DEFF Research Database (Denmark)
Peng, Xu; Brügger, Kim; Shen, Biao
2003-01-01
terminally modified and corresponds to SSO454, an open reading frame of previously unassigned function. It binds specifically to DNA fragments carrying double and single repeat sequences, binding on one side of the repeat structure, and producing an opening of the opposite side of the DNA structure. It also...... recognizes both main families of repeat sequences in S. solfataricus. The recombinant protein, expressed in Escherichia coli, showed the same binding properties to the SRSR repeat as the native one. The SSO454 protein exhibits a tripartite internal repeat structure which yields a good sequence match...... with a helix-turn-helix DNA-binding motif. Although this putative motif is shared by other archaeal proteins, orthologs of SSO454 were only detected in species within the Sulfolobus genus and in the closely related Acidianus genus. We infer that the genus-specific protein induces an opening of the structure...
Dimensional regularization in configuration space
International Nuclear Information System (INIS)
Bollini, C.G.; Giambiagi, J.J.
1995-09-01
Dimensional regularization is introduced in configuration space by Fourier transforming in D-dimensions the perturbative momentum space Green functions. For this transformation, Bochner theorem is used, no extra parameters, such as those of Feynman or Bogoliubov-Shirkov are needed for convolutions. The regularized causal functions in x-space have ν-dependent moderated singularities at the origin. They can be multiplied together and Fourier transformed (Bochner) without divergence problems. The usual ultraviolet divergences appear as poles of the resultant functions of ν. Several example are discussed. (author). 9 refs
Regularization methods in Banach spaces
Schuster, Thomas; Hofmann, Bernd; Kazimierski, Kamil S
2012-01-01
Regularization methods aimed at finding stable approximate solutions are a necessary tool to tackle inverse and ill-posed problems. Usually the mathematical model of an inverse problem consists of an operator equation of the first kind and often the associated forward operator acts between Hilbert spaces. However, for numerous problems the reasons for using a Hilbert space setting seem to be based rather on conventions than on an approprimate and realistic model choice, so often a Banach space setting would be closer to reality. Furthermore, sparsity constraints using general Lp-norms or the B
Diagrammatic methods in phase-space regularization
International Nuclear Information System (INIS)
Bern, Z.; Halpern, M.B.; California Univ., Berkeley
1987-11-01
Using the scalar prototype and gauge theory as the simplest possible examples, diagrammatic methods are developed for the recently proposed phase-space form of continuum regularization. A number of one-loop and all-order applications are given, including general diagrammatic discussions of the nogrowth theorem and the uniqueness of the phase-space stochastic calculus. The approach also generates an alternate derivation of the equivalence of the large-β phase-space regularization to the more conventional coordinate-space regularization. (orig.)
Directory of Open Access Journals (Sweden)
Ahmed Abdulkadhim Hamad
2017-08-01
Full Text Available In this paper, different techniques are used to improve the turbo decoding of regular repeat accumulate (RA and irregular repeat accumulate (IRA codes. The adaptive scaling of a-posteriori information produced by Soft-output Viterbi decoder (SOVA is proposed. The encoded pilots are another scheme that applied for short length RA codes. This work also suggests a simple and a fast method to generate a random interleaver having a free 4 cycle Tanner graph. Progressive edge growth algorithm (PEG is also studied and simulated to create the Tanner graphs which have a great girth.
Least square regularized regression in sum space.
Xu, Yong-Li; Chen, Di-Rong; Li, Han-Xiong; Liu, Lu
2013-04-01
This paper proposes a least square regularized regression algorithm in sum space of reproducing kernel Hilbert spaces (RKHSs) for nonflat function approximation, and obtains the solution of the algorithm by solving a system of linear equations. This algorithm can approximate the low- and high-frequency component of the target function with large and small scale kernels, respectively. The convergence and learning rate are analyzed. We measure the complexity of the sum space by its covering number and demonstrate that the covering number can be bounded by the product of the covering numbers of basic RKHSs. For sum space of RKHSs with Gaussian kernels, by choosing appropriate parameters, we tradeoff the sample error and regularization error, and obtain a polynomial learning rate, which is better than that in any single RKHS. The utility of this method is illustrated with two simulated data sets and five real-life databases.
q-Space Upsampling Using x-q Space Regularization.
Chen, Geng; Dong, Bin; Zhang, Yong; Shen, Dinggang; Yap, Pew-Thian
2017-09-01
Acquisition time in diffusion MRI increases with the number of diffusion-weighted images that need to be acquired. Particularly in clinical settings, scan time is limited and only a sparse coverage of the vast q -space is possible. In this paper, we show how non-local self-similar information in the x - q space of diffusion MRI data can be harnessed for q -space upsampling. More specifically, we establish the relationships between signal measurements in x - q space using a patch matching mechanism that caters to unstructured data. We then encode these relationships in a graph and use it to regularize an inverse problem associated with recovering a high q -space resolution dataset from its low-resolution counterpart. Experimental results indicate that the high-resolution datasets reconstructed using the proposed method exhibit greater quality, both quantitatively and qualitatively, than those obtained using conventional methods, such as interpolation using spherical radial basis functions (SRBFs).
Regular Generalized Star Star closed sets in Bitopological Spaces
K. Kannan; D. Narasimhan; K. Chandrasekhara Rao; R. Ravikumar
2011-01-01
The aim of this paper is to introduce the concepts of τ1τ2-regular generalized star star closed sets , τ1τ2-regular generalized star star open sets and study their basic properties in bitopological spaces.
Regularity of difference equations on Banach spaces
Agarwal, Ravi P; Lizama, Carlos
2014-01-01
This work introduces readers to the topic of maximal regularity for difference equations. The authors systematically present the method of maximal regularity, outlining basic linear difference equations along with relevant results. They address recent advances in the field, as well as basic semigroup and cosine operator theories in the discrete setting. The authors also identify some open problems that readers may wish to take up for further research. This book is intended for graduate students and researchers in the area of difference equations, particularly those with advance knowledge of and interest in functional analysis.
Semisupervised Support Vector Machines With Tangent Space Intrinsic Manifold Regularization.
Sun, Shiliang; Xie, Xijiong
2016-09-01
Semisupervised learning has been an active research topic in machine learning and data mining. One main reason is that labeling examples is expensive and time-consuming, while there are large numbers of unlabeled examples available in many practical problems. So far, Laplacian regularization has been widely used in semisupervised learning. In this paper, we propose a new regularization method called tangent space intrinsic manifold regularization. It is intrinsic to data manifold and favors linear functions on the manifold. Fundamental elements involved in the formulation of the regularization are local tangent space representations, which are estimated by local principal component analysis, and the connections that relate adjacent tangent spaces. Simultaneously, we explore its application to semisupervised classification and propose two new learning algorithms called tangent space intrinsic manifold regularized support vector machines (TiSVMs) and tangent space intrinsic manifold regularized twin SVMs (TiTSVMs). They effectively integrate the tangent space intrinsic manifold regularization consideration. The optimization of TiSVMs can be solved by a standard quadratic programming, while the optimization of TiTSVMs can be solved by a pair of standard quadratic programmings. The experimental results of semisupervised classification problems show the effectiveness of the proposed semisupervised learning algorithms.
Optimal Embeddings of Distance Regular Graphs into Euclidean Spaces
F. Vallentin (Frank)
2008-01-01
htmlabstractIn this paper we give a lower bound for the least distortion embedding of a distance regular graph into Euclidean space. We use the lower bound for finding the least distortion for Hamming graphs, Johnson graphs, and all strongly regular graphs. Our technique involves semidefinite
Regular perturbations in a vector space with indefinite metric
International Nuclear Information System (INIS)
Chiang, C.C.
1975-08-01
The Klein space is discussed in connection with practical applications. Some lemmas are presented which are to be used for the discussion of regular self-adjoint operators. The criteria for the regularity of perturbed operators are given. (U.S.)
Semenova, E.V.; Jore, M.M.; Westra, E.R.; Oost, van der J.; Brouns, S.J.J.
2011-01-01
Prokaryotic clustered regularly interspaced short palindromic repeat (CRISPR)/Cas (CRISPR-associated sequences) systems provide adaptive immunity against viruses when a spacer sequence of small CRISPR RNA (crRNA) matches a protospacer sequence in the viral genome. Viruses that escape CRISPR/Cas
CTD2 researchers at the University of California in San Francisco developed a modified Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) CRISPR/dCas9 system. Catalytically inactive dCas9 enables modular and programmable RNA-guided genome regulation in eukaryotes.
Al-Attar, S.; Westra, E.R.; Oost, van der J.; Brouns, S.J.J.
2011-01-01
Many prokaryotes contain the recently discovered defense system against mobile genetic elements. This defense system contains a unique type of repetitive DNA stretches, termed Clustered Regularly Interspaced Short Palindromic Repeats (CRISPRs). CRISPRs consist of identical repeated DNA sequences
Wang, Pengfei; Wang, Yingfang; Duan, Guangcai; Xue, Zerun; Wang, Linlin; Guo, Xiangjiao; Yang, Haiyan; Xi, Yuanlin
2015-04-01
This study was aimed to explore the features of clustered regularly interspaced short palindromic repeats (CRISPR) structures in Shigella by using bioinformatics. We used bioinformatics methods, including BLAST, alignment and RNA structure prediction, to analyze the CRISPR structures of Shigella genomes. The results showed that the CRISPRs existed in the four groups of Shigella, and the flanking sequences of upstream CRISPRs could be classified into the same group with those of the downstream. We also found some relatively conserved palindromic motifs in the leader sequences. Repeat sequences had the same group with corresponding flanking sequences, and could be classified into two different types by their RNA secondary structures, which contain "stem" and "ring". Some spacers were found to homologize with part sequences of plasmids or phages. The study indicated that there were correlations between repeat sequences and flanking sequences, and the repeats might act as a kind of recognition mechanism to mediate the interaction between foreign genetic elements and Cas proteins.
Cui, Yujun; Li, Yanjun; Yan, Yanfeng; Yang, Ruifu
2008-11-01
CRISPRs (Clustered Regularly Interspaced Short Palindromic Repeats), the basis of spoligotyping technology, can provide prokaryotes with heritable adaptive immunity against phages' invasion. Studies on CRISPR loci and their associated elements, including various CAS (CRISPR-associated) proteins and leader sequences, are still in its infant period. We introduce the brief history', structure, function, bioinformatics research and application of this amazing immunity system in prokaryotic organism for inspiring more scientists to find their interest in this developing topic.
Fast regularizing sequential subspace optimization in Banach spaces
International Nuclear Information System (INIS)
Schöpfer, F; Schuster, T
2009-01-01
We are concerned with fast computations of regularized solutions of linear operator equations in Banach spaces in case only noisy data are available. To this end we modify recently developed sequential subspace optimization methods in such a way that the therein employed Bregman projections onto hyperplanes are replaced by Bregman projections onto stripes whose width is in the order of the noise level
He, Jiankui; Deem, Michael W.
2010-09-01
Clustered regularly interspaced short palindromic repeats (CRISPR) in bacterial and archaeal DNA have recently been shown to be a new type of antiviral immune system in these organisms. We here study the diversity of spacers in CRISPR under selective pressure. We propose a population dynamics model that explains the biological observation that the leader-proximal end of CRISPR is more diversified and the leader-distal end of CRISPR is more conserved. This result is shown to be in agreement with recent experiments. Our results show that the CRISPR spacer structure is influenced by and provides a record of the viral challenges that bacteria face.
International Nuclear Information System (INIS)
Keller, Kai Johannes
2010-04-01
The present work contains a consistent formulation of the methods of dimensional regularization (DimReg) and minimal subtraction (MS) in Minkowski position space. The methods are implemented into the framework of perturbative Algebraic Quantum Field Theory (pAQFT). The developed methods are used to solve the Epstein-Glaser recursion for the construction of time-ordered products in all orders of causal perturbation theory. A solution is given in terms of a forest formula in the sense of Zimmermann. A relation to the alternative approach to renormalization theory using Hopf algebras is established. (orig.)
Energy Technology Data Exchange (ETDEWEB)
Keller, Kai Johannes
2010-04-15
The present work contains a consistent formulation of the methods of dimensional regularization (DimReg) and minimal subtraction (MS) in Minkowski position space. The methods are implemented into the framework of perturbative Algebraic Quantum Field Theory (pAQFT). The developed methods are used to solve the Epstein-Glaser recursion for the construction of time-ordered products in all orders of causal perturbation theory. A solution is given in terms of a forest formula in the sense of Zimmermann. A relation to the alternative approach to renormalization theory using Hopf algebras is established. (orig.)
Restrictive metric regularity and generalized differential calculus in Banach spaces
Directory of Open Access Journals (Sweden)
Bingwu Wang
2004-10-01
Full Text Available We consider nonlinear mappings f:XÃ¢Â†Â’Y between Banach spaces and study the notion of restrictive metric regularity of f around some point xÃ‚Â¯, that is, metric regularity of f from X into the metric space E=f(X. Some sufficient as well as necessary and sufficient conditions for restrictive metric regularity are obtained, which particularly include an extension of the classical Lyusternik-Graves theorem in the case when f is strictly differentiable at xÃ‚Â¯ but its strict derivative Ã¢ÂˆÂ‡f(xÃ‚Â¯ is not surjective. We develop applications of the results obtained and some other techniques in variational analysis to generalized differential calculus involving normal cones to nonsmooth and nonconvex sets, coderivatives of set-valued mappings, as well as first-order and second-order subdifferentials of extended real-valued functions.
Regularity and predictability of human mobility in personal space.
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Daniel Austin
Full Text Available Fundamental laws governing human mobility have many important applications such as forecasting and controlling epidemics or optimizing transportation systems. These mobility patterns, studied in the context of out of home activity during travel or social interactions with observations recorded from cell phone use or diffusion of money, suggest that in extra-personal space humans follow a high degree of temporal and spatial regularity - most often in the form of time-independent universal scaling laws. Here we show that mobility patterns of older individuals in their home also show a high degree of predictability and regularity, although in a different way than has been reported for out-of-home mobility. Studying a data set of almost 15 million observations from 19 adults spanning up to 5 years of unobtrusive longitudinal home activity monitoring, we find that in-home mobility is not well represented by a universal scaling law, but that significant structure (predictability and regularity is uncovered when explicitly accounting for contextual data in a model of in-home mobility. These results suggest that human mobility in personal space is highly stereotyped, and that monitoring discontinuities in routine room-level mobility patterns may provide an opportunity to predict individual human health and functional status or detect adverse events and trends.
Li, Hao; Qiu, Shaofu; Song, Hongbin
2013-10-04
In survival competition with phage, bacteria and archaea gradually evolved the acquired immune system--Clustered regularly interspaced short palindromic repeats (CRISPR), presenting the trait of transcribing the crRNA and the CRISPR-associated protein (Cas) to silence or cleaving the foreign double-stranded DNA specifically. In recent years, strong interest arises in prokaryotes primitive immune system and many in-depth researches are going on. Recently, researchers successfully repurposed CRISPR as an RNA-guided platform for sequence-specific gene expression, which provides a simple approach for selectively perturbing gene expression on a genome-wide scale. It will undoubtedly bring genome engineering into a more convenient and accurate new era.
