  ident: bb1500
  article-title: Creating 3D physical models to probe student understanding of macromolecular structure
  publication-title: Biochem. Mol. Biol. Educ.
– volume: 61
  start-page: 434
  year: 1992
  end-page: 447
  ident: bb0215
  article-title: Structure of a fluid dioleoylphosphatidylcholine bilayer determined by joint refinement of x-ray and neutron diffraction data. III. Complete structure
  publication-title: Biophys. J.
– volume: 35
  start-page: 1997
  year: 2014
  end-page: 2004
  ident: bb0770
  article-title: CHARMM
  publication-title: J. Comput. Chem.
– volume: 9
  year: 2013
  ident: bb1215
  article-title: Membrane sculpting by F-BAR domains studied by molecular dynamics simulations
  publication-title: PLoS Comput. Biol.
– volume: 109
  start-page: 20455
  year: 2012
  end-page: 20460
  ident: bb0415
  article-title: Direct three-dimensional visualization of membrane disruption by amyloid fibrils
  publication-title: Proc. Natl. Acad. Sci. U. S. A.
– volume: 11
  start-page: 260
  year: 2015
  end-page: 275
  ident: bb1150
  article-title: Dry Martini, a coarse-grained force field for lipid membrane simulations with implicit solvent
  publication-title: J. Chem. Theory Comput.
– volume: 13
  start-page: 347
  year: 2005
  end-page: 354
  ident: bb1450
  article-title: Visual methods from atoms to cells
  publication-title: Structure
– volume: 321
  start-page: 1206
  year: 2008
  end-page: 1210
  ident: bb0140
  article-title: Solution structure of the integral human membrane protein VDAC-1 in detergent micelles
  publication-title: Science
– volume: 105
  start-page: 6122
  year: 2001
  end-page: 6127
  ident: bb0990
  article-title: Effect of undulations on surface tension in simulated bilayers
  publication-title: J. Phys. Chem. B
– volume: 114
  start-page: 11207
  year: 2010
  end-page: 11220
  ident: bb1155
  article-title: A systematically coarse-grained solvent-free model for quantitative phospholipid bilayer simulations
  publication-title: J. Phys. Chem. B
– volume: 45
  start-page: 649
  year: 1970
  end-page: 653
  ident: bb0010
  article-title: Demonstration of the outer surface of freeze-etched red blood cell membranes
  publication-title: J. Cell Biol.
– volume: 89
  start-page: 4029
  year: 2005
  end-page: 4042
  ident: bb0530
  article-title: Fluorescence correlation spectroscopy diffusion laws to probe the submicron cell membrane organization
  publication-title: Biophys. J.
– volume: 114
  start-page: 7830
  year: 2010
  end-page: 7843
  ident: bb0885
  article-title: Update of the CHARMM all-atom additive force field for lipids: validation on six lipid types
  publication-title: J. Phys. Chem. B
– volume: 48
  start-page: 215
  year: 1979
  end-page: 236
  ident: bb1390
  article-title: On two-dimensional passive random walk in lipid bilayers and fluid pathways in biomembranes
  publication-title: J. Membr. Biol.
– volume: 96
  start-page: 101
  year: 2009
  end-page: 115
  ident: bb1265
  article-title: Membrane–protein interactions in a generic coarse-grained model for lipid bilayers
  publication-title: Biophys. J.
– volume: 156
  start-page: 197
  year: 1997
  end-page: 211
  ident: bb0180
  article-title: Structure and functions of channel-forming peptides: magainins, cecropins, melittin and alamethicin
  publication-title: J. Membr. Biol.
– volume: 32
  start-page: 2319
  year: 2011
  end-page: 2327
  ident: bb1360
  article-title: MDAnalysis: a toolkit for the analysis of molecular dynamics simulations
  publication-title: J. Comput. Chem.
– start-page: 61
  year: 2015
  ident: bb1440
  article-title: cellVIEW: a tool for illustrative and multi-scale rendering of large biomolecular datasets
  publication-title: Eurographics Workshop on Visual Computing for Biomedicine: NIH Public Access
– volume: 84
  start-page: 842
  year: 2003
  end-page: 853
  ident: bb1260
  article-title: Regulation of protein mobility via thermal membrane undulations
  publication-title: Biophys. J.
– volume: 39
  start-page: 91
  year: 2011
  end-page: 101
  ident: bb1465
  article-title: Eukaryotic cell panorama
  publication-title: Biochem. Mol. Biol. Educ.
– volume: 11
  start-page: 688
  year: 2010
  end-page: 699
  ident: bb0560
  article-title: Revitalizing membrane rafts: new tools and insights
  publication-title: Nat. Rev. Mol. Cell Biol.
– volume: 169
  start-page: 209
  year: 2014
  end-page: 223
  ident: bb1335
  article-title: NRas slows the rate at which a model lipid bilayer phase separates
  publication-title: Faraday Discuss.
– volume: 40
  start-page: 291
  year: 2012
  end-page: 296
  ident: bb1455
  article-title: Illustrating the machinery of life: viruses
  publication-title: Biochem. Mol. Biol. Educ.
– volume: 53
  start-page: 2908
  year: 2013
  end-page: 2925
  ident: bb1320
  article-title: APL@ Voro: a voronoi-based membrane analysis tool for GROMACS trajectories
  publication-title: J. Chem. Inf. Model.
– volume: 93
  start-page: 14532
  year: 1996
  end-page: 14535
  ident: bb0110
  article-title: Lipidic cubic phases: a novel concept for the crystallization of membrane proteins
  publication-title: Proc. Natl. Acad. Sci. U. S. A.
– volume: 26
  start-page: 106
  year: 2001
  end-page: 112
  ident: bb0385
  article-title: Probing the interface between membrane proteins and membrane lipids by x-ray crystallography
  publication-title: Trends Biochem. Sci.
– volume: 105
  start-page: 1161
  year: 2013
  end-page: 1170
  ident: bb1240
  article-title: Coexistence of fluid and crystalline phases of proteins in photosynthetic membranes
  publication-title: Biophys. J.
– volume: 51
  year: 2018
  ident: bb0315
  article-title: The 2018 biomembrane curvature and remodeling roadmap
  publication-title: J. Phys. D. Appl. Phys.
– volume: 137
  start-page: 14694
  year: 2015
  end-page: 14704
  ident: bb1105
  article-title: Organization and dynamics of receptor proteins in a plasma membrane
  publication-title: J. Am. Chem. Soc.
– volume: 97
  start-page: 8343
  year: 1993
  end-page: 8360
  ident: bb0060
  article-title: Molecular dynamics simulation of a bilayer of 200 lipids in the gel and in the liquid crystal phase
  publication-title: J. Phys. Chem.
– volume: 109
  start-page: 461
  year: 2015
  end-page: 468
  ident: bb0815
  article-title: Molecular simulations of gram-negative bacterial membranes: a vignette of some recent successes
  publication-title: Biophys. J.
– volume: 15
  start-page: 1
  year: 2018
  end-page: 20
  ident: bb1520
  article-title: MinOmics, an integrative and immersive tool for multi-omics analysis
  publication-title: J. Integr. Bioinforma.
– volume: 28
  start-page: 319
  year: 1999
  end-page: 365
  ident: bb0125
  article-title: Membrane protein folding and stability: physical principles
  publication-title: Annu. Rev. Biophys. Biomol. Struct.
– volume: 8
  start-page: 223
  year: 2010
  end-page: 246
  ident: bb1495
  article-title: Critical features of visualizations of transport through the cell membrane-an empirical study of upper secondary and tertiary students' meaning-making of a still image and an animation
  publication-title: Int. J. Sci. Math. Educ.
– volume: 19
  start-page: 625
  year: 1987
  end-page: 653
  ident: bb0400
  article-title: Nuclear magnetic resonance methods to characterize lipid–protein interactions at membrane surfaces
  publication-title: J. Bioenerg. Biomembr.
– volume: 133
  start-page: 1127
  year: 2008
  end-page: 1132
  ident: bb1405
  article-title: Molecular movies… coming to a lecture near you
  publication-title: Cell
– volume: 55
  start-page: 1048
  year: 1966
  end-page: 1056
  ident: bb0290
  article-title: Fracture faces of frozen membranes
  publication-title: Proc. Natl. Acad. Sci. U. S. A.
– volume: 45
  start-page: 133
  year: 2017
  end-page: 141
  ident: bb0835
  article-title: Computational studies of membrane proteins: from sequence to structure to simulation
  publication-title: Curr. Opin. Struct. Biol.
– volume: 18
  start-page: 361
  year: 2017
  end-page: 374
  ident: bb0565
  article-title: The mystery of membrane organization: composition, regulation and roles of lipid rafts
  publication-title: Nat. Rev. Mol. Cell Biol.
– volume: 47
  start-page: 115
  year: 1970
  end-page: 117
  ident: bb0025
  article-title: X-ray diffraction studies of phase transitions in the membrane of
  publication-title: J. Mol. Biol.
– volume: 10
  start-page: 1548
  year: 2009
  end-page: 1552
  ident: bb1120
  article-title: Coarse-grain simulations of the R-SNARE fusion protein in its membrane environment detect long-lived conformational sub-states
  publication-title: Chemphyschem
– volume: 3
  year: 2014
  ident: bb0375
  article-title: Stepwise visualization of membrane pore formation by suilysin, a bacterial cholesterol-dependent cytolysin
  publication-title: Elife
– volume: 128
  start-page: 243
  year: 1999
  end-page: 249
  ident: bb0380
  article-title: Charting the surfaces of the purple membrane
  publication-title: J. Struct. Biol.
– volume: 105
  start-page: 14277
  year: 2008
  end-page: 14282
  ident: bb0665
  article-title: Quantitative visualization of passive transport across bilayer lipid membranes
  publication-title: Proc. Natl. Acad. Sci. U. S. A.
– volume: 15
  year: 2018
  ident: bb1510
  article-title: From virtual reality to immersive analytics in bioinformatics
  publication-title: J. Integr. Bioinformatics
– volume: 50
  start-page: 191
  year: 2011
  end-page: 195
  ident: bb1310
  article-title: Electrostatically-driven fast association and perdeuteration allow detection of transferred cross-relaxation for G protein-coupled receptor ligands with equilibrium dissociation constants in the high-to-low nanomolar range
  publication-title: J. Biomol. NMR
– volume: 219
  start-page: 47
  year: 1970
  end-page: 60
  ident: bb0320
  article-title: Lamellar and hexagonal lipid phases visualized by freeze-etching
  publication-title: Biochim. Biophys. Acta
– volume: 134
  start-page: 10959
  year: 2012
  end-page: 10965
  ident: bb1185
  article-title: Structural determinants of the supramolecular organization of G protein-coupled receptors in bilayers
  publication-title: J. Am. Chem. Soc.
– volume: 5
  start-page: 1803
  year: 2009
  end-page: 1813
  ident: bb0895
  article-title: United atom lipid parameters for combination with the optimized potentials for liquid simulations all-atom force field
  publication-title: J. Chem. Theory Comput.
– volume: 8
  start-page: 660
  year: 1964
  end-page: 668
  ident: bb0310
  article-title: Negative staining of phospholipids and their structural modification by surface-active agents as observed in the electron microscope
  publication-title: J. Mol. Biol.
– volume: 15
  year: 2018
  ident: bb1515
  article-title: Semantics for an integrative and immersive pipeline combining visualization and analysis of molecular data
  publication-title: J. Integr. Bioinformatics
– volume: 12
  start-page: 85
  year: 2014
  ident: bb0855
  article-title: cellPACK: a virtual mesoscope to model and visualize structural systems biology
  publication-title: Nat. Methods
– volume: 44
  start-page: 743
  year: 2018
  end-page: 748
  ident: bb0965
  article-title: Correlation between experimentally indicated and atomistically simulated roles of EGFR
  publication-title: Mol. Simul.
– volume: 98
  start-page: 2358
  year: 2001
  end-page: 2363
  ident: bb0145
  article-title: Transverse relaxation-optimized NMR spectroscopy with the outer membrane protein OmpX in dihexanoyl phosphatidylcholine micelles
  publication-title: Proc. Natl. Acad. Sci. U. S. A.
– volume: 6
  start-page: 413
  year: 2015
  end-page: 418
  ident: bb1025
  article-title: Sonoporation at small and large length scales: effect of cavitation bubble collapse on membranes
  publication-title: J. Phys. Chem. Lett.
– volume: 32
  start-page: 12624
  year: 1993
  end-page: 12637
  ident: bb0070
  article-title: Solute diffusion in lipid bilayer membranes: an atomic level study by molecular dynamics simulation
  publication-title: Biochemistry
– volume: 457
  start-page: 1159
  year: 2009
  end-page: 1162
  ident: bb0450
  article-title: Direct observation of the nanoscale dynamics of membrane lipids in a living cell
  publication-title: Nature
– volume: 62
  start-page: 1
  year: 1974
  end-page: 19
  ident: bb1370
  article-title: The organization of proteins in the human red blood cell membrane. A review
  publication-title: J. Cell Biol.
