29 research outputs found
Kinetics and Jamming Coverage in a Random Sequential Adsorption of Polymer Chains
Using a highly efficient Monte Carlo algorithm, we are able to study the
growth of coverage in a random sequential adsorption (RSA) of self-avoiding
walk (SAW) chains for up to 10^{12} time steps on a square lattice. For the
first time, the true jamming coverage (theta_J) is found to decay with the
chain length (N) with a power-law theta_J propto N^{-0.1}. The growth of the
coverage to its jamming limit can be described by a power-law, theta(t) approx
theta_J -c/t^y with an effective exponent y which depends on the chain length,
i.e., y = 0.50 for N=4 to y = 0.07 for N=30 with y -> 0 in the asymptotic limit
N -> infinity.Comment: RevTeX, 5 pages inclduing figure
Jamming coverage in competitive random sequential adsorption of binary mixture
We propose a generalized car parking problem where cars of two different
sizes are sequentially parked on a line with a given probability . The free
parameter interpolates between the classical car parking problem of only
one car size and the competitive random sequential adsorption (CRSA) of a
binary mixture. We give an exact solution to the CRSA rate equations and find
that the final coverage, the jamming limit, of the line is always larger for a
binary mixture than for the uni-sized case. The analytical results are in good
agreement with our direct numerical simulations of the problem.Comment: 4 pages 2-column RevTeX, Four figures, (there was an error in the
previous version. We replaced it (including figures) with corrected and
improved version that lead to new results and conclusions
Fluctuation properties of the TASEP with periodic initial configuration
We consider the joint distributions of particle positions for the continuous
time totally asymmetric simple exclusion process (TASEP). They are expressed as
Fredholm determinants with a kernel defining a signed determinantal point
process. We then consider certain periodic initial conditions and determine the
kernel in the scaling limit. This result has been announced first in a letter
by one of us and here we provide a self-contained derivation. Connections to
last passage directed percolation and random matrices are also briefly
discussed.Comment: 33 pages, 4 figure, LaTeX; We added several references to the general
framework and techniques use
Characterization of optical properties and surface roughness profiles: The Casimir force between real materials
The Lifshitz theory provides a method to calculate the Casimir force between
two flat plates if the frequency dependent dielectric function of the plates is
known. In reality any plate is rough and its optical properties are known only
to some degree. For high precision experiments the plates must be carefully
characterized otherwise the experimental result cannot be compared with the
theory or with other experiments. In this chapter we explain why optical
properties of interacting materials are important for the Casimir force, how
they can be measured, and how one can calculate the force using these
properties. The surface roughness can be characterized, for example, with the
atomic force microscope images. We introduce the main characteristics of a
rough surface that can be extracted from these images, and explain how one can
use them to calculate the roughness correction to the force. At small
separations this correction becomes large as our experiments show. Finally we
discuss the distance upon contact separating two rough surfaces, and explain
the importance of this parameter for determination of the absolute separation
between bodies.}Comment: 33 pages, 14 figures, to appear in Springer Lecture Notes in Physics,
Volume on Casimir Physics, edited by Diego Dalvit, Peter Milonni, David
Roberts, and Felipe da Ros
Evidence for geometry-dependent universal fluctuations of the Kardar-Parisi-Zhang interfaces in liquid-crystal turbulence
We provide a comprehensive report on scale-invariant fluctuations of growing
interfaces in liquid-crystal turbulence, for which we recently found evidence
that they belong to the Kardar-Parisi-Zhang (KPZ) universality class for 1+1
dimensions [Phys. Rev. Lett. 104, 230601 (2010); Sci. Rep. 1, 34 (2011)]. Here
we investigate both circular and flat interfaces and report their statistics in
detail. First we demonstrate that their fluctuations show not only the KPZ
scaling exponents but beyond: they asymptotically share even the precise forms
of the distribution function and the spatial correlation function in common
with solvable models of the KPZ class, demonstrating also an intimate relation
to random matrix theory. We then determine other statistical properties for
which no exact theoretical predictions were made, in particular the temporal
correlation function and the persistence probabilities. Experimental results on
finite-time effects and extreme-value statistics are also presented. Throughout
the paper, emphasis is put on how the universal statistical properties depend
on the global geometry of the interfaces, i.e., whether the interfaces are
circular or flat. We thereby corroborate the powerful yet geometry-dependent
universality of the KPZ class, which governs growing interfaces driven out of
equilibrium.Comment: 31 pages, 21 figures, 1 table; references updated (v2,v3); Fig.19
updated & minor changes in text (v3); final version (v4); J. Stat. Phys.