[Clustered regularly interspaced short palindromic repeats (CRISPR) site in Bacillus anthracis].
Gao, Zhiqi; Wang, Dongshu; Feng, Erling; Wang, Bingxiang; Hui, Yiming; Han, Shaobo; Jiao, Lei; Liu, Xiankai; Wang, Hengliang
2014-11-04
To investigate the polymorphism of clustered regularly interspaced short palindromic repeats (CRISPR) in Bacillu santhracis and the application to molecular typing based on the polymorphism of CRISPR in B. anthracis. We downloaded the whole genome sequence of 6 B. anthracis strains and extracted the CRISPR sites. We designed the primers of CRISPR sites and amplified the CRISPR fragments in 193 B. anthracis strains by PCR and sequenced these fragments. In order to reveal the polymorphism of CRISPR in B. anthracis, wealigned all the extracted sequences and sequenced results by local blasting. At the same time, we also analyzed the CRISPR sites in B. cereus and B. thuringiensis. We did not find any polymorphism of CRISPR in B. anthracis. The molecular typing approach based on CRISPR polymorphism is not suitable for B. anthracis, but it is possible for us to distinguish B. anthracis from B. cereus and B. thuringiensis.
Guo, Lijun; Xu, Kun; Liu, Zhiyuan; Zhang, Cunfang; Xin, Ying; Zhang, Zhiying
2015-06-01
In addition to the advantages of scalable, affordable, and easy to engineer, the clustered regularly interspaced short palindromic repeats (CRISPR)/CRISPR-associated protein (Cas) technology is superior for multiplex targeting, which is laborious and inconvenient when achieved by cloning multiple gRNA expressing cassettes. Here, we report a simple CRISPR array assembling method which will facilitate multiplex targeting usage. First, the Streptococcus thermophilus CRISPR3/Cas locus was cloned. Second, different CRISPR arrays were assembled with different crRNA spacers. Transformation assays using different Escherichia coli strains demonstrated efficient plasmid DNA targeting, and we achieved targeting efficiency up to 95% with an assembled CRISPR array with three crRNA spacers. Copyright © 2015 Elsevier Inc. All rights reserved.
Directory of Open Access Journals (Sweden)
Yujun Cui
Full Text Available BACKGROUND: Yersinia pestis, the pathogen of plague, has greatly influenced human history on a global scale. Clustered Regularly Interspaced Short Palindromic Repeat (CRISPR, an element participating in immunity against phages' invasion, is composed of short repeated sequences separated by unique spacers and provides the basis of the spoligotyping technology. In the present research, three CRISPR loci were analyzed in 125 strains of Y. pestis from 26 natural plague foci of China, the former Soviet Union and Mongolia were analyzed, for validating CRISPR-based genotyping method and better understanding adaptive microevolution of Y. pestis. METHODOLOGY/PRINCIPAL FINDINGS: Using PCR amplification, sequencing and online data processing, a high degree of genetic diversity was revealed in all three CRISPR elements. The distribution of spacers and their arrays in Y. pestis strains is strongly region and focus-specific, allowing the construction of a hypothetic evolutionary model of Y. pestis. This model suggests transmission route of microtus strains that encircled Takla Makan Desert and ZhunGer Basin. Starting from Tadjikistan, one branch passed through the Kunlun Mountains, and moved to the Qinghai-Tibet Plateau. Another branch went north via the Pamirs Plateau, the Tianshan Mountains, the Altai Mountains and the Inner Mongolian Plateau. Other Y. pestis lineages might be originated from certain areas along those routes. CONCLUSIONS/SIGNIFICANCE: CRISPR can provide important information for genotyping and evolutionary research of bacteria, which will help to trace the source of outbreaks. The resulting data will make possible the development of very low cost and high-resolution assays for the systematic typing of any new isolate.
Parameter choice in Banach space regularization under variational inequalities
International Nuclear Information System (INIS)
Hofmann, Bernd; Mathé, Peter
2012-01-01
The authors study parameter choice strategies for the Tikhonov regularization of nonlinear ill-posed problems in Banach spaces. The effectiveness of any parameter choice for obtaining convergence rates depends on the interplay of the solution smoothness and the nonlinearity structure, and it can be expressed concisely in terms of variational inequalities. Such inequalities are link conditions between the penalty term, the norm misfit and the corresponding error measure. The parameter choices under consideration include an a priori choice, the discrepancy principle as well as the Lepskii principle. For the convenience of the reader, the authors review in an appendix a few instances where the validity of a variational inequality can be established. (paper)
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Peter C. Fineran
2012-10-01
Full Text Available Phages are the most abundant biological entities on earth and pose a constant challenge to their bacterial hosts. Thus, bacteria have evolved numerous ‘innate’ mechanisms of defense against phage, such as abortive infection or restriction/modification systems. In contrast, the clustered regularly interspaced short palindromic repeats (CRISPR systems provide acquired, yet heritable, sequence-specific ‘adaptive’ immunity against phage and other horizontally-acquired elements, such as plasmids. Resistance is acquired following viral infection or plasmid uptake when a short sequence of the foreign genome is added to the CRISPR array. CRISPRs are then transcribed and processed, generally by CRISPR associated (Cas proteins, into short interfering RNAs (crRNAs, which form part of a ribonucleoprotein complex. This complex guides the crRNA to the complementary invading nucleic acid and targets this for degradation. Recently, there have been rapid advances in our understanding of CRISPR/Cas systems. In this review, we will present the current model(s of the molecular events involved in both the acquisition of immunity and interference stages and will also address recent progress in our knowledge of the regulation of CRISPR/Cas systems.
Briner, Alexandra E; Barrangou, Rodolphe
2014-02-01
Clustered regularly interspaced short palindromic repeats (CRISPR) in combination with associated sequences (cas) constitute the CRISPR-Cas immune system, which uptakes DNA from invasive genetic elements as novel "spacers" that provide a genetic record of immunization events. We investigated the potential of CRISPR-based genotyping of Lactobacillus buchneri, a species relevant for commercial silage, bioethanol, and vegetable fermentations. Upon investigating the occurrence and diversity of CRISPR-Cas systems in Lactobacillus buchneri genomes, we observed a ubiquitous occurrence of CRISPR arrays containing a 36-nucleotide (nt) type II-A CRISPR locus adjacent to four cas genes, including the universal cas1 and cas2 genes and the type II signature gene cas9. Comparative analysis of CRISPR spacer content in 26 L. buchneri pickle fermentation isolates associated with spoilage revealed 10 unique locus genotypes that contained between 9 and 29 variable spacers. We observed a set of conserved spacers at the ancestral end, reflecting a common origin, as well as leader-end polymorphisms, reflecting recent divergence. Some of these spacers showed perfect identity with phage sequences, and many spacers showed homology to Lactobacillus plasmid sequences. Following a comparative analysis of sequences immediately flanking protospacers that matched CRISPR spacers, we identified a novel putative protospacer-adjacent motif (PAM), 5'-AAAA-3'. Overall, these findings suggest that type II-A CRISPR-Cas systems are valuable for genotyping of L. buchneri.
Richter, Corinna; Chang, James T; Fineran, Peter C
2012-10-19
Phages are the most abundant biological entities on earth and pose a constant challenge to their bacterial hosts. Thus, bacteria have evolved numerous 'innate' mechanisms of defense against phage, such as abortive infection or restriction/modification systems. In contrast, the clustered regularly interspaced short palindromic repeats (CRISPR) systems provide acquired, yet heritable, sequence-specific 'adaptive' immunity against phage and other horizontally-acquired elements, such as plasmids. Resistance is acquired following viral infection or plasmid uptake when a short sequence of the foreign genome is added to the CRISPR array. CRISPRs are then transcribed and processed, generally by CRISPR associated (Cas) proteins, into short interfering RNAs (crRNAs), which form part of a ribonucleoprotein complex. This complex guides the crRNA to the complementary invading nucleic acid and targets this for degradation. Recently, there have been rapid advances in our understanding of CRISPR/Cas systems. In this review, we will present the current model(s) of the molecular events involved in both the acquisition of immunity and interference stages and will also address recent progress in our knowledge of the regulation of CRISPR/Cas systems.
[Molecular characteristics of Clustered Regularly Interspaced Short Palindromic Repeat in Shigella].
Xue, Zerun; Wang, Yingfang; Duan, Guangcai; Yang, Haiyan; Xi, Yuanlin; Wang, Pengfei; Wang, Linlin; Guo, Xiangjiao
2015-08-01
To detect the molecular characteristics of Clustered Regularly Interspaced Short Palindromic Repeat (CRISPR) in Shigella and to analyze the distribution of CRISPR related to the time of isolation. Of the 52 Shigella strains, 41 were isolated from Henan, 6 from Jiangxi and 5 isolated from Beijing. Both CRISPR locus of S1, S2, S3 and S4 in Shigella were detected by polymerase chain reaction (PCR). The PCR products were sequenced and compared. The positive rates of CRISPR locus in Shigella were 33.69% (S1), 50.00% (S2), 82.69% (S3) and 73.08% (S4), respectively. Two subtypes were discovered in S1 and S3 locus. Three subtypes were discovered in S2 locus. Four different subtypes were discovered in S4 locus. The isolates from Henan strains were divided into two groups by the time of isolation. Distributions of S1 were different, before or after 2004, on Shigella. S1 could not be detected after 2004. There were no statistical differences of S2, S3 and S4 in two groups. Different CRISPR subtypes or Shigella were discovered. A significant correlation was noticed between the CRISPR S1 related to the time of isolation but not between S2, S3 or S4 on the time of isolation.
Fu, Qiang; Su, Zhixin; Cheng, Yuqiang; Wang, Zhaofei; Li, Shiyu; Wang, Heng'an; Sun, Jianhe; Yan, Yaxian
In order to investigate the diverse characteristics of clustered, regularly interspaced short palindromic repeat (CRISPR) arrays and the distribution of virulence factor genes in avian Escherichia coli, 80 E. coli isolates obtained from chickens with avian pathogenic E. coli (APEC) or avian fecal commensal E. coli (AFEC) were identified. Using the multiplex polymerase chain reaction (PCR), five genes were subjected to phylogenetic typing and examined for CRISPR arrays to study genetic relatedness among the strains. The strains were further analyzed for CRISPR loci and virulence factor genes to determine a possible association between their CRISPR elements and their potential virulence. The strains were divided into five phylogenetic groups: A, B1, B2, D and E. It was confirmed that two types of CRISPR arrays, CRISPR1 and CRISPR2, which contain up to 246 distinct spacers, were amplified in most of the strains. Further classification of the isolates was achieved by sorting them into nine CRISPR clusters based on their spacer profiles, which indicates a candidate typing method for E. coli. Several significant differences in invasion-associated gene distribution were found between the APEC isolates and the AFEC isolates. Our results identified the distribution of 11 virulence genes and CRISPR diversity in 80 strains. It was demonstrated that, with the exception of iucD and aslA, there was no sharp demarcation in the gene distribution between the pathogenic (APEC) and commensal (AFEC) strains, while the total number of indicated CRISPR spacers may have a positive correlation with the potential pathogenicity of the E. coli isolates. Copyright © 2016. Published by Elsevier Masson SAS.
Recursion Of Binary Space As A Foundation Of Repeatable Programs
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Jeremy Horne
2006-10-01
Full Text Available Every computation, including recursion, is based on natural philosophy. Our world may be expressed in terms of a binary logical space that contains functions that act simultaneously as objects and processes (operands and operators. This paper presents an outline of the results of research about that space and suggests routes for further inquiry. Binary logical space is generated sequentially from an origin in a standard coordinate system. At least one method exists to show that each of the resulting 16 functions repeats itself by repeatedly forward-feeding outputs of a function operating over two others as new operands of the original function until the original function appears as an output, thus behaving as an apparent homeostatic automaton. As any space of any dimension is composed of one or more of these functions, so the space is recursive, as well. Semantics gives meaning to recursive structures, computer programs and fundamental constituents of our universe being two examples. Such thoughts open inquiry into larger philosophical issues as free will and determinism.
A remark on partial linear spaces of girth 5 with an application to strongly regular graphs
Brouwer, A.E.; Neumaier, A.
1988-01-01
We derive a lower bound on the number of points of a partial linear space of girth 5. As an application, certain strongly regular graphs with=2 are ruled out by observing that the first subconstituents are partial linear spaces.
Zhang, Fan; Zhang, Bing; Xiang, Hua; Hu, Songnian
2009-11-01
Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) is a widespread system that provides acquired resistance against phages in bacteria and archaea. Here we aim to genome-widely analyze the CRISPR in extreme halophilic archaea, of which the whole genome sequences are available at present time. We used bioinformatics methods including alignment, conservation analysis, GC content and RNA structure prediction to analyze the CRISPR structures of 7 haloarchaeal genomes. We identified the CRISPR structures in 5 halophilic archaea and revealed a conserved palindromic motif in the flanking regions of these CRISPR structures. In addition, we found that the repeat sequences of large CRISPR structures in halophilic archaea were greatly conserved, and two types of predicted RNA secondary structures derived from the repeat sequences were likely determined by the fourth base of the repeat sequence. Our results support the proposal that the leader sequence may function as recognition site by having palindromic structures in flanking regions, and the stem-loop secondary structure formed by repeat sequences may function in mediating the interaction between foreign genetic elements and CAS-encoded proteins.
Double Sequences and Iterated Limits in Regular Space
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Coghetto Roland
2016-09-01
Full Text Available First, we define in Mizar [5], the Cartesian product of two filters bases and the Cartesian product of two filters. After comparing the product of two Fréchet filters on ℕ (F1 with the Fréchet filter on ℕ × ℕ (F2, we compare limF₁ and limF₂ for all double sequences in a non empty topological space.
Al-Attar, Sinan; Westra, Edze R; van der Oost, John; Brouns, Stan J J
2011-04-01
Many prokaryotes contain the recently discovered defense system against mobile genetic elements. This defense system contains a unique type of repetitive DNA stretches, termed Clustered Regularly Interspaced Short Palindromic Repeats (CRISPRs). CRISPRs consist of identical repeated DNA sequences (repeats), interspaced by highly variable sequences referred to as spacers. The spacers originate from either phages or plasmids and comprise the prokaryotes' 'immunological memory'. CRISPR-associated (cas) genes encode conserved proteins that together with CRISPRs make-up the CRISPR/Cas system, responsible for defending the prokaryotic cell against invaders. CRISPR-mediated resistance has been proposed to involve three stages: (i) CRISPR-Adaptation, the invader DNA is encountered by the CRISPR/Cas machinery and an invader-derived short DNA fragment is incorporated in the CRISPR array. (ii) CRISPR-Expression, the CRISPR array is transcribed and the transcript is processed by Cas proteins. (iii) CRISPR-Interference, the invaders' nucleic acid is recognized by complementarity to the crRNA and neutralized. An application of the CRISPR/Cas system is the immunization of industry-relevant prokaryotes (or eukaryotes) against mobile-genetic invasion. In addition, the high variability of the CRISPR spacer content can be exploited for phylogenetic and evolutionary studies. Despite impressive progress during the last couple of years, the elucidation of several fundamental details will be a major challenge in future research.
