Microrheology for Hi-C Data Reveals the Spectrum of the Dynamic 3D Genome Organization.

abstract：:We measured the influence of alternative versions of the Drosophila melanogaster myosin heavy chain relay domain on muscle mechanical properties. We exchanged relay domain regions (encoded by alternative versions of exon 9) between an embryonic (EMB) isoform and the indirect flight muscle isoform (IFI) of myosin. Prev...

journal_title：Biophysical journal

authors： Yang C,Ramanath S,Kronert WA,Bernstein SI,Maughan DW,Swank DM

更新日期：2008-12-01 00:00:00

abstract：:Why is the spine of a neuron so small that it can contain only small numbers of molecules and reactions inevitably become stochastic? We previously showed that, despite such noisy conditions, the spine exhibits robust, sensitive, and efficient features of information transfer using the probability of Ca2+ increase; ho...

journal_title：Biophysical journal

authors： Fujii M,Ohashi K,Karasawa Y,Hikichi M,Kuroda S

更新日期：2017-02-28 00:00:00

abstract：:Biological spread cells exist in a perpetually fluctuating state and therefore cannot be described in terms of a unique deterministic system. For modeling approaches to provide novel insight and uncover new mechanisms that drive cell behavior, a framework is required that progresses from traditional deterministic meth...

journal_title：Biophysical journal

authors： McEvoy E,Shishvan SS,Deshpande VS,McGarry JP

更新日期：2018-12-18 00:00:00

abstract：:Understanding the information processing ability of signal transduction pathways is of great importance because of their crucial roles in triggering various cellular responses. Despite continuing theoretical investigation, some important aspects of signal transduction such as a transient response and its connection to...

journal_title：Biophysical journal

authors： Morishita Y,Kobayashi TJ,Aihara K

更新日期：2006-09-15 00:00:00

abstract：:We have examined the mechanisms underlying the voltage sensitivity of alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionate receptors in voltage-clamped outside-out patches and whole cells taken from the nucleus magnocellularis of the chick. Responses to either glutamate or kainate had outwardly rectifying current-volt...

journal_title：Biophysical journal

authors： Raman IM,Trussell LO

更新日期：1995-11-01 00:00:00

abstract：:It has been observed in numerical experiments that adding a cargo to a motor protein can regularize its gait. Here we explain these results via asymptotic analysis on a general stochastic motor protein model. This analysis permits a computation of various observables (e.g., the mean velocity) of the motor protein and ...

journal_title：Biophysical journal

authors： DeVille RE,Vanden-Eijnden E

更新日期：2008-09-15 00:00:00

abstract：:We describe Franck-Condon simulations of vibrational cooling effects on absorption difference spectra in chlorophyll a (Chl a). The relative contributions of vibrational equilibration in the electronic ground and excited states depend on the pump and probe wavelengths. For Franck-Condon-active vibrational modes exhibi...

journal_title：Biophysical journal

authors： Struve WS

更新日期：1995-12-01 00:00:00

abstract：:The opening and closing of the CFTR Cl- channel are regulated by ATP hydrolysis at its two nucleotide binding domains (NBDs). However, the mechanism and functional significance of ATP hydrolysis are unknown. Sequence similarity between the NBDs of CFTR and GTP-binding proteins suggested the NBDs might have a structure...

journal_title：Biophysical journal

authors： Carson MR,Welsh MJ

更新日期：1995-12-01 00:00:00

abstract：:The stability of the 1:1 complex of sodium ion with the dianion of guanosine 5'-monophosphate has been determined by means of a potentiometric titration employing a specific ion electrode. The stability constant for the reaction Na(+) + 5'-GMP(2-) Na(5'-GMP)(-) was found to be 2.85 +/- 0.36 M(-1) at 5 degrees C and an...

journal_title：Biophysical journal

authors： Walmsley JA,Pinnavaia TJ

更新日期：1982-06-01 00:00:00

abstract：:Magic-angle spinning nuclear magnetic resonance is well suited for the study of membrane proteins in the nativelike lipid environment. However, the natural cellular membrane is invariably more complex than the proteoliposomes most often used for solid-state NMR (SSNMR) studies, and differences may affect the structure...

journal_title：Biophysical journal

authors： Ward ME,Wang S,Munro R,Ritz E,Hung I,Gor'kov PL,Jiang Y,Liang H,Brown LS,Ladizhansky V