– volume: 12
  start-page: 1049
  year: 2011
  end-page: 1055
  ident: bb1110
  article-title: Caught in the act: visualization of SNARE-mediated fusion events in molecular detail
  publication-title: Chembiochem
– volume: 5
  start-page: 10
  year: 2004
  ident: bb0115
  article-title: The molecular basis of electroporation
  publication-title: BMC Biochem.
– volume: 349
  start-page: 475
  year: 1991
  end-page: 481
  ident: bb0275
  article-title: The conformation of membranes
  publication-title: Nature
– volume: 3
  year: 2008
  ident: bb0340
  article-title: Destabilization of the dystrophin-glycoprotein complex without functional deficits in alpha-dystrobrevin null muscle
  publication-title: PLoS One
– volume: 180
  start-page: 134
  year: 1957
  ident: bb0040
  article-title: A general theory of membrane transport from studies of bacteria
  publication-title: Nature
– volume: 104
  start-page: 17370
  year: 2007
  end-page: 17375
  ident: bb0335
  article-title: Dynamic clustered distribution of hemagglutinin resolved at 40 nm in living cell membranes discriminates between raft theories
  publication-title: Proc. Natl. Acad. Sci. U. S. A.
– volume: 257
  start-page: 28
  year: 1975
  end-page: 32
  ident: bb0045
  article-title: Three-dimensional model of purple membrane obtained by electron microscopy
  publication-title: Nature
– volume: 35
  start-page: 482
  year: 2002
  end-page: 489
  ident: bb1030
  article-title: Computer simulation studies of model biological membranes
  publication-title: Acc. Chem. Res.
– volume: 103
  start-page: 11916
  year: 2006
  end-page: 11921
  ident: bb1125
  article-title: Ensemble molecular dynamics yields submillisecond kinetics and intermediates of membrane fusion
  publication-title: Proc. Natl. Acad. Sci. U. S. A.
– volume: 42
  start-page: 6801
  year: 2013
  end-page: 6822
  ident: bb1040
  article-title: Perspective on the Martini model
  publication-title: Chem. Soc. Rev.
– volume: 88
  start-page: 3745
  year: 2005
  end-page: 3761
  ident: bb0875
  article-title: Imaging alpha-hemolysin with molecular dynamics: ionic conductance, osmotic permeability, and the electrostatic potential map
  publication-title: Biophys. J.
– volume: 86
  start-page: 3496
  year: 2004
  end-page: 3509
  ident: bb0880
  article-title: Lipid bilayer pressure profiles and mechanosensitive channel gating
  publication-title: Biophys. J.
– volume: 45
  start-page: 649
  year: 1970
  ident: 10.1016/j.jmb.2019.02.018_bb0010
  article-title: Demonstration of the outer surface of freeze-etched red blood cell membranes
  publication-title: J. Cell Biol.
  doi: 10.1083/jcb.45.3.649
– volume: 123
  start-page: 71
  year: 2018
  ident: 10.1016/j.jmb.2019.02.018_bb1020
  article-title: Molecular mechanism of the cell membrane pore formation induced by bubble stable cavitation
  publication-title: J. Phys. Chem. B
  doi: 10.1021/acs.jpcb.8b09391
– volume: 12
  year: 2017
  ident: 10.1016/j.jmb.2019.02.018_bb1220
  article-title: Static and dynamic light scattering by red blood cells: a numerical study
  publication-title: PLoS One
  doi: 10.1371/journal.pone.0176799
– volume: 128
  start-page: 2697
  year: 2006
  ident: 10.1016/j.jmb.2019.02.018_bb1070
  article-title: Insertion and assembly of membrane proteins via simulation
  publication-title: J. Am. Chem. Soc.
  doi: 10.1021/ja0569104
– volume: 113
  start-page: 2271
  year: 2017
  ident: 10.1016/j.jmb.2019.02.018_bb0820
  article-title: Computational lipidomics of the neuronal plasma membrane
  publication-title: Biophys. J.
  doi: 10.1016/j.bpj.2017.10.017
– volume: 93
  start-page: 14532
  year: 1996
  ident: 10.1016/j.jmb.2019.02.018_bb0110
  article-title: Lipidic cubic phases: a novel concept for the crystallization of membrane proteins
  publication-title: Proc. Natl. Acad. Sci. U. S. A.
  doi: 10.1073/pnas.93.25.14532
– volume: 12
  start-page: 1049
  year: 2011
  ident: 10.1016/j.jmb.2019.02.018_bb1110
  article-title: Caught in the act: visualization of SNARE-mediated fusion events in molecular detail
  publication-title: Chembiochem
  doi: 10.1002/cbic.201100020
– volume: 14
  start-page: 662
  year: 2017
  ident: 10.1016/j.jmb.2019.02.018_bb1395
  article-title: Towards a perceptive understanding of size in cellular biology
  publication-title: Nat. Methods
  doi: 10.1038/nmeth.4300
– volume: 33
  start-page: 13204
  year: 2013
  ident: 10.1016/j.jmb.2019.02.018_bb0555
  article-title: Super-resolution imaging reveals that AMPA receptors inside synapses are dynamically organized in nanodomains regulated by PSD95
  publication-title: J. Neurosci.
  doi: 10.1523/JNEUROSCI.2381-12.2013
– volume: 8
  start-page: 365
  year: 1998
  ident: 10.1016/j.jmb.2019.02.018_bb0640
  article-title: Laurdan and Prodan as polarity-sensitive fluorescent membrane probes
  publication-title: J. Fluoresc.
  doi: 10.1023/A:1020528716621
– volume: 44
  start-page: 743
  year: 2018
  ident: 10.1016/j.jmb.2019.02.018_bb0965
  article-title: Correlation between experimentally indicated and atomistically simulated roles of EGFR N-glycosylation
  publication-title: Mol. Simul.
  doi: 10.1080/08927022.2018.1447108
– volume: 9
  year: 2013
  ident: 10.1016/j.jmb.2019.02.018_bb1090
  article-title: Formation of raft-like assemblies within clusters of influenza hemagglutinin observed by MD simulations
  publication-title: PLoS Comput. Biol.
  doi: 10.1371/journal.pcbi.1003034
– volume: 11
  start-page: 2575
  year: 2017
  ident: 10.1016/j.jmb.2019.02.018_bb0615
  article-title: Coherent brightfield microscopy provides the spatiotemporal resolution to study early stage viral infection in live cells
  publication-title: ACS Nano
  doi: 10.1021/acsnano.6b05601
– volume: 1828
  start-page: 1765
  year: 2013
  ident: 10.1016/j.jmb.2019.02.018_bb0935
  article-title: Computer simulations of lipid membrane domains
  publication-title: Biochim. Biophys. Acta
  doi: 10.1016/j.bbamem.2013.03.004
– start-page: 61
  year: 2015
  ident: 10.1016/j.jmb.2019.02.018_bb1440
  article-title: cellVIEW: a tool for illustrative and multi-scale rendering of large biomolecular datasets
– volume: 97
  start-page: 2630
  year: 2009
  ident: 10.1016/j.jmb.2019.02.018_bb0635
  article-title: Diffusion, transport, and cell membrane organization investigated by imaging fluorescence cross-correlation spectroscopy
  publication-title: Biophys. J.
  doi: 10.1016/j.bpj.2009.08.025
– volume: 110
  start-page: 14829
  year: 2013
  ident: 10.1016/j.jmb.2019.02.018_bb0080
  article-title: Brown and Goldstein: the cholesterol chronicles
  publication-title: Proc. Natl. Acad. Sci. U. S. A.
  doi: 10.1073/pnas.1315180110
– volume: 15
  year: 2018
  ident: 10.1016/j.jmb.2019.02.018_bb1510
  article-title: From virtual reality to immersive analytics in bioinformatics
  publication-title: J. Integr. Bioinformatics
  doi: 10.1515/jib-2018-0043
– volume: 106
  start-page: 2493
  year: 2014
  ident: 10.1016/j.jmb.2019.02.018_bb0960
  article-title: E. coli outer membrane and interactions with OmpLA
  publication-title: Biophys. J.
  doi: 10.1016/j.bpj.2014.04.024
– volume: 30
  start-page: 1952
  year: 2009
  ident: 10.1016/j.jmb.2019.02.018_bb1350
  article-title: GridMAT−MD: a grid−based membrane analysis tool for use with molecular dynamics
  publication-title: J. Comput. Chem.
  doi: 10.1002/jcc.21172
– volume: 24
  start-page: 293
  year: 1991
  ident: 10.1016/j.jmb.2019.02.018_bb0680
  article-title: Physical properties of the fluid lipid-bilayer component of cell membranes: a perspective
  publication-title: Q. Rev. Biophys.
  doi: 10.1017/S0033583500003735
– volume: 271
  start-page: 182
  year: 1978
  ident: 10.1016/j.jmb.2019.02.018_bb0240
  article-title: Neutron diffraction studies on selectively deuterated phospholipid bilayers
  publication-title: Nature
  doi: 10.1038/271182a0
– volume: 7
  start-page: 909
  year: 1999
  ident: 10.1016/j.jmb.2019.02.018_bb0360
  article-title: Protein, lipid and water organization in bacteriorhodopsin crystals: a molecular view of the purple membrane at 1.9 Å resolution
  publication-title: Structure
  doi: 10.1016/S0969-2126(99)80118-X
– volume: 169
  start-page: 455
  year: 2014
  ident: 10.1016/j.jmb.2019.02.018_bb1290
  article-title: Methodologies for the analysis of instantaneous lipid diffusion in MD simulations of large membrane systems
  publication-title: Faraday Discuss.
  doi: 10.1039/C3FD00145H
– volume: 1848
  start-page: 1319
  year: 2015
  ident: 10.1016/j.jmb.2019.02.018_bb0955
  article-title: Characterization of thylakoid lipid membranes from cyanobacteria and higher plants by molecular dynamics simulations
  publication-title: Biochim. Biophys. Acta Biomembr.
  doi: 10.1016/j.bbamem.2015.02.025
– volume: 29
  start-page: 4031
  year: 1990
  ident: 10.1016/j.jmb.2019.02.018_bb0090
  article-title: Membrane protein folding and oligomerization: the two-stage model
  publication-title: Biochemistry
  doi: 10.1021/bi00469a001
– volume: 91
  start-page: 1357
  year: 2006
  ident: 10.1016/j.jmb.2019.02.018_bb0700
  article-title: Effects of lipid chain length and unsaturation on bicelles stability. A phosphorus NMR study
  publication-title: Biophys. J.
  doi: 10.1529/biophysj.106.085118
– volume: 180
  start-page: 134
  year: 1957
  ident: 10.1016/j.jmb.2019.02.018_bb0040
  article-title: A general theory of membrane transport from studies of bacteria
  publication-title: Nature
  doi: 10.1038/180134a0
– volume: 108
  start-page: 750
  year: 2004
  ident: 10.1016/j.jmb.2019.02.018_bb1065
  article-title: Coarse grained model for semiquantitative lipid simulations
  publication-title: J. Phys. Chem. B
  doi: 10.1021/jp036508g
– volume: 8
  year: 2018
  ident: 10.1016/j.jmb.2019.02.018_bb1345
  article-title: Analyzing protein topology based on Laguerre tessellation of a pore-traversing water network
  publication-title: Sci. Rep.
  doi: 10.1038/s41598-018-31422-5
– volume: 9
  start-page: 3639
  year: 2013
  ident: 10.1016/j.jmb.2019.02.018_bb1295
  article-title: Membrane perturbation by carbon nanotube insertion: pathways to internalization
  publication-title: Small
  doi: 10.1002/smll.201202640
– volume: 105
  start-page: 1161
  year: 2013
  ident: 10.1016/j.jmb.2019.02.018_bb1240
  article-title: Coexistence of fluid and crystalline phases of proteins in photosynthetic membranes
  publication-title: Biophys. J.
  doi: 10.1016/j.bpj.2013.06.052
– start-page: 109
  year: 2014
  ident: 10.1016/j.jmb.2019.02.018_bb1530
  article-title: UnityMol: interactive scientific visualization for integrative biology
– volume: 417
  start-page: 515
  year: 2002
  ident: 10.1016/j.jmb.2019.02.018_bb0160
  article-title: Crystal structure and mechanism of a calcium-gated potassium channel
  publication-title: Nature
  doi: 10.1038/417515a
– volume: 3
  start-page: a004697
  year: 2011
  ident: 10.1016/j.jmb.2019.02.018_bb0260
  article-title: Membrane organization and lipid rafts
  publication-title: Cold Spring Harb. Perspect. Biol.
  doi: 10.1101/cshperspect.a004697
– volume: 422
  start-page: 69
  year: 2018
  ident: 10.1016/j.jmb.2019.02.018_bb0610
  article-title: Label-free, ultrasensitive, ultrahigh-speed scattering-based interferometric imaging
  publication-title: Opt. Commun.
  doi: 10.1016/j.optcom.2018.02.058
– volume: 51
  year: 2018
  ident: 10.1016/j.jmb.2019.02.018_bb0315
  article-title: The 2018 biomembrane curvature and remodeling roadmap
  publication-title: J. Phys. D. Appl. Phys.
