Biophysical Journal -- BioFAST (by date view)

Biophysical Journal BioFAST:
Chronological list of articles [View by section]

In order to make new research readily available to readers throughout the world, Biophysical Journal (BJ) will prepublish, in manuscript format, all accepted papers within one week of acceptance and make them available at no cost to readers. These papers have undergone full scientific review but no editing, such as copyediting, typesetting, and proofreading. These papers will appear later in final, edited format in the print version of BJ and in BJ Online.

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9 May 2008

Santhosh Palani and Casim A. Sarkar: Positive Receptor Feedback during Lineage Commitment Can Generate Ultrasensitivity to Ligand and Confer Robustness to a Bistable Switch
Biophys. J. BioFAST: May 9, 2008. doi:10.1529/biophysj.107.120600 [Abstract] [Accepted Manuscript]

Chze-Ling Wee, Kia Balali-Mood, David Gavaghan, and Mark S.P. Sansom: The Interaction of Phospholipase A2 with a Phospholipid Bilayer: Coarse-Grained Molecular Dynamics Simulations
Biophys. J. BioFAST: May 9, 2008. doi:10.1529/biophysj.107.123190 [Abstract] [Accepted Manuscript]

Gregory Beaucage: Towards resolution of ambiguity for the unfolded state
Biophys. J. BioFAST: May 9, 2008. doi:10.1529/biophysj.107.121855 [Abstract] [Accepted Manuscript]

Philip D Blood, Richard D. Swenson, and Gregory A. Voth: Factors Influencing Local Membrane Curvature Induction by N-BAR Domains as Revealed by Molecular Dynamics Simulations
Biophys. J. BioFAST: May 9, 2008. doi:10.1529/biophysj.107.121160 [Abstract] [Accepted Manuscript]

Charles Wolgemuth: Collective swimming and the dynamics of bacterial turbulence
Biophys. J. BioFAST: May 9, 2008. doi:10.1529/biophysj.107.118257 [Abstract] [Accepted Manuscript]

Appaji Panchangam, Dennis R. Claflin, Mark L. Palmer, and John A. Faulkner: Magnitude of sarcomere extension correlates with initial sarcomere length during lengthening of activated single fibers from soleus muscle of rats
Biophys. J. BioFAST: May 9, 2008. doi:10.1529/biophysj.107.118109 [Abstract] [Accepted Manuscript]

Godfrey L Smith and Niall MacQuaide: New and Notable for Ca²⁺-mobility in the sarcoplasmic reticulum of ventricular myocytes is low
Biophys. J. BioFAST: May 9, 2008. doi:10.1529/biophysj.108.133926 [Abstract] [Accepted Manuscript]

Rainer A Böckmann, Bert L de Groot, Sergej Kakorin, Eberhard Neumann, and Helmut Grubmüller: Kinetics, Statistics, and Energetics of Lipid Membrane Electroporation Studied by Molecular Dynamics Simulations
Biophys. J. BioFAST: May 9, 2008. doi:10.1529/biophysj.108.129437 [Abstract] [Accepted Manuscript]

Alfonso De Simone, Luciana Esposito, Carlo Pedone, and Luigi Vitagliano: Insights into Stability and Toxicity of Amyloid-Like Oligomers by Replica Exchange Molecular Dynamics Analyses
Biophys. J. BioFAST: May 9, 2008. doi:10.1529/biophysj.108.129213 [Abstract] [Accepted Manuscript]

Dan Siegal-Gaskins and Sean Crosson: Tightly-Regulated and Heritable Division Control in Single Bacterial Cells
Biophys. J. BioFAST: May 9, 2008. doi:10.1529/biophysj.108.128785 [Abstract] [Accepted Manuscript]

Dmitry Terentyev, Zuzana Kubalova, Giorgia Valle, Alessandra Nori, Srikanth Vedamoorthyrao, Radmila Terentyeva, Serge Viatchenko-Karpinski, Donald M. Bers, Simon C. Williams, Pompeo Volpe, and Sandor Gyorke: Modulation of SR Ca Release by Luminal Ca and Calsequestrin in Cardiac Myocytes: Effects of CASQ2 Mutations Linked to Sudden Cardiac Death
Biophys. J. BioFAST: May 9, 2008. doi:10.1529/biophysj.107.128249 [Abstract] [Accepted Manuscript]

Seth Weinberg, Shahriar Iravanian, and Leslie Tung: Representation of Collective Electrical Behavior Of Cardiac Cell Sheets
Biophys. J. BioFAST: May 9, 2008. doi:10.1529/biophysj.107.128207 [Abstract] [Accepted Manuscript]

Haijun Gong, Debrup Sengupta, Adam D. Linstedt, and Russell Schwartz: Simulated de novo assembly of Golgi compartments by selective cargo capture during vesicle budding and targeted vesicle fusion
Biophys. J. BioFAST: May 9, 2008. doi:10.1529/biophysj.107.127498 [Abstract] [Accepted Manuscript]

Judith A. Megerle, Georg Fritz, Ulrich Gerland, Kirsten Jung, and Joachim O. Radler: Timing and dynamics of single cell gene expression in the arabinose utilization system
Biophys. J. BioFAST: May 9, 2008. doi:10.1529/biophysj.107.127191 [Abstract] [Accepted Manuscript]

Jungho Lee, Ghibom Bhak, Sang-Gil Lee, and Seung R. Paik: Instantaneous Amyloid Fibril Formation of ${alpha}$ -Synuclein from the Oligomeric Granular Structures in the Presence of Hexane
Biophys. J. BioFAST: May 9, 2008. doi:10.1529/biophysj.108.135186 [Abstract] [Accepted Manuscript] [Supplement]

Gianluca Bartolommei, Nadège Devaux, Francesco Tadini-Buoninsegni, Maria Rosa Moncelli, and Hans-Juergen Apell: Effect of Clotrimazole on the Pump Cycle of the Na,K-ATPase
Biophys. J. BioFAST: May 9, 2008. doi:10.1529/biophysj.108.133546 [Abstract] [Accepted Manuscript]

Kei Moritsugu and Jeremy C. Smith: REACH Coarse-Grained Biomolecular Simulation: Transferability between Different Protein Structural Classes
Biophys. J. BioFAST: May 9, 2008. doi:10.1529/biophysj.108.131714 [Abstract] [Accepted Manuscript]