Online First (2012
DAXX promotes centromeric stability independently of ATRX by preventing the accumulation of R-loop-induced DNA double-stranded breaks
Maintaining chromatin integrity at the repetitive non-coding DNA sequences underlying centromeres is crucial to prevent replicative stress, DNA breaks and genomic instability. The concerted action of transcriptional repressors, chromatin remodelling complexes and epigenetic factors controls transcription and chromatin structure in these regions. The histone chaperone complex ATRX/DAXX is involved in the establishment and maintenance of centromeric chromatin through the deposition of the histone variant H3.3. ATRX and DAXX have also evolved mutually-independent functions in transcription and chromatin dynamics. Here, using paediatric glioma and pancreatic neuroendocrine tumor cell lines, we identify a novel ATRX-independent function for DAXX in promoting genome stability by preventing transcription-associated R-loop accumulation and DNA double-strand break formation at centromeres. This function of DAXX required its interaction with histone H3.3 but was independent of H3.3 deposition and did not reflect a role in the repression of centromeric transcription. DAXX depletion mobilized BRCA1 at centromeres, in line with BRCA1 role in counteracting centromeric R-loop accumulation. Our results provide novel insights into the mechanisms protecting the human genome from chromosomal instability, as well as potential perspectives in the treatment of cancers with DAXX alterations
Purification of β-1, 4-glucanase from ethylene-treated abscission zones of Sambucus nigra
Leaflet abscission in Sambucus nigra is the result of cell wall breakdown at the site of separation. Associated with wall degradation is an increase in the activity of the enzyme β1,4 glucanase (E.C.3.1.2.4) in the cells that comprise the abscission zone. The enzyme has been extracted from abscission zone tissue and purified using a substrate affinity column. A qualitative enzyme assay procedure has been developed and this has facilitated the purification process. The β1,4 glucanase enzyme has a pH optimum of 7 and a molecular mass of 54kDa. Antibodies have been raised to the purified protein. The role of the enzyme in the abscission process is discussed
Supplementary Material for: Anorexigenic and Orexigenic Hormone Modulation of Mammalian Target of Rapamycin Complex 1 Activity and the Regulation of Hypothalamic Agouti-Related Protein mRNA Expression
Activation of mammalian target of rapamycin 1 (mTORC1) by nutrients, insulin and leptin leads to appetite suppression (anorexia). Contrastingly, increased AMP-activated protein kinase (AMPK) activity by ghrelin promotes appetite (orexia). However, the interplay between these mechanisms remains poorly defined. The relationship between the anorexigenic hormones, insulin and leptin, and the orexigenic hormone, ghrelin, on mTORC1 signalling was examined using S6 kinase phosphorylation as a marker for changes in mTORC1 activity in mouse hypothalamic GT1-7 cells. Additionally, the contribution of AMPK and mTORC1 signalling in relation to insulin-, leptin- and ghrelin-driven alterations to mouse hypothalamic agouti-related protein (AgRP) mRNA levels was examined. Insulin and leptin increase mTORC1 activity in a phosphoinositide-3-kinase (PI3K)- and protein kinase B (PKB)-dependent manner, compared to vehicle controls, whereas increasing AMPK activity inhibits mTORC1 activity and blocks the actions of the anorexigenic hormones. Ghrelin mediates an AMPK-dependent decrease in mTORC1 activity and increases hypothalamic AgRP mRNA levels, the latter effect being prevented by insulin in an mTORC1-dependent manner. In conclusion, mTORC1 acts as an integration node in hypothalamic neurons for hormone-derived PI3K and AMPK signalling and mediates at least part of the assimilated output of anorexigenic and orexigenic hormone actions in the hypothalamus