  doi: 10.1088/1361-6463/aacb98
– volume: 30
  start-page: 1478
  year: 2014
  ident: 10.1016/j.jmb.2019.02.018_bb1355
  article-title: MEMBPLUGIN: studying membrane complexity in VMD
  publication-title: Bioinformatics
  doi: 10.1093/bioinformatics/btu037
– volume: 35
  start-page: 1997
  year: 2014
  ident: 10.1016/j.jmb.2019.02.018_bb0770
  article-title: CHARMM−GUI membrane builder toward realistic biological membrane simulations
  publication-title: J. Comput. Chem.
  doi: 10.1002/jcc.23702
– volume: 19
  start-page: 1562
  year: 2011
  ident: 10.1016/j.jmb.2019.02.018_bb0930
  article-title: Molecular simulation approaches to membrane proteins
  publication-title: Structure
  doi: 10.1016/j.str.2011.10.002
– volume: 162
  start-page: 121
  year: 2008
  ident: 10.1016/j.jmb.2019.02.018_bb0230
  article-title: Cationic peptide-induced remodelling of model membranes: direct visualization by in situ atomic force microscopy
  publication-title: J. Struct. Biol.
  doi: 10.1016/j.jsb.2007.11.003
– volume: 168
  start-page: 1580
  year: 1970
  ident: 10.1016/j.jmb.2019.02.018_bb0030
  article-title: Calorimetric detection of a membrane-lipid phase transition in living cells
  publication-title: Science
  doi: 10.1126/science.168.3939.1580
– volume: 157
  start-page: 593
  year: 2007
  ident: 10.1016/j.jmb.2019.02.018_bb1075
  article-title: Coarse-grained molecular dynamics simulations of membrane proteins and peptides
  publication-title: J. Struct. Biol.
  doi: 10.1016/j.jsb.2006.10.004
– volume: 4
  start-page: 225
  year: 2005
  ident: 10.1016/j.jmb.2019.02.018_bb1210
  article-title: Tension-induced fusion of bilayer membranes and vesicles
  publication-title: Nat. Mater.
  doi: 10.1038/nmat1333
– volume: 93
  start-page: 2877
  year: 2007
  ident: 10.1016/j.jmb.2019.02.018_bb0585
  article-title: Visualization of membrane rafts using a perylene monoimide derivative and fluorescence lifetime imaging
  publication-title: Biophys. J.
  doi: 10.1529/biophysj.106.100743
– volume: 22
  start-page: 175
  year: 2012
  ident: 10.1016/j.jmb.2019.02.018_bb1050
  article-title: Computer simulation studies of self-assembling macromolecules
  publication-title: Curr. Opin. Struct. Biol.
  doi: 10.1016/j.sbi.2012.01.011
– volume: 386
  start-page: 129
  year: 1997
  ident: 10.1016/j.jmb.2019.02.018_bb0105
  article-title: Biomembranes. Lipids beyond the bilayer
  publication-title: Nature
  doi: 10.1038/386129a0
– volume: 105
  start-page: 14277
  year: 2008
  ident: 10.1016/j.jmb.2019.02.018_bb0665
  article-title: Quantitative visualization of passive transport across bilayer lipid membranes
  publication-title: Proc. Natl. Acad. Sci. U. S. A.
  doi: 10.1073/pnas.0803720105
– volume: 31
  start-page: 217
  year: 2002
  ident: 10.1016/j.jmb.2019.02.018_bb0740
  article-title: Setting up and optimization of membrane protein simulations
  publication-title: Eur. Biophys. J.
  doi: 10.1007/s00249-002-0207-5
– volume: 3
  start-page: 287
  year: 2008
  ident: 10.1016/j.jmb.2019.02.018_bb0505
  article-title: Critical fluctuations in plasma membrane vesicles
  publication-title: ACS Chem. Biol.
  doi: 10.1021/cb800012x
– volume: 43
  start-page: 4871
  year: 2014
  ident: 10.1016/j.jmb.2019.02.018_bb1170
  article-title: The OPEP protein model: from single molecules, amyloid formation, crowding and hydrodynamics to DNA/RNA systems
  publication-title: Chem. Soc. Rev.
  doi: 10.1039/C4CS00048J
– volume: 89
  start-page: 2385
  year: 2005
  ident: 10.1016/j.jmb.2019.02.018_bb1245
  article-title: Multi-scale modeling of phase separation in mixed lipid bilayers
  publication-title: Biophys. J.
  doi: 10.1529/biophysj.105.063784
– volume: 61
  start-page: 428
  year: 1992
  ident: 10.1016/j.jmb.2019.02.018_bb0245
  article-title: Structure of a fluid dioleoylphosphatidylcholine bilayer determined by joint refinement of x-ray and neutron diffraction data. II. Distribution and packing of terminal methyl groups
  publication-title: Biophys. J.
  doi: 10.1016/S0006-3495(92)81848-9
– volume: 95
  start-page: 11673
  year: 1998
  ident: 10.1016/j.jmb.2019.02.018_bb0390
  article-title: Lipid patches in membrane protein oligomers: crystal structure of the bacteriorhodopsin–lipid complex
  publication-title: Proc. Natl. Acad. Sci. U. S. A.
  doi: 10.1073/pnas.95.20.11673
– volume: 19
  start-page: 128
  year: 2009
  ident: 10.1016/j.jmb.2019.02.018_bb0925
  article-title: Molecular dynamics simulations of membrane channels and transporters
  publication-title: Curr. Opin. Struct. Biol.
  doi: 10.1016/j.sbi.2009.02.011
– volume: 343
  start-page: 1443
  year: 2014
  ident: 10.1016/j.jmb.2019.02.018_bb0425
  article-title: Biochemistry. The resolution revolution
  publication-title: Science
  doi: 10.1126/science.1251652
– volume: 457
  start-page: 1159
  year: 2009
  ident: 10.1016/j.jmb.2019.02.018_bb0450
  article-title: Direct observation of the nanoscale dynamics of membrane lipids in a living cell
  publication-title: Nature
  doi: 10.1038/nature07596
– volume: 27
  start-page: 845
  year: 2013
  ident: 10.1016/j.jmb.2019.02.018_bb1280
  article-title: Computational analysis of local membrane properties
  publication-title: J. Comput. Aided Mol. Des.
  doi: 10.1007/s10822-013-9684-0
– volume: 42
  start-page: 6801
  year: 2013
  ident: 10.1016/j.jmb.2019.02.018_bb1040
  article-title: Perspective on the Martini model
  publication-title: Chem. Soc. Rev.
  doi: 10.1039/c3cs60093a
– volume: 105
  start-page: 1623
  year: 1987
  ident: 10.1016/j.jmb.2019.02.018_bb0250
  article-title: Sorting of sphingolipids in epithelial (Madin–Darby canine kidney) cells
  publication-title: J. Cell Biol.
  doi: 10.1083/jcb.105.4.1623
– volume: 114
  start-page: 11207
  year: 2010
  ident: 10.1016/j.jmb.2019.02.018_bb1155
  article-title: A systematically coarse-grained solvent-free model for quantitative phospholipid bilayer simulations
  publication-title: J. Phys. Chem. B
  doi: 10.1021/jp102543j
– volume: 22
  start-page: 23
  year: 2001
  ident: 10.1016/j.jmb.2019.02.018_bb0175
  article-title: In silico research in drug discovery
  publication-title: Trends Pharmacol. Sci.
  doi: 10.1016/S0165-6147(00)01584-4
– volume: 7
  start-page: 525
  year: 2012
  ident: 10.1016/j.jmb.2019.02.018_bb0485
  article-title: Characterization of the motion of membrane proteins using high-speed atomic force microscopy
  publication-title: Nat. Nanotechnol.
  doi: 10.1038/nnano.2012.109
– volume: 24
  start-page: 92
  year: 1996
  ident: 10.1016/j.jmb.2019.02.018_bb0095
  article-title: Structure, energetics, and dynamics of lipid–protein interactions: a molecular dynamics study of the gramicidin A channel in a DMPC bilayer
  publication-title: Proteins
  doi: 10.1002/(SICI)1097-0134(199601)24:1<92::AID-PROT7>3.0.CO;2-Q
– volume: 14
  start-page: 111
  year: 1998
  ident: 10.1016/j.jmb.2019.02.018_bb0190
  article-title: Functions of lipid rafts in biological membranes
  publication-title: Annu. Rev. Cell Dev. Biol.
  doi: 10.1146/annurev.cellbio.14.1.111
– volume: 12
  start-page: 85
  year: 2014
  ident: 10.1016/j.jmb.2019.02.018_bb0855
  article-title: cellPACK: a virtual mesoscope to model and visualize structural systems biology
  publication-title: Nat. Methods
  doi: 10.1038/nmeth.3204
– volume: 23
  year: 2014
  ident: 10.1016/j.jmb.2019.02.018_bb0865
  article-title: Stereoscopic cell visualization: from mesoscopic to molecular scale
  publication-title: J. Electron. Imaging
  doi: 10.1117/1.JEI.23.1.011007
– volume: 77
  start-page: 2266
  year: 1999
  ident: 10.1016/j.jmb.2019.02.018_bb0645
  article-title: Cell membrane orientation visualized by polarized total internal reflection fluorescence
  publication-title: Biophys. J.
  doi: 10.1016/S0006-3495(99)77066-9
– volume: 48
  start-page: 215
  year: 1979
  ident: 10.1016/j.jmb.2019.02.018_bb1390
  article-title: On two-dimensional passive random walk in lipid bilayers and fluid pathways in biomembranes
  publication-title: J. Membr. Biol.
  doi: 10.1007/BF01872892
– volume: 321
  start-page: 1206
  year: 2008
  ident: 10.1016/j.jmb.2019.02.018_bb0140
  article-title: Solution structure of the integral human membrane protein VDAC-1 in detergent micelles
  publication-title: Science
  doi: 10.1126/science.1161302
– volume: 5
  year: 2016
  ident: 10.1016/j.jmb.2019.02.018_bb0420
  article-title: A mitofusin-dependent docking ring complex triggers mitochondrial fusion in vitro
  publication-title: Elife
  doi: 10.7554/eLife.14618
– volume: 86
  start-page: 3496
  year: 2004
  ident: 10.1016/j.jmb.2019.02.018_bb0880
  article-title: Lipid bilayer pressure profiles and mechanosensitive channel gating
  publication-title: Biophys. J.
  doi: 10.1529/biophysj.103.034322
– volume: 1331
  start-page: 235
  year: 1997
  ident: 10.1016/j.jmb.2019.02.018_bb0735
  article-title: A computer perspective of membranes: molecular dynamics studies of lipid bilayer systems
  publication-title: Biochim. Biophys. Acta Rev. Biomembr.
  doi: 10.1016/S0304-4157(97)00008-7
– volume: 7
  start-page: 319
  year: 1970
  ident: 10.1016/j.jmb.2019.02.018_bb0015
  article-title: The rapid intermixing of cell surface antigens after formation of mouse–human heterokaryons
  publication-title: J. Cell Sci.
  doi: 10.1242/jcs.7.2.319
– volume: 433
  start-page: 264
  year: 1976
  ident: 10.1016/j.jmb.2019.02.018_bb0050
  article-title: Computer simulation of model lipid membrane dynamics
  publication-title: Biochim. Biophys. Acta Biomembr.
  doi: 10.1016/0005-2736(76)90092-4
– volume: 246
  start-page: 58
  year: 1982
  ident: 10.1016/j.jmb.2019.02.018_bb0255
  article-title: How an animal virus gets into and out of its host cell
  publication-title: Sci. Am.
  doi: 10.1038/scientificamerican0282-58
– volume: 6
  year: 2016
  ident: 10.1016/j.jmb.2019.02.018_bb0520
  article-title: Erratum: Lipid membrane-mediated attraction between curvature inducing objects
  publication-title: Sci. Rep.
