BIOPHYSICAL LETTERS:

Willy Supatto, Scott E. Fraser, and Julien Vermot

An All-Optical Approach for Probing Microscopic Flows in Living Embryos
Biophys. J. 2008 95: L29-L31; Published ahead of print on June 13, 2008 as doi:10.1529/biophysj.108.137786. [Abstract] [Full Text] [PDF] [Supplement]  

BIOPHYSICAL THEORY AND MODELING:

Kyle C. Smith and James C. Weaver

Active Mechanisms Are Needed to Describe Cell Responses to Submicrosecond, Megavolt-per-Meter Pulses: Cell Models for Ultrashort Pulses
Biophys. J. 2008 95: 1547-1563; Published ahead of print on April 11, 2008 as doi:10.1529/biophysj.107.121921. [Abstract] [Full Text] [PDF]  

Charles W. Wolgemuth

Collective Swimming and the Dynamics of Bacterial Turbulence
Biophys. J. 2008 95: 1564-1574; Published ahead of print on May 9, 2008 as doi:10.1529/biophysj.107.118257. [Abstract] [Full Text] [PDF]  

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. 2008 95: 1575-1589; Published ahead of print on May 9, 2008 as doi:10.1529/biophysj.107.120600. [Abstract] [Full Text] [PDF] [Supplement]  

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. 2008 95: 1590-1599; Published ahead of print on May 2, 2008 as doi:10.1529/biophysj.108.133025. [Abstract] [Full Text] [PDF]  

Taira Vora, David Bisset, and Shin-Ho Chung

Conduction of Na⁺ and K⁺ through the NaK Channel: Molecular and Brownian Dynamics Studies
Biophys. J. 2008 95: 1600-1611; Published ahead of print on May 2, 2008 as doi:10.1529/biophysj.107.126722. [Abstract] [Full Text] [PDF]  

A. Szilágyi, D. Györffy, and P. Závodszky

The Twilight Zone between Protein Order and Disorder
Biophys. J. 2008 95: 1612-1626; Published ahead of print on April 25, 2008 as doi:10.1529/biophysj.108.131151. [Abstract] [Full Text] [PDF]  

Igor L. Novak, Boris M. Slepchenko, and Alex Mogilner

Quantitative Analysis of G-Actin Transport in Motile Cells
Biophys. J. 2008 95: 1627-1638; Published ahead of print on May 23, 2008 as doi:10.1529/biophysj.108.130096. [Abstract] [Full Text] [PDF]  

Kei Moritsugu and Jeremy C. Smith

REACH Coarse-Grained Biomolecular Simulation: Transferability between Different Protein Structural Classes
Biophys. J. 2008 95: 1639-1648; Published ahead of print on May 9, 2008 as doi:10.1529/biophysj.108.131714. [Abstract] [Full Text] [PDF]  

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. 2008 95: 1649-1657; Published ahead of print on May 9, 2008 as doi:10.1529/biophysj.107.123190. [Abstract] [Full Text] [PDF]  

Stephanie R. Taylor, Francis J. Doyle, 3rd, and Linda R. Petzold

Oscillator Model Reduction Preserving the Phase Response: Application to the Circadian Clock
Biophys. J. 2008 95: 1658-1673; Published ahead of print on May 16, 2008 as doi:10.1529/biophysj.107.128678. [Abstract] [Full Text] [PDF]  

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. 2008 95: 1674-1688; Published ahead of print on May 9, 2008 as doi:10.1529/biophysj.107.127498. [Abstract] [Full Text] [PDF]  

George S. B. Williams, Marco A. Huertas, Eric A. Sobie, M. Saleet Jafri, and Gregory D. Smith

Moment Closure for Local Control Models of Calcium-Induced Calcium Release in Cardiac Myocytes
Biophys. J. 2008 95: 1689-1703; Published ahead of print on May 16, 2008 as doi:10.1529/biophysj.107.125948. [Abstract] [Full Text] [PDF]  

Vasili Hauryliuk, Sebastian Hansson, and Måns Ehrenberg

Cofactor Dependent Conformational Switching of GTPases
Biophys. J. 2008 95: 1704-1715; Published ahead of print on May 23, 2008 as doi:10.1529/biophysj.107.127290. [Abstract] [Full Text] [PDF]  

