Index: /qipapers.bib
===================================================================
--- /qipapers.bib	(revision 107)
+++ /qipapers.bib	(revision 108)
@@ -12453,10 +12453,12 @@
   year = {2010}
 }
-@proceedings{Brinkers2010,
+@inproceedings{Brinkers2010,
+  author = {Brinkers, Sanneke and Dietrich, Heidelinde R. C. and Stallinga, Sjoerd and Mes, Jurriaan J. and Young, Ian T. and Rieger, Bernd},
   title = {Single Molecule Detection Of Tuberculosis Nucleic Acid Using Dark Field Tethered Particle Motion},
   year = {2010},
+  pages = {1269},
   month = {April 14-17},
   address = {Rotterdam, The Netherlands},
-  organization = {IEEE International Symposium on Biomedical Imaging}
+  booktitle = {IEEE International Symposium on Biomedical Imaging}
 }
 @article{Cordes2010,
@@ -15465,3 +15467,2490 @@
 @article{Meyer2008,
   author = {Meyer, J.C. and Girit, C.O. and Crommie, M.F. and Zettl, A.},
-  title = {Imaging a
+  title = {Imaging and dynamics of light atoms and molecules on graphene},
+  journal = {Nature},
+  year = {2008},
+  volume = {454},
+  pages = {319-323}
+}
+@article{Muller2006,
+  author = {Muller, D.A. and Kirkland, E.J. and Thomas, M.G. and Grazul, J.L. and Fitting, L. and Weyland, M.},
+  title = {Room design for high-performance electron microscopy},
+  journal = {Ultramicroscopy},
+  year = {2006},
+  volume = {106},
+  pages = {1033-1040}
+}
+@article{Xing2009,
+  author = {Xing, Q. and Lograsso, T.A.},
+  title = {A rapid method to correct objective lens astigmatism in a TEM},
+  journal = {Ultramicroscopy},
+  year = {2009},
+  volume = {109},
+  pages = {287-290}
+}
+@article{Nellist1998a,
+  author = {Nellist, P.D. and Pennycook, S.J.},
+  title = {Accurate structure determination from image reconstruction in {ADF} {STEM}},
+  journal = {Journal of Microscopy},
+  year = {1998},
+  volume = {1-2},
+  pages = {159-170}
+}
+@article{Schaffer2009,
+  author = {Schaffer, B. and Hohenester, U. and Truegler, A. and Hofer, F.},
+  title = {High-resolution surface plasmon imaging of gold nanoparticles by energy-filtered transmission electron microscopy},
+  journal = {Physical Review B},
+  year = {2009},
+  volume = {79},
+  pages = {041401}
+}
+@inproceedings{Rieger2008,
+  author = {Rieger, B. and Veen, G.N.A. van},
+  title = {Method to determine image sharpness and resolution
+in Scanning Electron Microscopy images},
+  year = {2008},
+  pages = {613-614},
+  month = {September 1-5},
+  editor = {Luysberg, M. and Tillmann, K. and Weirich, T.},
+  publisher = {Springer Verlag},
+  address = {Berline},
+  booktitle = {EMC 2008, Vol.1: Instrumentation and Methods}
+}
+@mastersthesis{Smith2009,
+  author = {Smith, S.C.},
+  title = {Improving single molecule 
+fluorescence superresolution techniques},
+  year = {2009},
+  school = {Delft University of Technology}
+}
+@mastersthesis{Vroonland2010,
+  author = {Vroonland, S.},
+  title = {Superresolution Using Blinking Emitters},
+  year = {2010},
+  month = {June},
+  address = {Delft, The Netherlands},
+  school = {Delft University of Technology}
+}
+@article{Hell2009,
+  author = {Hell, S.W.},
+  title = {Microscopy and its focal switch},
+  journal = {Nature Methods},
+  year = {2009},
+  volume = {6},
+  pages = {24-32}
+}
+@article{Small2009,
+  author = {Small, A.R.},
+  title = {Theoretical Limits on Errors and Acquisition Rates in Localizing Switchable Fluorophores},
+  journal = {Biophysical Journal - Biophysical Letters},
+  year = {2009},
+  volume = {92},
+  number = {2},
+  pages = {L16-L18}
+}
+@article{Podczeck1997,
+  author = {Podczeck, F.},
+  title = {A shape factor to assess the shape of particles using image analysis},
+  journal = {Powder Technology},
+  year = {1997},
+  volume = {93},
+  pages = {47-53}
+}
+@article{Shaner2004,
+  author = {Shaner, N.C. and Campbell, R.E. and Steinbach, P.A. and Giepmans, B.N.G. and Palmer, A.E. and Tsien, R.Y.},
+  title = {Improved monomeric red, orange and yellow fluorescent proteins derived from Discosoma sp. red fluorescent protein},
+  journal = {Nature Biotechnology},
+  year = {2004},
+  volume = {22},
+  number = {12},
+  pages = {1567-1672}