Songwan Jin, Zsolt Zador, and Alan S. Verkman: RANDOM-WALK MODEL OF DIFFUSION IN 3-DIMENSIONS IN BRAIN EXTRACELLULAR SPACE: COMPARISON WITH MICROFIBEROPTIC PHOTOBLEACHING MEASUREMENTS
Biophys. J. BioFAST: May 9, 2008. doi:10.1529/biophysj.108.131466 [Abstract] [Accepted Manuscript]

Sónia Troeira Henriques, Leonard Keith Pattenden, Marie Isabel Aguilar, and Miguel A.R.B. Castanho: PrP(106-126) does not interact with membranes under physiological conditions
Biophys. J. BioFAST: May 9, 2008. doi:10.1529/biophysj.108.131458 [Abstract] [Accepted Manuscript]

Jasper J van Thor, Kate L. Ronayne, Michael Towrie, and J Timothy Sage: Balance between ultrafast parallel reactions in the Green Fluorescent Protein has a structural origin
Biophys. J. BioFAST: May 9, 2008. doi:10.1529/biophysj.108.129957 [Abstract] [Accepted Manuscript]

2 May 2008

Taira Vora, David Bisset, and Shin-Ho Chung: Conduction of Na+ and K+ through the NaK Channel: Molecular and Brownian Dynamics Studies
Biophys. J. BioFAST: May 2, 2008. doi:10.1529/biophysj.107.126722 [Abstract] [Accepted Manuscript]

Melissa A. Poynor, Reiner Eckert, and Stephan Nussberger: Dynamics of the Preprotein Translocation Channel of the Outer Membrane of Mitochondria
Biophys. J. BioFAST: May 2, 2008. doi:10.1529/biophysj.108.131003 [Abstract] [Accepted Manuscript]

Aviv Paz, Tzviya Zeev-Ben-Mordehai, Martin Lundqvist, Eilon Sherman, Efstratios Mylonas, Lev Weiner, Gilad Haran, Dmitri Svergun, Frans Mulder, Joel Sussman, and Israel Silman: BIOPHYSICAL CHARACTERIZATION OF THE UNSTRUCTURED CYTOPLASMIC DOMAIN OF THE HUMAN NEURONAL ADHESION PROTEIN NEUROLIGIN 3
Biophys. J. BioFAST: May 2, 2008. doi:10.1529/biophysj.107.126995 [Abstract] [Accepted Manuscript]

Estefania Hurtado-Gomez, Olga Abian, F. Javier Munoz, Maria J Hernaiz, Adrian Velazquez-Campoy, and Jose Luis Neira: Defining the epitope region of a peptide from the Streptomyces coelicolor phosphoenolpyruvate: sugar phosphotransferase system able to bind to the enzyme I
Biophys. J. BioFAST: May 2, 2008. doi:10.1529/biophysj.107.126664 [Abstract] [Accepted Manuscript]

Paul D.W. Kirk, Tina Toni, and Michael P.H. Stumpf: Parameter Inference for Biochemical Systems that undergo a Hopf Bifurcation
Biophys. J. BioFAST: May 2, 2008. doi:10.1529/biophysj.107.126086 [Abstract] [Accepted Manuscript]

Fanrong Xiao, Charles Nicholson, Jan Hrabe, and Sabina Hrabetova: Diffusion of flexible random-coil dextran polymers measured in anisotropic brain extracellular space by integrative optical imaging
Biophys. J. BioFAST: May 2, 2008. doi:10.1529/biophysj.107.124743 [Abstract] [Accepted Manuscript]

Julia Schmitz, Benoit Martin, and Kay Eberhard Gottschalk: The Visocelasticity of Membrane Tethers and its Importance for Cell Adhesion
Biophys. J. BioFAST: May 2, 2008. doi:10.1529/biophysj.107.124289 [Abstract] [Accepted Manuscript]

Philippos K Tsourkas, Marjorie L Longo, and Subhadip Raychaudhuri: Monte Carlo study of single molecule diffusion can elucidate the mechanism of B cell synapse formation
Biophys. J. BioFAST: May 2, 2008. doi:10.1529/biophysj.107.122564 [Abstract] [Accepted Manuscript]

Jianping Lin, Nadrian C Seeman, and Nagarajan Vaidehi: Molecular dynamics simulations of insertion of chemically modified DNA nanostructures into water-chloroform interface
Biophys. J. BioFAST: May 2, 2008. doi:10.1529/biophysj.107.119230 [Abstract] [Accepted Manuscript]

Hwankyu Lee, Richard M. Venable, Alexander D. MacKerell, Jr., and Richard W. Pastor: Molecular dynamics studies of polyethylene oxide and polyethylene glycol: Hydrodynamic radius and shape anisotropy
Biophys. J. BioFAST: May 2, 2008. doi:10.1529/biophysj.108.133025 [Abstract] [Accepted Manuscript]

Walter Stelzer, Bernhard Poschner, Holger Stalz, Albert Heck, and Dieter Langosch: Sequence-specific conformational flexibility of SNARE transmembrane helices probed by hydrogen/deuterium exchange
Biophys. J. BioFAST: May 2, 2008. doi:10.1529/biophysj.108.132928 [Abstract] [Accepted Manuscript]

Robert B Best, Nicolae-Viorel Buchete, and Gerhard Hummer: Are Current Molecular Dynamics Force Fields too Helical?
Biophys. J. BioFAST: May 2, 2008. doi:10.1529/biophysj.108.132696 [Abstract] [Accepted Manuscript] [Supplement]

Giulia Veronesi, Lisa Giachini, Francesco Francia, Antonia Mallardi, Gerardo Palazzo, Federico Boscherini, and Giovanni Venturoli: The Fe²⁺ site of photosynthetic reaction centers probed by multiple scattering XAFS spectroscopy: improving structure resolution in dry matrices
Biophys. J. BioFAST: May 2, 2008. doi:10.1529/biophysj.108.132654 [Abstract] [Accepted Manuscript] [Supplement]

Kaoru Nomura, Takehiko Inaba, Kenichi Morigaki, Klaus Brandenburg, Ulrich Seydel, and Shoichi Kusumoto: Interaction of Lipopolysaccharide and Phospholipid in Mixed Membranes: Solid-State ³¹P-NMR Spectroscopic and Microscopic Investigations
Biophys. J. BioFAST: May 2, 2008. doi:10.1529/biophysj.108.131706 [Abstract] [Accepted Manuscript]