Ellen F. Krasik, Kelly E. Caputo, and Daniel A. Hammer

Adhesive Dynamics Simulation of Neutrophil Arrest with Stochastic Activation
Biophys. J. 2008 95: 1716-1728; Published ahead of print on May 16, 2008 as doi:10.1529/biophysj.107.119677. [Abstract] [Full Text] [PDF]  

Manami Nishizawa and Kazuhisa Nishizawa

Molecular Dynamics Simulation of Kv Channel Voltage Sensor Helix in a Lipid Membrane with Applied Electric Field
Biophys. J. 2008 95: 1729-1744; Published ahead of print on May 16, 2008 as doi:10.1529/biophysj.108.130658. [Abstract] [Full Text] [PDF]  

Shelly Tzlil, Diana Murray, and Avinoam Ben-Shaul

The "Electrostatic-Switch" Mechanism: Monte Carlo Study of MARCKS-Membrane Interaction
Biophys. J. 2008 95: 1745-1757; Published ahead of print on May 23, 2008 as doi:10.1529/biophysj.108.132522. [Abstract] [Full Text] [PDF]  

Takako Takeda and Dmitri K. Klimov

Temperature-Induced Dissociation of Aβ Monomers from Amyloid Fibril
Biophys. J. 2008 95: 1758-1772; Published ahead of print on May 23, 2008 as doi:10.1529/biophysj.108.131698. [Abstract] [Full Text] [PDF]  

Kohei Eguchi, Mitsumasa Yoda, Tomoki P. Terada, and Masaki Sasai

Mechanism of Robust Circadian Oscillation of KaiC Phosphorylation In Vitro
Biophys. J. 2008 95: 1773-1784; Published ahead of print on May 23, 2008 as doi:10.1529/biophysj.107.127555. [Abstract] [Full Text] [PDF] [Supplement]  

Songwan Jin, Zsolt Zador, and A. S. Verkman

Random-Walk Model of Diffusion in Three Dimensions in Brain Extracellular Space: Comparison with Microfiberoptic Photobleaching Measurements
Biophys. J. 2008 95: 1785-1794; Published ahead of print on May 9, 2008 as doi:10.1529/biophysj.108.131466. [Abstract] [Full Text] [PDF]  

Sherry-Ann Brown, Frank Morgan, James Watras, and Leslie M. Loew

Analysis of Phosphatidylinositol-4,5-Bisphosphate Signaling in Cerebellar Purkinje Spines
Biophys. J. 2008 95: 1795-1812; Published ahead of print on May 16, 2008 as doi:10.1529/biophysj.108.130195. [Abstract] [Full Text] [PDF]  

CHANNELS, RECEPTORS, AND ELECTRICAL SIGNALING:

Gianluca Bartolommei, Nadège Devaux, Francesco Tadini-Buoninsegni, MariaRosa Moncelli, and Hans-Jürgen Apell

Effect of Clotrimazole on the Pump Cycle of the Na,K-ATPase
Biophys. J. 2008 95: 1813-1825; Published ahead of print on May 9, 2008 as doi:10.1529/biophysj.108.133546. [Abstract] [Full Text] [PDF]  

MEMBRANES:

James Butler, Narla Mohandas, and Richard E. Waugh

Integral Protein Linkage and the Bilayer-Skeletal Separation Energy in Red Blood Cells
Biophys. J. 2008 95: 1826-1836; Published ahead of print on April 4, 2008 as doi:10.1529/biophysj.108.129163. [Abstract] [Full Text] [PDF]  

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. 2008 95: 1837-1850; Published ahead of print on May 9, 2008 as doi:10.1529/biophysj.108.129437. [Abstract] [Full Text] [PDF]  

Frédérick Jean-Marie de Meyer, Maddalena Venturoli, and Berend Smit

Molecular Simulations of Lipid-Mediated Protein-Protein Interactions
Biophys. J. 2008 95: 1851-1865; Published ahead of print on May 16, 2008 as doi:10.1529/biophysj.107.124164. [Abstract] [Full Text] [PDF]  

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. 2008 95: 1866-1876; Published ahead of print on May 9, 2008 as doi:10.1529/biophysj.107.121160. [Abstract] [Full Text] [PDF]  