– volume: 428
  start-page: 2943
  year: 2016
  ident: 10.1016/j.jmb.2019.02.018_bb0775
  article-title: Challenges in structural approaches to cell modeling
  publication-title: J. Mol. Biol.
  doi: 10.1016/j.jmb.2016.05.024
– volume: 30
  start-page: 6162
  year: 2014
  ident: 10.1016/j.jmb.2019.02.018_bb0725
  article-title: Lipid concentration and molar ratio boundaries for the use of isotropic bicelles
  publication-title: Langmuir
  doi: 10.1021/la5004353
– volume: 98
  start-page: 2358
  year: 2001
  ident: 10.1016/j.jmb.2019.02.018_bb0145
  article-title: Transverse relaxation-optimized NMR spectroscopy with the outer membrane protein OmpX in dihexanoyl phosphatidylcholine micelles
  publication-title: Proc. Natl. Acad. Sci. U. S. A.
  doi: 10.1073/pnas.051629298
– volume: 1798
  start-page: 703
  year: 2010
  ident: 10.1016/j.jmb.2019.02.018_bb0270
  article-title: Surface topography of membrane domains
  publication-title: Biochim. Biophys. Acta
  doi: 10.1016/j.bbamem.2009.09.015
– volume: 82
  start-page: 6153
  year: 1985
  ident: 10.1016/j.jmb.2019.02.018_bb0330
  article-title: Visualization of the protein associations in the erythrocyte membrane skeleton
  publication-title: Proc. Natl. Acad. Sci. U. S. A.
  doi: 10.1073/pnas.82.18.6153
– volume: 136
  start-page: 14554
  year: 2014
  ident: 10.1016/j.jmb.2019.02.018_bb0825
  article-title: Lipid organization of the plasma membrane
  publication-title: J. Am. Chem. Soc.
  doi: 10.1021/ja507832e
– volume: 249
  start-page: 5153
  year: 1974
  ident: 10.1016/j.jmb.2019.02.018_bb0075
  article-title: Binding and degradation of low density lipoproteins by cultured human fibroblasts. Comparison of cells from a normal subject and from a patient with homozygous familial hypercholesterolemia
  publication-title: J. Biol. Chem.
  doi: 10.1016/S0021-9258(19)42341-7
– volume: 11
  start-page: 427
  year: 2001
  ident: 10.1016/j.jmb.2019.02.018_bb0395
  article-title: High-resolution structures and dynamics of membrane protein–lipid complexes: a critique
  publication-title: Curr. Opin. Struct. Biol.
  doi: 10.1016/S0959-440X(00)00228-1
– volume: 3
  start-page: 319
  year: 1964
  ident: 10.1016/j.jmb.2019.02.018_bb0300
  article-title: An electron microscopical study of isolated mitochondrial membranes treated with osmium tetroxide, potassium permanganate, and formaldehyde
  publication-title: J Cell Sci.
  doi: 10.1242/jcs.s3-105.71.319
– year: 1999
  ident: 10.1016/j.jmb.2019.02.018_bb0005
– volume: 4
  start-page: 594
  year: 2005
  ident: 10.1016/j.jmb.2019.02.018_bb0200
  article-title: The emerging field of lipidomics
  publication-title: Nat. Rev. Drug Discov.
  doi: 10.1038/nrd1776
– volume: 26
  start-page: 106
  year: 2001
  ident: 10.1016/j.jmb.2019.02.018_bb0385
  article-title: Probing the interface between membrane proteins and membrane lipids by x-ray crystallography
  publication-title: Trends Biochem. Sci.
  doi: 10.1016/S0968-0004(00)01746-1
– volume: 64
  start-page: 676
  year: 1993
  ident: 10.1016/j.jmb.2019.02.018_bb0580
  article-title: Fluorescence lifetime imaging microscopy (flimscopy). Methodology development and application to studies of endosome fusion in single cells
  publication-title: Biophys. J.
  doi: 10.1016/S0006-3495(93)81427-9
– volume: 287
  start-page: 317
  year: 1980
  ident: 10.1016/j.jmb.2019.02.018_bb0055
  article-title: Simulation of a lipid monolayer using molecular dynamics
  publication-title: Nature
  doi: 10.1038/287317a0
– volume: 11
  start-page: 260
  year: 2015
  ident: 10.1016/j.jmb.2019.02.018_bb1150
  article-title: Dry Martini, a coarse-grained force field for lipid membrane simulations with implicit solvent
  publication-title: J. Chem. Theory Comput.
  doi: 10.1021/ct500477k
– volume: 288
  start-page: 143
  year: 2000
  ident: 10.1016/j.jmb.2019.02.018_bb0495
  article-title: Unfolding pathways of individual bacteriorhodopsins
  publication-title: Science
  doi: 10.1126/science.288.5463.143
– volume: 14
  start-page: 33
  year: 1996
  ident: 10.1016/j.jmb.2019.02.018_bb0755
  article-title: VMD: visual molecular dynamics
  publication-title: J. Mol. Graph.
  doi: 10.1016/0263-7855(96)00018-5
– volume: 93
  year: 2004
  ident: 10.1016/j.jmb.2019.02.018_bb1255
  article-title: Brownian dynamics in Fourier space: membrane simulations over long length and time scales
  publication-title: Phys. Rev. Lett.
  doi: 10.1103/PhysRevLett.93.256001
– volume: 417
  start-page: 523
  year: 2002
  ident: 10.1016/j.jmb.2019.02.018_bb0155
  article-title: The open pore conformation of potassium channels
  publication-title: Nature
  doi: 10.1038/417523a
– volume: 115
  start-page: 595
  year: 2018
  ident: 10.1016/j.jmb.2019.02.018_bb0525
  article-title: From dynamics to membrane organization: experimental breakthroughs occasion a “modeling manifesto”
  publication-title: Biophys. J.
  doi: 10.1016/j.bpj.2018.07.012
– volume: 8
  start-page: 223
  year: 2010
  ident: 10.1016/j.jmb.2019.02.018_bb1495
  article-title: Critical features of visualizations of transport through the cell membrane-an empirical study of upper secondary and tertiary students' meaning-making of a still image and an animation
  publication-title: Int. J. Sci. Math. Educ.
  doi: 10.1007/s10763-009-9171-1
– volume: 95
  start-page: 2806
  year: 2008
  ident: 10.1016/j.jmb.2019.02.018_bb1225
  article-title: Four-scale description of membrane sculpting by BAR domains
  publication-title: Biophys. J.
  doi: 10.1529/biophysj.108.132563
– volume: 25
  start-page: 483
  year: 2015
  ident: 10.1016/j.jmb.2019.02.018_bb1300
  article-title: Three-dimensional representations of complex carbohydrates and polysaccharides—SweetUnityMol: a video game-based computer graphic software
  publication-title: Glycobiology
  doi: 10.1093/glycob/cwu133
– volume: 348
  start-page: 624
  year: 1990
  ident: 10.1016/j.jmb.2019.02.018_bb0980
  article-title: Computer simulations of a water/oil interface in the presence of micelles
  publication-title: Nature
  doi: 10.1038/348624a0
– volume: 156
  start-page: 197
  year: 1997
  ident: 10.1016/j.jmb.2019.02.018_bb0180
  article-title: Structure and functions of channel-forming peptides: magainins, cecropins, melittin and alamethicin
  publication-title: J. Membr. Biol.
  doi: 10.1007/s002329900201
– volume: 31
  start-page: 1117
  year: 2010
  ident: 10.1016/j.jmb.2019.02.018_bb0890
  article-title: A new force field for simulating phosphatidylcholine bilayers
  publication-title: J. Comput. Chem.
  doi: 10.1002/jcc.21396
– volume: 7
  year: 2017
  ident: 10.1016/j.jmb.2019.02.018_bb0455
  article-title: Plasma membrane is compartmentalized by a self-similar cortical actin meshwork
  publication-title: Phys. Rev. X
– volume: 17
  start-page: 192
  year: 2007
  ident: 10.1016/j.jmb.2019.02.018_bb1045
  article-title: Multiscale modeling of biomolecular systems: in serial and in parallel
  publication-title: Curr. Opin. Struct. Biol.
  doi: 10.1016/j.sbi.2007.03.004
– volume: 11
  start-page: 103
  year: 2012
  ident: 10.1016/j.jmb.2019.02.018_bb1475
  article-title: Visualizing protein interactions and dynamics: evolving a visual language for molecular animation
  publication-title: CBE-Life Sci. Educ.
  doi: 10.1187/cbe.11-08-0071
– volume: 15
  start-page: 1
  year: 2018
  ident: 10.1016/j.jmb.2019.02.018_bb1520
  article-title: MinOmics, an integrative and immersive tool for multi-omics analysis
  publication-title: J. Integr. Bioinforma.
  doi: 10.1515/jib-2018-0006
– volume: 16
  start-page: 45
  year: 1977
  ident: 10.1016/j.jmb.2019.02.018_bb0690
  article-title: Effect of a single cis double bond on the structures of a phospholipid bilayer
  publication-title: Biochemistry
  doi: 10.1021/bi00620a008
– volume: 6
  year: 2016
  ident: 10.1016/j.jmb.2019.02.018_bb0515
  article-title: Lipid membrane-mediated attraction between curvature inducing objects
  publication-title: Sci. Rep.
– volume: 5
  start-page: 1803
  year: 2009
  ident: 10.1016/j.jmb.2019.02.018_bb0895
  article-title: United atom lipid parameters for combination with the optimized potentials for liquid simulations all-atom force field
  publication-title: J. Chem. Theory Comput.
  doi: 10.1021/ct900086b
– volume: 88
  start-page: 805
  year: 2005
  ident: 10.1016/j.jmb.2019.02.018_bb0730
  article-title: Experimental validation of molecular dynamics simulations of lipid bilayers: a new approach
  publication-title: Biophys. J.
  doi: 10.1529/biophysj.104.046821
– volume: 33
  start-page: 133
  year: 2016
  ident: 10.1016/j.jmb.2019.02.018_bb1325
  article-title: FATSLiM: a fast and robust software to analyze MD simulations of membranes
  publication-title: Bioinformatics
  doi: 10.1093/bioinformatics/btw563
– volume: 28
  start-page: 2193
  year: 2012
  ident: 10.1016/j.jmb.2019.02.018_bb1340
  article-title: Bendix: intuitive helix geometry analysis and abstraction
  publication-title: Bioinformatics
  doi: 10.1093/bioinformatics/bts357
– volume: 349
  start-page: 475
  year: 1991
  ident: 10.1016/j.jmb.2019.02.018_bb0275
  article-title: The conformation of membranes
  publication-title: Nature
  doi: 10.1038/349475a0
– volume: 35
  start-page: 104
  year: 2006
  ident: 10.1016/j.jmb.2019.02.018_bb1160
  article-title: Implicit solvent simulation models for biomembranes
  publication-title: Eur. Biophys. J. Biophys. Lett.
  doi: 10.1007/s00249-005-0013-y
– volume: 1858
  start-page: 2468
  year: 2016
  ident: 10.1016/j.jmb.2019.02.018_bb0750
  article-title: Efficient preparation and analysis of membrane and membrane protein systems
  publication-title: Biochim. Biophys. Acta
  doi: 10.1016/j.bbamem.2016.02.036
– volume: 103
  start-page: 11916
  year: 2006
  ident: 10.1016/j.jmb.2019.02.018_bb1125
  article-title: Ensemble molecular dynamics yields submillisecond kinetics and intermediates of membrane fusion
  publication-title: Proc. Natl. Acad. Sci. U. S. A.
  doi: 10.1073/pnas.0601597103
– volume: 19
  start-page: 625
  year: 1987
  ident: 10.1016/j.jmb.2019.02.018_bb0400
  article-title: Nuclear magnetic resonance methods to characterize lipid–protein interactions at membrane surfaces
  publication-title: J. Bioenerg. Biomembr.
  doi: 10.1007/BF00762300
– volume: 18
  start-page: S1191
  year: 2006
  ident: 10.1016/j.jmb.2019.02.018_bb1230
  article-title: The computational route from bilayer membranes to vesicle fusion
  publication-title: J. Phys. Condens. Matter
  doi: 10.1088/0953-8984/18/28/S06
– volume: 32
  start-page: 2319
  year: 2011
  ident: 10.1016/j.jmb.2019.02.018_bb1360
  article-title: MDAnalysis: a toolkit for the analysis of molecular dynamics simulations
  publication-title: J. Comput. Chem.
  doi: 10.1002/jcc.21787
– volume: 113
  start-page: 4443
  year: 2009
  ident: 10.1016/j.jmb.2019.02.018_bb1145
  article-title: Solvent-free lipid bilayer model using multiscale coarse-graining
  publication-title: J. Phys. Chem. B
  doi: 10.1021/jp810440c
– volume: 9
  start-page: 110
  year: 2018
  ident: 10.1016/j.jmb.2019.02.018_bb0535
  article-title: Optical antenna-based fluorescence correlation spectroscopy to probe the nanoscale dynamics of biological membranes
  publication-title: J. Phys. Chem. Lett.
  doi: 10.1021/acs.jpclett.7b02818
– volume: 169
  start-page: 9
  year: 2014
  ident: 10.1016/j.jmb.2019.02.018_bb1525
  article-title: Molecular simulations and visualization: introduction and overview
  publication-title: Faraday Discuss.
  doi: 10.1039/C4FD90024C
– volume: 110
  start-page: 12307
  year: 2013
  ident: 10.1016/j.jmb.2019.02.018_bb0605
  article-title: Fast spatiotemporal correlation spectroscopy to determine protein lateral diffusion laws in live cell membranes
  publication-title: Proc. Natl. Acad. Sci. U. S. A.
  doi: 10.1073/pnas.1222097110
– volume: 24
  start-page: 862
  year: 2018
  ident: 10.1016/j.jmb.2019.02.018_bb0870
  article-title: Instant construction and visualization of crowded biological environments
  publication-title: IEEE Trans. Vis. Comput. Graph.
  doi: 10.1109/TVCG.2017.2744258
– volume: 1858
  start-page: 1610
  year: 2016
  ident: 10.1016/j.jmb.2019.02.018_bb1135
  article-title: Computational virology: From the inside out
  publication-title: Biochim. Biophys. Acta
  doi: 10.1016/j.bbamem.2016.02.007
– volume: 5
  start-page: e308
  year: 2007
  ident: 10.1016/j.jmb.2019.02.018_bb1445
  article-title: Filling in the gaps: artistic license in education and outreach
  publication-title: PLoS Biol.