Ron M. Finn, Kristen Browne, Kim C. Hodgson, and Juan Ausio: sNASP, a histone H1-specific eukaryotic chaperone dimer that facilitates chromatin assembly
Biophys. J. BioFAST: May 2, 2008. doi:10.1529/biophysj.108.130021 [Abstract] [Accepted Manuscript]

Longhua Hu, Alexander Y. Grosberg, and Robijn Bruinsma: Are DNA Transcription Factor Proteins Maxwellian Demons?
Biophys. J. BioFAST: May 2, 2008. doi:10.1529/biophysj.108.129825 [Abstract] [Accepted Manuscript]

25 April 2008

Andras Szilagyi, Daniel Gyorffy, and Peter Zavodszky: The twilight zone between protein order and disorder
Biophys. J. BioFAST: April 25, 2008. doi:10.1529/biophysj.108.131151 [Abstract] [Accepted Manuscript]

Eun-Hyoung PARK, Zhouyan FENG, and Dominique M. DURAND: Diffusive coupling and network periodicity: a computational study
Biophys. J. BioFAST: April 25, 2008. doi:10.1529/biophysj.108.129239 [Abstract] [Accepted Manuscript]

Nikolai Smolin, Bin Li, David Beck, and Valerie Daggett: Side-chain dynamics are critical for water permeation through aquaporin-1
Biophys. J. BioFAST: April 25, 2008. doi:10.1529/biophysj.107.125187 [Abstract] [Accepted Manuscript]

Matjaz Boncina, Jurij Rescic, and Vojko Vlachy: Solubility of Lysozyme in PEG-Electrolyte Mixtures: the Depletion Interaction and Ion-Specific Effects
Biophys. J. BioFAST: April 25, 2008. doi:10.1529/biophysj.108.128694 [Abstract] [Accepted Manuscript]

Michele D Savery and Edward R Damiano: The endothelial glycocalyx is hydrodynamically relevant in arterioles throughout the cardiac cycle
Biophys. J. BioFAST: April 25, 2008. doi:10.1529/biophysj.108.128975 [Abstract] [Accepted Manuscript] [Supplement]

Philipp J Keller, Francesco Pampaloni, Gianluca Lattanzi, and Ernst HK Stelzer: Three-dimensional microtubule behaviour in Xenopus egg extracts reveals four dynamic states and state-dependent elastic properties
Biophys. J. BioFAST: April 25, 2008. doi:10.1529/biophysj.107.128223 [Abstract] [Accepted Manuscript] [Supplement]

Ilya Levental, Paul A. Janmey, and Andrejs Cebers: Electrostatic contribution to the surface pressure of charged monolayers containing polyphosphoinositides
Biophys. J. BioFAST: April 25, 2008. doi:10.1529/biophysj.107.126615 [Abstract] [Accepted Manuscript]

Marcel G. Friedrich, Markus A. Plum, Maria Gabriella Santonicola, Vinzenz U. Kirste, Wolfgang Knoll, Bernd Ludwig, and Renate L.C. Naumann: In-situ Monitoring of the Catalytic Activity of Cytochrome c Oxidase in a Biomimetic Architecture
Biophys. J. BioFAST: April 25, 2008. doi:10.1529/biophysj.107.122747 [Abstract] [Accepted Manuscript]

Andrey Zavalin, David L Hachey, Munirathinam Sundaramoorthy, Surajit Banerjee, Steven H Morgan, Leonard Feldman, Norman Tolk, and David Piston: Kinetics of a Collagen-like Polypeptide Fragmentation after Mid-IR Free-Electron Laser Ablation
Biophys. J. BioFAST: April 25, 2008. doi:10.1529/biophysj.107.122002 [Abstract] [Accepted Manuscript]

Mohamed Y El-Naggar, Yuri A Gorby, Wei Xia, and Kenneth H Nealson: The Molecular Density of States in Bacterial Nanowires
Biophys. J. BioFAST: April 25, 2008. doi:10.1529/biophysj.108.134411 [Abstract] [Accepted Manuscript] [Supplement]

Alrun N. Koller, Harald Schwalbe, and Holger Gohlke: Starting structure dependence of NMR order parameters derived from MD simulations: Implications for judging force field quality
Biophys. J. BioFAST: April 25, 2008. doi:10.1529/biophysj.108.132811 [Abstract] [Accepted Manuscript] [Supplement]

Zhongzhou Chen, Jizhong Lou, Cheng Zhu, and Klaus Schulten: Flow Induced Structural Transition in the ${beta}$ -switch Region of Glycoprotein Ib
Biophys. J. BioFAST: April 25, 2008. doi:10.1529/biophysj.108.132324 [Abstract] [Accepted Manuscript] [Supplement]

Maksymilian Chruszcz, Alexander Wlodawer, and Wladek Minor: Determination of protein structures - a series of fortunate events
Biophys. J. BioFAST: April 25, 2008. doi:10.1529/biophysj.108.131789 [Abstract] [Accepted Manuscript] [Supplement]

Hong Qian: Cooperativity and Specificity in Enzyme Kinetics: A Single-Molecule Time-based Perspective
Biophys. J. BioFAST: April 25, 2008. doi:10.1529/biophysj.108.131771 [Abstract] [Accepted Manuscript] [Supplement]

Nunilo Cremades and Javier Sancho: Molten Globule and Native State Ensemble of Helicobacter pylori Flavodoxin. Can crowding, osmolytes or cofactors stabilize the native conformation relative to the molten globule?
Biophys. J. BioFAST: April 25, 2008. doi:10.1529/biophysj.108.130153 [Abstract] [Accepted Manuscript]

18 April 2008

Anahita Tafvizi, Fang Huang, Jason S. Leith, Alan R. Fersht, Leonid A. Mirny, and Antoine M. van Oijen: Tumor suppressor p53 slides on DNA with low friction and high stability
Biophys. J. BioFAST: April 18, 2008. doi:10.1529/biophysj.108.134122 [Abstract] [Accepted Manuscript] [Supplement]