Hara, Yasushi; Hayashi, Kyohei; Nakajima, Takuya; Kagawa, Shizuko; Tazumi, Akihiro; Moore, John E; Matsuda, Motoo
2013-09-01
Clustered regularly interspaced short palindromic repeats (CRISPRs), of approximately 10,000 base pairs (bp) in length, were shown to occur in the Japanese Taylorella equigenitalis strain, EQ59. The locus was composed of the putative CRISPRs-associated with 5 (cas5), RAMP csd1, csd2, recB, cas1, a leader region, 13 CRISPR consensus sequence repeats (each 32 bp; 5'-TCAGCCACGTTCGCGTGGCTGTGTGTTTAAAG-3'). These were in turn separated by 12 non repetitive unique spacer regions of similar length. In addition, a leader region, a transposase/IS protein, a leader region, and cas3 were also seen. All seven putative open reading frames carry their ribosome binding sites. Promoter consensus sequences at the -35 and -10 regions and putative intrinsic ρ-independent transcription terminator regions also occurred. A possible long overlap of 170 bp in length occurred between the recB and cas1 loci. Positive reverse transcription PCR signals of cas5, RAMP csd1, csd2-recB/cas1, and cas3 were generated. A putative secondary structure of the CRISPR consensus repeats was constructed. Following this, CRISPR results of the T. equigenitalis EQ59 isolate were subsequently compared with those from the Taylorella asinigenitalis MCE3 isolate.
Burmistrz, Michal; Rodriguez Martinez, Jose Ignacio; Krochmal, Daniel; Staniec, Dominika; Pyrc, Krzysztof
2017-12-01
The CRISPR-Cas (clustered regularly interspaced short palindromic repeat-CRISPR-associated protein) system is unique to prokaryotes and provides the majority of bacteria and archaea with immunity against nucleic acids of foreign origin. CRISPR RNAs (crRNAs) are the key element of this system, since they are responsible for its selectivity and effectiveness. Typical crRNAs consist of a spacer sequence flanked with 5' and 3' handles originating from repeat sequences that are important for recognition of these small RNAs by the Cas machinery. In this investigation, we studied the type I-C CRISPR-Cas system in Porphyromonas gingivalis , a human pathogen associated with periodontitis, rheumatoid arthritis, cardiovascular disease, and aspiration pneumonia. We demonstrated the importance of the 5' handle for crRNA recognition by the effector complex and consequently activity, as well as secondary trimming of the 3' handle, which was not affected by modifications of the repeat sequence. IMPORTANCE Porphyromonas gingivalis , a clinically relevant Gram-negative, anaerobic bacterium, is one of the major etiologic agents of periodontitis and has been linked with the development of other clinical conditions, including rheumatoid arthritis, cardiovascular disease, and aspiration pneumonia. The presented results on the biogenesis and functions of crRNAs expand our understanding of CRISPR-Cas cellular defenses in P. gingivalis and of horizontal gene transfer in bacteria. Copyright © 2017 American Society for Microbiology.
Sun, S J; Huo, J H; Geng, Z J; Sun, X Y; Fu, X B
2018-04-20
Gene engineering has attracted worldwide attention because of its ability of precise location of disease mutations in genome. As a new gene editing technology, clustered regularly interspaced short palindromic repeats (CRISPR)/CRISPR-associated 9 (Cas9) system is simple, fast, and accurate to operate at a specific gene site. It overcomes the long-standing problem of conventional operation. At the same time, stem cells are a good foundation for establishing disease model in vitro. Therefore, it has great significance to combine stem cells with the rapidly developing gene manipulation techniques. In this review, we mainly focus on the mechanism of CRISPR/Cas9 technology and its application in stem cell genomic editing, so as to pave the way for promoting rapid application and development of CRISPR/Cas9 technology.
Rezzonico, Fabio; Smits, Theo H M; Duffy, Brion
2011-06-01
The clustered regularly interspaced short palindromic repeat (CRISPR)/Cas system confers acquired heritable immunity against mobile nucleic acid elements in prokaryotes, limiting phage infection and horizontal gene transfer of plasmids. In CRISPR arrays, characteristic repeats are interspersed with similarly sized nonrepetitive spacers derived from transmissible genetic elements and acquired when the cell is challenged with foreign DNA. New spacers are added sequentially and the number and type of CRISPR units can differ among strains, providing a record of phage/plasmid exposure within a species and giving a valuable typing tool. The aim of this work was to investigate CRISPR diversity in the highly homogeneous species Erwinia amylovora, the causal agent of fire blight. A total of 18 CRISPR genotypes were defined within a collection of 37 cosmopolitan strains. Strains from Spiraeoideae plants clustered in three major groups: groups II and III were composed exclusively of bacteria originating from the United States, whereas group I generally contained strains of more recent dissemination obtained in Europe, New Zealand, and the Middle East. Strains from Rosoideae and Indian hawthorn (Rhaphiolepis indica) clustered separately and displayed a higher intrinsic diversity than that of isolates from Spiraeoideae plants. Reciprocal exclusion was generally observed between plasmid content and cognate spacer sequences, supporting the role of the CRISPR/Cas system in protecting against foreign DNA elements. However, in several group III strains, retention of plasmid pEU30 is inconsistent with a functional CRISPR/Cas system.
Stachler, Aris-Edda; Marchfelder, Anita
2016-07-15
The clustered regularly interspaced short palindromic repeats (CRISPR)-Cas system is used by bacteria and archaea to fend off foreign genetic elements. Since its discovery it has been developed into numerous applications like genome editing and regulation of transcription in eukaryotes and bacteria. For archaea currently no tools for transcriptional repression exist. Because molecular biology analyses in archaea become more and more widespread such a tool is vital for investigating the biological function of essential genes in archaea. Here we use the model archaeon Haloferax volcanii to demonstrate that its endogenous CRISPR-Cas system I-B can be harnessed to repress gene expression in archaea. Deletion of cas3 and cas6b genes results in efficient repression of transcription. crRNAs targeting the promoter region reduced transcript levels down to 8%. crRNAs targeting the reading frame have only slight impact on transcription. crRNAs that target the coding strand repress expression only down to 88%, whereas crRNAs targeting the template strand repress expression down to 8%. Repression of an essential gene results in reduction of transcription levels down to 22%. Targeting efficiencies can be enhanced by expressing a catalytically inactive Cas3 mutant. Genes can be targeted on plasmids or on the chromosome, they can be monocistronic or part of a polycistronic operon. © 2016 by The American Society for Biochemistry and Molecular Biology, Inc.
Beloglazova, Natalia; Brown, Greg; Zimmerman, Matthew D; Proudfoot, Michael; Makarova, Kira S; Kudritska, Marina; Kochinyan, Samvel; Wang, Shuren; Chruszcz, Maksymilian; Minor, Wladek; Koonin, Eugene V; Edwards, Aled M; Savchenko, Alexei; Yakunin, Alexander F
2008-07-18
Clustered regularly interspaced short palindromic repeats (CRISPRs) together with the associated CAS proteins protect microbial cells from invasion by foreign genetic elements using presently unknown molecular mechanisms. All CRISPR systems contain proteins of the CAS2 family, suggesting that these uncharacterized proteins play a central role in this process. Here we show that the CAS2 proteins represent a novel family of endoribonucleases. Six purified CAS2 proteins from diverse organisms cleaved single-stranded RNAs preferentially within U-rich regions. A representative CAS2 enzyme, SSO1404 from Sulfolobus solfataricus, cleaved the phosphodiester linkage on the 3'-side and generated 5'-phosphate- and 3'-hydroxyl-terminated oligonucleotides. The crystal structure of SSO1404 was solved at 1.6A resolution revealing the first ribonuclease with a ferredoxin-like fold. Mutagenesis of SSO1404 identified six residues (Tyr-9, Asp-10, Arg-17, Arg-19, Arg-31, and Phe-37) that are important for enzymatic activity and suggested that Asp-10 might be the principal catalytic residue. Thus, CAS2 proteins are sequence-specific endoribonucleases, and we propose that their role in the CRISPR-mediated anti-phage defense might involve degradation of phage or cellular mRNAs.
Zheng, Po-Xing; Chan, Yuen-Chi; Chiou, Chien-Shun; Chiang-Ni, Chuan; Wang, Shu-Ying; Tsai, Pei-Jane; Chuang, Woei-Jer; Lin, Yee-Shin; Liu, Ching-Chuan; Wu, Jiunn-Jong
2015-01-01
Clustered regularly interspaced short palindromic repeats (CRISPR) are the bacterial adaptive immune system against foreign nucleic acids. Given the variable nature of CRISPR, it could be a good marker for molecular epidemiology. Group A streptococcus is one of the major human pathogens. It has two CRISPR loci, including CRISPR01 and CRISPR02. The aim of this study was to analyze the distribution of CRISPR-associated gene cassettes (cas) and CRISPR arrays in highly prevalent emm types. The cas cassette and CRISPR array in two CRISPR loci were analyzed in a total of 332 strains, including emm1, emm3, emm4, emm12, and emm28 strains. The CRISPR type was defined by the spacer content of each CRISPR array. All strains had at least one cas cassette or CRISPR array. More than 90% of the spacers were found in one emm type, specifically. Comparing the consistency between emm and CRISPR types by Simpson's index of diversity and the adjusted Wallace coefficient, CRISPR01 type was concordant to emm type, and CRISPR02 showed unidirectional congruence to emm type, suggesting that at least for the majority of isolates causing infection in high income countries, the emm type can be inferred from CRISPR analysis, which can further discriminate isolates sharing the same emm type.
Pride, David T; Salzman, Julia; Relman, David A
2012-09-01
Explorations of human microbiota have provided substantial insight into microbial community composition; however, little is known about interactions between various microbial components in human ecosystems. In response to the powerful impact of viral predation, bacteria have acquired potent defences, including an adaptive immune response based on the clustered regularly interspaced short palindromic repeats (CRISPRs)/Cas system. To improve our understanding of the interactions between bacteria and their viruses in humans, we analysed 13 977 streptococcal CRISPR sequences and compared them with 2 588 172 virome reads in the saliva of four human subjects over 17 months. We found a diverse array of viruses and CRISPR spacers, many of which were specific to each subject and time point. There were numerous viral sequences matching CRISPR spacers; these matches were highly specific for salivary viruses. We determined that spacers and viruses coexist at the same time, which suggests that streptococcal CRISPR/Cas systems are under constant pressure from salivary viruses. CRISPRs in some subjects were just as likely to match viral sequences from other subjects as they were to match viruses from the same subject. Because interactions between bacteria and viruses help to determine the structure of bacterial communities, CRISPR-virus analyses are likely to provide insight into the forces shaping the human microbiome. © 2012 Society for Applied Microbiology and Blackwell Publishing Ltd.
Stachler, Aris-Edda; Marchfelder, Anita
2016-01-01
The clustered regularly interspaced short palindromic repeats (CRISPR)-Cas system is used by bacteria and archaea to fend off foreign genetic elements. Since its discovery it has been developed into numerous applications like genome editing and regulation of transcription in eukaryotes and bacteria. For archaea currently no tools for transcriptional repression exist. Because molecular biology analyses in archaea become more and more widespread such a tool is vital for investigating the biological function of essential genes in archaea. Here we use the model archaeon Haloferax volcanii to demonstrate that its endogenous CRISPR-Cas system I-B can be harnessed to repress gene expression in archaea. Deletion of cas3 and cas6b genes results in efficient repression of transcription. crRNAs targeting the promoter region reduced transcript levels down to 8%. crRNAs targeting the reading frame have only slight impact on transcription. crRNAs that target the coding strand repress expression only down to 88%, whereas crRNAs targeting the template strand repress expression down to 8%. Repression of an essential gene results in reduction of transcription levels down to 22%. Targeting efficiencies can be enhanced by expressing a catalytically inactive Cas3 mutant. Genes can be targeted on plasmids or on the chromosome, they can be monocistronic or part of a polycistronic operon. PMID:27226589
Nam, Ki Hyun; Ding, Fran; Haitjema, Charles; Huang, Qingqiu; DeLisa, Matthew P; Ke, Ailong
2012-10-19
The CRISPR (clustered regularly interspaced short palindromic repeats) system is a prokaryotic RNA-based adaptive immune system against extrachromosomal genetic elements. Cas2 is a universally conserved core CRISPR-associated protein required for the acquisition of new spacers for CRISPR adaptation. It was previously characterized as an endoribonuclease with preference for single-stranded (ss)RNA. Here, we show using crystallography, mutagenesis, and isothermal titration calorimetry that the Bacillus halodurans Cas2 (Bha_Cas2) from the subtype I-C/Dvulg CRISPR instead possesses metal-dependent endonuclease activity against double-stranded (ds)DNA. This activity is consistent with its putative function in producing new spacers for insertion into the 5'-end of the CRISPR locus. Mutagenesis and isothermal titration calorimetry studies revealed that a single divalent metal ion (Mg(2+) or Mn(2+)), coordinated by a symmetric Asp pair in the Bha_Cas2 dimer, is involved in the catalysis. We envision that a pH-dependent conformational change switches Cas2 into a metal-binding competent conformation for catalysis. We further propose that the distinct substrate preferences among Cas2 proteins may be determined by the sequence and structure in the β1-α1 loop.
Total variation regularization in measurement and image space for PET reconstruction
Burger, M
2014-09-18
© 2014 IOP Publishing Ltd. The aim of this paper is to test and analyse a novel technique for image reconstruction in positron emission tomography, which is based on (total variation) regularization on both the image space and the projection space. We formulate our variational problem considering both total variation penalty terms on the image and on an idealized sinogram to be reconstructed from a given Poisson distributed noisy sinogram. We prove existence, uniqueness and stability results for the proposed model and provide some analytical insight into the structures favoured by joint regularization. For the numerical solution of the corresponding discretized problem we employ the split Bregman algorithm and extensively test the approach in comparison to standard total variation regularization on the image. The numerical results show that an additional penalty on the sinogram performs better on reconstructing images with thin structures.
Manifold-splitting regularization, self-linking, twisting, writhing numbers of space-time ribbons
International Nuclear Information System (INIS)
Tze, C.H.
