Single Molecules
Magnetic Tweezers and Twisting DNA
This is a primer on magnetic tweezers and twisting DNA from
http://www.biotec.tu-dresden.de/cms/fileadmin/research/biophysics/
It has an brief section on torsional persistence length at the end.
Thermal Forces from "Mechanics of Motor Proteins and The Cytoskeleton"
This is a section on thermal forces and power spectra from a great book by Dr. Jonathon Howard.
Gittes, F., Schmidt, C. Euro Biophys J 27, 75 (1998)
This paper discusses the influence of thermal noise on single molecule measurements and may be useful in understand
diffusion in an optical trap.
Bryant, Z., et al. Nature 424, 338 (2003)
In this paper, the authors rotation of a small rotor bead on the side of DNA to calculate the effect of torque on DNA.
RNA Folding Tinoco, I., Bustamante, C. J. Mol. Bio. 293, 271 (1999) A discussion of the RNA folding problem.
Polyelectrolytes and Manning Condensation
Example Debye Length Calculation
Charge Distribution
The above links were scanned from "Molecular Driving Forces" by Ken Dill. They include a brief example on how
to calculate the Debye length and a few paragraphs on how the Bolztmann factor governs the charge distribution.
Keyser et al., Nature Physics 2, 472 (2006)
The direct measurement of the effective charge per unit length of DNA, accomplished by simultaneously manipulating a
single molecule of DNA with an optical tweezers while threading it through a nanopore!
Chain Statistics Hagerman, P. Ann. Rev. Biophys. Biophys. Chem. 17, 265 (1988) A brief review of DNA flexibility, the persistence length, and experimental methods at that time.
Thermodynamics of Water Chandler, D. Nature 437, 640 (2005) A great discussion of the thermodynamics of water and the hydrophobic effect