Maxine JONAS, Hayden Huang, Roger D. Kamm, and Peter T. So: Fast Fluorescence Laser Tracking Microrheometry II: Quantitative Studies of Cytoskeletal Mechanotransduction
Biophys. J. BioFAST: April 18, 2008. doi:10.1529/biophysj.107.120303 [Abstract] [Accepted Manuscript]

Nathan J. Evans and Jeffery W. Walker: Endothelin Receptor Dimers Evaluated by FRET, Ligand Binding and Calcium Mobilization
Biophys. J. BioFAST: April 18, 2008. doi:10.1529/biophysj.107.119206 [Abstract] [Accepted Manuscript]

Akos A Gerencser, Judit Doczi, Beata Töröcsik, Ella Bossy-Wetzel, and Vera Adam-Vizi: MITOCHONDRIAL SWELLING MEASUREMENT IN SITU BY OPTIMIZED SPATIAL FILTERING: ASTROCYTE-NEURON DIFFERENCES
Biophys. J. BioFAST: April 18, 2008. doi:10.1529/biophysj.107.118620 [Abstract] [Accepted Manuscript] [Supplement]

Kim Montgomery: Multifrequency Forcing of a Hopf Oscillator Model of the Inner Ear
Biophys. J. BioFAST: April 18, 2008. doi:10.1529/biophysj.107.118604 [Abstract] [Accepted Manuscript]

Natalia P. Pawlowicz, Rienk van Grondelle, Ivo H. M. van Stokkum, Jacques Breton, Michael R. Jones, and Marie Louise Groot: Identification of the first steps in charge separation in bacterial photosynthetic reaction centers of Rhodobacter sphaeroides by ultrafast mid-infrared spectroscopy. Electron transfer and protein dynamics
Biophys. J. BioFAST: April 18, 2008. doi:10.1529/biophysj.108.130880 [Abstract] [Accepted Manuscript] [Supplement]

Hsin-Chih Yeh, Christopher M Puleo, Yi-Ping Ho, Vasudev J Bailey, Kelvin Liu, Teck Chuan Lim, and Tza-Huei Wang: Tunable Blinking Kinetics of Cy5 for Precise DNA Quantification and Single-Nucleotide Difference Detection
Biophys. J. BioFAST: April 18, 2008. doi:10.1529/biophysj.107.127530 [Abstract] [Accepted Manuscript] [Supplement]

Mikhail A Karymov, Aleksey Bogdanov, and Yuri Lyubchenko: Single Molecule Fluorescence Analysis of Branch Migration of Holliday junctions. 1. Effect of DNA Sequence
Biophys. J. BioFAST: April 18, 2008. doi:10.1529/biophysj.107.127522 [Abstract] [Accepted Manuscript] [Supplement]

Thomas C Bishop: Geometry of the Nucleosomal DNA Superhelix
Biophys. J. BioFAST: April 18, 2008. doi:10.1529/biophysj.107.122853 [Abstract] [Accepted Manuscript]

Michael P Bennett and Drake C Mitchell: Regulation of membrane proteins by dietary lipids: Effects of cholesterol and DHA on rhodopsin stability and function
Biophys. J. BioFAST: April 18, 2008. doi:10.1529/biophysj.107.122788 [Abstract] [Accepted Manuscript]

Oliver Friedrich, Cornelia Weber, Frederic von Wegner, Jeffrey S Chamberlain, and Rainer H.A. Fink: Unloaded Speed of Shortening in Voltage-Clamped Intact Skeletal Muscle Fibres from wt, mdx and transgenic Mini-Dystrophin Mice using a novel High-Speed Acquisition System
Biophys. J. BioFAST: April 18, 2008. doi:10.1529/biophysj.107.126557 [Abstract] [Accepted Manuscript]

Leila Shokri, Micah J McCauley, Ioulia Rouzina, and Mark C Williams: DNA overstretching in the presence of glyoxal: Structural evidence of force-induced DNA melting
Biophys. J. BioFAST: April 18, 2008. doi:10.1529/biophysj.108.132688 [Abstract] [Accepted Manuscript]

Zhi-Jie Tan and Shi-Jie Chen: Salt dependence of nucleic acid hairpin stability
Biophys. J. BioFAST: April 18, 2008. doi:10.1529/biophysj.108.131524 [Abstract] [Accepted Manuscript]

Olga Vites, Ernst-Ludwig Florin, and Reinhard Jahn: Docking of liposomes to planar surfaces mediated by trans-SNARE complexes
Biophys. J. BioFAST: April 18, 2008. doi:10.1529/biophysj.108.129510 [Abstract] [Accepted Manuscript]

Rebecca R. Pompano, Hung-Wing Li, and Rustem F. Ismagilov: Rate of mixing controls rate and outcome of autocatalytic processes-theory and microfluidic experiments with chemical reactions and blood coagulation
Biophys. J. BioFAST: April 18, 2008. doi:10.1529/biophysj.108.129486 [Abstract] [Accepted Manuscript] [Supplement]

Andreas Hjarne Kunding, Michael Wrang Mortensen, Sune M Christensen, and Dimitrios Stamou: A Fluorescence-Based Technique to Construct Size Distributions from Single Object Measurements, Application to the Extrusion of Lipid Vesicles
Biophys. J. BioFAST: April 18, 2008. doi:10.1529/biophysj.108.128819 [Abstract] [Accepted Manuscript] [Supplement]

Aurelia R. Honerkamp-Smith, Pietro Cicuta, Marcus D. Collins, Sarah L. Veatch, Marcel den Nijs, Michael Schick, and Sarah L. Keller: Line tensions, correlation lengths, and critical exponents in lipid membranes near critical points
Biophys. J. BioFAST: April 18, 2008. doi:10.1529/biophysj.107.128421 [Abstract] [Accepted Manuscript] [Supplement]

Edi Gabellieri, Ettore Balestreri, Alvaro Galli, and Patrizia Cioni: Cavity-creating Mutations in Pseudomonas aeruginosa Azurin. Effects on Protein Dynamics and Stability
Biophys. J. BioFAST: April 18, 2008. doi:10.1529/biophysj.107.128009 [Abstract] [Accepted Manuscript]

11 April 2008

Lei Zhou and Steven A. Siegelbaum: Pathway and endpoint free energy calculations for cyclic nucleotide binding in HCN channel
Biophys. J. BioFAST: April 11, 2008. doi:10.1529/biophysj.108.130872 [Abstract] [Accepted Manuscript] [Supplement]