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. 2008 95: 1877-1889; Published ahead of print on May 9, 2008 as doi:10.1529/biophysj.108.131458. [Abstract] [Full Text] [PDF]  

MUSCLE AND CONTRACTILITY:

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. 2008 95: 1890-1901; Published ahead of print on May 9, 2008 as doi:10.1529/biophysj.107.118109. [Abstract] [Full Text] [PDF]  

PHOTOBIOPHYSICS:

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. 2008 95: 1902-1912; Published ahead of print on May 9, 2008 as doi:10.1529/biophysj.108.129957. [Abstract] [Full Text] [PDF]  

PROTEINS:

N. Cremades and J. 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. 2008 95: 1913-1927; Published ahead of print on April 25, 2008 as doi:10.1529/biophysj.108.130153. [Abstract] [Full Text] [PDF]  

Aviv Paz, Tzviya Zeev-Ben-Mordehai, Martin Lundqvist, Eilon Sherman, Efstratios Mylonas, Lev Weiner, Gilad Haran, Dmitri I. Svergun, Frans A. A. Mulder, Joel L. Sussman, and Israel Silman

Biophysical Characterization of the Unstructured Cytoplasmic Domain of the Human Neuronal Adhesion Protein Neuroligin 3
Biophys. J. 2008 95: 1928-1944; Published ahead of print on May 2, 2008 as doi:10.1529/biophysj.107.126995. [Abstract] [Full Text] [PDF]  

Matthew L. Ferguson, Kondury Prasad, Hacene Boukari, Dan L. Sackett, Susan Krueger, Eileen M. Lafer, and Ralph Nossal

Clathrin Triskelia Show Evidence of Molecular Flexibility
Biophys. J. 2008 95: 1945-1955; Published ahead of print on May 23, 2008 as doi:10.1529/biophysj.107.126342. [Abstract] [Full Text] [PDF] [Supplement]  

Seung Yup Lee and Jeffrey Skolnick

Benchmarking of TASSER_2.0: An Improved Protein Structure Prediction Algorithm with More Accurate Predicted Contact Restraints
Biophys. J. 2008 95: 1956-1964; Published ahead of print on May 16, 2008 as doi:10.1529/biophysj.108.129759. [Abstract] [Full Text] [PDF]  

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. 2008 95: 1965-1973; Published ahead of print on May 9, 2008 as doi:10.1529/biophysj.108.129213. [Abstract] [Full Text] [PDF] [Supplement]  

Nickolay Zhadin, Miriam Gulotta, and Robert Callender

Probing the Role of Dynamics in Hydride Transfer Catalyzed by Lactate Dehydrogenase
Biophys. J. 2008 95: 1974-1984; Published ahead of print on May 16, 2008 as doi:10.1529/biophysj.108.132464. [Abstract] [Full Text] [PDF]  

SUPRAMOLECULAR ASSEMBLIES:

Christian Burger, Hong-wen Zhou, Hao Wang, Igors Sics, Benjamin S. Hsiao, Benjamin Chu, Lila Graham, and Melvin J. Glimcher

Lateral Packing of Mineral Crystals in Bone Collagen Fibrils
Biophys. J. 2008 95: 1985-1992; Published ahead of print on March 21, 2008 as doi:10.1529/biophysj.107.128355. [Abstract] [Full Text] [PDF] [Supplement]  

Vahid Rezania, Olga Azarenko, Mary Ann Jordan, Hannes Bolterauer, Richard F. Ludueña, J. Torin Huzil, and Jack A. Tuszynski

Microtubule Assembly of Isotypically Purified Tubulin and Its Mixtures
Biophys. J. 2008 95: 1993-2008; Published ahead of print on May 23, 2008 as doi:10.1529/biophysj.108.132233. [Abstract] [Full Text] [PDF]  

SPECTROSCOPY, IMAGING, OTHER TECHNIQUES:

Lili Niu and Ji Yu

Investigating Intracellular Dynamics of FtsZ Cytoskeleton with Photoactivation Single-Molecule Tracking
Biophys. J. 2008 95: 2009-2016; Published ahead of print on April 4, 2008 as doi:10.1529/biophysj.108.128751. [Abstract] [Full Text] [PDF] [Supplement]  