+}
+@article{Sader2010,
+  author = {Sader, K. and Brown, A. and Brydon, R. and Bleloch, A.},
+  title = {Quantitativ eanalysis of image contrast in phase contrast STEM for low dose imaging},
+  journal = {Ultramicroscopy},
+  year = {2010},
+  volume = {110},
+  pages = {1324-1331}
+}
+@article{Aert2010,
+  author = {Aert, s. van and Chen, J.H. and Dyck, D. van},
+  title = {Linear versus non-linear structural information limit in high-resolution transmission electron microscopy},
+  journal = {Ultramicroscopy},
+  year = {2010},
+  volume = {110},
+  pages = {1404-1410}
+}
+@article{Donzel2001,
+  author = {Donzel, Christian and Geissler, Matthias and Bernard, Andr\\\'e and Wolf, Heiko and Michel, Bruno and Hilborn, J\\\"ons and Delamarche, Emmanuel},
+  title = {{Hydrophilic Poly(dimethylsiloxane) Stamps for Microcontact Printing}},
+  journal = {{Advanced Materials}},
+  year = {2001},
+  volume = {{13}},
+  number = {{15}}
+}
+@article{Wang1997,
+  author = {Wang, Michelle D. and Yin, Hong and Landick, Robert and Gelles, Jeff and Block, Steven M.},
+  title = {{Stretching DNA with Optical Tweezers}},
+  journal = {{Biophysical Journal}},
+  year = {1997},
+  volume = {{72}},
+  number = {{3}},
+  pages = {{1335-1346}}
+}
+@article{Blanchard1999,
+  author = {Blanchard, Paul M.
+ Greenaway, Alan H.},
+  title = {{Simultaneous multiplane imaging with a distorted diffraction grating}},
+  journal = {{Applied Optics}},
+  year = {1999},
+  volume = {{38}},
+  number = {{32}},
+  pages = {{6692-6699}}
+}
+@article{Eversole2007,
+  author = {Eversole, D. and Luk'Yanchuk, B. and Ben-Yakar, A.},
+  title = {{Plasmonic laser nanoablation of silicon by the scattering of femtosecond pulses near gold nanospheres}},
+  journal = {{Applied Physics A}},
+  year = {2007},
+  volume = {{89}},
+  pages = {{283-291}}
+}
+@article{Dessinges2002,
+  author = {Dessinges, M. N. and Maier, B. and Zhang, Y. and Peliti, M. and Bensimon, D. and Croquette, V.},
+  title = {{Stretching Single Stranded DNA, a Model Polyelectrolyte}},
+  journal = {{Physical Review Letters}},
+  year = {2002},
+  volume = {{89}},
+  number = {{24}},
+  pages = {{248102-248106}}
+}
+@article{Taylor1990,
+  author = {Taylor, William H. and Hagerman, Paul J.},
+  title = {{Application of the Method of Phage T4 DNA Ligase-catalyzed Ring-closure to the Study of DNA Structure}},
+  journal = {{Journal of Molecular Biology}},
+  year = {1990},
+  volume = {{212}},
+  number = {{2}},
+  pages = {{363-376}}
+}
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+  author = {Uhlenbeck, G.E. and Ornstein, L.S.},
+  title = {{On the Theory of the Brownian Motion}},
+  journal = {{Physical Review}},
+  year = {1930},
+  volume = {{36}}
+}
+@article{Yguerabide2001,
+  author = {Yguerabide, Juan and Yguerabide, Evangelina E.},
+  title = {{Resonance Light Scattering Particles as Ultrasensitive Labels for Detection of Analytes in a Wide Range of Applications}},
+  journal = {{Journal of Cellular Biochemistry Supplement}},
+  year = {2001},
+  volume = {{84}},
+  number = {{S37}},
+  pages = {{71-81}}
+}
+@article{Samuel2002,
+  author = {Samuel, Joseph and Sinha, Supurna},
+  title = {{Elasticity of semiflexible polymers}},
+  journal = {{Physical Review E}},
+  year = {2002},
+  volume = {{66}},
+  pages = {{050801}}
+}
+@article{Porschke1991,
+  author = {Porschke, Dietmar},
+  title = {{Persistence length and bending dynamics of DNA from electrooptical measurements at high salt concentrations}},
+  journal = {{Biophysical Chemistry}},
+  year = {1991},
+  volume = {{40}},
+  pages = {{169-179}}
+}
+@article{Schutz2000,
+  author = {Sch\\\"utz, Gerhard J. and Pastushenko, Vassili, Ph. and Gruber, Hermann J. and Knaus, Hans-G\\\"unter and Pragl, Bernt and Schindler, Hansgeorg},
+  title = {{3D Imaging of Individual Ion Channels in Live Cells at 40 nm Resolution}},
+  journal = {{Single Molecules}},
+  year = {2000},
+  volume = {{1}},
+  number = {{1}},
+  pages = {{25-31}}
+}
+@incollection{Vilfan2009,
+  author = {Vilfan, I.D. and Lipfert, J. and Koster, D.A. and Lemay, S.G. and Dekker, N.H.},
