41,843 research outputs found
A Branching Time Model of CSP
I present a branching time model of CSP that is finer than all other models
of CSP proposed thus far. It is obtained by taking a semantic equivalence from
the linear time - branching time spectrum, namely divergence-preserving coupled
similarity, and showing that it is a congruence for the operators of CSP. This
equivalence belongs to the bisimulation family of semantic equivalences, in the
sense that on transition systems without internal actions it coincides with
strong bisimilarity. Nevertheless, enough of the equational laws of CSP remain
to obtain a complete axiomatisation for closed, recursion-free terms.Comment: Dedicated to Bill Roscoe, on the occasion of his 60th birthda
Microwave Radar-Based Breast Cancer Detection:Imaging in Inhomogeneous Breast Phantoms
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On pairwise distances and median score of three genomes under DCJ
In comparative genomics, the rearrangement distance between two genomes
(equal the minimal number of genome rearrangements required to transform them
into a single genome) is often used for measuring their evolutionary
remoteness. Generalization of this measure to three genomes is known as the
median score (while a resulting genome is called median genome). In contrast to
the rearrangement distance between two genomes which can be computed in linear
time, computing the median score for three genomes is NP-hard. This inspires a
quest for simpler and faster approximations for the median score, the most
natural of which appears to be the halved sum of pairwise distances which in
fact represents a lower bound for the median score.
In this work, we study relationship and interplay of pairwise distances
between three genomes and their median score under the model of
Double-Cut-and-Join (DCJ) rearrangements. Most remarkably we show that while a
rearrangement may change the sum of pairwise distances by at most 2 (and thus
change the lower bound by at most 1), even the most "powerful" rearrangements
in this respect that increase the lower bound by 1 (by moving one genome
farther away from each of the other two genomes), which we call strong, do not
necessarily affect the median score. This observation implies that the two
measures are not as well-correlated as one's intuition may suggest.
We further prove that the median score attains the lower bound exactly on the
triples of genomes that can be obtained from a single genome with strong
rearrangements. While the sum of pairwise distances with the factor 2/3
represents an upper bound for the median score, its tightness remains unclear.
Nonetheless, we show that the difference of the median score and its lower
bound is not bounded by a constant.Comment: Proceedings of the 10-th Annual RECOMB Satellite Workshop on
Comparative Genomics (RECOMB-CG), 2012. (to appear
Stress dependent thermal pressurization of a fluid-saturated rock
Temperature increase in saturated porous materials under undrained conditions
leads to thermal pressurization of the pore fluid due to the discrepancy
between the thermal expansion coefficients of the pore fluid and of the solid
matrix. This increase in the pore fluid pressure induces a reduction of the
effective mean stress and can lead to shear failure or hydraulic fracturing.
The equations governing the phenomenon of thermal pressurization are presented
and this phenomenon is studied experimentally for a saturated granular rock in
an undrained heating test under constant isotropic stress. Careful analysis of
the effect of mechanical and thermal deformation of the drainage and pressure
measurement system is performed and a correction of the measured pore pressure
is introduced. The test results are modelled using a non-linear
thermo-poro-elastic constitutive model of the granular rock with emphasis on
the stress-dependent character of the rock compressibility. The effects of
stress and temperature on thermal pressurization observed in the tests are
correctly reproduced by the model
Liquid PTVA: A faster and cheaper alternative for generating multi-copy clones in Pichia pastoris
Additional file 1: Figure S1. Schematic representation of the expression vectors pZGFP, pZÎąGFP, pKGFP and pKÎąGFP
HIV infection and domestic smoke exposure, but not human papillomavirus, are risk factors for esophageal squamous cell carcinoma in Zambia: a case-control study
(c) 2015 The Authors. Cancer Medicine published by John Wiley & Sons Ltd. This is an open access article under the terms of the Creative Commons Attribution License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited
An implementation of Deflate in Coq
The widely-used compression format "Deflate" is defined in RFC 1951 and is
based on prefix-free codings and backreferences. There are unclear points about
the way these codings are specified, and several sources for confusion in the
standard. We tried to fix this problem by giving a rigorous mathematical
specification, which we formalized in Coq. We produced a verified
implementation in Coq which achieves competitive performance on inputs of
several megabytes. In this paper we present the several parts of our
implementation: a fully verified implementation of canonical prefix-free
codings, which can be used in other compression formats as well, and an elegant
formalism for specifying sophisticated formats, which we used to implement both
a compression and decompression algorithm in Coq which we formally prove
inverse to each other -- the first time this has been achieved to our
knowledge. The compatibility to other Deflate implementations can be shown
empirically. We furthermore discuss some of the difficulties, specifically
regarding memory and runtime requirements, and our approaches to overcome them
Beyond Node Degree: Evaluating AS Topology Models
This is the accepted version of 'Beyond Node Degree: Evaluating AS Topology Models', archived originally at arXiv:0807.2023v1 [cs.NI] 13 July 2008.Many models have been proposed to generate Internet Autonomous System (AS) topologies, most of which make structural assumptions about the AS graph. In this paper we compare AS topology generation models with several observed AS topologies. In contrast to most previous works, we avoid making assumptions about which topological properties are important to characterize the AS topology. Our analysis shows that, although matching degree-based properties, the existing AS topology generation models fail to capture the complexity of the local interconnection structure between ASs. Furthermore, we use BGP data from multiple vantage points to show that additional measurement locations significantly affect local structure properties, such as clustering and node centrality. Degree-based properties, however, are not notably affected by additional measurements locations. These observations are particularly valid in the core. The shortcomings of AS topology generation models stems from an underestimation of the complexity of the connectivity in the core caused by inappropriate use of BGP data
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