1988-01-01
The authors present an alternative formulation of Polyakov's regularization of Gauss' integral formula for a single closed Feynman path. A key element in his proof of the D = 3 fermi-bose transmutations induced by topological gauge fields, this regularization is linked here with the existence and properties of a nontrivial topological invariant for a closed space ribbon. This self-linking coefficient, an integer, is the sum of two differential characteristics of the ribbon, its twisting and writhing numbers. These invariants form the basis for a physical interpretation of our regularization. Their connection to Polyakov's spinorization is discussed. The authors further generalize their construction to the self-linking, twisting and writhing of higher dimensional d = eta(odd) submanifolds in D = (2eta + 1) space-time
On Landweber–Kaczmarz methods for regularizing systems of ill-posed equations in Banach spaces
International Nuclear Information System (INIS)
Leitão, A; Alves, M Marques
2012-01-01
In this paper, iterative regularization methods of Landweber–Kaczmarz type are considered for solving systems of ill-posed equations modeled (finitely many) by operators acting between Banach spaces. Using assumptions of uniform convexity and smoothness on the parameter space, we are able to prove a monotony result for the proposed method, as well as to establish convergence (for exact data) and stability results (in the noisy data case). (paper)
On rarely generalized regular fuzzy continuous functions in fuzzy topological spaces
Directory of Open Access Journals (Sweden)
Appachi Vadivel
2016-11-01
Full Text Available In this paper, we introduce the concept of rarely generalized regular fuzzy continuous functions in the sense of A.P. Sostak's and Ramadan is introduced. Some interesting properties and characterizations of them are investigated. Also, some applications to fuzzy compact spaces are established.
Wehnes, C A; Rehberger, T G; Barrangou, R; Smith, A H
2014-10-01
Salmonella enterica ssp. enterica is a foodborne pathogen able to cause disease in both humans and animals. Diverse serovars of this pathogen exist, some of which are host specific, causing a range of clinical symptoms from asymptomatic infection through morbidity and mortality. According to a 2007 survey by the USDA National Animal Health Monitoring System, fecal shedding of Salmonella from healthy cows occurs on 39.7% of dairy farms in the United States. Certain serovars are frequently isolated from dairy farms and the majority of isolates from the National Animal Health Monitoring System study were represented by 5 serovars; however, genotypic diversity was not examined. The objective of this study was to determine the diversity of clustered regularly interspaced short palindromic repeats (CRISPR) loci in Salmonella collected from 8 dairy farms with a previous history of salmonellosis. None of the cows or calves sampled on 2 of the 8 dairy farms were shedding Salmonella, although Salmonella was detected in a cow bedding sample on 1 of these farms. Salmonella populations were discrete on each farm, according to CRISPR typing, with the exception of an Anatum var. 15+ type on farms 5 and 6 and the Montevideo type on farms 1 and 2. One to 4 distinct CRISPR genotypes were identified per farm. The CRISPR typing differed within serovars, as Montevideo, Anatum var. 15+, and Muenster serovars had no overlap of spacer content, even on the same farm, reflecting between- and within-serovar genetic diversity. The dynamic nature of Salmonella populations was shown in a farm that was sampled longitudinally over 13.5 mo. Changes in serovar from 3,19:-:z27 to Montevideo was observed between the first sampling time and 8 mo later, with concomitant change in CRISPR alleles. The results indicate that Salmonella strains present in smaller dairy herds (<500 head) are specific to that farm and new Salmonella strains may emerge over time. Copyright © 2014 American Dairy Science
Chen, Jing; Li, Tiancheng; Zhou, Xuedong; Cheng, Lei; Huo, Yuanyuan; Zou, Jing; Li, Yuqing
2017-11-01
The aim of this study was to analyze the characteristics of the clustered regularly interspaced short palindromic repeats (CRISPR) sites in 45 clinical Streptococcus mutans strains and their relationship to the clinical manifestations of early childhood caries (ECC). Forty-five S. mutans strains were isolated from the plaque samples taken from sixty-three children. CRISPR sites were sequenced and BLAST was used to compare these sites to those in the CRISPRTarget database. The association between the distribution of CRISPR sites and the manifestation of caries was analyzed by Chi-Square test. Further, biofilm formation (by crystal violet staining) and the synthesis of polysaccharide (by anthrone-sulfuric method) of all clinical isolated S. mutans strains with both CRISPR sites and no CRISPR site were comapared. Finally, acidogenicity and acidurity of two typical strains were determined using pH drop and acid tolerance assays. Biofilm formation and EPS synthesis by two typical strains were compared by 3D CLSM (Confocal Laser Scanning Microscope) assays and the expression of gtf genes were evaluated using qPCR. We found that most of the spacers in the clinical S. mutans strains were derived from Streptococcus phages APCM01 and M102. The number of CRISPR sites in these strains was associated with the clinical manifestations of ECC. Moreover, we found that the biofilm formation and EPS synthesis ability of the S. mutans strains with both CRISPR sites was significant improved. An association was found between the distribution of CRISPR sites and the clinical manifestations of caries. The CRISPR sites might contribute to the cariogenic potential of S. mutans. Copyright © 2017 Elsevier Ltd. All rights reserved.
Time-Homogeneous Parabolic Wick-Anderson Model in One Space Dimension: Regularity of Solution
Kim, Hyun-Jung; Lototsky, Sergey V
2017-01-01
Even though the heat equation with random potential is a well-studied object, the particular case of time-independent Gaussian white noise in one space dimension has yet to receive the attention it deserves. The paper investigates the stochastic heat equation with space-only Gaussian white noise on a bounded interval. The main result is that the space-time regularity of the solution is the same for additive noise and for multiplicative noise in the Wick-It\\^o-Skorokhod interpretation.
Salt-body Inversion with Minimum Gradient Support and Sobolev Space Norm Regularizations
Kazei, Vladimir
2017-05-26
Full-waveform inversion (FWI) is a technique which solves the ill-posed seismic inversion problem of fitting our model data to the measured ones from the field. FWI is capable of providing high-resolution estimates of the model, and of handling wave propagation of arbitrary complexity (visco-elastic, anisotropic); yet, it often fails to retrieve high-contrast geological structures, such as salt. One of the reasons for the FWI failure is that the updates at earlier iterations are too smooth to capture the sharp edges of the salt boundary. We compare several regularization approaches, which promote sharpness of the edges. Minimum gradient support (MGS) regularization focuses the inversion on blocky models, even more than the total variation (TV) does. However, both approaches try to invert undesirable high wavenumbers in the model too early for a model of complex structure. Therefore, we apply the Sobolev space norm as a regularizing term in order to maintain a balance between sharp and smooth updates in FWI. We demonstrate the application of these regularizations on a Marmousi model, enriched by a chunk of salt. The model turns out to be too complex in some parts to retrieve its full velocity distribution, yet the salt shape and contrast are retrieved.
Hintermüller, Michael; Holler, Martin; Papafitsoros, Kostas
2018-06-01
In this work, we introduce a function space setting for a wide class of structural/weighted total variation (TV) regularization methods motivated by their applications in inverse problems. In particular, we consider a regularizer that is the appropriate lower semi-continuous envelope (relaxation) of a suitable TV type functional initially defined for sufficiently smooth functions. We study examples where this relaxation can be expressed explicitly, and we also provide refinements for weighted TV for a wide range of weights. Since an integral characterization of the relaxation in function space is, in general, not always available, we show that, for a rather general linear inverse problems setting, instead of the classical Tikhonov regularization problem, one can equivalently solve a saddle-point problem where no a priori knowledge of an explicit formulation of the structural TV functional is needed. In particular, motivated by concrete applications, we deduce corresponding results for linear inverse problems with norm and Poisson log-likelihood data discrepancy terms. Finally, we provide proof-of-concept numerical examples where we solve the saddle-point problem for weighted TV denoising as well as for MR guided PET image reconstruction.
Zeta-function regularization approach to finite temperature effects in Kaluza-Klein space-times
International Nuclear Information System (INIS)
Bytsenko, A.A.; Vanzo, L.; Zerbini, S.
1992-01-01
In the framework of heat-kernel approach to zeta-function regularization, in this paper the one-loop effective potential at finite temperature for scalar and spinor fields on Kaluza-Klein space-time of the form M p x M c n , where M p is p-dimensional Minkowski space-time is evaluated. In particular, when the compact manifold is M c n = H n /Γ, the Selberg tracer formula associated with discrete torsion-free group Γ of the n-dimensional Lobachevsky space H n is used. An explicit representation for the thermodynamic potential valid for arbitrary temperature is found. As a result a complete high temperature expansion is presented and the roles of zero modes and topological contributions is discussed
Regularization in Hilbert space under unbounded operators and general source conditions
International Nuclear Information System (INIS)
Hofmann, Bernd; Mathé, Peter; Von Weizsäcker, Heinrich
2009-01-01
The authors study ill-posed equations with unbounded operators in Hilbert space. This setup has important applications, but only a few theoretical studies are available. First, the question is addressed and answered whether every element satisfies some general source condition with respect to a given self-adjoint unbounded operator. This generalizes a previous result from Mathé and Hofmann (2008 Inverse Problems 24 015009). The analysis then proceeds to error bounds for regularization, emphasizing some specific points for regularization under unbounded operators. The study finally reviews two examples within the light of the present study, as these are fractional differentiation and some Cauchy problems for the Helmholtz equation, both studied previously and in more detail by U Tautenhahn and co-authors
Neutrino stress tensor regularization in two-dimensional space-time
International Nuclear Information System (INIS)
Davies, P.C.W.; Unruh, W.G.
1977-01-01
The method of covariant point-splitting is used to regularize the stress tensor for a massless spin 1/2 (neutrino) quantum field in an arbitrary two-dimensional space-time. A thermodynamic argument is used as a consistency check. The result shows that the physical part of the stress tensor is identical with that of the massless scalar field (in the absence of Casimir-type terms) even though the formally divergent expression is equal to the negative of the scalar case. (author)
On the regularity of mild solutions to complete higher order differential equations on Banach spaces
Directory of Open Access Journals (Sweden)
Nezam Iraniparast
2015-09-01
Full Text Available For the complete higher order differential equation u(n(t=Σk=0n-1Aku(k(t+f(t, t∈ R (* on a Banach space E, we give a new definition of mild solutions of (*. We then characterize the regular admissibility of a translation invariant subspace al M of BUC(R, E with respect to (* in terms of solvability of the operator equation Σj=0n-1AjXal Dj-Xal Dn = C. As application, almost periodicity of mild solutions of (* is proved.
National Research Council Canada - National Science Library
Cohn, R
1998-01-01
.... This technique may be viewed as the molecular counterpart of PIV. To take advantage of standard data processing techniques, the MTV data need to be remapped onto a regular grid with a uniform spacing...
National Research Council Canada - National Science Library
Cohn, Richard
1999-01-01
.... This technique may be viewed as the molecular counterpart of PIV. To take advantage of standard data processing techniques, the MTV data need to be remapped onto a regular grid with a uniform spacing...
Critical phenomena of regular black holes in anti-de Sitter space-time
Energy Technology Data Exchange (ETDEWEB)
Fan, Zhong-Ying [Peking University, Center for High Energy Physics, Beijing (China)
2017-04-15
In General Relativity, addressing coupling to a non-linear electromagnetic field, together with a negative cosmological constant, we obtain the general static spherical symmetric black hole solution with magnetic charges, which is asymptotic to anti-de Sitter (AdS) space-times. In particular, for a degenerate case the solution becomes a Hayward-AdS black hole, which is regular everywhere in the full space-time. The existence of such a regular black hole solution preserves the weak energy condition, while the strong energy condition is violated. We then derive the first law and the Smarr formula of the black hole solution. We further discuss its thermodynamic properties and study the critical phenomena in the extended phase space where the cosmological constant is treated as a thermodynamic variable as well as the parameter associated with the non-linear electrodynamics. We obtain many interesting results such as: the Maxwell equal area law in the P-V (or S-T) diagram is violated and consequently the critical point (T{sub *},P{sub *}) of the first order small-large black hole transition does not coincide with the inflection point (T{sub c},P{sub c}) of the isotherms; the Clapeyron equation describing the coexistence curve of the Van der Waals (vdW) fluid is no longer valid; the heat capacity at constant pressure is finite at the critical point; the various exponents near the critical point are also different from those of the vdW fluid. (orig.)
Hedayati, R; Sadighi, M; Mohammadi-Aghdam, M; Zadpoor, A A
2016-03-01
Additive manufacturing (AM) has enabled fabrication of open-cell porous biomaterials based on repeating unit cells. The micro-architecture of the porous biomaterials and, thus, their physical properties could then be precisely controlled. Due to their many favorable properties, porous biomaterials manufactured using AM are considered as promising candidates for bone substitution as well as for several other applications in orthopedic surgery. The mechanical properties of such porous structures including static and fatigue properties are shown to be strongly dependent on the type of the repeating unit cell based on which the porous biomaterial is built. In this paper, we study the mechanical properties of porous biomaterials made from a relatively new unit cell, namely truncated cube. We present analytical solutions that relate the dimensions of the repeating unit cell to the elastic modulus, Poisson's ratio, yield stress, and buckling load of those porous structures. We also performed finite element modeling to predict the mechanical properties of the porous structures. The analytical solution and computational results were found to be in agreement with each other. The mechanical properties estimated using both the analytical and computational techniques were somewhat higher than the experimental data reported in one of our recent studies on selective laser melted Ti-6Al-4V porous biomaterials. In addition to porosity, the elastic modulus and Poisson's ratio of the porous structures were found to be strongly dependent on the ratio of the length of the inclined struts to that of the uninclined (i.e. vertical or horizontal) struts, α, in the truncated cube unit cell. The geometry of the truncated cube unit cell approaches the octahedral and cube unit cells when α respectively approaches zero and infinity. Consistent with those geometrical observations, the analytical solutions presented in this study approached those of the octahedral and cube unit cells when
A blind deconvolution method based on L1/L2 regularization prior in the gradient space
Cai, Ying; Shi, Yu; Hua, Xia
2018-02-01
In the process of image restoration, the result of image restoration is very different from the real image because of the existence of noise, in order to solve the ill posed problem in image restoration, a blind deconvolution method based on L1/L2 regularization prior to gradient domain is proposed. The method presented in this paper first adds a function to the prior knowledge, which is the ratio of the L1 norm to the L2 norm, and takes the function as the penalty term in the high frequency domain of the image. Then, the function is iteratively updated, and the iterative shrinkage threshold algorithm is applied to solve the high frequency image. In this paper, it is considered that the information in the gradient domain is better for the estimation of blur kernel, so the blur kernel is estimated in the gradient domain. This problem can be quickly implemented in the frequency domain by fast Fast Fourier Transform. In addition, in order to improve the effectiveness of the algorithm, we have added a multi-scale iterative optimization method. This paper proposes the blind deconvolution method based on L1/L2 regularization priors in the gradient space can obtain the unique and stable solution in the process of image restoration, which not only keeps the edges and details of the image, but also ensures the accuracy of the results.
