1,090 research outputs found
Variational bound on energy dissipation in turbulent shear flow
We present numerical solutions to the extended Doering-Constantin variational
principle for upper bounds on the energy dissipation rate in plane Couette
flow, bridging the entire range from low to asymptotically high Reynolds
numbers. Our variational bound exhibits structure, namely a pronounced minimum
at intermediate Reynolds numbers, and recovers the Busse bound in the
asymptotic regime. The most notable feature is a bifurcation of the minimizing
wavenumbers, giving rise to simple scaling of the optimized variational
parameters, and of the upper bound, with the Reynolds number.Comment: 4 pages, RevTeX, 5 postscript figures are available as one .tar.gz
file from [email protected]
Variational bound on energy dissipation in plane Couette flow
We present numerical solutions to the extended Doering-Constantin variational
principle for upper bounds on the energy dissipation rate in turbulent plane
Couette flow. Using the compound matrix technique in order to reformulate this
principle's spectral constraint, we derive a system of equations that is
amenable to numerical treatment in the entire range from low to asymptotically
high Reynolds numbers. Our variational bound exhibits a minimum at intermediate
Reynolds numbers, and reproduces the Busse bound in the asymptotic regime. As a
consequence of a bifurcation of the minimizing wavenumbers, there exist two
length scales that determine the optimal upper bound: the effective width of
the variational profile's boundary segments, and the extension of their flat
interior part.Comment: 22 pages, RevTeX, 11 postscript figures are available as one
uuencoded .tar.gz file from [email protected]
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Application of internal state variable plasticity and damage models to welding
An internal state variable constitutive model coupled with a ductile void growth model is applied in two finite element simulations of welding. Shrinkage of a 304 L stainless steel pipe due to multipass gas tungsten arc welds is presented as an example of tracking distortion far from the weld. Weld solidification cracking in Al-6061 disks is presented as an application of the plasticity model coupled with the damage model
On parameters of the Levi-Civita solution
The Levi-Civita (LC) solution is matched to a cylindrical shell of an
anisotropic fluid. The fluid satisfies the energy conditions when the mass
parameter is in the range . The mass per unit
length of the shell is given explicitly in terms of , which has a
finite maximum. The relevance of the results to the non-existence of horizons
in the LC solution and to gauge cosmic strings is pointed out.Comment: Latex, no figure
A hyaluronidase activity of the sperm plasma membrane protein PH-20 enables sperm to penetrate the cumulus cell layer surrounding the egg.
Parameter Estimation and Quantitative Parametric Linkage Analysis with GENEHUNTER-QMOD
Objective: We present a parametric method for linkage analysis of quantitative phenotypes. The method provides a test for linkage as well as an estimate of different phenotype parameters. We have implemented our new method in the program GENEHUNTER-QMOD and evaluated its properties by performing simulations. Methods: The phenotype is modeled as a normally distributed variable, with a separate distribution for each genotype. Parameter estimates are obtained by maximizing the LOD score over the normal distribution parameters with a gradient-based optimization called PGRAD method. Results: The PGRAD method has lower power to detect linkage than the variance components analysis (VCA) in case of a normal distribution and small pedigrees. However, it outperforms the VCA and Haseman-Elston regression for extended pedigrees, nonrandomly ascertained data and non-normally distributed phenotypes. Here, the higher power even goes along with conservativeness, while the VCA has an inflated type I error. Parameter estimation tends to underestimate residual variances but performs better for expectation values of the phenotype distributions. Conclusion: With GENEHUNTER-QMOD, a powerful new tool is provided to explicitly model quantitative phenotypes in the context of linkage analysis. It is freely available at http://www.helmholtz-muenchen.de/genepi/downloads. Copyright (C) 2012 S. Karger AG, Base
Universality in fully developed turbulence
We extend the numerical simulations of She et al. [Phys.\ Rev.\ Lett.\ 70,
3251 (1993)] of highly turbulent flow with Taylor-Reynolds number
up to , employing a reduced wave
vector set method (introduced earlier) to approximately solve the Navier-Stokes
equation. First, also for these extremely high Reynolds numbers ,
the energy spectra as well as the higher moments -- when scaled by the spectral
intensity at the wave number of peak dissipation -- can be described by
{\it one universal} function of for all . Second, the ISR
scaling exponents of this universal function are in agreement with
the 1941 Kolmogorov theory (the better, the large is), as is the
dependence of . Only around viscous damping leads to
slight energy pileup in the spectra, as in the experimental data (bottleneck
phenomenon).Comment: 14 pages, Latex, 5 figures (on request), 3 tables, submitted to Phys.
Rev.
Statistics of extremal intensities for Gaussian interfaces
The extremal Fourier intensities are studied for stationary
Edwards-Wilkinson-type, Gaussian, interfaces with power-law dispersion. We
calculate the probability distribution of the maximal intensity and find that,
generically, it does not coincide with the distribution of the integrated power
spectrum (i.e. roughness of the surface), nor does it obey any of the known
extreme statistics limit distributions. The Fisher-Tippett-Gumbel limit
distribution is, however, recovered in three cases: (i) in the non-dispersive
(white noise) limit, (ii) for high dimensions, and (iii) when only
short-wavelength modes are kept. In the last two cases the limit distribution
emerges in novel scenarios.Comment: 15 pages, including 7 ps figure
Automatic Planning and Control of Robot Natural Motion Via Feedback
A feedback control strategy for the command of robot motion includes some limited automatic planning capabilities. These may be seen as sequential solution algorithms implemented by the robot arm interpreted as a mechanical analog computer. This perspective lends additional insight into the manner in which such control techniques may fail, and motivates a fresh look at requisite sensory capabilities.
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Fr-TM-align: a new protein structural alignment method based on fragment alignments and the TM-score
©2008 Pandit and Skolnick; licensee BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0),
which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. This article is available from: http://www.biomedcentral.com/1471-2105/9/531doi:10.1186/1471-2105-9-531Background: Protein tertiary structure comparisons are employed in various fields of
contemporary structural biology. Most structure comparison methods involve generation of an
initial seed alignment, which is extended and/or refined to provide the best structural superposition
between a pair of protein structures as assessed by a structure comparison metric. One such
metric, the TM-score, was recently introduced to provide a combined structure quality measure
of the coordinate root mean square deviation between a pair of structures and coverage. Using the
TM-score, the TM-align structure alignment algorithm was developed that was often found to have
better accuracy and coverage than the most commonly used structural alignment programs;
however, there were a number of situations when this was not true.
Results: To further improve structure alignment quality, the Fr-TM-align algorithm has been
developed where aligned fragment pairs are used to generate the initial seed alignments that are
then refined using dynamic programming to maximize the TM-score. For the assessment of the
structural alignment quality from Fr-TM-align in comparison to other programs such as CE and TMalign,
we examined various alignment quality assessment scores such as PSI and TM-score. The
assessment showed that the structural alignment quality from Fr-TM-align is better in comparison
to both CE and TM-align. On average, the structural alignments generated using Fr-TM-align have
a higher TM-score (~9%) and coverage (~7%) in comparison to those generated by TM-align. Fr-
TM-align uses an exhaustive procedure to generate initial seed alignments. Hence, the algorithm is
computationally more expensive than TM-align.
Conclusion: Fr-TM-align, a new algorithm that employs fragment alignment and assembly provides
better structural alignments in comparison to TM-align. The source code and executables of Fr-
TM-align are freely downloadable at: http://cssb.biology.gatech.edu/skolnick/files/FrTMalign/
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