+  title = {{Magnetic Tweezers for Single-Molecule Experiments}},
+  year = {2009},
+  editor = {Hinterdorfer, P. and A., van Oijen},
+  publisher = {{Springer Science+Business Media}},
+  booktitle = {{Springer Handbook of Single-Molecule Biophysics}}
+}
+@article{Dvorak2003,
+  author = {Dvor\\\'ak, Zdenek and Pascussi, Jean-Marc and Modriansk\\\'y, Martin},
+  title = {{Approaches to Messenger RNA Detection - Comparison of Methods}},
+  journal = {{Biomedical Papers}},
+  year = {2003},
+  volume = {{147}},
+  number = {{2}},
+  pages = {{131-135}}
+}
+@article{Medalion2010,
+  author = {Medalion, Shlomi and Rappaport, Shay M. and Rabin, Yitzhak},
+  title = {{Coupling of twist and writhe in short DNA loops
+ }},
+  journal = {{The Journal of Chemical Physics}},
+  year = {2010},
+  volume = {{132}},
+  number = {{4}},
+  pages = {{045101}}
+}
+@article{Cherif2006,
+  author = {Cherif, Boutheina and Roget, Andr\\\'e and Villiers, Christian L. and Calemczuk, Roberto and Leroy, Vincent and Marche, Patrice N. and Livache, Thierry and Villiers, Marie-Bernadette},
+  title = {{Clinically Related Protein-Peptide Interactions Monitored in Real Time on Novel Peptide Chips by Surface Plasmon Resonance Imaging}},
+  journal = {{Clinical Chemistry}},
+  year = {2006},
+  volume = {{52}},
+  number = {{2}},
+  pages = {{255-262}}
+}
+@article{Gibson1991,
+  author = {Gibson, Sarah Frisken and Lanni, Frederick},
+  title = {{Experimental test of an analytical model of aberration in an oil-immersion objective lens used in three-dimensional light microscopy}},
+  journal = {{Journal of the Optical Society of America A}},
+  year = {1991},
+  volume = {{8}},
+  number = {{10}},
+  pages = {{1601-1613}}
+}
+@misc{Bouchiat2007,
+  author = {Bouchiat, C.},
+  title = {{Spatial Constraint Corrections to the Elasticity of dsDNA Measured with Magnetic Tweezers}},
+  year = {2007}
+}
+@article{Bouchiat2006,
+  author = {Bouchiat, C.},
+  title = {{Entropic elasticity of double-strand DNA subject to simple spatial constraints}},
+  journal = {{Journal of Statistical Mechanics: Theory and Experiment}},
+  year = {2006},
+  number = {{03}},
+  pages = {{P03019}}
+}
+@article{Yoshinaga2002,
+  author = {Yoshinaga, Natsuhiko and Yoshikawa, Kenichi and Kidoaki, Satoru},
+  title = {{Multiscaling in a long semiflexible polymer chain in two dimensions}},
+  journal = {{Journal of Chemical Physics}},
+  year = {2002},
+  volume = {{116}},
+  number = {{22}}
+}
+@article{Sottas1999,
+  author = {Sottas, Pierre-Edouard and Larquet, Eric and Stasiak, Andrzej and Dubochet, Jacques},
+  title = {{Brownian Dynamics Simulation of DNA Condensation}},
+  journal = {{Biophysical Journal}},
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+  volume = {{77}},
+  pages = {{1858-1870}}
+}
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+  author = {Yamakawa, Hiromi and Fujii, Motoharu},
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+}
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+}
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+  volume = {{185}},
+  number = {{3}},
+  pages = {{366-374}}
+}
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+  author = {Vologodskii, Alexander},
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+  journal = {{Macromolecules}},
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+  pages = {{5623-5625}}
+}
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+  author = {Rayleigh, Lord},
+  title = {{On the problem of random vibrations, and of random flights in one, two, or three dimensions}},
+  journal = {{Philosophical Magazine}},
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+  volume = {{37}},
+  pages = {{321-347}}
+}
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+  author = {Luki\\\c{c}, Branimir and Jeney, Sylvia and Sviben, Zeljko and Kulik, Andrzej and Florin, Ernst-Ludwig and Forr\\\'o, L\\\'aszl\\\'o},
+  title = {{Motion of a colloidal particle in an optical trap}},
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+}
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+  author = {Storm, C. and Nelson, P. C.},
+  title = {{The bend stiffness of S-DNA}},