Tasaki, E; Hirayama, J; Tazumi, A; Hayashi, K; Hara, Y; Ueno, H; Moore, J E; Millar, B C; Matsuda, M
2012-02-01
Novel clustered regularly-interspaced short palindromic repeats (CRISPRs) locus [7,500 base pairs (bp) in length] occurred in the urease-positive thermophilic Campylobacter (UPTC) Japanese isolate, CF89-12. The 7,500 bp gene loci consisted of the 5'-methylaminomethyl-2-thiouridylate methyltransferase gene, putative (P) CRISPR associated (p-Cas), putative open reading frames, Cas1 and Cas2, leader sequence region (146 bp), 12 CRISPRs consensus sequence repeats (each 36 bp) separated by a non-repetitive unique spacer region of similar length (26-31 bp) and the phosphatidyl glycerophosphatase A gene. When the CRISPRs loci in the UPTC CF89-12 and five C. jejuni isolates were compared with one another, these six isolates contained p-Cas, Cas1 and Cas2 within the loci. Four to 12 CRISPRs consensus sequence repeats separated by a non-repetitive unique spacer region occurred in six isolates and the nucleotide sequences of those repeats gave approximately 92-100% similarity with each other. However, no sequence similarity occurred in the unique spacer regions among these isolates. The putative σ(70) transcriptional promoter and the hypothetical ρ-independent terminator structures for the CRISPRs and Cas were detected. No in vivo transcription of p-Cas, Cas1 and Cas2 was confirmed in the UPTC cells.
Regularization and renormalization of quantum field theory in curved space-time
International Nuclear Information System (INIS)
Bernard, C.; Duncan, A.
1977-01-01
It is proposed that field theories quantized in a curved space-time manifold can be conveniently regularized and renormalized with the aid of Pauli-Villars regulator fields. The method avoids the conceptual difficulties of covariant point-separation approaches, by starting always from a manifestly generally covariant action, and the technical limitations of the dimensional reqularization approach, which requires solution of the theory in arbitrary dimension in order to go beyond a weak-field expansion. An action is constructed which renormalizes the weak-field perturbation theory of a massive scalar field in two space-time dimensions--it is shown that the trace anomaly previously found in dimensional regularization and some point-separation calculations also arises in perturbation theory when the theory is Pauli-Villars regulated. One then studies a specific solvable two-dimensional model of a massive scalar field in a Robertson-Walker asymptotically flat universe. It is shown that the action previously considered leads, in this model, to a well defined finite expectation value for the stress-energy tensor. The particle production (less than 0 in/vertical bar/theta/sup mu nu/(x,t)/vertical bar/0 in greater than for t → + infinity) is computed explicitly. Finally, the validity of weak-field perturbation theory (in the appropriate range of parameters) is checked directly in the solvable model, and the trace anomaly computed in the asymptotic regions t→ +- infinity independently of any weak field approximation. The extension of the model to higher dimensions and the renormalization of interacting (scalar) field theories are briefly discussed
On the necessary conditions of the regular minimum of the scale factor of the co-moving space
International Nuclear Information System (INIS)
Agakov, V.G.
1980-01-01
In the framework of homogeneous cosmologic model studied is the behaviour of the comoving space element volume filled with barotropous medium, deprived of energy fluxes. Presented are the necessary conditions at which a regular final minimum of the scale factor of the co-mowing space may take place. It is found that to carry out the above minimum at values of cosmological constant Λ <= 0 the presence of two from three anisotropy factors is necessary. Anisotropy of space deformation should be one of these factors. In case of Λ <= 0 the regular minimum is also possible if all three factors of anisotropy are equal to zero. However if none of the factors of Fsub(i), Asub(ik) anisotropy is equal to zero, the presence of deformation space anisotropy is necessary for final regular minimum appearance
Czech Academy of Sciences Publication Activity Database
Guo, Z.; Kučera, P.; Skalák, Zdeněk
2018-01-01
Roč. 458, č. 1 (2018), s. 755-766 ISSN 0022-247X R&D Projects: GA ČR GA13-00522S Institutional support: RVO:67985874 Keywords : Navier Stokes equations * conditional regularity * regularity criteria * vorticity * Besov spaces * bony decomposition Subject RIV: BA - General Mathematics OBOR OECD: Fluids and plasma physics (including surface physics) Impact factor: 1.064, year: 2016
International Nuclear Information System (INIS)
Oono, Y.; Ohta, T.; Freed, K.F.
1981-01-01
A dimensional regularization approach to the renormalization group treatment of polymer excluded volume is formulated in chain conformation space where monomers are specified by their spatial positions and their positions along the chain and the polymers may be taken to be monodisperse. The method utilizes basic scale invariance considerations. First, it is recognized that long wavelength macroscopic descriptions must be well defined in the limit that the minimum atomic or molecular scale L is set to zero. Secondly, the microscopic theory is independent of the conveniently chosen macroscopic scale of length k. The freedom of choice of k is exploited along with the assumed renormalizability of the theory to provide the renormalization group equations which directly imply the universal scaling laws for macroscopic properties. The renormalizability of the model implies the existence of the general relations between the basic macroparameters, such as chain length, excluded volume, etc., and their microscopic counterparts in the microscopic model for the system. These macro--micro relations are defined through the condition that macroscopic quantities be well defined for polymer chains for any spatial dimensionality. The method is illustrated by calculating the end vector distribution function for all values of end vectors R. The evaluation of this distribution function currently requires the use of expansions in e = 4-d. In this case our distribution reduces to known limits for R→0 or infinity. Subsequent papers will present calculations of the polymer coherent scattering function, the monomer spatial distribution function, and concentration dependent properties
Tarafder, Sumit; Toukir Ahmed, Md; Iqbal, Sumaiya; Tamjidul Hoque, Md; Sohel Rahman, M
2018-03-14
Accessible surface area (ASA) of a protein residue is an effective feature for protein structure prediction, binding region identification, fold recognition problems etc. Improving the prediction of ASA by the application of effective feature variables is a challenging but explorable task to consider, specially in the field of machine learning. Among the existing predictors of ASA, REGAd 3 p is a highly accurate ASA predictor which is based on regularized exact regression with polynomial kernel of degree 3. In this work, we present a new predictor RBSURFpred, which extends REGAd 3 p on several dimensions by incorporating 58 physicochemical, evolutionary and structural properties into 9-tuple peptides via Chou's general PseAAC, which allowed us to obtain higher accuracies in predicting both real-valued and binary ASA. We have compared RBSURFpred for both real and binary space predictions with state-of-the-art predictors, such as REGAd 3 p and SPIDER2. We also have carried out a rigorous analysis of the performance of RBSURFpred in terms of different amino acids and their properties, and also with biologically relevant case-studies. The performance of RBSURFpred establishes itself as a useful tool for the community. Copyright © 2018 Elsevier Ltd. All rights reserved.
DEFF Research Database (Denmark)
Lintner, Nathanael G; Kerou, Melina; Brumfield, Susan K
2011-01-01
In response to viral infection, many prokaryotes incorporate fragments of virus-derived DNA into loci called clustered regularly interspaced short palindromic repeats (CRISPRs). The loci are then transcribed, and the processed CRISPR transcripts are used to target invading viral DNA and RNA....... The Escherichia coli "CRISPR-associated complex for antiviral defense" (CASCADE) is central in targeting invading DNA. Here we report the structural and functional characterization of an archaeal CASCADE (aCASCADE) from Sulfolobus solfataricus. Tagged Csa2 (Cas7) expressed in S. solfataricus co-purifies with Cas5......a-, Cas6-, Csa5-, and Cas6-processed CRISPR-RNA (crRNA). Csa2, the dominant protein in aCASCADE, forms a stable complex with Cas5a. Transmission electron microscopy reveals a helical complex of variable length, perhaps due to substoichiometric amounts of other CASCADE components. A recombinant Csa2...
Hatoum-Aslan, Asma; Maniv, Inbal; Marraffini, Luciano A
2011-12-27
Precise RNA processing is fundamental to all small RNA-mediated interference pathways. In prokaryotes, clustered, regularly interspaced, short palindromic repeats (CRISPR) loci encode small CRISPR RNAs (crRNAs) that protect against invasive genetic elements by antisense targeting. CRISPR loci are transcribed as a long precursor that is cleaved within repeat sequences by CRISPR-associated (Cas) proteins. In many organisms, this primary processing generates crRNA intermediates that are subject to additional nucleolytic trimming to render mature crRNAs of specific lengths. The molecular mechanisms underlying this maturation event remain poorly understood. Here, we defined the genetic requirements for crRNA primary processing and maturation in Staphylococcus epidermidis. We show that changes in the position of the primary processing site result in extended or diminished maturation to generate mature crRNAs of constant length. These results indicate that crRNA maturation occurs by a ruler mechanism anchored at the primary processing site. We also show that maturation is mediated by specific cas genes distinct from those genes involved in primary processing, showing that this event is directed by CRISPR/Cas loci.
Directory of Open Access Journals (Sweden)
Mingyi Wu
2015-04-01
Full Text Available Sulfated fucans, the complex polysaccharides, exhibit various biological activities. Herein, we purified two fucans from the sea cucumbers Holothuria edulis and Ludwigothurea grisea. Their structures were verified by means of HPGPC, FT-IR, GC–MS and NMR. As a result, a novel structural motif for this type of polymers is reported. The fucans have a unique structure composed of a central core of regular (1→2 and (1→3-linked tetrasaccharide repeating units. Approximately 50% of the units from L. grisea (100% for H. edulis fucan contain sides of oligosaccharides formed by nonsulfated fucose units linked to the O-4 position of the central core. Anticoagulant activity assays indicate that the sea cucumber fucans strongly inhibit human blood clotting through the intrinsic pathways of the coagulation cascade. Moreover, the mechanism of anticoagulant action of the fucans is selective inhibition of thrombin activity by heparin cofactor II. The distinctive tetrasaccharide repeating units contribute to the anticoagulant action. Additionally, unlike the fucans from marine alga, although the sea cucumber fucans have great molecular weights and affluent sulfates, they do not induce platelet aggregation. Overall, our results may be helpful in understanding the structure-function relationships of the well-defined polysaccharides from invertebrate as new types of safer anticoagulants.
Yosef, Ido; Goren, Moran G; Kiro, Ruth; Edgar, Rotem; Qimron, Udi
2011-12-13
Prokaryotic DNA arrays arranged as clustered regularly interspaced short palindromic repeats (CRISPR), along with their associated proteins, provide prokaryotes with adaptive immunity by RNA-mediated targeting of alien DNA or RNA matching the sequences between the repeats. Here, we present a thorough screening system for the identification of bacterial proteins participating in immunity conferred by the Escherichia coli CRISPR system. We describe the identification of one such protein, high-temperature protein G (HtpG), a homolog of the eukaryotic chaperone heat-shock protein 90. We demonstrate that in the absence of htpG, the E. coli CRISPR system loses its suicidal activity against λ prophage and its ability to provide immunity from lysogenization. Transcomplementation of htpG restores CRISPR activity. We further show that inactivity of the CRISPR system attributable to htpG deficiency can be suppressed by expression of Cas3, a protein that is essential for its activity. Accordingly, we also find that the steady-state level of overexpressed Cas3 is significantly enhanced following HtpG expression. We conclude that HtpG is a newly identified positive modulator of the CRISPR system that is essential for maintaining functional levels of Cas3.
Kuno, Sotaro; Yoshida, Takashi; Kaneko, Takakazu; Sako, Yoshihiko
2012-08-01
Clustered regularly interspaced short palindromic repeats (CRISPR) confer sequence-dependent, adaptive resistance in prokaryotes against viruses and plasmids via incorporation of short sequences, called spacers, derived from foreign genetic elements. CRISPR loci are thus considered to provide records of past infections. To describe the host-parasite (i.e., cyanophages and plasmids) interactions involving the bloom-forming freshwater cyanobacterium Microcystis aeruginosa, we investigated CRISPR in four M. aeruginosa strains and in two previously sequenced genomes. The number of spacers in each locus was larger than the average among prokaryotes. All spacers were strain specific, except for a string of 11 spacers shared in two closely related strains, suggesting diversification of the loci. Using CRISPR repeat-based PCR, 24 CRISPR genotypes were identified in a natural cyanobacterial community. Among 995 unique spacers obtained, only 10 sequences showed similarity to M. aeruginosa phage Ma-LMM01. Of these, six spacers showed only silent or conservative nucleotide mutations compared to Ma-LMM01 sequences, suggesting a strategy by the cyanophage to avert CRISPR immunity dependent on nucleotide identity. These results imply that host-phage interactions can be divided into M. aeruginosa-cyanophage combinations rather than pandemics of population-wide infectious cyanophages. Spacer similarity also showed frequent exposure of M. aeruginosa to small cryptic plasmids that were observed only in a few strains. Thus, the diversification of CRISPR implies that M. aeruginosa has been challenged by diverse communities (almost entirely uncharacterized) of cyanophages and plasmids.
Maier, Lisa-Katharina; Stachler, Aris-Edda; Saunders, Sita J.; Backofen, Rolf; Marchfelder, Anita
2015-01-01
The prokaryotic immune system CRISPR-Cas (clustered regularly interspaced short palindromic repeats-CRISPR-associated) is a defense system that protects prokaryotes against foreign DNA. The short CRISPR RNAs (crRNAs) are central components of this immune system. In CRISPR-Cas systems type I and III, crRNAs are generated by the endonuclease Cas6. We developed a Cas6b-independent crRNA maturation pathway for the Haloferax type I-B system in vivo that expresses a functional crRNA, which we termed independently generated crRNA (icrRNA). The icrRNA is effective in triggering degradation of an invader plasmid carrying the matching protospacer sequence. The Cas6b-independent maturation of the icrRNA allowed mutation of the repeat sequence without interfering with signals important for Cas6b processing. We generated 23 variants of the icrRNA and analyzed them for activity in the interference reaction. icrRNAs with deletions or mutations of the 3′ handle are still active in triggering an interference reaction. The complete 3′ handle could be removed without loss of activity. However, manipulations of the 5′ handle mostly led to loss of interference activity. Furthermore, we could show that in the presence of an icrRNA a strain without Cas6b (Δcas6b) is still active in interference. PMID:25512373
Maier, Lisa-Katharina; Stachler, Aris-Edda; Saunders, Sita J; Backofen, Rolf; Marchfelder, Anita
2015-02-13
The prokaryotic immune system CRISPR-Cas (clustered regularly interspaced short palindromic repeats-CRISPR-associated) is a defense system that protects prokaryotes against foreign DNA. The short CRISPR RNAs (crRNAs) are central components of this immune system. In CRISPR-Cas systems type I and III, crRNAs are generated by the endonuclease Cas6. We developed a Cas6b-independent crRNA maturation pathway for the Haloferax type I-B system in vivo that expresses a functional crRNA, which we termed independently generated crRNA (icrRNA). The icrRNA is effective in triggering degradation of an invader plasmid carrying the matching protospacer sequence. The Cas6b-independent maturation of the icrRNA allowed mutation of the repeat sequence without interfering with signals important for Cas6b processing. We generated 23 variants of the icrRNA and analyzed them for activity in the interference reaction. icrRNAs with deletions or mutations of the 3' handle are still active in triggering an interference reaction. The complete 3' handle could be removed without loss of activity. However, manipulations of the 5' handle mostly led to loss of interference activity. Furthermore, we could show that in the presence of an icrRNA a strain without Cas6b (Δcas6b) is still active in interference. © 2015 by The American Society for Biochemistry and Molecular Biology, Inc.