Alice Nicolas, Achim Besser, and Samuel A. Safran: Dynamics of cellular focal adhesions on deformable substrates: consequences for cell force microscopy
Biophys. J. BioFAST: April 11, 2008. doi:10.1529/biophysj.107.127399 [Abstract] [Accepted Manuscript]

Fernando Teran Arce, Jenny L Whitlock, Anna A Birukova, Konstatin G Birukov, Morton F Arnsdorf, Ratnesh Lal, Joe GN Garcia, and Steve M Dudek: Regulation of the Micromechanical Properties of Pulmonary Endothelium by S1P and Thrombin: Role of Cortactin
Biophys. J. BioFAST: April 11, 2008. doi:10.1529/biophysj.107.127167 [Abstract] [Accepted Manuscript]

Chungwen Liang, Philippe Derreumaux, Normand Mousseau, and Guanghong Wei: The ${beta}$ -strand-loop- ${beta}$ -strand conformation is marginally populated in ${beta}$ ₂-microglobulin (20-41) peptide in solution as revealed by replica exchange molecular dynamics simulations
Biophys. J. BioFAST: April 11, 2008. doi:10.1529/biophysj.107.125054 [Abstract] [Accepted Manuscript] [Supplement]

Seung E Lee, Surasak Chunsrivirot, Roger D. Kamm, and Mohammad R. K. Mofrad: Molecular Dynamics Study of Talin-Vinculin Binding
Biophys. J. BioFAST: April 11, 2008. doi:10.1529/biophysj.107.124487 [Abstract] [Accepted Manuscript] [Supplement]

Kyle C. Smith and James C. Weaver: Active mechanisms are needed to describe cell responses to submicrosecond, megavolt-per-meter pulses
Biophys. J. BioFAST: April 11, 2008. doi:10.1529/biophysj.107.121921 [Abstract] [Accepted Manuscript]

Christian H Reccius, Samuel M Stavis, John T Mannion, Larry P Walker, and Harold G Craighead: Conformation, length and speed measurements of electrodynamically stretched DNA in nanochannels
Biophys. J. BioFAST: April 11, 2008. doi:10.1529/biophysj.107.121020 [Abstract] [Accepted Manuscript]

4 April 2008

Chu Hwan Choi, Zoi Rapti, Vladimir Gelev, Michele R. Hacker, Boian Alexandrov, Evelyn J Park, Jae Suk Park, Nobuo Horikoshi, Augusto Smerzi, Kim O Rasmussen, Alan R Bishop, and Anny Usheva: Profiling the thermodynamic softness of adenoviral promoters
Biophys. J. BioFAST: April 4, 2008. doi:10.1529/biophysj.107.123471 [Abstract] [Accepted Manuscript]

Frank J Brooks and Anders E Carlsson: Actin Polymerization Overshoots and Hydrolysis as Assayed by Pyrene Fluorescence
Biophys. J. BioFAST: April 4, 2008. doi:10.1529/biophysj.107.123125 [Abstract] [Accepted Manuscript]

Basak Isin, Klaus Schulten, Emad Tajkhorshid, and Ivet Bahar: Mechanism of Signal Propagation upon Retinal Isomerization: Insights from Molecular Dynamics Simulations of Rhodopsin Restrained by Normal Modes
Biophys. J. BioFAST: April 4, 2008. doi:10.1529/biophysj.107.120691 [Abstract] [Accepted Manuscript] [Supplement]

Aleksandr Rabodzey, Pilar Alcaide, Francis W Luscinskas, and Benoit Ladoux: Mechanical forces induced by the transendothelial migration of human neutrophils
Biophys. J. BioFAST: April 4, 2008. doi:10.1529/biophysj.107.119156 [Abstract] [Accepted Manuscript] [Supplement]

Christian W. Zemlin, Olivier Bernus, Arvydas Matiukas, Christopher J. Hyatt, and Arkady M. Pertsov: Extracting Intramural Wavefront Orientation From Optical Upstroke Shapes in Whole Hearts
Biophys. J. BioFAST: April 4, 2008. doi:10.1529/biophysj.107.117887 [Abstract] [Accepted Manuscript]

Dennis H Kim and John A Frangos: Effects of Amyloid Beta Peptides on the Lysis Tension of Lipid Bilayer Vesicles Containing Oxysterols
Biophys. J. BioFAST: April 4, 2008. doi:10.1529/biophysj.107.114983 [Abstract] [Accepted Manuscript]

Yasutaka Kurata, Hiroyuki Matsuda, Ichiro Hisatome, and Toshishige Shibamoto: Regional Difference in Dynamical Property of Sinoatrial Node Pacemaking: Role of Na⁺ channel current
Biophys. J. BioFAST: April 4, 2008. doi:10.1529/biophysj.107.112854 [Abstract] [Accepted Manuscript]

Jody L Swift and David T. Cramb: Nanoparticles as fluorescence labels: Is size all that matters?
Biophys. J. BioFAST: April 4, 2008. doi:10.1529/biophysj.107.127688 [Abstract] [Accepted Manuscript]

Gora M'Baye, Yves Mély, Guy Duportail, and Andrey S Klymchenko: Liquid ordered and gel phases of lipid bilayers: fluorescent probes reveal close fluidity but different hydration
Biophys. J. BioFAST: April 4, 2008. doi:10.1529/biophysj.107.127480 [Abstract] [Accepted Manuscript]

Ranjan Mukhopadhyay, Kerwyn Casey Huang, and Ned S. Wingreen: Lipid localization in bacterial cells through curvature-mediated microphase separation
Biophys. J. BioFAST: April 4, 2008. doi:10.1529/biophysj.107.126920 [Abstract] [Accepted Manuscript]

Thomas E. Schaus and Gary G. Borisy: Performance of a population of independent filaments in lamellipodial protrusion
Biophys. J. BioFAST: April 4, 2008. doi:10.1529/biophysj.107.125005 [Abstract] [Accepted Manuscript]

Hiroyuki Okano, Tetsuya J. Kobayashi, Hirokazu Tozaki, and Hidenori Kimura: Estimation of the source-by-source effect of autorepression on genetic noise
Biophys. J. BioFAST: April 4, 2008. doi:10.1529/biophysj.107.124677 [Abstract] [Accepted Manuscript] [Supplement] [Supplement]

