2,867 research outputs found
Optimized absorbing boundary conditions for the analysis of planar circuits using the finite difference time domain method
On the cohomological spectrum and support varieties for infinitesimal unipotent supergroup schemes
We show that if is an infinitesimal elementary supergroup scheme of
height , then the cohomological spectrum of is naturally
homeomorphic to the variety of supergroup homomorphisms
from a certain (non-algebraic) affine
supergroup scheme into . In the case , we further
identify the cohomological support variety of a finite-dimensional
-supermodule as a subset of . We then discuss how our
methods, when combined with recently-announced results by Benson, Iyengar,
Krause, and Pevtsova, can be applied to extend the homeomorphism
to arbitrary infinitesimal unipotent supergroup
schemes.Comment: Fixed some algebra misidentifications, primarily in Sections 1.3 and
3.3. Simplified the proof of Proposition 3.3.
Enabling High-Dimensional Hierarchical Uncertainty Quantification by ANOVA and Tensor-Train Decomposition
Hierarchical uncertainty quantification can reduce the computational cost of
stochastic circuit simulation by employing spectral methods at different
levels. This paper presents an efficient framework to simulate hierarchically
some challenging stochastic circuits/systems that include high-dimensional
subsystems. Due to the high parameter dimensionality, it is challenging to both
extract surrogate models at the low level of the design hierarchy and to handle
them in the high-level simulation. In this paper, we develop an efficient
ANOVA-based stochastic circuit/MEMS simulator to extract efficiently the
surrogate models at the low level. In order to avoid the curse of
dimensionality, we employ tensor-train decomposition at the high level to
construct the basis functions and Gauss quadrature points. As a demonstration,
we verify our algorithm on a stochastic oscillator with four MEMS capacitors
and 184 random parameters. This challenging example is simulated efficiently by
our simulator at the cost of only 10 minutes in MATLAB on a regular personal
computer.Comment: 14 pages (IEEE double column), 11 figure, accepted by IEEE Trans CAD
of Integrated Circuits and System
Stochastic Testing Simulator for Integrated Circuits and MEMS: Hierarchical and Sparse Techniques
Process variations are a major concern in today's chip design since they can
significantly degrade chip performance. To predict such degradation, existing
circuit and MEMS simulators rely on Monte Carlo algorithms, which are typically
too slow. Therefore, novel fast stochastic simulators are highly desired. This
paper first reviews our recently developed stochastic testing simulator that
can achieve speedup factors of hundreds to thousands over Monte Carlo. Then, we
develop a fast hierarchical stochastic spectral simulator to simulate a complex
circuit or system consisting of several blocks. We further present a fast
simulation approach based on anchored ANOVA (analysis of variance) for some
design problems with many process variations. This approach can reduce the
simulation cost and can identify which variation sources have strong impacts on
the circuit's performance. The simulation results of some circuit and MEMS
examples are reported to show the effectiveness of our simulatorComment: Accepted to IEEE Custom Integrated Circuits Conference in June 2014.
arXiv admin note: text overlap with arXiv:1407.302
Cohomology for infinitesimal unipotent algebraic and quantum groups
In this paper we study the structure of cohomology spaces for the Frobenius
kernels of unipotent and parabolic algebraic group schemes and of their quantum
analogs. Given a simple algebraic group , a parabolic subgroup , and
its unipotent radical , we determine the ring structure of the cohomology
ring . We also obtain new results on computing
as an -module where is a
simple -module with high weight in the closure of the bottom
-alcove. Finally, we provide generalizations of all our results to the
quantum situation.Comment: 18 pages. Some proofs streamlined over previous version. Additional
details added to some proofs in Section
RepSeq-A database of amino acid repeats present in lower eukaryotic pathogens
BACKGROUND Amino acid repeat-containing proteins have a broad range of functions and their identification is of relevance to many experimental biologists. In human-infective protozoan parasites (such as the Kinetoplastid and Plasmodium species), they are implicated in immune evasion and have been shown to influence virulence and pathogenicity. RepSeq http://repseq.gugbe.com is a new database of amino acid repeat-containing proteins found in lower eukaryotic pathogens. The RepSeq database is accessed via a web-based application which also provides links to related online tools and databases for further analyses. RESULTS The RepSeq algorithm typically identifies more than 98% of repeat-containing proteins and is capable of identifying both perfect and mismatch repeats. The proportion of proteins that contain repeat elements varies greatly between different families and even species (3 - 35% of the total protein content). The most common motif type is the Sequence Repeat Region (SRR) - a repeated motif containing multiple different amino acid types. Proteins containing Single Amino Acid Repeats (SAARs) and Di-Peptide Repeats (DPRs) typically account for 0.5 - 1.0% of the total protein number. Notable exceptions are P. falciparum and D. discoideum, in which 33.67% and 34.28% respectively of the predicted proteomes consist of repeat-containing proteins. These numbers are due to large insertions of low complexity single and multi-codon repeat regions. CONCLUSION The RepSeq database provides a repository for repeat-containing proteins found in parasitic protozoa. The database allows for both individual and cross-species proteome analyses and also allows users to upload sequences of interest for analysis by the RepSeq algorithm. Identification of repeat-containing proteins provides researchers with a defined subset of proteins which can be analysed by expression profiling and functional characterisation, thereby facilitating study of pathogenicity and virulence factors in the parasitic protozoa. While primarily designed for kinetoplastid work, the RepSeq algorithm and database retain full functionality when used to analyse other species
A comparison of the properties of radiating boundary conditions in the FDTD method for finite discretisation and non-planar waves
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Typhoid toxin exhausts the RPA response to DNA replication stress driving senescence and Salmonella infection.
Salmonella Typhi activates the host DNA damage response through the typhoid toxin, facilitating typhoid symptoms and chronic infections. Here we reveal a non-canonical DNA damage response, which we call RING (response induced by a genotoxin), characterized by accumulation of phosphorylated histone H2AX (γH2AX) at the nuclear periphery. RING is the result of persistent DNA damage mediated by toxin nuclease activity and is characterized by hyperphosphorylation of RPA, a sensor of single-stranded DNA (ssDNA) and DNA replication stress. The toxin overloads the RPA pathway with ssDNA substrate, causing RPA exhaustion and senescence. Senescence is also induced by canonical γΗ2ΑΧ foci revealing distinct mechanisms. Senescence is transmitted to non-intoxicated bystander cells by an unidentified senescence-associated secreted factor that enhances Salmonella infections. Thus, our work uncovers a mechanism by which genotoxic Salmonella exhausts the RPA response by inducing ssDNA formation, driving host cell senescence and facilitating infection
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