  doi: 10.1371/journal.pbio.0050308
– volume: 55
  start-page: 1048
  year: 1966
  ident: 10.1016/j.jmb.2019.02.018_bb0290
  article-title: Fracture faces of frozen membranes
  publication-title: Proc. Natl. Acad. Sci. U. S. A.
  doi: 10.1073/pnas.55.5.1048
– volume: 6
  year: 2011
  ident: 10.1016/j.jmb.2019.02.018_bb1055
  article-title: The ELBA force field for coarse-grain modeling of lipid membranes
  publication-title: PLoS One
  doi: 10.1371/journal.pone.0028637
– volume: 13
  start-page: 935
  year: 2017
  ident: 10.1016/j.jmb.2019.02.018_bb1205
  article-title: Highly coarse-grained representations of transmembrane proteins
  publication-title: J. Chem. Theory Comput.
  doi: 10.1021/acs.jctc.6b01076
– volume: 10
  year: 2014
  ident: 10.1016/j.jmb.2019.02.018_bb1490
– volume: 257
  start-page: 28
  year: 1975
  ident: 10.1016/j.jmb.2019.02.018_bb0045
  article-title: Three-dimensional model of purple membrane obtained by electron microscopy
  publication-title: Nature
  doi: 10.1038/257028a0
– volume: 125
  start-page: 11144
  year: 2003
  ident: 10.1016/j.jmb.2019.02.018_bb1115
  article-title: The mechanism of vesicle fusion as revealed by molecular dynamics simulations
  publication-title: J. Am. Chem. Soc.
  doi: 10.1021/ja036138+
– volume: 15
  start-page: 690
  year: 2014
  ident: 10.1016/j.jmb.2019.02.018_bb1430
  article-title: A guide to the visual analysis and communication of biomolecular structural data
  publication-title: Nat. Rev. Mol. Cell Biol.
  doi: 10.1038/nrm3874
– volume: 40
  year: 2016
  ident: 10.1016/j.jmb.2019.02.018_bb1460
  article-title: Cellular landscapes in watercolor
  publication-title: J. Biocommun.
  doi: 10.5210/jbc.v40i1.6627
– volume: 111
  start-page: 2689
  year: 2016
  ident: 10.1016/j.jmb.2019.02.018_bb1165
  article-title: Toward hydrodynamics with solvent free lipid models: STRD Martini
  publication-title: Biophys. J.
  doi: 10.1016/j.bpj.2016.11.010
– volume: 76
  start-page: 3271
  year: 1982
  ident: 10.1016/j.jmb.2019.02.018_bb0065
  article-title: Molecular dynamics simulation of a bilayer membrane
  publication-title: J. Chem. Phys.
  doi: 10.1063/1.443321
– volume: 282
  start-page: 33537
  year: 2007
  ident: 10.1016/j.jmb.2019.02.018_bb0510
  article-title: Effect of line tension on the lateral organization of lipid membranes
  publication-title: J. Biol. Chem.
  doi: 10.1074/jbc.M706162200
– volume: 18
  start-page: 425
  year: 2008
  ident: 10.1016/j.jmb.2019.02.018_bb0920
  article-title: Membrane proteins: molecular dynamics simulations
  publication-title: Curr. Opin. Struct. Biol.
  doi: 10.1016/j.sbi.2008.02.003
– volume: 262
  start-page: 223
  year: 1993
  ident: 10.1016/j.jmb.2019.02.018_bb0975
  article-title: Molecular dynamics simulations of a lipid bilayer and of hexadecane: an investigation of membrane fluidity
  publication-title: Science
  doi: 10.1126/science.8211140
– volume: 1666
  start-page: 62
  year: 2004
  ident: 10.1016/j.jmb.2019.02.018_bb1380
  article-title: How lipids affect the activities of integral membrane proteins
  publication-title: Biochim. Biophys. Acta
  doi: 10.1016/j.bbamem.2004.05.012
– volume: 277
  start-page: 1845
  year: 1997
  ident: 10.1016/j.jmb.2019.02.018_bb0370
  article-title: Scanning probe microscopy. Probing the future
  publication-title: Science
  doi: 10.1126/science.277.5333.1845
– volume: 10
  start-page: 423
  year: 2013
  ident: 10.1016/j.jmb.2019.02.018_bb1200
  article-title: Highly scalable and memory efficient ultra-coarse-grained molecular dynamics simulations
  publication-title: J. Chem. Theory Comput.
  doi: 10.1021/ct400727q
– volume: 89
  start-page: 4029
  year: 2005
  ident: 10.1016/j.jmb.2019.02.018_bb0530
  article-title: Fluorescence correlation spectroscopy diffusion laws to probe the submicron cell membrane organization
  publication-title: Biophys. J.
  doi: 10.1529/biophysj.105.067959
– volume: 32
  start-page: 12624
  year: 1993
  ident: 10.1016/j.jmb.2019.02.018_bb0070
  article-title: Solute diffusion in lipid bilayer membranes: an atomic level study by molecular dynamics simulation
  publication-title: Biochemistry
  doi: 10.1021/bi00210a010
– volume: 40
  start-page: 8
  year: 2016
  ident: 10.1016/j.jmb.2019.02.018_bb0945
  article-title: Molecular dynamics simulations of membrane proteins and their interactions: from nanoscale to mesoscale
  publication-title: Curr. Opin. Struct. Biol.
  doi: 10.1016/j.sbi.2016.06.007
– volume: 31
  start-page: 64
  year: 2015
  ident: 10.1016/j.jmb.2019.02.018_bb0940
  article-title: Molecular dynamics simulations of large macromolecular complexes
  publication-title: Curr. Opin. Struct. Biol.
  doi: 10.1016/j.sbi.2015.03.007
– volume: 8
  start-page: 5513
  year: 2017
  ident: 10.1016/j.jmb.2019.02.018_bb1100
  article-title: It is complicated: curvature, diffusion, and lipid sorting within the two membranes of Escherichia coli
  publication-title: J. Phys. Chem. Lett.
  doi: 10.1021/acs.jpclett.7b02432
– volume: 106
  start-page: 2503
  year: 2014
  ident: 10.1016/j.jmb.2019.02.018_bb1005
  article-title: Light harvesting by lamellar chromatophores in Rhodospirillum photometricum
  publication-title: Biophys. J.
  doi: 10.1016/j.bpj.2014.04.030
– volume: 35
  start-page: 438
  year: 2002
  ident: 10.1016/j.jmb.2019.02.018_bb0710
  article-title: Lipid bilayers, NMR relaxation, and computer simulations
  publication-title: Acc. Chem. Res.
  doi: 10.1021/ar0100529
– volume: 6
  year: 2011
  ident: 10.1016/j.jmb.2019.02.018_bb0550
  article-title: Super-resolution dynamic imaging of dendritic spines using a low-affinity photoconvertible actin probe
  publication-title: PLoS One
  doi: 10.1371/journal.pone.0015611
– volume: 10
  year: 2015
  ident: 10.1016/j.jmb.2019.02.018_bb0830
  article-title: A coarse grained model for a lipid membrane with physiological composition and leaflet asymmetry
  publication-title: PLoS One
  doi: 10.1371/journal.pone.0144814
– volume: 96
  start-page: 101
  year: 2009
  ident: 10.1016/j.jmb.2019.02.018_bb1265
  article-title: Membrane–protein interactions in a generic coarse-grained model for lipid bilayers
  publication-title: Biophys. J.
  doi: 10.1529/biophysj.108.138677
– volume: 104
  start-page: 575
  year: 2013
  ident: 10.1016/j.jmb.2019.02.018_bb1330
  article-title: Amphipathic lipid packing sensor motifs: probing bilayer defects with hydrophobic residues
  publication-title: Biophys. J.
  doi: 10.1016/j.bpj.2012.11.3837
– volume: 88
  start-page: 1887
  year: 2005
  ident: 10.1016/j.jmb.2019.02.018_bb0705
  article-title: Reinvestigation by phosphorus NMR of lipid distribution in bicelles
  publication-title: Biophys. J.
  doi: 10.1529/biophysj.104.055061
– volume: 3
  year: 2008
  ident: 10.1016/j.jmb.2019.02.018_bb0340
  article-title: Destabilization of the dystrophin-glycoprotein complex without functional deficits in alpha-dystrobrevin null muscle
  publication-title: PLoS One
  doi: 10.1371/journal.pone.0002604
– volume: 5
  year: 2013
  ident: 10.1016/j.jmb.2019.02.018_bb0800
  article-title: Membrane packing problems: a short review on computational membrane modeling methods and tools
  publication-title: Comput. Struct. Biotechnol. J.
  doi: 10.5936/csbj.201302014
– volume: 113
  start-page: 1496
  year: 2017
  ident: 10.1016/j.jmb.2019.02.018_bb1000
  article-title: Braun's lipoprotein facilitates OmpA interaction with the Escherichia coli cell wall
  publication-title: Biophys. J.
  doi: 10.1016/j.bpj.2017.08.011
– volume: 318
  start-page: 618
  year: 1985
  ident: 10.1016/j.jmb.2019.02.018_bb0085
  article-title: Structure of the protein subunits in the photosynthetic reaction centre of Rhodopseudomonas viridis at 3 Å resolution
  publication-title: Nature
  doi: 10.1038/318618a0
– volume: 106
  start-page: 18557
  year: 2009
  ident: 10.1016/j.jmb.2019.02.018_bb0350
  article-title: Hotspots of GPI-anchored proteins and integrin nanoclusters function as nucleation sites for cell adhesion
  publication-title: Proc. Natl. Acad. Sci. U. S. A.
  doi: 10.1073/pnas.0905217106
– volume: 108
  start-page: 16040
  year: 2004
  ident: 10.1016/j.jmb.2019.02.018_bb0670
  article-title: Black lipid membranes: visualizing the structure, dynamics, and substrate dependence of membranes
  publication-title: J. Phys. Chem. B
  doi: 10.1021/jp048098h
– volume: 109
  start-page: 2469
  year: 2005
  ident: 10.1016/j.jmb.2019.02.018_bb1080
  article-title: A multiscale coarse-graining method for biomolecular systems
  publication-title: J. Phys. Chem. B
  doi: 10.1021/jp044629q
– volume: 110
  start-page: 1976
  year: 2013
  ident: 10.1016/j.jmb.2019.02.018_bb0995
  article-title: Entropic force between membranes reexamined
  publication-title: Proc. Natl. Acad. Sci.
  doi: 10.1073/pnas.1222033110
– volume: 47
  start-page: 115
  year: 1970
  ident: 10.1016/j.jmb.2019.02.018_bb0025
  article-title: X-ray diffraction studies of phase transitions in the membrane of Mycoplasma laidlawii
  publication-title: J. Mol. Biol.
  doi: 10.1016/0022-2836(70)90407-9
– volume: 8
  year: 2013
  ident: 10.1016/j.jmb.2019.02.018_bb1315
  article-title: Game on, science—how video game technology may help biologists tackle visualization challenges
  publication-title: PLoS One
  doi: 10.1371/journal.pone.0057990
– volume: 5
  start-page: 10
  year: 2004
  ident: 10.1016/j.jmb.2019.02.018_bb0115
  article-title: The molecular basis of electroporation
  publication-title: BMC Biochem.
  doi: 10.1186/1471-2091-5-10
– volume: 8
  start-page: 660
  year: 1964
  ident: 10.1016/j.jmb.2019.02.018_bb0310
  article-title: Negative staining of phospholipids and their structural modification by surface-active agents as observed in the electron microscope
  publication-title: J. Mol. Biol.
  doi: 10.1016/S0022-2836(64)80115-7
– volume: 438
  start-page: 581
  year: 2005
  ident: 10.1016/j.jmb.2019.02.018_bb0120
  article-title: Solving the membrane protein folding problem
  publication-title: Nature
  doi: 10.1038/nature04395
– volume: 73
  start-page: 1073
  year: 1997
  ident: 10.1016/j.jmb.2019.02.018_bb0475
  article-title: Single-molecule microscopy on model membranes reveals anomalous diffusion
  publication-title: Biophys. J.
  doi: 10.1016/S0006-3495(97)78139-6
– start-page: 1
  year: 2016
  ident: 10.1016/j.jmb.2019.02.018_bb0720
  article-title: A molecular look at membranes
  doi: 10.1016/bs.ctm.2015.10.002
– volume: 169
  start-page: 209
  year: 2014
  ident: 10.1016/j.jmb.2019.02.018_bb1335
  article-title: NRas slows the rate at which a model lipid bilayer phase separates
  publication-title: Faraday Discuss.
  doi: 10.1039/C3FD00131H
– volume: 93
  start-page: 7008
  year: 1996
  ident: 10.1016/j.jmb.2019.02.018_bb0220
  article-title: Structure of the ripple phase in lecithin bilayers
  publication-title: Proc. Natl. Acad. Sci. U. S. A.