Oded Farago, Kai Ewert, Ayesha Ahmad, Heather M Evans, Niels Gronbech-Jensen, and Cyrus R Safinya: Transitions between distinct compaction regimes in complexes of multivalent cationic lipids and DNA
Biophys. J. BioFAST: April 4, 2008. doi:10.1529/biophysj.107.124669 [Abstract] [Accepted Manuscript]

Weiming Cao and Borries Demeler: Modeling Analytical Ultracentrifugation Experiments with an Adaptive Space-Time Finite Element Solution for Multi-Component Reacting Systems
Biophys. J. BioFAST: April 4, 2008. doi:10.1529/biophysj.107.123950 [Abstract] [Accepted Manuscript]

Dina Greene, Tzintzuni Garcia, Bryan Sutton, Kim M Gernert, Guy M Benian, and Andres F Oberhauser: Single-molecule force spectroscopy reveals a stepwise unfolding of C. elegans giant protein kinase domains
Biophys. J. BioFAST: April 4, 2008. doi:10.1529/biophysj.108.130237 [Abstract] [Accepted Manuscript] [Supplement]

Peter Schoen, Ana J. García-Sáez, Petra Malovrh, Kirsten Bacia, Gregor Anderluh, and Petra Schwille: Equinatoxin II permeabilizing activity depends on the presence of sphingomyelin and lipid phase coexistence
Biophys. J. BioFAST: April 4, 2008. doi:10.1529/biophysj.108.129981 [Abstract] [Accepted Manuscript]

Marco Marenchino, Philip T F Williamson, Samuel Murri, Giorgia Zandomeneghi, Heidi Wunderli-Allenspach, Beat H Meier, and Stefanie D Krämer: Dynamics and Cleavability at the ${alpha}$ -Cleavage Site of APP(684-726) in Different Lipid Environments
Biophys. J. BioFAST: April 4, 2008. doi:10.1529/biophysj.108.129726 [Abstract] [Accepted Manuscript]

James Butler, Narla Mohandas, and Richard E Waugh: Integral protein linkage and the bilayer-skeletal separation energy in red blood cells
Biophys. J. BioFAST: April 4, 2008. doi:10.1529/biophysj.108.129163 [Abstract] [Accepted Manuscript]

Hua Deng, Scott Brewer, Dung Vu, Keith Clinch, Robert Callender, and Brian R. Dyer: On the pathway of forming enzymatically productive ligand-protein complexes in Lactate Dehydrogenase
Biophys. J. BioFAST: April 4, 2008. doi:10.1529/biophysj.108.128884 [Abstract] [Accepted Manuscript] [Supplement]

Lili Niu and Ji Yu: Investigating Intracellular Dynamics of FtsZ Cytoskeleton with Photo-activation Single-molecule Tracking
Biophys. J. BioFAST: April 4, 2008. doi:10.1529/biophysj.108.128751 [Abstract] [Accepted Manuscript] [Supplement]

Dave M Newman, John Heptinstall, Raphael J Matelon, Luke Savage, M Lesley Wears, Jamie Beddow, Martin Cox, Henk DFH Schallig, and Petra Mens: A magneto-optic route towards the in-vivo diagnosis of malaria: preliminary results and pre-clinical trial data
Biophys. J. BioFAST: April 4, 2008. doi:10.1529/biophysj.107.128140 [Abstract] [Accepted Manuscript]

Dirk Gillespie, Dezso Boda, Yan He, Pavel Apel, and Zuzanna S. Siwy: Synthetic nanopores as a test case for ion channel theories: The anomalous mole fraction effect without single filing
Biophys. J. BioFAST: April 4, 2008. doi:10.1529/biophysj.107.127985 [Abstract] [Accepted Manuscript]

Pascale Schwinté, Harald Foerstendorf, Zakir Hussain, Wolfgang Gärtner, Maria-Andrea Mroginski, Peter Hildebrandt, and Friedrich Siebert: FTIR Study of the Photoinduced Processes of Plant Phytochrome phyA using isotope-labeled Bilins and DFT Calculations
Biophys. J. BioFAST: April 4, 2008. doi:10.1529/biophysj.108.131441 [Abstract] [Accepted Manuscript] [Supplement]

Ute Klenz, Mohammed Saleem, Michaela C Meyer, and Hans-Joachim Galla: Influence of lipid saturation grade and head group charge: A refined lung surfactant adsorption model
Biophys. J. BioFAST: April 4, 2008. doi:10.1529/biophysj.108.131102 [Abstract] [Accepted Manuscript]

Tamer M. Gamal El-Din, Dominik F. Grögler, Claudia Lehmann, Hansjakob Heldstab, and Nikolaus G. Greeff: More Gating Charges are needed to open a Shaker K⁺ Channel than are needed to open a rBIIA Na⁺ Channel
Biophys. J. BioFAST: April 4, 2008. doi:10.1529/biophysj.108.130765 [Abstract] [Accepted Manuscript]

Gregory Holland and Todd M. Alam: Unique Backbone-Water Interaction Detected in Sphingomyelin Bilayers with ¹H/³¹P and ¹H/¹³C HETCOR MAS NMR Spectroscopy
Biophys. J. BioFAST: April 4, 2008. doi:10.1529/biophysj.108.130724 [Abstract] [Accepted Manuscript] [Supplement]

Pawel Swietach, Kenneth W Spitzer, and Richard D Vaughan-Jones: Ca²⁺-mobility in the sarcoplasmic reticulum of ventricular myocytes is low
Biophys. J. BioFAST: April 4, 2008. doi:10.1529/biophysj.108.130385 [Abstract] [Accepted Manuscript] [Supplement]

Thalia T. Mills, Stephanie Tristram-Nagle, Frederick A. Heberle, Nelson F. Morales, Jiang Zhao, Jing Wu, Gilman E. S. Toombes, John F. Nagle, and Gerald W. Feigenson: Liquid-liquid domains in bilayers detected by wide angle x-ray scattering
Biophys. J. BioFAST: April 4, 2008. doi:10.1529/biophysj.107.127910 [Abstract] [Accepted Manuscript] [Supplement]

Thalia T. Mills, Gilman E. S. Toombes, Stephanie Tristram-Nagle, Detlef-M. Smilgies, Gerald W. Feigenson, and John F. Nagle: Order parameters and areas in fluid-phase oriented lipid membranes using wide angle x-ray scattering
Biophys. J. BioFAST: April 4, 2008. doi:10.1529/biophysj.107.127845 [Abstract] [Accepted Manuscript] [Supplement]