Coordinate-invariant regularization
International Nuclear Information System (INIS)
Halpern, M.B.
1987-01-01
A general phase-space framework for coordinate-invariant regularization is given. The development is geometric, with all regularization contained in regularized DeWitt Superstructures on field deformations. Parallel development of invariant coordinate-space regularization is obtained by regularized functional integration of the momenta. As representative examples of the general formulation, the regularized general non-linear sigma model and regularized quantum gravity are discussed. copyright 1987 Academic Press, Inc
Weighted regularized statistical shape space projection for breast 3D model reconstruction.
Ruiz, Guillermo; Ramon, Eduard; García, Jaime; Sukno, Federico M; Ballester, Miguel A González
2018-05-02
The use of 3D imaging has increased as a practical and useful tool for plastic and aesthetic surgery planning. Specifically, the possibility of representing the patient breast anatomy in a 3D shape and simulate aesthetic or plastic procedures is a great tool for communication between surgeon and patient during surgery planning. For the purpose of obtaining the specific 3D model of the breast of a patient, model-based reconstruction methods can be used. In particular, 3D morphable models (3DMM) are a robust and widely used method to perform 3D reconstruction. However, if additional prior information (i.e., known landmarks) is combined with the 3DMM statistical model, shape constraints can be imposed to improve the 3DMM fitting accuracy. In this paper, we present a framework to fit a 3DMM of the breast to two possible inputs: 2D photos and 3D point clouds (scans). Our method consists in a Weighted Regularized (WR) projection into the shape space. The contribution of each point in the 3DMM shape is weighted allowing to assign more relevance to those points that we want to impose as constraints. Our method is applied at multiple stages of the 3D reconstruction process. Firstly, it can be used to obtain a 3DMM initialization from a sparse set of 3D points. Additionally, we embed our method in the 3DMM fitting process in which more reliable or already known 3D points or regions of points, can be weighted in order to preserve their shape information. The proposed method has been tested in two different input settings: scans and 2D pictures assessing both reconstruction frameworks with very positive results. Copyright © 2018 Elsevier B.V. All rights reserved.
The geometric $\\beta$-function in curved space-time under operator regularization
Agarwala, Susama
2009-01-01
In this paper, I compare the generators of the renormalization group flow, or the geometric $\\beta$-functions for dimensional regularization and operator regularization. I then extend the analysis to show that the geometric $\\beta$-function for a scalar field theory on a closed compact Riemannian manifold is defined on the entire manifold. I then extend the analysis to find the generator of the renormalization group flow for a conformal scalar-field theories on the same manifolds. The geometr...
Canver, Matthew C.; Bauer, Daniel E.; Dass, Abhishek; Yien, Yvette Y.; Chung, Jacky; Masuda, Takeshi; Maeda, Takahiro; Paw, Barry H.; Orkin, Stuart H.
2014-01-01
The clustered regularly interspaced palindromic repeats (CRISPR)/CRISPR-associated (Cas) 9 nuclease system has provided a powerful tool for genome engineering. Double strand breaks may trigger nonhomologous end joining repair, leading to frameshift mutations, or homology-directed repair using an extrachromosomal template. Alternatively, genomic deletions may be produced by a pair of double strand breaks. The efficiency of CRISPR/Cas9-mediated genomic deletions has not been systematically explored. Here, we present a methodology for the production of deletions in mammalian cells, ranging from 1.3 kb to greater than 1 Mb. We observed a high frequency of intended genomic deletions. Nondeleted alleles are nonetheless often edited with inversions or small insertion/deletions produced at CRISPR recognition sites. Deleted alleles also typically include small insertion/deletions at predicted deletion junctions. We retrieved cells with biallelic deletion at a frequency exceeding that of probabilistic expectation. We demonstrate an inverse relationship between deletion frequency and deletion size. This work suggests that CRISPR/Cas9 is a robust system to produce a spectrum of genomic deletions to allow investigation of genes and genetic elements. PMID:24907273
Nam, Ki Hyun; Kurinov, Igor; Ke, Ailong
2011-09-02
Clustered regularly interspaced short palindromic repeats (CRISPR) and their associated protein genes (cas genes) are widespread in bacteria and archaea. They form a line of RNA-based immunity to eradicate invading bacteriophages and malicious plasmids. A key molecular event during this process is the acquisition of new spacers into the CRISPR loci to guide the selective degradation of the matching foreign genetic elements. Csn2 is a Nmeni subtype-specific cas gene required for new spacer acquisition. Here we characterize the Enterococcus faecalis Csn2 protein as a double-stranded (ds-) DNA-binding protein and report its 2.7 Å tetrameric ring structure. The inner circle of the Csn2 tetrameric ring is ∼26 Å wide and populated with conserved lysine residues poised for nonspecific interactions with ds-DNA. Each Csn2 protomer contains an α/β domain and an α-helical domain; significant hinge motion was observed between these two domains. Ca(2+) was located at strategic positions in the oligomerization interface. We further showed that removal of Ca(2+) ions altered the oligomerization state of Csn2, which in turn severely decreased its affinity for ds-DNA. In summary, our results provided the first insight into the function of the Csn2 protein in CRISPR adaptation by revealing that it is a ds-DNA-binding protein functioning at the quaternary structure level and regulated by Ca(2+) ions.
Canver, Matthew C; Bauer, Daniel E; Dass, Abhishek; Yien, Yvette Y; Chung, Jacky; Masuda, Takeshi; Maeda, Takahiro; Paw, Barry H; Orkin, Stuart H
2014-08-01
The clustered regularly interspaced short [corrected] palindromic repeats (CRISPR)/CRISPR-associated (Cas) 9 nuclease system has provided a powerful tool for genome engineering. Double strand breaks may trigger nonhomologous end joining repair, leading to frameshift mutations, or homology-directed repair using an extrachromosomal template. Alternatively, genomic deletions may be produced by a pair of double strand breaks. The efficiency of CRISPR/Cas9-mediated genomic deletions has not been systematically explored. Here, we present a methodology for the production of deletions in mammalian cells, ranging from 1.3 kb to greater than 1 Mb. We observed a high frequency of intended genomic deletions. Nondeleted alleles are nonetheless often edited with inversions or small insertion/deletions produced at CRISPR recognition sites. Deleted alleles also typically include small insertion/deletions at predicted deletion junctions. We retrieved cells with biallelic deletion at a frequency exceeding that of probabilistic expectation. We demonstrate an inverse relationship between deletion frequency and deletion size. This work suggests that CRISPR/Cas9 is a robust system to produce a spectrum of genomic deletions to allow investigation of genes and genetic elements. © 2014 by The American Society for Biochemistry and Molecular Biology, Inc.
Toro, Magaly; Cao, Guojie; Ju, Wenting; Allard, Marc; Barrangou, Rodolphe; Zhao, Shaohua; Brown, Eric; Meng, Jianghong
2014-02-01
Shiga toxin-producing Escherichia coli (STEC) strains (n = 194) representing 43 serotypes and E. coli K-12 were examined for clustered regularly interspaced short palindromic repeat (CRISPR) arrays to study genetic relatedness among STEC serotypes. A subset of the strains (n = 81) was further analyzed for subtype I-E cas and virulence genes to determine a possible association of CRISPR elements with potential virulence. Four types of CRISPR arrays were identified. CRISPR1 and CRISPR2 were present in all strains tested; 1 strain also had both CRISPR3 and CRISPR4, whereas 193 strains displayed a short, combined array, CRISPR3-4. A total of 3,353 spacers were identified, representing 528 distinct spacers. The average length of a spacer was 32 bp. Approximately one-half of the spacers (54%) were unique and found mostly in strains of less common serotypes. Overall, CRISPR spacer contents correlated well with STEC serotypes, and identical arrays were shared between strains with the same H type (O26:H11, O103:H11, and O111:H11). There was no association identified between the presence of subtype I-E cas and virulence genes, but the total number of spacers had a negative correlation with potential pathogenicity (P CRISPR-cas system and potential virulence needs to be determined on a broader scale, and the biological link will need to be established.
Yang, Yue; Wang, Haicheng; Xu, Shuyu; Peng, Jing; Jiang, Jiuhui; Li, Cuiying
2015-08-01
To investigate the effect of the fibronectin extra domain A on the aggressiveness of salivary adenoid cystic carcinoma (SACC) cells, via the clustered regularly interspaced short palindromic repeats (CRISPR)/ associated proteins (Cas) system. One sgRNA was designed to target the upstream of the genome sequences of extra domain A(EDA) exon and the downstream. Then the sgRNA was linked into plasmid PX-330 and transfected into SACC-83 cells. PCR and DNA sequence were used to testify the knockout cells, and the monoclones of EDA absent SACC cells were selected (A+C-2, A+C-6, B+C-10). CCK-8 cell proliferation and invasion was then tested in control group and the experimental group. The sgRNA was successfully linked into PX-330 plasmid. Part of adenoid cystic carcinoma cells' SACC-83 genomic EDA exon was knocked out, and the knockdown efficiency was above 70%, but the total amount of fibronectin did not change significantly. Three monoclones of EDA absent SACC- 83 cells were successfully selected with diminished migration and proliferation. The CRISPR/Cas9 system was a simplified system with relatively high knockout efficiency and EDA knockout could inhibiting SACC cell's mobility and invasiveness.
Liu, Fenyun; Kariyawasam, Subhashinie; Jayarao, Bhushan M; Barrangou, Rodolphe; Gerner-Smidt, Peter; Ribot, Efrain M; Knabel, Stephen J; Dudley, Edward G
2011-07-01
Salmonella enterica subsp. enterica serovar Enteritidis is a major cause of food-borne salmonellosis in the United States. Two major food vehicles for S. Enteritidis are contaminated eggs and chicken meat. Improved subtyping methods are needed to accurately track specific strains of S. Enteritidis related to human salmonellosis throughout the chicken and egg food system. A sequence typing scheme based on virulence genes (fimH and sseL) and clustered regularly interspaced short palindromic repeats (CRISPRs)-CRISPR-including multi-virulence-locus sequence typing (designated CRISPR-MVLST)-was used to characterize 35 human clinical isolates, 46 chicken isolates, 24 egg isolates, and 63 hen house environment isolates of S. Enteritidis. A total of 27 sequence types (STs) were identified among the 167 isolates. CRISPR-MVLST identified three persistent and predominate STs circulating among U.S. human clinical isolates and chicken, egg, and hen house environmental isolates in Pennsylvania, and an ST that was found only in eggs and humans. It also identified a potential environment-specific sequence type. Moreover, cluster analysis based on fimH and sseL identified a number of clusters, of which several were found in more than one outbreak, as well as 11 singletons. Further research is needed to determine if CRISPR-MVLST might help identify the ecological origins of S. Enteritidis strains that contaminate chickens and eggs.
Lintner, Nathanael G; Kerou, Melina; Brumfield, Susan K; Graham, Shirley; Liu, Huanting; Naismith, James H; Sdano, Matthew; Peng, Nan; She, Qunxin; Copié, Valérie; Young, Mark J; White, Malcolm F; Lawrence, C Martin
2011-06-17
In response to viral infection, many prokaryotes incorporate fragments of virus-derived DNA into loci called clustered regularly interspaced short palindromic repeats (CRISPRs). The loci are then transcribed, and the processed CRISPR transcripts are used to target invading viral DNA and RNA. The Escherichia coli "CRISPR-associated complex for antiviral defense" (CASCADE) is central in targeting invading DNA. Here we report the structural and functional characterization of an archaeal CASCADE (aCASCADE) from Sulfolobus solfataricus. Tagged Csa2 (Cas7) expressed in S. solfataricus co-purifies with Cas5a-, Cas6-, Csa5-, and Cas6-processed CRISPR-RNA (crRNA). Csa2, the dominant protein in aCASCADE, forms a stable complex with Cas5a. Transmission electron microscopy reveals a helical complex of variable length, perhaps due to substoichiometric amounts of other CASCADE components. A recombinant Csa2-Cas5a complex is sufficient to bind crRNA and complementary ssDNA. The structure of Csa2 reveals a crescent-shaped structure unexpectedly composed of a modified RNA-recognition motif and two additional domains present as insertions in the RNA-recognition motif. Conserved residues indicate potential crRNA- and target DNA-binding sites, and the H160A variant shows significantly reduced affinity for crRNA. We propose a general subunit architecture for CASCADE in other bacteria and Archaea.
Cheng, Man; Jin, Xubin; Mu, Lili; Wang, Fangyu; Li, Wei; Zhong, Xiaoling; Liu, Xuan; Shen, Wenchen; Liu, Ying; Zhou, Yan
2016-09-01
In utero electroporation (IUE) is commonly used to study cortical development of cerebrum by downregulating or overexpressing genes of interest in neural progenitor cells (NPCs) of small mammals. However, exogenous plasmids are lost or diluted over time. Furthermore, gene knockdown based on short-hairpin RNAs may exert nonspecific effects that lead to aberrant neuronal migration. Genomic engineering by the clustered regularly interspaced short palindromic repeats (CRISPR)/CRISPR-associated 9 (Cas9) system has great research and therapeutic potentials. Here we integrate the CRISPR/Cas9 components into the piggyBac (PB) transposon system (the CRISPR/Cas9-PB toolkit) for cortical IUEs. The mouse Sry-related HMG box-2 (Sox2) gene was selected as the target for its application. Most transduced cortical NPCs were depleted of SOX2 protein as early as 3 days post-IUE, whereas expressions of SOX1 and PAX6 remained intact. Furthermore, both the WT Cas9 and the D10A nickase mutant Cas9n showed comparable knockout efficiency. Transduced cortical cells were purified with fluorescence-activated cell sorting, and effective gene editing at the Sox2 loci was confirmed. Thus, application of the CRISPR/Cas9-PB toolkit in IUE is a promising strategy to study gene functions in cortical NPCs and their progeny. © 2016 Wiley Periodicals, Inc. © 2016 Wiley Periodicals, Inc.