  doi: 10.1073/pnas.93.14.7008
– volume: 10
  start-page: 1548
  year: 2009
  ident: 10.1016/j.jmb.2019.02.018_bb1120
  article-title: Coarse-grain simulations of the R-SNARE fusion protein in its membrane environment detect long-lived conformational sub-states
  publication-title: Chemphyschem
  doi: 10.1002/cphc.200900216
– volume: 88
  start-page: 4045
  year: 2005
  ident: 10.1016/j.jmb.2019.02.018_bb1015
  article-title: Membrane electroporation: a molecular dynamics simulation
  publication-title: Biophys. J.
  doi: 10.1529/biophysj.104.050617
– volume: 15
  year: 2018
  ident: 10.1016/j.jmb.2019.02.018_bb1515
  article-title: Semantics for an integrative and immersive pipeline combining visualization and analysis of molecular data
  publication-title: J. Integr. Bioinformatics
  doi: 10.1515/jib-2018-0004
– volume: 102
  start-page: 1866
  year: 2012
  ident: 10.1016/j.jmb.2019.02.018_bb1095
  article-title: Molecular structure of membrane tethers
  publication-title: Biophys. J.
  doi: 10.1016/j.bpj.2012.03.048
– volume: 407
  start-page: 599
  year: 2000
  ident: 10.1016/j.jmb.2019.02.018_bb0150
  article-title: Structural determinants of water permeation through aquaporin-1
  publication-title: Nature
  doi: 10.1038/35036519
– volume: 122
  year: 2005
  ident: 10.1016/j.jmb.2019.02.018_bb1235
  article-title: A generalized Born formalism for heterogeneous dielectric environments: application to the implicit modeling of biological membranes
  publication-title: J. Chem. Phys.
  doi: 10.1063/1.1865992
– volume: 97
  start-page: 50
  year: 2009
  ident: 10.1016/j.jmb.2019.02.018_bb0760
  article-title: CHARMM-GUI membrane builder for mixed bilayers and its application to yeast membranes
  publication-title: Biophys. J.
  doi: 10.1016/j.bpj.2009.04.013
– volume: 8
  start-page: 3880
  year: 2012
  ident: 10.1016/j.jmb.2019.02.018_bb1285
  article-title: Mixing atomistic and coarse grain solvation models for MD simulations: let WT4 handle the bulk
  publication-title: J. Chem. Theory Comput.
  doi: 10.1021/ct3001816
– volume: 190
  start-page: 5672
  year: 2008
  ident: 10.1016/j.jmb.2019.02.018_bb0305
  article-title: Direct visualization of the outer membrane of mycobacteria and corynebacteria in their native state
  publication-title: J. Bacteriol.
  doi: 10.1128/JB.01919-07
– volume: 1724
  start-page: 248
  year: 2005
  ident: 10.1016/j.jmb.2019.02.018_bb0590
  article-title: New insights in the visualization of membrane permeabilization and DNA/membrane interaction of cells submitted to electric pulses
  publication-title: Biochim. Biophys. Acta
  doi: 10.1016/j.bbagen.2005.04.005
– volume: 1664
  start-page: 198
  year: 2004
  ident: 10.1016/j.jmb.2019.02.018_bb0480
  article-title: Real-time imaging of drug–membrane interactions by atomic force microscopy
  publication-title: Biochim. Biophys. Acta
  doi: 10.1016/j.bbamem.2004.05.010
– volume: 4
  start-page: 225
  year: 2014
  ident: 10.1016/j.jmb.2019.02.018_bb0910
  article-title: The power of coarse graining in biomolecular simulations
  publication-title: Wiley Interdiscip. Rev. Comput. Mol. Sci.
  doi: 10.1002/wcms.1169
– volume: 47
  start-page: 105
  year: 1985
  ident: 10.1016/j.jmb.2019.02.018_bb0325
  article-title: Supported phospholipid bilayers
  publication-title: Biophys. J.
  doi: 10.1016/S0006-3495(85)83882-0
– volume: 47
  start-page: 1986
  year: 2007
  ident: 10.1016/j.jmb.2019.02.018_bb0745
  article-title: ProtSqueeze: simple and effective automated tool for setting up membrane protein simulations
  publication-title: J. Chem. Inf. Model.
  doi: 10.1021/ci600553y
– volume: 279
  start-page: 38095
  year: 2004
  ident: 10.1016/j.jmb.2019.02.018_bb0660
  article-title: Fluorescent biosensor for quantitative real-time measurements of inositol 1,4,5-trisphosphate in single living cells
  publication-title: J. Biol. Chem.
  doi: 10.1074/jbc.C400312200
– volume: 18
  start-page: 361
  year: 2017
  ident: 10.1016/j.jmb.2019.02.018_bb0565
  article-title: The mystery of membrane organization: composition, regulation and roles of lipid rafts
  publication-title: Nat. Rev. Mol. Cell Biol.
  doi: 10.1038/nrm.2017.16
– volume: 298
  start-page: 1209
  year: 2002
  ident: 10.1016/j.jmb.2019.02.018_bb0130
  article-title: Macromolecular architecture in eukaryotic cells visualized by cryoelectron tomography
  publication-title: Science
  doi: 10.1126/science.1076184
– volume: 59
  start-page: 685
  year: 2008
  ident: 10.1016/j.jmb.2019.02.018_bb1250
  article-title: Elastic modeling of biomembranes and lipid bilayers
  publication-title: Annu. Rev. Phys. Chem.
  doi: 10.1146/annurev.physchem.59.032607.093550
– volume: 91
  start-page: 11631
  year: 1994
  ident: 10.1016/j.jmb.2019.02.018_bb1010
  article-title: Molecular dynamics simulation of the gramicidin channel in a phospholipid bilayer
  publication-title: Proc. Natl. Acad. Sci. U. S. A.
  doi: 10.1073/pnas.91.24.11631
– volume: 10
  start-page: 865
  year: 2014
  ident: 10.1016/j.jmb.2019.02.018_bb0900
  article-title: Lipid14: the amber lipid force field
  publication-title: J. Chem. Theory Comput.
  doi: 10.1021/ct4010307
– volume: 40
  start-page: 291
  year: 2012
  ident: 10.1016/j.jmb.2019.02.018_bb1455
  article-title: Illustrating the machinery of life: viruses
  publication-title: Biochem. Mol. Biol. Educ.
  doi: 10.1002/bmb.20636
– volume: 15
  year: 2018
  ident: 10.1016/j.jmb.2019.02.018_bb0795
  article-title: Heuristic modeling and 3D stereoscopic visualization of a Chlamydomonas reinhardtii cell
  publication-title: J. Integr. Bioinforma.
  doi: 10.1515/jib-2018-0003
– volume: 6
  start-page: 413
  year: 2015
  ident: 10.1016/j.jmb.2019.02.018_bb1025
  article-title: Sonoporation at small and large length scales: effect of cavitation bubble collapse on membranes
  publication-title: J. Phys. Chem. Lett.
  doi: 10.1021/jz502513w
– volume: 5
  start-page: 155
  year: 2008
  ident: 10.1016/j.jmb.2019.02.018_bb0630
  article-title: High-density mapping of single-molecule trajectories with photoactivated localization microscopy
  publication-title: Nat. Methods
  doi: 10.1038/nmeth.1176
– volume: 37
  start-page: 325
  year: 2009
  ident: 10.1016/j.jmb.2019.02.018_bb1470
  article-title: Escherichia coli
  publication-title: Biochem. Mol. Biol. Educ.
  doi: 10.1002/bmb.20345
– volume: 114
  start-page: 5449
  year: 2017
  ident: 10.1016/j.jmb.2019.02.018_bb0490
  article-title: Dynamic remodeling of the dynamin helix during membrane constriction
  publication-title: Proc. Natl. Acad. Sci. U. S. A.
  doi: 10.1073/pnas.1619578114
– volume: 45
  start-page: 133
  year: 2017
  ident: 10.1016/j.jmb.2019.02.018_bb0835
  article-title: Computational studies of membrane proteins: from sequence to structure to simulation
  publication-title: Curr. Opin. Struct. Biol.
  doi: 10.1016/j.sbi.2017.04.004
– volume: 175
  start-page: 720
  year: 1972
  ident: 10.1016/j.jmb.2019.02.018_bb0035
  article-title: The fluid mosaic model of the structure of cell membranes
  publication-title: Science
  doi: 10.1126/science.175.4023.720
– volume: 50
  start-page: 191
  year: 2011
  ident: 10.1016/j.jmb.2019.02.018_bb1310
  article-title: Electrostatically-driven fast association and perdeuteration allow detection of transferred cross-relaxation for G protein-coupled receptor ligands with equilibrium dissociation constants in the high-to-low nanomolar range
  publication-title: J. Biomol. NMR
  doi: 10.1007/s10858-011-9523-3
– volume: 45
  start-page: 491
  year: 2017
  ident: 10.1016/j.jmb.2019.02.018_bb1500
  article-title: Creating 3D physical models to probe student understanding of macromolecular structure
  publication-title: Biochem. Mol. Biol. Educ.
  doi: 10.1002/bmb.21076
– volume: 28
  start-page: 319
  year: 1999
  ident: 10.1016/j.jmb.2019.02.018_bb0125
  article-title: Membrane protein folding and stability: physical principles
  publication-title: Annu. Rev. Biophys. Biomol. Struct.
  doi: 10.1146/annurev.biophys.28.1.319
– volume: 3
  year: 2014
  ident: 10.1016/j.jmb.2019.02.018_bb0375
  article-title: Stepwise visualization of membrane pore formation by suilysin, a bacterial cholesterol-dependent cytolysin
  publication-title: Elife
  doi: 10.7554/eLife.04247
– volume: 97
  start-page: 8343
  year: 1993
  ident: 10.1016/j.jmb.2019.02.018_bb0060
  article-title: Molecular dynamics simulation of a bilayer of 200 lipids in the gel and in the liquid crystal phase
  publication-title: J. Phys. Chem.
  doi: 10.1021/j100133a034
– volume: 88
  start-page: 3745
  year: 2005
  ident: 10.1016/j.jmb.2019.02.018_bb0875
  article-title: Imaging alpha-hemolysin with molecular dynamics: ionic conductance, osmotic permeability, and the electrostatic potential map
  publication-title: Biophys. J.
  doi: 10.1529/biophysj.104.058727
– volume: 104
  start-page: 17370
  year: 2007
  ident: 10.1016/j.jmb.2019.02.018_bb0335
  article-title: Dynamic clustered distribution of hemagglutinin resolved at 40 nm in living cell membranes discriminates between raft theories
  publication-title: Proc. Natl. Acad. Sci. U. S. A.
  doi: 10.1073/pnas.0708066104
– volume: 114
  start-page: 6836
  year: 2010
  ident: 10.1016/j.jmb.2019.02.018_bb1060
  article-title: Zwitterionic lipid assemblies: molecular dynamics studies of monolayers, bilayers, and vesicles using a new coarse grain force field
  publication-title: J. Phys. Chem. B
  doi: 10.1021/jp9107206
– volume: 19
  start-page: 892
  year: 2000
  ident: 10.1016/j.jmb.2019.02.018_bb0445
  article-title: Properties of lipid microdomains in a muscle cell membrane visualized by single molecule microscopy
  publication-title: EMBO J.
  doi: 10.1093/emboj/19.5.892
– volume: 93
  start-page: 2926
  year: 1996
  ident: 10.1016/j.jmb.2019.02.018_bb0625
  article-title: Imaging of single molecule diffusion
  publication-title: Proc. Natl. Acad. Sci. U. S. A.
  doi: 10.1073/pnas.93.7.2926
– volume: 104
  start-page: 585
  year: 2013
  ident: 10.1016/j.jmb.2019.02.018_bb0850
  article-title: Conical lipids in flat bilayers induce packing defects similar to that induced by positive curvature
  publication-title: Biophys. J.
  doi: 10.1016/j.bpj.2012.11.3836
– volume: 29
  start-page: 144
  year: 2012
  ident: 10.1016/j.jmb.2019.02.018_bb0500
  article-title: Model membrane platforms to study protein-membrane interactions
  publication-title: Mol. Membr. Biol.
  doi: 10.3109/09687688.2012.700490
– volume: 26
  start-page: 373
  year: 1997
  ident: 10.1016/j.jmb.2019.02.018_bb0600
  article-title: Single-particle tracking: applications to membrane dynamics
  publication-title: Annu. Rev. Biophys. Biomol. Struct.
  doi: 10.1146/annurev.biophys.26.1.373
– volume: 219
  start-page: 47
  year: 1970
  ident: 10.1016/j.jmb.2019.02.018_bb0320
  article-title: Lamellar and hexagonal lipid phases visualized by freeze-etching
  publication-title: Biochim. Biophys. Acta
  doi: 10.1016/0005-2736(70)90060-X
– volume: 11
  start-page: 2144
  year: 2015
  ident: 10.1016/j.jmb.2019.02.018_bb0785
  article-title: Computational lipidomics with insane: a versatile tool for generating custom membranes for molecular simulations
  publication-title: J. Chem. Theory Comput.