Yuye Tang, Jejoong Yoo, Arun Yethiraj, Qiang Cui, and Xi Chen: Gating Mechanisms of Mechanosensitive Channels of Large Conductance Part II: Systematic Study of Conformational Transitions
Biophys. J. BioFAST: April 4, 2008. doi:10.1529/biophysj.107.128496 [Abstract] [Accepted Manuscript]

Xi Chen, Qiang Cui, Yuye Tang, Jejoong Yoo, and Arun Yethiraj: Gating Mechanisms of Mechanosensitive Channels of Large Conductance Part I: A Continuum Mechanics-Based Hierarchical Framework
Biophys. J. BioFAST: April 4, 2008. doi:10.1529/biophysj.107.128488 [Abstract] [Accepted Manuscript]

Timothy P. Tolentino, Jianhua Wu, Veronika I. Zarnitsyna, Ying Fang, Michael L. Dustin, and Cheng Zhu: Measuring Diffusion and Binding Kinetics by Contact Area FRAP
Biophys. J. BioFAST: April 4, 2008. doi:10.1529/biophysj.107.114447 [Abstract] [Accepted Manuscript]

Jianhua Wu, Ying Fang, Veronika I. Zarnitsyna, Timothy P. Tolentino, Michael L. Dustin, and Cheng Zhu: A Coupled Diffusion-Kinetics Model for Analysis of Contact Area FRAP Experiment
Biophys. J. BioFAST: April 4, 2008. doi:10.1529/biophysj.107.114439 [Abstract] [Accepted Manuscript]

28 March 2008

Yi Cao, Rachel Kuske, and Hongbin Li: Direct Observation of Markovian Behavior of the Mechanical Unfolding of Individual Proteins
Biophys. J. BioFAST: March 28, 2008. doi:10.1529/biophysj.107.128298 [Abstract] [Accepted Manuscript] [Supplement]

Katie C. Bittner and Dorothy A. Hanck: The Relationship Between Single Channel and Whole Cell Conductance in the T-type Ca²⁺ Channel Ca_V3.1
Biophys. J. BioFAST: March 28, 2008. doi:10.1529/biophysj.107.128124 [Abstract] [Accepted Manuscript]

Jana Hueve, Ramona Wesselmann, Martin Kahms, and Reiner Peters: 4Pi microscopy of the nuclear pore complex
Biophys. J. BioFAST: March 28, 2008. doi:10.1529/biophysj.107.127449 [Abstract] [Accepted Manuscript]

Yuki Sudo, Tatsuya Nishihori, Masayuki Iwamoto, Kazumi Shimono, Chojiro Kojima, and Naoki Kamo: A Long-lived M-like state of phoborhodopsin which mimics the active state
Biophys. J. BioFAST: March 28, 2008. doi:10.1529/biophysj.107.125294 [Abstract] [Accepted Manuscript]

Shou Furuike, Kengo Adachi, Naoyoshi Sakaki, Rieko Shimo-Kon, Hiroyasu Itoh, Eiro Muneyuki, Masasuke Yoshida, and Kazuhiko Kinosita: Temperature Dependence of the Rotation and Hydrolysis Activities of F₁-ATPase
Biophys. J. BioFAST: March 28, 2008. doi:10.1529/biophysj.107.123307 [Abstract] [Accepted Manuscript]

Nathalie Colloc'h, Laure Gabison, Gerald Monard, Muhanad Altarsha, Mohamed Chiadmi, Guillaume Marassio, Jana Sopkova-de Oliveira Santos, Mohamed El Hajji, Bertrand Castro, Jacques H. Abraini, and Thierry Prangé: Oxygen pressurized X-ray crystallography: Probing the dioxygen binding site in cofactor-less urate oxidase and implications to its catalytic mechanism
Biophys. J. BioFAST: March 28, 2008. doi:10.1529/biophysj.107.122184 [Abstract] [Accepted Manuscript] [Supplement]

Christian Reich, Margaret R. Horton, Bärbel Krause, Alice P. Gast, Joachim O. Rädler, and Bert Nickel: Asymmetric structural features in single supported lipid bilayers containing cholesterol and G_M1 resolved with synchrotron X-ray reflectivity
Biophys. J. BioFAST: March 28, 2008. doi:10.1529/biophysj.107.113068 [Abstract] [Accepted Manuscript] [Supplement]

Amy Y Shih, Stephen G. Sligar, and Klaus Schulten: Molecular models need to be tested: the case of a solar flares discoidal HDL model
Biophys. J. BioFAST: March 28, 2008. doi:10.1529/biophysj.108.131581 [Abstract] [Accepted Manuscript] [Supplement]

Hirotaka Sasaki and Stephen H White: Aggregation Behavior of an Ultra-Pure Lipopolysaccharide (LPS) that Stimulates TLR-4 Receptors
Biophys. J. BioFAST: March 28, 2008. doi:10.1529/biophysj.108.129197 [Abstract] [Accepted Manuscript]

Eduardo Sontag, Alan Veliz-Cuba, Reinhard Laubenbacher, and Abdul Salam Jarrah: The effect of negative feedback loops on the dynamics of Boolean networks
Biophys. J. BioFAST: March 28, 2008. doi:10.1529/biophysj.107.125021 [Abstract] [Accepted Manuscript] [Supplement]

Shozeb M Haider, Gary N Parkinson, and Stephen Neidle: Molecular Dynamics and Principal Components Analysis of Human Telomeric Quadruplex Multimers
Biophys. J. BioFAST: March 28, 2008. doi:10.1529/biophysj.107.120501 [Abstract] [Accepted Manuscript]

Lorin S Milescu, Tadashi Yamanishi, Krzysztof Ptak, Murtaza Z Mogri, and Jeffrey C Smith: Real-time kinetic modeling of voltage-gated ion channels using dynamic clamp
Biophys. J. BioFAST: March 28, 2008. doi:10.1529/biophysj.107.118190 [Abstract] [Accepted Manuscript] [Supplement]