Chen, Shuqing; Hou, Chengxiang; Bi, Honglun; Wang, Yueqiang; Xu, Jun; Li, Muwang; James, Anthony A; Huang, Yongping; Tan, Anjiang
2017-04-15
We developed a novel antiviral strategy by combining transposon-based transgenesis and the clustered regularly interspaced short palindromic repeats (CRISPR)/CRISPR-associated 9 (Cas9) system for the direct cleavage of Bombyx mori nucleopolyhedrovirus (BmNPV) genome DNA to promote virus clearance in silkworms. We demonstrate that transgenic silkworms constitutively expressing Cas9 and guide RNAs targeting the BmNPV immediate early-1 ( ie-1 ) and me53 genes effectively induce target-specific cleavage and subsequent mutagenesis, especially large (∼7-kbp) segment deletions in BmNPV genomes, and thus exhibit robust suppression of BmNPV proliferation. Transgenic animals exhibited higher and inheritable resistance to BmNPV infection than wild-type animals. Our approach will not only contribute to modern sericulture but also shed light on future antiviral therapy. IMPORTANCE Pathogen genome targeting has shown its potential in antiviral research. However, transgenic CRISPR/Cas9 system-mediated viral genome targeting has not been reported as an antiviral strategy in a natural animal host of a virus. Our data provide an effective approach against BmNPV infection in a real-world biological system and demonstrate the potential of transgenic CRISPR/Cas9 systems in antiviral research in other species. Copyright © 2017 Chen et al.
Energy Technology Data Exchange (ETDEWEB)
Nam, Ki Hyun; Kurinov, Igor; Ke, Ailong (Cornell); (NWU)
2012-05-22
Clustered regularly interspaced short palindromic repeats (CRISPR) and their associated protein genes (cas genes) are widespread in bacteria and archaea. They form a line of RNA-based immunity to eradicate invading bacteriophages and malicious plasmids. A key molecular event during this process is the acquisition of new spacers into the CRISPR loci to guide the selective degradation of the matching foreign genetic elements. Csn2 is a Nmeni subtype-specific cas gene required for new spacer acquisition. Here we characterize the Enterococcus faecalis Csn2 protein as a double-stranded (ds-) DNA-binding protein and report its 2.7 {angstrom} tetrameric ring structure. The inner circle of the Csn2 tetrameric ring is {approx}26 {angstrom} wide and populated with conserved lysine residues poised for nonspecific interactions with ds-DNA. Each Csn2 protomer contains an {alpha}/{beta} domain and an {alpha}-helical domain; significant hinge motion was observed between these two domains. Ca{sup 2+} was located at strategic positions in the oligomerization interface. We further showed that removal of Ca{sup 2+} ions altered the oligomerization state of Csn2, which in turn severely decreased its affinity for ds-DNA. In summary, our results provided the first insight into the function of the Csn2 protein in CRISPR adaptation by revealing that it is a ds-DNA-binding protein functioning at the quaternary structure level and regulated by Ca{sup 2+} ions.
Kato-Inui, Tomoko; Takahashi, Gou; Hsu, Szuyin; Miyaoka, Yuichiro
2018-05-18
Genome editing using clustered regularly interspaced short palindromic repeats (CRISPR)/CRISPR-associated protein 9 (Cas9) predominantly induces non-homologous end joining (NHEJ), which generates random insertions or deletions, whereas homology-directed repair (HDR), which generates precise recombination products, is useful for wider applications. However, the factors that determine the ratio of HDR to NHEJ products after CRISPR/Cas9 editing remain unclear, and methods by which the proportion of HDR products can be increased have not yet been fully established. We systematically analyzed the HDR and NHEJ products after genome editing using various modified guide RNAs (gRNAs) and Cas9 variants with an enhanced conformational checkpoint to improve the fidelity at endogenous gene loci in HEK293T cells and HeLa cells. We found that these modified gRNAs and Cas9 variants were able to enhance HDR in both single-nucleotide substitutions and a multi-kb DNA fragment insertion. Our results suggest that the original CRISPR/Cas9 system from the bacterial immune system is not necessarily the best option for the induction of HDR in genome editing and indicate that the modulation of the kinetics of conformational checkpoints of Cas9 can optimize the HDR/NHEJ ratio.
Mulepati, Sabin; Bailey, Scott
2011-09-09
RNA transcribed from clustered regularly interspaced short palindromic repeats (CRISPRs) protects many prokaryotes from invasion by foreign DNA such as viruses, conjugative plasmids, and transposable elements. Cas3 (CRISPR-associated protein 3) is essential for this CRISPR protection and is thought to mediate cleavage of the foreign DNA through its N-terminal histidine-aspartate (HD) domain. We report here the 1.8 Å crystal structure of the HD domain of Cas3 from Thermus thermophilus HB8. Structural and biochemical studies predict that this enzyme binds two metal ions at its active site. We also demonstrate that the single-stranded DNA endonuclease activity of this T. thermophilus domain is activated not by magnesium but by transition metal ions such as manganese and nickel. Structure-guided mutagenesis confirms the importance of the metal-binding residues for the nuclease activity and identifies other active site residues. Overall, these results provide a framework for understanding the role of Cas3 in the CRISPR system.
The geometric β-function in curved space-time under operator regularization
Energy Technology Data Exchange (ETDEWEB)
Agarwala, Susama [Mathematical Institute, Oxford University, Oxford OX2 6GG (United Kingdom)
2015-06-15
In this paper, I compare the generators of the renormalization group flow, or the geometric β-functions, for dimensional regularization and operator regularization. I then extend the analysis to show that the geometric β-function for a scalar field theory on a closed compact Riemannian manifold is defined on the entire manifold. I then extend the analysis to find the generator of the renormalization group flow to conformally coupled scalar-field theories on the same manifolds. The geometric β-function in this case is not defined.
The geometric β-function in curved space-time under operator regularization
International Nuclear Information System (INIS)
Agarwala, Susama
2015-01-01
In this paper, I compare the generators of the renormalization group flow, or the geometric β-functions, for dimensional regularization and operator regularization. I then extend the analysis to show that the geometric β-function for a scalar field theory on a closed compact Riemannian manifold is defined on the entire manifold. I then extend the analysis to find the generator of the renormalization group flow to conformally coupled scalar-field theories on the same manifolds. The geometric β-function in this case is not defined
Effects of repeated simulated removal activities on feral swine movements and space use
Fischer, Justin W.; McMurtry , Dan; Blass, Chad R.; Walter, W. David; Beringer, Jeff; VerCauterren, Kurt C.
2016-01-01
Abundance and distribution of feral swine (Sus scrofa) in the USA have increased dramatically during the last 30 years. Effective measures are needed to control and eradicate feral swine populations without displacing animals over wider areas. Our objective was to investigate effects of repeated simulated removal activities on feral swine movements and space use. We analyzed location data from 21 feral swine that we fitted with Global Positioning System harnesses in southern MO, USA. Various removal activities were applied over time to eight feral swine before lethal removal, including trapped-and-released, chased with dogs, chased with hunter, and chased with helicopter. We found that core space-use areas were reduced following the first removal activity, whereas overall space-use areas and diurnal movement distances increased following the second removal activity. Mean geographic centroid shifts did not differ between pre- and post-periods for either the first or second removal activities. Our information on feral swine movements and space use precipitated by human removal activities, such as hunting, trapping, and chasing with dogs, helps fill a knowledge void and will aid wildlife managers. Strategies to optimize management are needed to reduce feral swine populations while preventing enlarged home ranges and displacing individuals, which could lead to increased disease transmission risk and human-feral swine conflict in adjacent areas.
Ostria-Hernández, Martha Lorena; Sánchez-Vallejo, Carlos Javier; Ibarra, J Antonio; Castro-Escarpulli, Graciela
2015-08-04
In recent years the emergence of multidrug resistant Klebsiella pneumoniae strains has been an increasingly common event. This opportunistic species is one of the five main bacterial pathogens that cause hospital infections worldwide and multidrug resistance has been associated with the presence of high molecular weight plasmids. Plasmids are generally acquired through horizontal transfer and therefore is possible that systems that prevent the entry of foreign genetic material are inactive or absent. One of these systems is CRISPR/Cas. However, little is known regarding the clustered regularly interspaced short palindromic repeats and their associated Cas proteins (CRISPR/Cas) system in K. pneumoniae. The adaptive immune system CRISPR/Cas has been shown to limit the entry of foreign genetic elements into bacterial organisms and in some bacteria it has been shown to be involved in regulation of virulence genes. Thus in this work we used bioinformatics tools to determine the presence or absence of CRISPR/Cas systems in available K. pneumoniae genomes. The complete CRISPR/Cas system was identified in two out of the eight complete K. pneumoniae genomes sequences and in four out of the 44 available draft genomes sequences. The cas genes in these strains comprises eight cas genes similar to those found in Escherichia coli, suggesting they belong to the type I-E group, although their arrangement is slightly different. As for the CRISPR sequences, the average lengths of the direct repeats and spacers were 29 and 33 bp, respectively. BLAST searches demonstrated that 38 of the 116 spacer sequences (33%) are significantly similar to either plasmid, phage or genome sequences, while the remaining 78 sequences (67%) showed no significant similarity to other sequences. The region where the CRISPR/Cas systems were located is the same in all the Klebsiella genomes containing it, it has a syntenic architecture, and is located among genes encoding for proteins likely involved in
Directory of Open Access Journals (Sweden)
Grazyna Wójcik
2009-12-01
Full Text Available There are a lot of factors affecting the release of hormones from the anterior part of pituitary gland and their interactions with other parts of the endocrine, nervous and immune systems. The special significance of the proestrus phase of the estrous cycle of the rat, during which LH and FSH levels increase, followed by ovulation is known. The short length of the estrous cycle and the well recognized sequence of vaginal lavage cytology make it useful for investigating the influence of a stressful environment on the reproductive function. Short duration and mild changes in environmental conditions is considered as a factor analogous to psychological stress. The study was undertaken to determine the effects of a short duration change in the ambient temperature and oxygenation (30 minutes on the proestrus phase of reproductive cycle and on the repeatability and regularity of phases of the reproductive cycle of Wistar strain rats. The animals were kept under standard conditions and had food and water available ad libitum. The climatic chamber with automatically adjustable and monitored internal parameters (temperature, oxygenation, humidity was used to develop stress conditions. An estimation of the vaginal lavage using the microscope was done to determine the estrous cycle. The animals were divided into 6 groups. On the day of experiment: the control group (CG stayed in the climatic chamber for 30 minutes (ambient temperature 21 degrees C, normoxia - 21% O(2, the five test groups (TG - I - V remained in the climatic chamber for 30 minutes, in the established environmental conditions (I - 21 degrees C, 10% O(2; II - 10 degrees C, 21% O(2; III - 10 degrees C, 10% O(2; IV - 35 degrees C, 21% O(2; V - 35 degrees C, 10% O(2. During the following days after the experiment, a microscopic estimation of vaginal lavage was collected over again. There were no changes of duration and sequence of the present estrous cycle and repeatability of the next cycles
Tong, Zhongchun; Du, Yu; Ling, Junqi; Huang, Lijia; Ma, Jinglei
2017-12-01
A high prevalence of Enterococcus faecalis ( E. faecalis ) is observed in teeth with root canal treatment failures. Clustered regularly interspaced short palindromic repeats (CRISPR) are widely distributed in prokaryotes that have adaptive immune systems against mobile elements, including pathogenic genes. The present study investigated the relevance of the CRISPR in E. faecalis strains isolated from retreated root canals on biofilms, periapical lesions and drug resistance. A total of 20 E. faecalis strains were extracted from the root canals of teeth referred for root canal retreatment. CRISPR-Cas loci were identified by two pairs of relevant primers and polymerase chain reaction. The susceptibility of the 20 isolated strains to intracanal irrigants was evaluated by 1- and 5-minute challenges with a mixture of a tetracycline isomer, an acid and a detergent (MTAD), 2% chlorhexidine (CHX) and 5.25% sodium hypochlorite (NaOCl). The microtiter plate assay and crystal violet staining were used to compare the biofilm formation of the E. faecalis isolate strains. Out of the 20 E. faecalis isolate strains, 5 strains that lacked CRISPR-cas determinants exhibited significant periapical lesions. Among the 15 strains containing CRISPR-cas determinants, 8 were isolated from root canals with inadequate fillings and 7 were isolated from root canals without any fillings. The five strains lacking CRISPR-cas loci were observed to be more resistant to MTAD and 2% CHX than the 15 strains that had CRISPR-cas loci. All of the strains exhibited the same susceptibility to 5.25% NaOCl. Furthermore, the 5 strains lacking CRISPR-cas determinants generated more biofilm than the other 15 strains. Thus, the results of the present study suggested that E. faecalis root canal isolates lacking CRISPR-cas exhibit higher resistance to intracanal irrigants, stronger biofilm formation and generate significant periapical lesions.
Yin, Shuang; Jensen, Mark A; Bai, Jiawei; Debroy, Chitrita; Barrangou, Rodolphe; Dudley, Edward G
2013-09-01
The Shiga toxin-producing Escherichia coli (STEC) strains, including those of O157:H7 and the "big six" serogroups (i.e., serogroups O26, O45, O103, O111, O121, and O145), are a group of pathogens designated food adulterants in the United States. The relatively conserved nature of clustered regularly interspaced short palindromic repeats (CRISPRs) in phylogenetically related E. coli strains makes them potential subtyping markers for STEC detection, and a quantitative PCR (qPCR)-based assay was previously developed for O26:H11, O45:H2, O103:H2, O111:H8, O121:H19, O145:H28, and O157:H7 isolates. To better evaluate the sensitivity and specificity of this qPCR method, the CRISPR loci of 252 O157 and big-six STEC isolates were sequenced and analyzed along with 563 CRISPR1 and 624 CRISPR2 sequences available in GenBank. General conservation of spacer content and order was observed within each O157 and big-six serogroup, validating the qPCR method. Meanwhile, it was found that spacer deletion, the presence of an insertion sequence, and distinct alleles within a serogroup are sources of false-negative reactions. Conservation of CRISPR arrays among isolates expressing the same flagellar antigen, specifically, H7, H2, and H11, suggested that these isolates share an ancestor and provided an explanation for the false positives previously observed in the qPCR results. An analysis of spacer distribution across E. coli strains provided limited evidence for temporal spacer acquisition. Conversely, comparison of CRISPR sequences between strains along the stepwise evolution of O157:H7 from its O55:H7 ancestor revealed that, over this ∼7,000-year span, spacer deletion was the primary force generating CRISPR diversity.
Ren, Lu; Deng, Lin-Hua; Zhang, Ri-Peng; Wang, Cheng-Dong; Li, De-Sheng; Xi, Li-Xin; Chen, Zhen-Rong; Yang, Rui; Huang, Jie; Zeng, Yang-Ru; Wu, Hong-Lin; Cao, San-Jie; Wu, Rui; Huang, Yong; Yan, Qi-Gui
2017-02-01
To detect drug resistance in Shigella obtained from the dung of the giant panda, explore the factors leading to drug resistance in Shigella, understand the characteristics of clustered, regularly interspaced, short, palindromic repeats (CRISPR), and assess the relationship between CRISPR and drug resistance. We collected fresh feces from 27 healthy giant pandas in the Giant Panda Conservation base (Wolong, China). We identified the strains of Shigella in the samples by using nucleotide sequence analysis. Further, the Kirby-Bauer paper method was used to determine drug sensitivity of the Shigella strains. CRISPR-associated protein genes cas1 and cas2 in Shigella were detected by polymerase chain reaction (PCR), and the PCR products were sequenced and compared. We isolated and identified 17 strains of Shigella from 27 samples, including 14 strains of Shigella flexneri, 2 strains of Shigella sonnei, and 1 strain of Shigella dysenteriae. Further, drug resistance to cefazolin, imipenem, and amoxicillin-clavulanic acid was identified as a serious problem, as multidrug-resistant strains were detected. Further, cas1 and cas2 showed different degrees of point mutations. The CRISPR system widely exists in Shigella and shares homology with that in Escherichia coli. The cas1 and cas 2 mutations contribute to the different levels of resistance. Point mutations at sites 3176455, 3176590, and 3176465 in cas1 (a); sites 3176989, 3176992, and 3176995 in cas1 (b); sites 3176156 and 3176236 in cas2 may affect the resistance of bacteria, cause emergence of multidrug resistance, and increase the types of drug resistance.