  doi: 10.1021/acs.jctc.5b00209
– volume: 17
  start-page: 3310
  year: 1978
  ident: 10.1016/j.jmb.2019.02.018_bb0695
  article-title: Molecular order in cis and trans unsaturated phospholipid bilayers
  publication-title: Biochemistry
  doi: 10.1021/bi00609a021
– volume: 79
  start-page: 426
  year: 2000
  ident: 10.1016/j.jmb.2019.02.018_bb0985
  article-title: Mesoscopic undulations and thickness fluctuations in lipid bilayers from molecular dynamics simulations
  publication-title: Biophys. J.
  doi: 10.1016/S0006-3495(00)76304-1
– volume: 4
  start-page: 162
  year: 2003
  ident: 10.1016/j.jmb.2019.02.018_bb0570
  article-title: Caveolae—from ultrastructure to molecular mechanisms
  publication-title: Nat. Rev. Mol. Cell Biol.
  doi: 10.1038/nrm1017
– volume: 23
  start-page: 1350
  year: 2015
  ident: 10.1016/j.jmb.2019.02.018_bb0840
  article-title: MemProtMD: automated insertion of membrane protein structures into explicit lipid membranes
  publication-title: Structure
  doi: 10.1016/j.str.2015.05.006
– volume: 31
  start-page: 84
  year: 2015
  ident: 10.1016/j.jmb.2019.02.018_bb1400
  article-title: Bringing macromolecular machinery to life using 3D animation
  publication-title: Curr. Opin. Struct. Biol.
  doi: 10.1016/j.sbi.2015.03.015
– volume: 9
  year: 2013
  ident: 10.1016/j.jmb.2019.02.018_bb1215
  article-title: Membrane sculpting by F-BAR domains studied by molecular dynamics simulations
  publication-title: PLoS Comput. Biol.
  doi: 10.1371/journal.pcbi.1002892
– volume: 8
  start-page: 4593
  year: 2012
  ident: 10.1016/j.jmb.2019.02.018_bb0905
  article-title: Molecular dynamics simulations of phosphatidylcholine membranes: a comparative force field study
  publication-title: J. Chem. Theory Comput.
  doi: 10.1021/ct3003157
– volume: 105
  start-page: 6122
  year: 2001
  ident: 10.1016/j.jmb.2019.02.018_bb0990
  article-title: Effect of undulations on surface tension in simulated bilayers
  publication-title: J. Phys. Chem. B
  doi: 10.1021/jp0103474
– volume: 113
  start-page: 1501
  year: 2009
  ident: 10.1016/j.jmb.2019.02.018_bb1190
  article-title: Systematic coarse-graining of a multicomponent lipid bilayer
  publication-title: J. Phys. Chem. B
  doi: 10.1021/jp809604k
– year: 2016
  ident: 10.1016/j.jmb.2019.02.018_bb1435
– volume: 51
  start-page: 3299
  year: 2010
  ident: 10.1016/j.jmb.2019.02.018_bb0210
  article-title: Lipidomics reveals a remarkable diversity of lipids in human plasma
  publication-title: J. Lipid Res.
  doi: 10.1194/jlr.M009449
– start-page: 359
  year: 2004
  ident: 10.1016/j.jmb.2019.02.018_bb1270
  article-title: Triangulated-surface models of fluctuating membranes
– volume: 335
  start-page: 1355
  year: 2012
  ident: 10.1016/j.jmb.2019.02.018_bb0430
  article-title: SNARE proteins: one to fuse and three to keep the nascent fusion pore open
  publication-title: Science
  doi: 10.1126/science.1214984
– volume: 15
  start-page: 1
  year: 1977
  ident: 10.1016/j.jmb.2019.02.018_bb1385
  article-title: Long-range order in biomembranes
  publication-title: Adv. Lipid Res.
  doi: 10.1016/B978-0-12-024915-2.50007-4
– volume: 14
  start-page: 823
  year: 1982
  ident: 10.1016/j.jmb.2019.02.018_bb0280
  article-title: Imidazole-buffered osmium tetroxide: an excellent stain for visualization of lipids in transmission electron microscopy
  publication-title: Histochem. J.
  doi: 10.1007/BF01033631
– volume: 119
  start-page: 4240
  year: 2015
  ident: 10.1016/j.jmb.2019.02.018_bb1085
  article-title: Multiscale modeling of four-component lipid mixtures: domain composition, size, alignment, and properties of the phase interface
  publication-title: J. Phys. Chem. B
  doi: 10.1021/jp511083z
– volume: 51
  start-page: 177
  year: 2018
  ident: 10.1016/j.jmb.2019.02.018_bb0810
  article-title: Microscopic view of lipids and their diverse biological functions
  publication-title: Curr. Opin. Struct. Biol.
  doi: 10.1016/j.sbi.2018.07.003
– volume: 20
  start-page: 11600
  year: 2004
  ident: 10.1016/j.jmb.2019.02.018_bb0410
  article-title: Vesicle adsorption and lipid bilayer formation on glass studied by atomic force microscopy
  publication-title: Langmuir
  doi: 10.1021/la049302v
– volume: 134
  start-page: 10959
  year: 2012
  ident: 10.1016/j.jmb.2019.02.018_bb1185
  article-title: Structural determinants of the supramolecular organization of G protein-coupled receptors in bilayers
  publication-title: J. Am. Chem. Soc.
  doi: 10.1021/ja303286e
– volume: 127
  start-page: 831
  year: 2006
  ident: 10.1016/j.jmb.2019.02.018_bb0170
  article-title: Molecular anatomy of a trafficking organelle
  publication-title: Cell
  doi: 10.1016/j.cell.2006.10.030
– volume: 3
  year: 2014
  ident: 10.1016/j.jmb.2019.02.018_bb0345
  article-title: A lipid bound actin meshwork organizes liquid phase separation in model membranes
  publication-title: Elife
  doi: 10.7554/eLife.01671
– volume: 24
  start-page: 375
  year: 2016
  ident: 10.1016/j.jmb.2019.02.018_bb1130
  article-title: The role of the membrane in the structure and biophysical robustness of the dengue virion envelope
  publication-title: Structure
  doi: 10.1016/j.str.2015.12.011
– year: 2015
  ident: 10.1016/j.jmb.2019.02.018_bb0805
– volume: 10
  start-page: 349
  year: 2000
  ident: 10.1016/j.jmb.2019.02.018_bb0440
  article-title: Visualizing membrane traffic in vivo by combined video fluorescence and 3D electron microscopy
  publication-title: Trends Cell Biol.
  doi: 10.1016/S0962-8924(00)01787-6
– volume: 62
  start-page: 1
  year: 1974
  ident: 10.1016/j.jmb.2019.02.018_bb1370
  article-title: The organization of proteins in the human red blood cell membrane. A review
  publication-title: J. Cell Biol.
  doi: 10.1083/jcb.62.1.1
– volume: 109
  start-page: 20455
  year: 2012
  ident: 10.1016/j.jmb.2019.02.018_bb0415
  article-title: Direct three-dimensional visualization of membrane disruption by amyloid fibrils
  publication-title: Proc. Natl. Acad. Sci. U. S. A.
  doi: 10.1073/pnas.1206325109
– volume: 35
  start-page: 482
  year: 2002
  ident: 10.1016/j.jmb.2019.02.018_bb1030
  article-title: Computer simulation studies of model biological membranes
  publication-title: Acc. Chem. Res.
  doi: 10.1021/ar010167c
– volume: 112
  start-page: 12299
  year: 2015
  ident: 10.1016/j.jmb.2019.02.018_bb0620
  article-title: Dynamic label-free imaging of lipid nanodomains
  publication-title: Proc. Natl. Acad. Sci. U. S. A.
  doi: 10.1073/pnas.1508483112
– volume: 118
  start-page: 1545
  year: 2014
  ident: 10.1016/j.jmb.2019.02.018_bb0465
  article-title: Tracking single particles on supported lipid membranes: multimobility diffusion and nanoscopic confinement
  publication-title: J. Phys. Chem. B
  doi: 10.1021/jp412203t
– volume: 43
  start-page: 1939
  year: 2004
  ident: 10.1016/j.jmb.2019.02.018_bb0655
  article-title: A ratiometric expressible FRET sensor for phosphoinositides displays a signal change in highly dynamic membrane structures in fibroblasts
  publication-title: Biochemistry
  doi: 10.1021/bi035480w
– volume: 16
  start-page: 9936
  year: 2000
  ident: 10.1016/j.jmb.2019.02.018_bb0405
  article-title: Direct visualization of vesicle–bilayer complexes by atomic force microscopy
  publication-title: Langmuir
  doi: 10.1021/la000476w
– volume: 23
  start-page: 584
  year: 2015
  ident: 10.1016/j.jmb.2019.02.018_bb1140
  article-title: Nothing to sneeze at: a dynamic and integrative computational model of an influenza A virion
  publication-title: Structure
  doi: 10.1016/j.str.2014.12.019
– volume: 68
  start-page: 673
  year: 1992
  ident: 10.1016/j.jmb.2019.02.018_bb0295
  article-title: Caveolin, a protein component of caveolae membrane coats
  publication-title: Cell
  doi: 10.1016/0092-8674(92)90143-Z
– volume: 1788
  start-page: 149
  year: 2009
  ident: 10.1016/j.jmb.2019.02.018_bb0915
  article-title: Lipids on the move: simulations of membrane pores, domains, stalks and curves
  publication-title: Biochim. Biophys. Acta
  doi: 10.1016/j.bbamem.2008.10.006
– volume: 4
  start-page: 98
  year: 2016
  ident: 10.1016/j.jmb.2019.02.018_bb0545
  article-title: Super-resolution imaging of plasma membrane proteins with click chemistry
  publication-title: Front. Cell Dev. Biol.
  doi: 10.3389/fcell.2016.00098
– year: 2007
  ident: 10.1016/j.jmb.2019.02.018_bb0950
  article-title: There's plenty of room in the middle: multi-scale modelling of biological systems
– volume: 9
  year: 2018
  ident: 10.1016/j.jmb.2019.02.018_bb1175
  article-title: How nanoscale protein interactions determine the mesoscale dynamic organisation of bacterial outer membrane proteins
  publication-title: Nat. Commun.
  doi: 10.1038/s41467-018-05255-9
– start-page: 64
  year: 2018
  ident: 10.1016/j.jmb.2019.02.018_bb1425
  article-title: 3D modelling and visualisation of heterogeneous cell membranes in Blender
– volume: 17
  start-page: 6295
  year: 2017
  ident: 10.1016/j.jmb.2019.02.018_bb0540
  article-title: Planar optical nanoantennas resolve cholesterol-dependent nanoscale heterogeneities in the plasma membrane of living cells
  publication-title: Nano Lett.
  doi: 10.1021/acs.nanolett.7b02973
– volume: 41
  start-page: 854
  year: 2017
  ident: 10.1016/j.jmb.2019.02.018_bb1480
  article-title: A visual review of the human pathogen Streptococcus pneumoniae
  publication-title: FEMS Microbiol. Rev.
  doi: 10.1093/femsre/fux037
– volume: 19
  start-page: 293
  year: 2011
  ident: 10.1016/j.jmb.2019.02.018_bb1415
  article-title: ePMV embeds molecular modeling into professional animation software environments
  publication-title: Structure
  doi: 10.1016/j.str.2010.12.023
– volume: 13
  start-page: 347
  year: 2005
  ident: 10.1016/j.jmb.2019.02.018_bb1450
  article-title: Visual methods from atoms to cells
  publication-title: Structure
  doi: 10.1016/j.str.2005.01.012
– start-page: 317
  year: 2009
  ident: 10.1016/j.jmb.2019.02.018_bb1275
  article-title: Visualization of complex processes in lipid systems using computer simulations and molecular graphics
– volume: 39
  start-page: 91
  year: 2011
  ident: 10.1016/j.jmb.2019.02.018_bb1465
  article-title: Eukaryotic cell panorama
  publication-title: Biochem. Mol. Biol. Educ.
  doi: 10.1002/bmb.20494
– volume: 31
  start-page: 27
  year: 2010
  ident: 10.1016/j.jmb.2019.02.018_bb1420
– volume: 19
  start-page: 581
  year: 1968
  ident: 10.1016/j.jmb.2019.02.018_bb1365
  article-title: Liquid crystals: the mesomorphic phases of surfactant compositions
  publication-title: J. Soc. Cosmet. Chem.