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+  pages = {{760-766}}
+}
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+  author = {Odijk, Theo},
+  title = {{Polyelectrolytes near the Rod Limit}},
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+}
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+  author = {Beausang, John F. and Nelson, Philip C.},
+  title = {{Diffusive hidden Markov model characterization of DNA looping dynamics in tethered particle experiments}},
+  journal = {{Physical Biology}},
+  year = {2007}
+}
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+  author = {Fixman, Marshall and Alben, Richard},
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+}
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+  author = {Gupta, Anshu M. and Edwards, Sam F.},
+  title = {{Mean-field theory of phase transitions in liquid-crystalline polymers}},
+  journal = {{Journal of Chemical Physics}},
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+  volume = {{98}},
+  number = {{2}},
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+}
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+  author = {Butler, Jason E. and Shaqfeh, Eric S.G.},
+  title = {{Brownian dynamics simulations of a flexible polymer chain which includes continuous resistance and multibody hydrodynamic interactions}},
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+  year = {2005},
+  volume = {{122}}
+}
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+}
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+  author = {Dietrich, Heidelinde R.C. and Young, Ian T. and Garini, Yuval},
+  title = {{Advances in the Development of a Novel Method to be used in Proteomics using Gold Nanobeads}},
+  year = {2006},
+  volume = {{6092}},
+  editor = {Enderlein, J\\\"org and Gryczynski, Zygmunt K.},
+  publisher = {{Proceedings of SPIE}},
+  booktitle = {{Ultrasensitive and Single-Molecule Detection Technologies}}
+}
+@inproceedings{Dietrich2007,
+  author = {Dietrich, Heidelinde R.C. and Vermolen, Bart J. and Rieger, Bernd and Young, Ian T. and Garini, Yuval},
+  title = {{A New Optical Method for Characterizing Single Molecule Interactions based on Dark Field Microscopy}},
+  year = {2007},
+  volume = {{6444}},
+  pages = {644403-1 - 64403-8},
+  editor = {Enderlein, J\\\"org and Gryczynski, Zygmunt K.},
+  publisher = {{Proceedings of SPIE}},
+  booktitle = {{Ultrasensitive and Single-Molecule Detection Technologies II}}
+}
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+  author = {T\\\"or\\\"ok, P. and Sheppard, C. J. R. and Laxzik, Z.},
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+}
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+  pages = {{274-284}}
+}
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+  author = {Schafer, Dorothy A. and Gelles, Jeff and Sheetz, Michael P. and Landick, Robert},
+  title = {{Transcription by single molecules of RNA polymerase observed by light microscopy}},
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+}
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+  author = {Mazo, Robert M.},
+  title = {{Brownian Motion: fluctuations, dynamics, and applications}},
+  year = {2002},
+  publisher = {{Clarendon Press}},
+  series = {{International series of monographs on physics}},
+  address = {{Oxford}}
+}
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+  author = {Deng, Yi. and Shaevitz, Joshua W.},
+  title = {{Effect of aberration on height calibration in three-dimensional localization-base microscoyp and particle tracking}},
+  journal = {{Applied Optics}},
+  year = {2009},
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+}
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+  journal = {{Science}},
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+}
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+  author = {Dietrich, Heidelinde R. C. and Rieger, Bernd and Wiertz, Frank G.M. and de Groote, Frederik H. and Heering, Hendrik A. and Young, Ian T. and Garini, Yuval},
+  title = {{Tethered Particle Motion Mediated by Scattering from Gold Nanoparticles and Darkfield Microscopy}},