Ingrid E. Chesnick, Jeffrey T. Mason, Anthony A. Giuseppetti, Naomi Eidelman, and Kimberlee Potter

Magnetic Resonance Microscopy of Collagen Mineralization
Biophys. J. 2008 95: 2017-2026; Published ahead of print on May 16, 2008 as doi:10.1529/biophysj.107.120923. [Abstract] [Full Text] [PDF]  

CELL BIOPHYSICS:

S. E. Lee, S. Chunsrivirot, R. D. Kamm, and M. R. K. Mofrad

Molecular Dynamics Study of Talin-Vinculin Binding
Biophys. J. 2008 95: 2027-2036; Published ahead of print on April 11, 2008 as doi:10.1529/biophysj.107.124487. [Abstract] [Full Text] [PDF] [Supplement]  

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. 2008 95: 2037-2048; Published ahead of print on May 9, 2008 as doi:10.1529/biophysj.107.128249. [Abstract] [Full Text] [PDF]  

Jianrong Wu and Keith M. Berland

Propagators and Time-Dependent Diffusion Coefficients for Anomalous Diffusion
Biophys. J. 2008 95: 2049-2052; Published ahead of print on May 16, 2008 as doi:10.1529/biophysj.107.121608. [Abstract] [Full Text] [PDF]  

Eleonora Savio-Galimberti, Joy Frank, Masashi Inoue, Joshua I. Goldhaber, Mark B. Cannell, John H. B. Bridge, and Frank B. Sachse

Novel Features of the Rabbit Transverse Tubular System Revealed by Quantitative Analysis of Three-Dimensional Reconstructions from Confocal Images
Biophys. J. 2008 95: 2053-2062; Published ahead of print on May 16, 2008 as doi:10.1529/biophysj.108.130617. [Abstract] [Full Text] [PDF]  

Dan Siegal-Gaskins and Sean Crosson

Tightly Regulated and Heritable Division Control in Single Bacterial Cells
Biophys. J. 2008 95: 2063-2072; Published ahead of print on May 9, 2008 as doi:10.1529/biophysj.108.128785. [Abstract] [Full Text] [PDF]  

Christopher Wolf and Mohammad R. K. Mofrad

On the Octagonal Structure of the Nuclear Pore Complex: Insights from Coarse-Grained Models
Biophys. J. 2008 95: 2073-2085; Published ahead of print on May 16, 2008 as doi:10.1529/biophysj.108.130336. [Abstract] [Full Text] [PDF]  

Ágnes Szabó, Gábor Horváth, János Szöllosi, and Peter Nagy

Quantitative Characterization of the Large-Scale Association of ErbB1 and ErbB2 by Flow Cytometric Homo-FRET Measurements
Biophys. J. 2008 95: 2086-2096; Published ahead of print on May 16, 2008 as doi:10.1529/biophysj.108.133371. [Abstract] [Full Text] [PDF]  

ELECTROPHYSIOLOGY:

Phillip Prior and Bradley J. Roth

Calculation of Optical Signal Using Three-Dimensional Bidomain/Diffusion Model Reveals Distortion of the Transmembrane Potential
Biophys. J. 2008 95: 2097-2102; Published ahead of print on May 16, 2008 as doi:10.1529/biophysj.107.127852. [Abstract] [Full Text] [PDF]  

OTHER:

Judith A. Megerle, Georg Fritz, Ulrich Gerland, Kirsten Jung, and Joachim O. Rädler

Timing and Dynamics of Single Cell Gene Expression in the Arabinose Utilization System
Biophys. J. 2008 95: 2103-2115; Published ahead of print on May 9, 2008 as doi:10.1529/biophysj.107.127191. [Abstract] [Full Text] [PDF]  

Maureen L. Upton, Christopher L. Gilchrist, Farshid Guilak, and Lori A. Setton

Transfer of Macroscale Tissue Strain to Microscale Cell Regions in the Deformed Meniscus
Biophys. J. 2008 95: 2116-2124; Published ahead of print on May 16, 2008 as doi:10.1529/biophysj.107.126938. [Abstract] [Full Text] [PDF]  

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