Mesoscopic models of lipid bilayers and bilayers with embedded ...

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Mesoscopic models of lipid bilayers and bilayers with embedded proteins A Dissipative Particle Dynamics study ACADEMISCH PROEFSCHRIFT ter verkrijging van de graad van doctor aan de Universiteit van Amsterdam, op gezag van de Rector Magnificus prof. mr. P.F. van der Heijden ten overstaan van een door het college voor promoties ingestelde commissie, in het openbaar te verdedigen in de Aula der Universiteit op vrijdag 10 december 2004, te 10.00 uur door Maddalena Venturoli geboren te Roma, Italie
Page 1: Mesoscopic models of lipid bilayers
Page 5 and 6: Contents 1 Introduction 1 1.1 The c
Page 7 and 8: I Introduction
Page 9 and 10: 1.2 Study of lipid bilayers with co
Page 11 and 12: 1.3 This thesis 5 13 12 11 9 H 10 2
Page 13 and 14: II Simulation method for coarse-gra
Page 15 and 16: 2.1 Dissipative Particle Dynamics 9
Page 17 and 18: 2.1 Dissipative Particle Dynamics 1
Page 19 and 20: 2.2 Coarse-grained model of lipids
Page 21 and 22: 2.2 Coarse-grained model of lipids
Page 23 and 24: 2.3 Self-assembly 17 setting the eq
Page 25: 2.3 Self-assembly 19 (a) (b) (c) (d
Page 28 and 29: 22 Surface tension in lipid bilayer
Page 44 and 45: 38 Structural characterization of l
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46 Structural characterization of l
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V Phase behavior of coarse-grained
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5.2 Single-tail lipid bilayers 59 d
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5.2 Single-tail lipid bilayers 61 a
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5.2 Single-tail lipid bilayers 63 p
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5.2 Single-tail lipid bilayers 65 p
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5.2 Single-tail lipid bilayers 67 t
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5.2 Single-tail lipid bilayers 69 A
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5.2 Single-tail lipid bilayers 71 a
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5.3 Double-tail lipid bilayers 73 5
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5.3 Double-tail lipid bilayers 75 (
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5.4 Conclusion 77 ness, the order p
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80 Interaction of small molecules w
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VII Mesoscopic model for lipid bila
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7.1 Introduction 97 to reduce their
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7.2 Computational details 99 dL o (
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7.2 Computational details 101 to th
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7.2 Computational details 103 (figu
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7.3 Results and discussion 105 70%)
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7.3 Results and discussion 107 ted
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7.3 Results and discussion 109 that
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7.3 Results and discussion 111 ment
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7.3 Results and discussion 113 reti
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7.3 Results and discussion 115 tein
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7.4 Conclusion 117 make use of orde
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120 Mesoscopic model for lipid bila
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126 Summary state, we introduce in
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128 Summary vestigate hydrophobic m
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130 Samenvatting model lipiden kunn
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132 Samenvatting als model voor ver
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Curriculum Vitae Maddalena Venturol
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Acknowledgments This thesis would n
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