Polymers in Confined Geometry.pdf

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92 BIBLIOGRAPHY [44] J. O. Tegenfeldt et al. The dynamics of genomic-length DNA molecules in 100-nm channels. Proceedings of the National Academy of Sciences, 101:10979–10983, 2004. [45] N. van Kampen. Stochastic Processes in Physics and Chemistry. North- Holland Personal Library, Elsevier Science B.V., 2001. [46] C. H. Wiggins et al. Trapping and wiggling: Elastohydrodynamics of driven microfilaments. Biophysical Journal, 74:1043–1060, 1998. [47] J. Wilhelm and E. Frey. Radial distribution function of semiflexible polymers. Physical Review Letters, 77:2581–2584, 1996. [48] H. Yamakawa and M. Fujii. Wormlike chains near the rod limit: Path integral in the WKB approximation. The Journal of Chemical Physics, 59:6641–6644, 1973.
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Diploma Thesis Polymers in Confined
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TMTOWTDI—There’s More Than One
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Contents 1 Introduction 1 2 Polymer
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Chapter 1 Introduction Polymers are
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(a) λ-DNA (b) T2-DNA Figure 1.2: A
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Chapter 2 Polymer models This chapt
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2.2. IDEAL PHANTOM CHAIN 7 configur
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2.3. SEMI-FLEXIBLE POLYMERS 9 In th
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2.3. SEMI-FLEXIBLE POLYMERS 11 to i
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2.3. SEMI-FLEXIBLE POLYMERS 13 for
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2.5. REAL CHAINS 15 no overhangs al
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2.5. REAL CHAINS 17 Figure 2.5: Sna
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2.5. REAL CHAINS 19 ln R cases intr
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Chapter 3 Polymers in confined geom
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3.2. SCALING RELATIONS 23 using eq.
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3.2. SCALING RELATIONS 25 b a d R |
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3.3. ANALYTICAL RESULTS 27 The mean
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3.3. ANALYTICAL RESULTS 29 From thi
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3.3. ANALYTICAL RESULTS 31 a consta
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3.3. ANALYTICAL RESULTS 33 the proj
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3.3. ANALYTICAL RESULTS 35 x 2 (s/
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Chapter 4 Simulation methods This c
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4.3. SAMPLING THE CANONICAL ENSEMBL
Page 49 and 50: 4.3. SAMPLING THE CANONICAL ENSEMBL
Page 55 and 56: 4.4. SIMULATION OF UNCONFINED WORM-
Page 57 and 58: 4.4. SIMULATION OF UNCONFINED WORM-
Page 59 and 60: 4.5. SIMULATION OF CONFINED WORM-LI
Page 61 and 62: 4.6. SAMPLED QUANTITIES AND THEIR R
Page 63 and 64: 4.6. SAMPLED QUANTITIES AND THEIR R
Page 65 and 66: Chapter 5 Simulation results In thi
Page 67 and 68: 5.2. THE HARMONIC POTENTIAL 59 ˆt
Page 69 and 70: 5.2. THE HARMONIC POTENTIAL 61 5.2.
Page 71 and 72: 5.2. THE HARMONIC POTENTIAL 63 beha
Page 73 and 74: 5.2. THE HARMONIC POTENTIAL 65 R 2
Page 75 and 76: 5.2. THE HARMONIC POTENTIAL 67 R 2
Page 77 and 78: 5.2. THE HARMONIC POTENTIAL 69 R
Page 79 and 80: 5.2. THE HARMONIC POTENTIAL 71 p(R)
Page 81 and 82: 5.3. THE HARD WALLS 73 〈Ra〉 1 0
Page 83 and 84: Chapter 6 Conclusion Emerging from
Page 85 and 86: Appendix A Discrete worm-like chain
Page 87 and 88: which, after taking all the derivat
Page 89 and 90: Appendix B Calculation for the conf
Page 91 and 92: B.2. END-TO-END DISTANCE CORRELATIO
Page 93 and 94: B.3. PARALLEL END-TO-END DISTANCE C
Page 95 and 96: Glossary L filament length lp persi
Page 97 and 98: Bibliography [1] M. Abramowitz and
Page 99: BIBLIOGRAPHY 91 [29] P. L’Ecuyer.
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