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+  volume = {{3}},
+  pages = {{031795}}
+}
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+  author = {Shaevitz, Joshua W. and Fletcher, Daniel A.},
+  title = {{Enhanced three-dimensional deconvolution microscopy using a measured depth-varying point-spread function}},
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+}
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+  author = {Doi, M. and Edwards, S.F. },
+  title = {{The Theory of Polymer Dynamics}},
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+  publisher = {{Oxford University Press}},
+  address = {{New York}}
+}
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+  title = {{Triple Minima in the Free Energy of Semiflexible Polymers}},
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+}
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+  author = {Watkins, Lucas P. and Yang, Haw},
+  title = {{Information Bounsd and Optimal Analysis of Dynamic Single Molecule Measurements}},
+  journal = {{Biophysical Journal}},
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+  volume = {{86}},
+  number = {{6}},
+  pages = {{4015-4029}}
+}
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+  author = {Elburg, H.J. van and Kuypers, L.C. and Decraemer, W.F. and Dirckx, J.J.J.},
+  title = {{Improved correction of axial geometrical distortion in index-mismatched fluorescent confocal microscopic images using high-aperture objective lenses}},
+  journal = {{Journal of Microscopy}},
+  year = {2007},
+  volume = {{228}},
+  number = {{1}},
+  pages = {{45-54}}
+}
+@phdthesis{Li2006,
+  author = {Li, Jinyu and Nelson, Philip C. and Betterton, M.D.},
+  title = {{DNA entropic elasticity for short molecules attached to beads}},
+  year = {2006}
+}
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+  author = {Cohen, A. Clifford and Whitten, Betty Jones},
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+  address = {{New York}}
+}
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+  author = {Cocco, S. and Marko, J.F. and Monasson, R.},
+  title = {{Theoretical models for single-molecule DNA and RNA experiments: from elasticity to unzipping}},
+  journal = {{Comptes rendus de l'Academie des Sciences Physique}},
+  year = {2002},
+  volume = {{3}},
+  pages = {{569-584}}
+}
+@article{Cocco2003,
+  author = {Cocco, S. and Marko, J.F. and Monasson, R. and Sarkar, A. and Yan, J.},
+  title = {{Force-extension behavior of folding polymers}},
+  journal = {{The European Physical Journal E}},
+  year = {2003},
+  volume = {{10}},
+  pages = {{249-263}}
+}
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+  author = {Hughes, Timothy R. and Shoemaker, Daniel D.},
+  title = {{DNA microarrays for expression profiling}},
+  journal = {{Current Opinion in Chemical Biology}},
+  year = {2001},
+  volume = {{5}},
+  pages = {{21-25}}
+}
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+  author = {Tinland, Bernard and Pluen, Alain and Sturm, Jean and Weill, Gilbert},
+  title = {{Persistence Length of Single-Stranded DNA}},
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+  year = {1997},
+  volume = {{30}},
+  number = {{19}},
+  pages = {{5763-5765}}
+}
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+  author = {Massey, Frank J., Jr.},
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+}
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+  author = {Burkhardt, Theodore W.},
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+  journal = {{Journal of Physics A: Mathematical and General}},
+  year = {1993},
+  volume = {{26}},
+  pages = {{L1157-L1162}}
+}
+@article{Stepanow2002,
+  author = {Stepanow, S. and Sch\\\"utz, G. M.},
+  title = {{The distribution function of a semiflexible polymer and random walks with constraints}},
+  journal = {{Europhysics Letters (EPL)}},
+  year = {2002},
+  volume = {{60}},
+  number = {{4}},
+  pages = {{546-551}}
+}
+@article{Smith1992,
+  author = {Smith, Steven B. and Finzi, Laura and Bustamante, Carlos},
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