更新日期：2015-04-07 00:00:00

abstract：:The outer membrane of Gram-negative bacteria is of great scientific interest because it mediates the action of antimicrobial agents. The membrane surface is composed of lipopolysaccharide (LPS) molecules with negatively charged oligosaccharide headgroups. To a certain fraction, LPSs additionally display linear polysac...

journal_title：Biophysical journal

authors： Micciulla S,Gerelli Y,Schneck E

更新日期：2019-04-02 00:00:00

abstract：:We have characterized the fluorescence properties of 6-dodecanoyl-2-dimethylamine-naphthalene (LAURDAN) in pure interfaces formed by sphingomyelin and 10 chemically related glycosphingolipids (GSLs).1 The GSLs contain neutral and anionic carbohydrate residues in their oligosaccharide chain. These systems were studied ...

journal_title：Biophysical journal

authors： Bagatolli LA,Gratton E,Fidelio GD

更新日期：1998-07-01 00:00:00

abstract：:The effects of aminopyridines on ionic conductances of the squid giant axon membrane were examined using voltage clamp and internal perfusion techniques. 4-Aminopyridine (4-AP) reduced potassium currents, but had no effect upon transient sodium currents. The block of potassium channels by 4-AP was substantially less w...

journal_title：Biophysical journal

authors： Yeh JZ,Oxford GS,Wu CH,Narahashi T

更新日期：1976-01-01 00:00:00

abstract：:The incompressibility of the lipid bilayer keeps the total surface area of the red cell membrane constant. Local conservation of membrane surface area requires that each surface element of the membrane skeleton keeps its area when its aspect ratio is changed. A change in area would require a flow of lipids past the in...

journal_title：Biophysical journal

authors： Fischer TM

更新日期：1992-02-01 00:00:00

abstract：:Benjamin Franklin, mostly known for his participation in writing The Declaration of Independence and work on electricity, was also one of the first scientists to seek to understand the properties of oil monolayers on water surfaces. During one of his many voyages across the Atlantic Ocean, Franklin observed that oil h...

journal_title：Biophysical journal

authors： Wang DN,Stieglitz H,Marden J,Tamm LK

更新日期：2013-01-22 00:00:00

abstract：:The interaction of Phormidium laminosum plastocyanin (PC) with P. laminosum cytochrome f (cyt f) was studied using Brownian dynamics (BD) simulations. Few complexes and a low rate of electron transfer were observed for wild-type PC. Increasing the positive electrostatic field on PC by the addition of a Zn(2+) ion in t...

journal_title：Biophysical journal

authors： Gross EL

更新日期：2004-09-01 00:00:00

abstract：:We investigated whether the cysteine residues in Shaker potassium (K+) channels are essential for activation and inactivation gating or for modulation of activation gating by external zinc (Zn2+). Mutants of the Shaker K+ channel were prepared in which all seven cysteine residues were replaced (C-less). These changes ...

journal_title：Biophysical journal

authors： Boland LM,Jurman ME,Yellen G

更新日期：1994-03-01 00:00:00

abstract：:The optical scattering coefficient of a dilute, well-solubilized eumelanin solution has been accurately measured as a function of incident wavelength, and found to contribute <6% of the total optical attenuation between 210 and 325 nm. At longer wavelengths (325-800 nm), the scattering was less than the minimum sensit...

journal_title：Biophysical journal

authors： Riesz J,Gilmore J,Meredith P

更新日期：2006-06-01 00:00:00

abstract：:Atomically detailed simulations are used to compute the kinetics of the R-to-T transition in deoxy Scapharca hemoglobin. A computational approach called milestoning is utilized that combines 1), an efficient reaction path algorithm; and 2), a "fragment and glue" approach for classical trajectories. Milestoning compute...

journal_title：Biophysical journal

authors： Elber R

更新日期：2007-05-01 00:00:00

abstract：:How do Ca channels conduct Ca ions during the cardiac action potential? We attempt to answer this question by applying a two-microelectrode technique, previously used for Na and K currents, in which we record the patch current and the action potential at the same time (Mazzanti, M., and L. J. DeFelice. 1987. Biophys. ...

journal_title：Biophysical journal

authors： Mazzanti M,DeFelice LJ

更新日期：1990-10-01 00:00:00

abstract：:The effects of ultraviolet light (UV) irradiation on the rate of DNA replication in synchronized Chinese hamster ovary (CHO) cells were investigated. A technique for measuring semiconservative DNA replication was employed that involved growing the cells in medium containing 5-bromodeoxyuridine and subsequently determi...