Michael Kücken, Jordi Soriano, Pramod A Pullarkat, Albrecht Ott, and Ernesto M. Nicola: An Osmoregulatory Basis for Shape Oscillations in Regenerating Hydra
Biophys. J. BioFAST: March 28, 2008. doi:10.1529/biophysj.107.117655 [Abstract] [Accepted Manuscript]

Thomas Renger: New and Notable: A new spectroscopic tool for analyzing excitonic structure and dynamics in pigment-protein complexes
Biophys. J. BioFAST: March 28, 2008. doi:10.1529/biophysj.108.131755 [Abstract] [Accepted Manuscript]

Elizabeth L. Read, Gabriela S. Schlau-Cohen, Gregory S. Engel, Jianzhong Wen, Robert E. Blankenship, and Graham R. Fleming: Visualization of Excitonic Structure in the Fenna-Matthews-Olson Photosynthetic Complex by Polarization-Dependent Two-Dimensional Electronic Spectroscopy
Biophys. J. BioFAST: March 28, 2008. doi:10.1529/biophysj.107.128199 [Abstract] [Accepted Manuscript] [Supplement]

Kathleen A. Lesich, Dominic W. Pelle, and Charles B. Lindemann: Insights into the mechanism of ADP action on flagellar motility derived from studies on bull sperm
Biophys. J. BioFAST: March 28, 2008. doi:10.1529/biophysj.107.127951 [Abstract] [Accepted Manuscript] [Supplement]

Wei Liu, Vedrana Montana, Vladimir Parpura, and Umar Mohideen: Comparative Energy Measurements in Single Molecule Interactions
Biophys. J. BioFAST: March 28, 2008. doi:10.1529/biophysj.107.127886 [Abstract] [Accepted Manuscript]

Yves Lecarpentier, Nicolas Vignier, Patricia Oliviero, Aziz Guellich, Lucie Carrier, and Catherine Coirault: Cardiac myosin-binding protein C modulates the tuning of the molecular motor in the heart
Biophys. J. BioFAST: March 28, 2008. doi:10.1529/biophysj.107.127787 [Abstract] [Accepted Manuscript]

Gennady M Verkhivker, Guido Tiana, Carlo Camilloni, Davide Provasi, and Ricardo A Broglia: Atomistic simulations of the HIV--1 protease folding inhibition
Biophys. J. BioFAST: March 28, 2008. doi:10.1529/biophysj.107.127621 [Abstract] [Accepted Manuscript]

Panita Decha, Thanyada Rungrotmongkol, Pathumwadee Intharathep, Mathuros Malaisree, Ornjira Aruksakunwong, Chittima Laohpongspaisan, Vudhichai Parasuk, Pornthep Sompornpisut, Somsak Pianwanit, Sirirat Kokpol, and Supot Hannongbua: Source of High Pathogenicity of an Avian Influenza Virus H5N1:Why H5 is Better Cleaved by Furin
Biophys. J. BioFAST: March 28, 2008. doi:10.1529/biophysj.107.127456 [Abstract] [Accepted Manuscript]

Kristin J. Mattern, Chalida Nakornchai, and William M. Deen: Darcy Permeability of Agarose-Glycosaminoglycan Gels Analyzed Using Fiber-Mixture and Donnan Models
Biophys. J. BioFAST: March 28, 2008. doi:10.1529/biophysj.107.127316 [Abstract] [Accepted Manuscript]

21 March 2008

Gert-Jan Kremers, Erik B. Van Munster, Joachim Goedhart, and Theodorus W.J. Gadella: Quantitative lifetime unmixing of multi-exponentially decaying fluorophores using single-frequency FLIM
Biophys. J. BioFAST: March 21, 2008. doi:10.1529/biophysj.107.125229 [Abstract] [Accepted Manuscript] [Supplement]

Marion Jasnin, Martine Moulin, Michael Haertlein, Giuseppe Zaccai, and Moeava Tehei: In vivo measurement of internal and global macromolecular motions in E. coli
Biophys. J. BioFAST: March 21, 2008. doi:10.1529/biophysj.107.124420 [Abstract] [Accepted Manuscript]

Max Anikovsky, Lianne Dale, Stephen Ferguson, and Nils Petersen: Resonance Energy Transfer in Cells: a New Look at Fixation Effect and Receptor Aggregation on Cell Membrane
Biophys. J. BioFAST: March 21, 2008. doi:10.1529/biophysj.107.124313 [Abstract] [Accepted Manuscript]

Nuria Gavara, Pere Roca-Cusachs, Raimon Sunyer, Ramon Farre, and Daniel Navajas: Mapping cell-matrix stresses during stretch reveals inelastic reorganization of the cytoskeleton
Biophys. J. BioFAST: March 21, 2008. doi:10.1529/biophysj.107.124180 [Abstract] [Accepted Manuscript] [Supplement]

Manuela A. Zoonens, Yana K. Reshetnyak, and Donald M. Engelman: Bilayer interactions of pHLIP, a peptide that can deliver drugs and target tumors
Biophys. J. BioFAST: March 21, 2008. doi:10.1529/biophysj.107.124156 [Abstract] [Accepted Manuscript]

Pieter in 't Veld and Mark J. Stevens: Simulation of the Mechanical Strength of a Single Collagen Molecule
Biophys. J. BioFAST: March 21, 2008. doi:10.1529/biophysj.107.120659 [Abstract] [Accepted Manuscript]

Jeffrey R. Groff and Greg Smith: Ryanodine Receptor Allosteric Coupling and the Dynamics of Calcium Sparks
Biophys. J. BioFAST: March 21, 2008. doi:10.1529/biophysj.107.119982 [Abstract] [Accepted Manuscript]

Jaeheung Park, Jooyoung Kim, Taegon Lee, and Manho Lim: Dynamics of Ligand Rebinding to Unfolded MbCO by Guanidine HCl
Biophys. J. BioFAST: March 21, 2008. doi:10.1529/biophysj.108.130641 [Abstract] [Accepted Manuscript] [Supplement]

Jiankuai Diao and Emad Tajkhorshid: Indirect Role of Ca²⁺ in the Assembly of Extracelluar Matrix Proteins
Biophys. J. BioFAST: March 21, 2008. doi:10.1529/biophysj.108.129106 [Abstract] [Accepted Manuscript]

Ines Hörger, Enrique Velasco, German Rivas, Marisela Velez, and Pedro Tarazona: FtsZ bacterial cytoskeletal polymers on curved surfaces: the importanc