– volume: 109
  start-page: 461
  year: 2015
  ident: 10.1016/j.jmb.2019.02.018_bb0815
  article-title: Molecular simulations of gram-negative bacterial membranes: a vignette of some recent successes
  publication-title: Biophys. J.
  doi: 10.1016/j.bpj.2015.06.050
– volume: 2
  start-page: e880
  year: 2007
  ident: 10.1016/j.jmb.2019.02.018_bb0765
  article-title: Automated builder and database of protein/membrane complexes for molecular dynamics simulations
  publication-title: PLoS One
  doi: 10.1371/journal.pone.0000880
– volume: 14
  year: 2018
  ident: 10.1016/j.jmb.2019.02.018_bb1505
  article-title: Ten simple rules to create a serious game, illustrated with examples from structural biology
  publication-title: PLoS Comput. Biol.
  doi: 10.1371/journal.pcbi.1005955
– volume: 114
  start-page: 7830
  year: 2010
  ident: 10.1016/j.jmb.2019.02.018_bb0885
  article-title: Update of the CHARMM all-atom additive force field for lipids: validation on six lipid types
  publication-title: J. Phys. Chem. B
  doi: 10.1021/jp101759q
– volume: 4
  year: 2018
  ident: 10.1016/j.jmb.2019.02.018_bb0675
  article-title: Oriented chiral water wires in artificial transmembrane channels
  publication-title: Sci. Adv.
  doi: 10.1126/sciadv.aao5603
– volume: 4
  start-page: 555
  year: 2013
  ident: 10.1016/j.jmb.2019.02.018_bb1035
  article-title: Coarse-grained computer simulation of dynamics in thylakoid membranes: methods and opportunities
  publication-title: Front. Plant Sci.
– volume: 247
  start-page: 438
  year: 1974
  ident: 10.1016/j.jmb.2019.02.018_bb0020
  article-title: Lateral diffusion of rhodopsin in the photoreceptor membrane
  publication-title: Nature
  doi: 10.1038/247438a0
– volume: 137
  start-page: 14694
  year: 2015
  ident: 10.1016/j.jmb.2019.02.018_bb1105
  article-title: Organization and dynamics of receptor proteins in a plasma membrane
  publication-title: J. Am. Chem. Soc.
  doi: 10.1021/jacs.5b08048
– volume: 4
  start-page: 414
  year: 2003
  ident: 10.1016/j.jmb.2019.02.018_bb1375
  article-title: Lipids on the frontier: a century of cell-membrane bilayers
  publication-title: Nat. Rev. Mol. Cell Biol.
  doi: 10.1038/nrm1102
– volume: 360
  year: 2018
  ident: 10.1016/j.jmb.2019.02.018_bb0575
  article-title: Observing the cell in its native state: Imaging subcellular dynamics in multicellular organisms
  publication-title: Science
  doi: 10.1126/science.aaq1392
– volume: 13
  start-page: S16
  year: 2012
  ident: 10.1016/j.jmb.2019.02.018_bb1305
  article-title: Intuitive representation of surface properties of biomolecules using BioBlender
  publication-title: BMC Bioinforma.
  doi: 10.1186/1471-2105-13-S4-S16
– volume: 243
  start-page: 636
  year: 1989
  ident: 10.1016/j.jmb.2019.02.018_bb0970
  article-title: Molecular dynamics simulation of a phospholipid micelle
  publication-title: Science
  doi: 10.1126/science.2916118
– volume: 169
  start-page: 23
  year: 2014
  ident: 10.1016/j.jmb.2019.02.018_bb0790
  article-title: 3D molecular models of whole HIV-1 virions generated with cellPACK
  publication-title: Faraday Discuss.
  doi: 10.1039/C4FD00017J
– volume: 105
  start-page: 4464
  year: 2001
  ident: 10.1016/j.jmb.2019.02.018_bb0100
  article-title: A coarse grain model for phospholipid simulations
  publication-title: J. Phys. Chem. B
  doi: 10.1021/jp010238p
– volume: 11
  start-page: 593
  year: 2010
  ident: 10.1016/j.jmb.2019.02.018_bb0205
  article-title: Lipidomics: coming to grips with lipid diversity
  publication-title: Nat. Rev. Mol. Cell Biol.
  doi: 10.1038/nrm2934
– volume: 121
  start-page: 3871
  year: 2017
  ident: 10.1016/j.jmb.2019.02.018_bb0135
  article-title: Challenges of integrating stochastic dynamics and cryo-electron tomograms in whole-cell simulations
  publication-title: J. Phys. Chem. B
  doi: 10.1021/acs.jpcb.7b00672
– volume: 119
  start-page: 1183
  year: 1992
  ident: 10.1016/j.jmb.2019.02.018_bb0355
  article-title: Direct visualization of the dystrophin network on skeletal muscle fiber membrane
  publication-title: J. Cell Biol.
  doi: 10.1083/jcb.119.5.1183
– volume: 348
  start-page: 391
  year: 1980
  ident: 10.1016/j.jmb.2019.02.018_bb0685
  article-title: The lipid–protein interface in biological membranes
  publication-title: Ann. N. Y. Acad. Sci.
  doi: 10.1111/j.1749-6632.1980.tb21315.x
– volume: 128
  start-page: 243
  year: 1999
  ident: 10.1016/j.jmb.2019.02.018_bb0380
  article-title: Charting the surfaces of the purple membrane
  publication-title: J. Struct. Biol.
  doi: 10.1006/jsbi.1999.4180
– volume: 438
  start-page: 590
  year: 2005
  ident: 10.1016/j.jmb.2019.02.018_bb0285
  article-title: Membrane curvature and mechanisms of dynamic cell membrane remodelling
  publication-title: Nature
  doi: 10.1038/nature04396
– volume: 103
  start-page: 89
  year: 1990
  ident: 10.1016/j.jmb.2019.02.018_bb0225
  article-title: Wet lipid–protein membranes imaged at submolecular resolution by atomic force microscopy
  publication-title: J. Struct. Biol.
  doi: 10.1016/1047-8477(90)90089-U
– volume: 129
  start-page: 257
  year: 2016
  ident: 10.1016/j.jmb.2019.02.018_bb0860
  article-title: Computational ‘microscopy’ of cellular membranes
  publication-title: J. Cell Sci.
– volume: 1
  start-page: 31
  year: 2000
  ident: 10.1016/j.jmb.2019.02.018_bb0195
  article-title: Lipid rafts and signal transduction
  publication-title: Nat. Rev. Mol. Cell Biol.
  doi: 10.1038/35036052
– volume: 1
  start-page: 78
  year: 1996
  ident: 10.1016/j.jmb.2019.02.018_bb0715
  article-title: Molecular and collective dynamics of lipid bilayers
  publication-title: Curr. Opin. Colloid Interface Sci.
  doi: 10.1016/S1359-0294(96)80047-1
– volume: 51
  start-page: 1165
  year: 2011
  ident: 10.1016/j.jmb.2019.02.018_bb0780
  article-title: CELLmicrocosmos 2.2 MembraneEditor: a modular interactive shape-based software approach to solve heterogeneous membrane packing problems
  publication-title: J. Chem. Inf. Model.
  doi: 10.1021/ci1003619
– volume: 61
  start-page: 434
  year: 1992
  ident: 10.1016/j.jmb.2019.02.018_bb0215
  article-title: Structure of a fluid dioleoylphosphatidylcholine bilayer determined by joint refinement of x-ray and neutron diffraction data. III. Complete structure
  publication-title: Biophys. J.
  doi: 10.1016/S0006-3495(92)81849-0
– volume: 327
  start-page: 46
  year: 2010
  ident: 10.1016/j.jmb.2019.02.018_bb0265
  article-title: Lipid rafts as a membrane-organizing principle
  publication-title: Science
  doi: 10.1126/science.1174621
– volume: 438
  start-page: 578
  year: 2005
  ident: 10.1016/j.jmb.2019.02.018_bb0165
  article-title: Membranes are more mosaic than fluid
  publication-title: Nature
  doi: 10.1038/nature04394
– volume: 120
  start-page: 8722
  year: 2016
  ident: 10.1016/j.jmb.2019.02.018_bb1195
  article-title: Divergent diffusion coefficients in simulations of fluids and lipid membranes
  publication-title: J. Phys. Chem. B
  doi: 10.1021/acs.jpcb.6b05102
– volume: 10
  start-page: 907
  year: 2003
  ident: 10.1016/j.jmb.2019.02.018_bb0435
  article-title: Visualization of membrane protein domains by cryo-electron microscopy of dengue virus
  publication-title: Nat. Struct. Biol.
  doi: 10.1038/nsb990
– volume: 10
  start-page: 1118
  year: 2018
  ident: 10.1016/j.jmb.2019.02.018_bb0650
  article-title: A fluorescent membrane tension probe
  publication-title: Nat. Chem.
  doi: 10.1038/s41557-018-0127-3
– volume: 309
  start-page: 1990
  year: 2005
  ident: 10.1016/j.jmb.2019.02.018_bb1485
  article-title: Illustration
  publication-title: Science
  doi: 10.1126/science.309.5743.1990
– volume: 1462
  start-page: 157
  year: 1999
  ident: 10.1016/j.jmb.2019.02.018_bb0185
  article-title: The structure, dynamics and orientation of antimicrobial peptides in membranes by multidimensional solid-state NMR spectroscopy
  publication-title: Biochim. Biophys. Acta Biomembr.
  doi: 10.1016/S0005-2736(99)00205-9
– volume: 34
  start-page: 351
  year: 2005
  ident: 10.1016/j.jmb.2019.02.018_bb0460
  article-title: Paradigm shift of the plasma membrane concept from the two-dimensional continuum fluid to the partitioned fluid: high-speed single-molecule tracking of membrane molecules
  publication-title: Annu. Rev. Biophys. Biomol. Struct.
  doi: 10.1146/annurev.biophys.34.040204.144637
– volume: 53
  start-page: 2908
  year: 2013
  ident: 10.1016/j.jmb.2019.02.018_bb1320
  article-title: APL@ Voro: a voronoi-based membrane analysis tool for GROMACS trajectories
  publication-title: J. Chem. Inf. Model.
  doi: 10.1021/ci400172g
– volume: 277
  start-page: 26966
  year: 2002
  ident: 10.1016/j.jmb.2019.02.018_bb0235
  article-title: Placental alkaline phosphatase is efficiently targeted to rafts in supported lipid bilayers
  publication-title: J. Biol. Chem.
  doi: 10.1074/jbc.M204669200
– volume: 5
  start-page: 4916
  year: 2014
  ident: 10.1016/j.jmb.2019.02.018_bb0845
  article-title: A sub-nanometre view of how membrane curvature and composition modulate lipid packing and protein recruitment
  publication-title: Nat. Commun.
  doi: 10.1038/ncomms5916
– volume: 11
  start-page: 688
  year: 2010
  ident: 10.1016/j.jmb.2019.02.018_bb0560
  article-title: Revitalizing membrane rafts: new tools and insights
  publication-title: Nat. Rev. Mol. Cell Biol.
  doi: 10.1038/nrm2977
– volume: 12
  start-page: 7792
  year: 2016
  ident: 10.1016/j.jmb.2019.02.018_bb1180
  article-title: Membrane stiffness is modified by integral membrane proteins
  publication-title: Soft Matter
  doi: 10.1039/C6SM01186A
– volume: 133
  start-page: 1127
  year: 2008
  ident: 10.1016/j.jmb.2019.02.018_bb1405
  article-title: Molecular movies… coming to a lecture near you
  publication-title: Cell
  doi: 10.1016/j.cell.2008.06.013
– volume: 135
  start-page: 1263
  year: 2008
  ident: 10.1016/j.jmb.2019.02.018_bb0595
  article-title: Real-time visualization of dynamin-catalyzed membrane fission and vesicle release
  publication-title: Cell
  doi: 10.1016/j.cell.2008.11.020
– volume: 84
  start-page: 842
  year: 2003
  ident: 10.1016/j.jmb.2019.02.018_bb1260
  article-title: Regulation of protein mobility via thermal membrane undulations
  publication-title: Biophys. J.
  doi: 10.1016/S0006-3495(03)74903-0
– volume: 20
  start-page: 699
  year: 2010
  ident: 10.1016/j.jmb.2019.02.018_bb1410
  article-title: Animating the model figure
  publication-title: Trends Cell Biol.
  doi: 10.1016/j.tcb.2010.08.005
– volume: 249
  start-page: 239
  year: 1995
  ident: 10.1016/j.jmb.2019.02.018_bb0365
  article-title: Force-induced conformational change of bacteriorhodopsin
  publication-title: J. Mol. Biol.
  doi: 10.1006/jmbi.1995.0292
– volume: 6
  year: 2016
  ident: 10.1016/j.jmb.2019.02.018_bb0470
  article-title: Nanoscopic substructures of raft-mimetic liquid-ordered membrane domains revealed by high-speed single-particle tracking
  publication-title: Sci. Rep.
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Snippet Biological membranes are fascinating. Santiago Ramón y Cajal, who received the Nobel prize in 1906 together with Camillo Golgi for their work on the nervous...
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SubjectTerms Animals
Biochemistry, Molecular Biology
Biophysics
Cell Membrane - chemistry
Cell Membrane - ultrastructure
computer simulation
Humans
insects
Life Sciences
lipid bilayer
Lipid Bilayers - chemistry
Microscopy, Atomic Force - methods
Microscopy, Electron, Transmission - methods
Molecular Dynamics Simulation
molecular visualization
natural selection
retina
sensation
vertebrates
Title Visualizing Biological Membrane Organization and Dynamics
URI https://dx.doi.org/10.1016/j.jmb.2019.02.018
https://www.ncbi.nlm.nih.gov/pubmed/30844404
https://www.proquest.com/docview/2189538661
https://www.proquest.com/docview/2221043361
https://hal.science/hal-02370047
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