Stretching of proteins in a uniform flow

Stretching of a protein by a fluid flow is compared to that in a force-clamp apparatus. The comparison is made within a simple topology-based dynamical model of a protein in which the effects of the flow are implemented using Langevin dynamics. We demonstrate that unfolding induced by a uniform flow shows a richer behavior than that in the force clamp. The dynamics of unfolding is found to depend strongly on the selection of the amino acid, usually one of the termini, which is anchored. These features offer potentially wider diagnostic tools to investigate structure of proteins compared to experiments based on the atomic force microscopy.Comment: J. Chem. Phys. (in press

Can the nuclear symmetry potential at supra-saturation densities be negative?

In the framework of an Isospin-dependent Boltzmann-Uehling-Uhlenbeck (IBUU) transport model, for the central $^{197}$Au+$^{197}$Au reaction at an incident beam energy of 400 MeV/nucleon, effect of nuclear symmetry potential at supra-saturation densities on the pre-equilibrium clusters emission is studied. It is found that for the positive symmetry potential at supra-saturation densities the neutron to proton ratio of lighter clusters with mass number $A\leq3$ ($(n/p)_{A\leq3}$) is larger than that of the weighter clusters with mass number $A>3$ ($(n/p)_{A>3}$), whereas for the negative symmetry potential at supra-saturation densities the $(n/p)_{A\leq3}$ is \emph{smaller} than that of the $(n/p)_{A>3}$. This may be considered as a probe of the negative symmetry potential at supra-saturation densities.Comment: 5 pages, 3 figures, 1 table, to be publishe

Archetypal analysis of galaxy spectra

Archetypal analysis represents each individual member of a set of data vectors as a mixture (a constrained linear combination) of the pure types or archetypes of the data set. The archetypes are themselves required to be mixtures of the data vectors. Archetypal analysis may be particularly useful in analysing data sets comprising galaxy spectra, since each spectrum is, presumably, a superposition of the emission from the various stellar populations, nebular emissions and nuclear activity making up that galaxy, and each of these emission sources corresponds to a potential archetype of the entire data set. We demonstrate archetypal analysis using sets of composite synthetic galaxy spectra, showing that the method promises to be an effective and efficient way to classify spectra. We show that archetypal analysis is robust in the presence of various types of noise.Comment: 6 pages, 5 figures, 1 style-file. Accepted for publication by MNRA

Comparison of Short-Term Clinical and Neurocognitive Outcome Between Atypical and Typical Antipsychotics in First Episode Schizophrenia

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Comment on ``Solution of Classical Stochastic One-Dimensional Many-Body Systems''

In a recent Letter, Bares and Mobilia proposed the method to find solutions of the stochastic evolution operator $H=H_0 + {\gamma\over L} H_1$ with a non-trivial quartic term $H_1$. They claim, ``Because of the conservation of probability, an analog of the Wick theorem applies and all multipoint correlation functions can be computed.'' Using the Wick theorem, they expressed the density correlation functions as solutions of a closed set of integro-differential equations. In this Comment, however, we show that applicability of Wick theorem is restricted to the case $\gamma = 0$ only.Comment: 1 page, revtex style, comment on paper Phys. Rev. Lett. {\bf 83}, 5214 (1999

Driven Pair Contact Process with Diffusion

The pair contact process with diffusion (PCPD) has been recently investigated extensively, but its critical behavior is not yet clearly established. By introducing biased diffusion, we show that the external driving is relevant and the driven PCPD exhibits a mean-field-type critical behavior even in one dimension. In systems which can be described by a single-species bosonic field theory, the Galilean invariance guarantees that the driving is irrelevant. The well-established directed percolation (DP) and parity conserving (PC) classes are such examples. This leads us to conclude that the PCPD universality class should be distinct from the DP or PC class. Moreover, it implies that the PCPD is generically a multi-species model and a field theory of two species is suitable for proper description

Chemical Composition of Gas- and Aerosol-Phase Products from the Photooxidation of Naphthalene

The current work focuses on the detailed evolution of the chemical composition of both the gas- and aerosol-phase constituents produced from the OH-initiated photooxidation of naphthalene under low- and high-NO_x conditions. Under high-NO_x conditions ring-opening products are the primary gas-phase products, suggesting that the mechanism involves dissociation of alkoxy radicals (RO) formed through an RO_2 + NO pathway, or a bicyclic peroxy mechanism. In contrast to the high-NO_x chemistry, ring-retaining compounds appear to dominate the low-NO_x gas-phase products owing to the RO_2 + HO_2 pathway. We are able to chemically characterize 53−68% of the secondary organic aerosol (SOA) mass. Atomic oxygen-to-carbon (O/C), hydrogen-to-carbon (H/C), and nitrogen-to-carbon (N/C) ratios measured in bulk samples by high-resolution electrospray ionization time-of-flight mass spectrometry (HR-ESI-TOFMS) are the same as the ratios observed with online high-resolution time-of-flight aerosol mass spectrometry (HR-ToF-AMS), suggesting that the chemical compositions and oxidation levels found in the chemically-characterized fraction of the particle phase are representative of the bulk aerosol. Oligomers, organosulfates (R-OSO_3), and other high-molecular-weight (MW) products are not observed in either the low- or high-NO_x SOA; however, in the presence of neutral ammonium sulfate seed aerosol, an organic sulfonic acid (R-SO_3), characterized as hydroxybenzene sulfonic acid, is observed in naphthalene SOA produced under both high- and low-NO_x conditions. Acidic compounds and organic peroxides are found to account for a large fraction of the chemically characterized high- and low-NO_x SOA. We propose that the major gas- and aerosol-phase products observed are generated through the formation and further reaction of 2-formylcinnamaldehyde or a bicyclic peroxy intermediate. The chemical similarity between the laboratory SOA and ambient aerosol collected from Birmingham, Alabama (AL) and Pasadena, California (CA) confirm the importance of PAH oxidation in the formation of aerosol within the urban atmosphere