journal_title：Biophysical journal

authors： Meyn RE,Hewitt RR,Thomas LF,Humphrey RM

更新日期：1976-05-01 00:00:00

abstract：:Emission spectra of the photolabile Ca2+ chelators DM-nitrophen, nitr-5, and diazo-2 were studied alone, and in the presence of indo-1, to investigate potential interactions that would make the simultaneous manipulation and ratiometric measurement of the intracellular Ca2+ concentration difficult. Neither diazo-2 nor ...

journal_title：Biophysical journal

authors： Hadley RW,Kirby MS,Lederer WJ,Kao JP

更新日期：1993-12-01 00:00:00

abstract：:Nipah is an emerging paramyxovirus that is of serious concern to human health. It invades host cells using two of its membrane proteins-G and F. G binds to host ephrins and this stimulates G to activate F. Upon activation, F mediates virus-host membrane fusion. Here we focus on mechanisms that underlie the stimulation...

journal_title：Biophysical journal

authors： Dutta P,Siddiqui A,Botlani M,Varma S

更新日期：2016-10-18 00:00:00

abstract：:We have studied the photoinduced volume changes, energetics, and kinetics in the early steps of the bacteriorhodopsin (BR) photocycle with pulsed, time-resolved photoacoustics. Our data show that there are two volume changes. The fast volume change ( < or = 200 ns) is an expansion (2.5 +/- 0.3 A3/molecule) and is obse...

journal_title：Biophysical journal

authors： Zhang D,Mauzerall D

更新日期：1996-07-01 00:00:00

abstract：:Diffraction rings corresponding to the first, second, and third order were obtained by laser light illumination from a suspension of rabbit glycerinated psoas myofibrils (diameter, 1-2 microns; average length of the straight region, 44 microns; average sarcomere length, 2.2-2.6 microns) of which the optical thickness ...

journal_title：Biophysical journal

authors： Ishiwata S,Okamura N

更新日期：1989-12-01 00:00:00

abstract：:To determine the effect of hydration on the dynamics of a protein complex, we used deuterium nuclear magnetic resonance (NMR) techniques to examine a trimethoprim (TMP)/E. coli dihydrofolate reductase (DHFR) complex in its lyophilized, partially hydrated, polycrystalline, and ammonium sulfate-precipitated states. The ...

journal_title：Biophysical journal

authors： Yang QX,Huang FY,Huang TH,Gelbaum L

更新日期：1993-04-01 00:00:00

abstract：:Tissues and cells sustain recurring mechanical loads that span a wide range of loading amplitudes and timescales as a consequence of exposure to blood flow, muscle activity, and external impact. Both tissues and cells derive their mechanical strength from fibrous protein scaffolds, which typically have a complex hiera...

journal_title：Biophysical journal

authors： Kurniawan NA,Vos BE,Biebricher A,Wuite GJ,Peterman EJ,Koenderink GH

更新日期：2016-09-06 00:00:00

abstract：:Axonal beading, or the formation of a series of swellings along the axon, and retraction are commonly observed shape transformations that precede axonal atrophy in Alzheimer's disease, Parkinson's disease, and other neurodegenerative conditions. The mechanisms driving these morphological transformations are poorly und...

journal_title：Biophysical journal

authors： Datar A,Ameeramja J,Bhat A,Srivastava R,Mishra A,Bernal R,Prost J,Callan-Jones A,Pullarkat PA

更新日期：2019-09-03 00:00:00

abstract：:The structural basis of the wide variability of the physical properties of fibrin clots and the process of assembly of the clot were investigated by electron microscopy of fibers formed under various ionic conditions. In addition, highly specific proteolytic enzymes from different snake venoms were used to remove sele...

journal_title：Biophysical journal

authors： Weisel JW

更新日期：1986-12-01 00:00:00

abstract：:We introduce dual-color time-integrated fluorescence cumulant analysis (TIFCA) to analyze fluorescence fluctuation spectroscopy data. Dual-color TIFCA utilizes the bivariate cumulants of the integrated fluorescent intensity from two detection channels to extract the brightness in each channel, the occupation number, a...

journal_title：Biophysical journal

authors： Wu B,Chen Y,Müller JD

更新日期：2006-10-01 00:00:00