Mandai, Shintaro; Mori, Takayasu; Sohara, Eisei; Rai, Tatemitsu; Uchida, Shinichi
2015-12-01
Previous genome-wide association studies identified serine threonine kinase 39 (STK39), encoding STE20/SPS1-related proline/alanine-rich kinase, as one of a limited number of hypertension susceptibility genes. A recent meta-analysis confirmed the association of STK39 intronic polymorphism rs3754777 with essential hypertension, among previously reported hypertension-associated STK39 polymorphisms. However, the biochemical function of this polymorphism in the mechanism responsible for hypertension is yet to be clarified. We generated rs3754777G>A knockin human cell lines with clustered regularly interspaced short palindromic repeats-mediated genome engineering. Homozygous (A/A) and heterozygous (G/A) knockin human embryonic kidney cell lines were generated using a double nickase, single-guide RNAs targeting STK39 intron 5 around single-nucleotide polymorphism, and a 100-bp donor single-stranded DNA oligonucleotide. Reverse transcription polymerase chain reaction with sequencing analyses revealed the identical STK39 transcripts among the wild-type and both knockin cell lines. Quantitative reverse transcription polymerase chain reaction showed increased STK39 mRNA expression, and immunoblot analysis revealed increases in total and phosphorylated STE20/SPS1-related proline/alanine-rich kinase with increased phosphorylated Na-K-Cl cotransporter isoform 1 in both knockin cell lines. The largest increases in these molecules were observed in the homozygous cell line. These findings indicated that this intronic polymorphism increases STK39 transcription, leading to activation of the STE20/SPS1-related proline/alanine-rich kinase-solute carrier family 12A signaling cascade. Increased interactions between STE20/SPS1-related proline/alanine-rich kinase and the target cation-chloride cotransporters may be responsible for hypertension susceptibility in individuals with this polymorphism. © 2015 American Heart Association, Inc.
Ito's formula in UMD Banach spaces and regularity of solution of the Zakai equation
Brzezniak, Z.; Van Neerven, J.M.A.M.; Veraar, M.C.; Weis, L.
2008-01-01
Using the theory of stochastic integration for processes with values in a UMD Banach space developed recently by the authors, an Itô formula is proved which is applied to prove the existence of strong solutions for a class of stochastic evolution equations in UMD Banach spaces. The abstract results
Self-calibration for lab-μCT using space-time regularized projection-based DVC and model reduction
Jailin, C.; Buljac, A.; Bouterf, A.; Poncelet, M.; Hild, F.; Roux, S.
2018-02-01
An online calibration procedure for x-ray lab-CT is developed using projection-based digital volume correlation. An initial reconstruction of the sample is positioned in the 3D space for every angle so that its projection matches the initial one. This procedure allows a space-time displacement field to be estimated for the scanned sample, which is regularized with (i) rigid body motions in space and (ii) modal time shape functions computed using model reduction techniques (i.e. proper generalized decomposition). The result is an accurate identification of the position of the sample adapted for each angle, which may deviate from the desired perfect rotation required for standard reconstructions. An application of this procedure to a 4D in situ mechanical test is shown. The proposed correction leads to a much improved tomographic reconstruction quality.
Intrinsic Regularization in a Lorentz invariant non-orthogonal Euclidean Space
Tornow, Carmen
2006-01-01
It is shown that the Lorentz transformations can be derived for a non-orthogonal Euclidean space. In this geometry one finds the same relations of special relativity as the ones known from the orthogonal Minkowski space. In order to illustrate the advantage of a non-orthogonal Euclidean metric the two-point Green’s function at x = 0 for a self-interacting scalar field is calculated. In contrast to the Minkowski space the one loop mass correction derived from this function gives a convergent r...
Hargreaves, Katherine R; Flores, Cesar O; Lawley, Trevor D; Clokie, Martha R J
2014-08-26
Clostridium difficile is an important human-pathogenic bacterium causing antibiotic-associated nosocomial infections worldwide. Mobile genetic elements and bacteriophages have helped shape C. difficile genome evolution. In many bacteria, phage infection may be controlled by a form of bacterial immunity called the clustered regularly interspaced short palindromic repeats/CRISPR-associated (CRISPR/Cas) system. This uses acquired short nucleotide sequences (spacers) to target homologous sequences (protospacers) in phage genomes. C. difficile carries multiple CRISPR arrays, and in this paper we examine the relationships between the host- and phage-carried elements of the system. We detected multiple matches between spacers and regions in 31 C. difficile phage and prophage genomes. A subset of the spacers was located in prophage-carried CRISPR arrays. The CRISPR spacer profiles generated suggest that related phages would have similar host ranges. Furthermore, we show that C. difficile strains of the same ribotype could either have similar or divergent CRISPR contents. Both synonymous and nonsynonymous mutations in the protospacer sequences were identified, as well as differences in the protospacer adjacent motif (PAM), which could explain how phages escape this system. This paper illustrates how the distribution and diversity of CRISPR spacers in C. difficile, and its prophages, could modulate phage predation for this pathogen and impact upon its evolution and pathogenicity. Clostridium difficile is a significant bacterial human pathogen which undergoes continual genome evolution, resulting in the emergence of new virulent strains. Phages are major facilitators of genome evolution in other bacterial species, and we use sequence analysis-based approaches in order to examine whether the CRISPR/Cas system could control these interactions across divergent C. difficile strains. The presence of spacer sequences in prophages that are homologous to phage genomes raises an
Heussler, Gary E; Cady, Kyle C; Koeppen, Katja; Bhuju, Sabin; Stanton, Bruce A; O'Toole, George A
2015-05-12
The clustered regularly interspaced short palindromic repeat (CRISPR)/CRISPR-associated (CRISPR/Cas) system is an adaptive immune system present in many archaea and bacteria. CRISPR/Cas systems are incredibly diverse, and there is increasing evidence of CRISPR/Cas systems playing a role in cellular functions distinct from phage immunity. Previously, our laboratory reported one such alternate function in which the type 1-F CRISPR/Cas system of the opportunistic pathogen Pseudomonas aeruginosa strain UCBPP-PA14 (abbreviated as P. aeruginosa PA14) inhibits both biofilm formation and swarming motility when the bacterium is lysogenized by the bacteriophage DMS3. In this study, we demonstrated that the presence of just the DMS3 protospacer and the protospacer-adjacent motif (PAM) on the P. aeruginosa genome is necessary and sufficient for this CRISPR-dependent loss of these group behaviors, with no requirement of additional DMS3 sequences. We also demonstrated that the interaction of the CRISPR system with the DMS3 protospacer induces expression of SOS-regulated phage-related genes, including the well-characterized pyocin operon, through the activity of the nuclease Cas3 and subsequent RecA activation. Furthermore, our data suggest that expression of the phage-related genes results in bacterial cell death on a surface due to the inability of the CRISPR-engaged strain to downregulate phage-related gene expression, while these phage-related genes have minimal impact on growth and viability under planktonic conditions. Deletion of the phage-related genes restores biofilm formation and swarming motility while still maintaining a functional CRISPR/Cas system, demonstrating that the loss of these group behaviors is an indirect effect of CRISPR self-targeting. The various CRISPR/Cas systems found in both archaea and bacteria are incredibly diverse, and advances in understanding the complex mechanisms of these varied systems has not only increased our knowledge of host
Directory of Open Access Journals (Sweden)
V. G. Margaryan
2017-12-01
Full Text Available The regularities of the space-temporal distribution of the radiation balance of the underlying surface for the conditions of the mountainous territory of the Republic of Armenia were discussed and analyzed.
Regularities of magnetic field penetration into half-space in type-II superconductors
International Nuclear Information System (INIS)
Medvedev, Yu.V.; Krasnyuk, I.B.
2003-01-01
The equations, modeling the distributions of the magnetic field induction and current density in the half-space with an account of the exponential volt-ampere characteristics, are obtained. The velocity of the magnetization front propagation by the assigned average rate of the change by the time of the external magnetic field at the sample boundary is determined. The integral condition for the electric resistance, nonlinearly dependent on the magnetic field, by accomplishing whereof the magnetic flux penetrates into the sample with the finite velocity is indicated. The analytical representation of the equation with the exponential boundary mode, which models the change in the magnetic field at the area boundary, is pointed out [ru
Localization instability and the origin of regularly- spaced faults in planetary lithospheres
Montesi, Laurent Gilbert Joseph
2002-10-01
Brittle deformation is not distributed uniformly in planetary lithospheres but is instead localized on faults and ductile shear zones. In some regions such as the Central Indian Basin or martian ridged plains, localized shear zones display a characteristic spacing. This pattern can constrain the mechanical structure of the lithosphere if a model that includes the development of localized shear zones and their interaction with the non- localizing levels of the lithosphere is available. I construct such a model by modifying the buckling analysis of a mechanically-stratified lithosphere idealization, by allowing for rheologies that have a tendency to localize. The stability of a rheological system against localization is indicated by its effective stress exponent, ne. That quantity must be negative for the material to have a tendency to localize. I show that a material deforming brittly or by frictional sliding has ne mechanical properties. When this model is subjected to horizontal extension or compression, infinitesimal perturbation of its interfaces grow at a rate that depends on their wavelength. Two superposed instabilities develop if ne Cambridge, MA 02139-4307. Ph. 617-253-5668; Fax 617-253- 1690.)
Li, Wan; Bian, Xin; Evivie, Smith Etareri; Huo, Gui-Cheng
2016-09-01
The CRISPR-Cas (CRISPR together with CRISPR-associated proteins) modules are the adaptive immune system, acting as an adaptive and heritable immune system in bacteria and archaea. CRISPR-based immunity acts by integrating short virus sequences in the cell's CRISPR locus, allowing the cell to remember, recognize, and clear infections. In this study, the homology of CRISPRs sequence in BIMs (bacteriophage-insensitive mutants) of Streptococcus thermophilus St-I were analyzed. Secondary structures of the repeats and the PAMs (protospacer-associated motif) of each CRISPR locus were also predicted. Results showed that CRISPR1 has 27 repeat-spacer units, 5 of them had duplicates; CRISPR2 has one repeat-spacer unit; CRISPR3 has 28 repeat-spacer units. Only BIM1 had a new spacer acquisition in CRISPR3, while BIM2 and BIM3 had no new spacers' insertion, thus indicating that while most CRISPR1 were more active than CRISPR3, new spacer acquisition occurred just in CRSPR3 in some situations. These findings will help establish the foundation for the study of CRSPR-Cas systems in lactic acid bacteria.
Cunha, Eva S; Hatem, Christine L; Barrick, Doug
2016-08-01
Biomass deconstruction to small simple sugars is a potential approach to biofuels production; however, the highly recalcitrant nature of biomass limits the economic viability of this approach. Thus, research on efficient biomass degradation is necessary to achieve large-scale production of biofuels. Enhancement of cellulolytic activity by increasing synergism between cellulase enzymes holds promise in achieving high-yield biofuels production. Here we have inserted cellulase pairs from extremophiles into hyperstable α-helical consensus ankyrin repeat domain scaffolds. Such chimeric constructs allowed us to optimize arrays of enzyme pairs against a variety of cellulolytic substrates. We found that endocellulolytic domains CelA (CA) and Cel12A (C12A) act synergistically in the context of ankyrin repeats, with both three and four repeat spacing. The extent of synergy differs for different substrates. Also, having C12A N-terminal to CA provides greater synergy than the reverse construct, especially against filter paper. In contrast, we do not see synergy for these enzymes in tandem with CelK (CK) catalytic domain, a larger exocellulase, demonstrating the importance of enzyme identity in synergistic enhancement. Furthermore, we found endocellulases CelD and CA with three repeat spacing to act synergistically against filter paper. Importantly, connecting CA and C12A with a disordered linker of similar contour length shows no synergistic enhancement, indicating that synergism results from connecting these domains with folded ankyrin repeats. These results show that ankyrin arrays can be used to vary spacing and orientation between enzymes, helping to design and optimize artificial cellulosomes, providing a novel architecture for synergistic enhancement of enzymatic cellulose degradation. Proteins 2016; 84:1043-1054. © 2016 Wiley Periodicals, Inc. © 2016 Wiley Periodicals, Inc.
International Nuclear Information System (INIS)
Nakawaki, Yuji; McCartor, Gary
2006-01-01
We construct a new perturbative formulation of pure space-like axial gauge QED in which the inherent infrared divergences are regularized by residual gauge fields. For this purpose, we carry out our calculations in the coordinates x μ =(x + , x - , x 1 , x 2 ), where x + =x 0 sinθ + x 3 cosθ and x - = x 0 cosθ - x 3 sinθ. Here, A=A 0 cosθ + A 3 sinθ = n·A=0 is taken as the gauge fixing condition. We show in detail that, in perturbation theory, infrared divergences resulting from the residual gauge fields cancel infrared divergences resulting from the physical parts of the gauge field. As a result, we obtain the gauge field propagator proposed by Mandelstam and Leibbrandt. By taking the limit θ→π/4, we are able to construct a light-cone formulation that is free from infrared divergences. With that analysis complete, we next calculate the one-loop electron self-energy, something not previously done in the light-cone quantization and light-cone gauge. (author)
Space geodetic observations of repeating slow slip events beneath the Bonin Islands
Arisa, Deasy; Heki, Kosuke
2017-09-01
The Pacific Plate subducts beneath the Philippine Sea Plate along the Izu-Bonin Trench. We investigated crustal movements at the Bonin Islands, using Global Navigation Satellite System and geodetic Very Long Baseline Interferometry data to reveal how the two plates converge in this subduction zone. These islands are located ∼100 km from the trench, just at the middle between the volcanic arc and the trench, making these islands suitable for detecting signatures of episodic deformation such as slow slip events (SSEs). During 2007-2016, we found five SSEs repeating quasi-periodically with similar displacement patterns. In estimating their fault parameters, we assumed that the fault lies on the prescribed plate boundary, and optimized the size, shape and position of the fault and dislocation vectors. Average fault slip was ∼5 cm, and the average moment magnitude was ∼6.9. We also found one SSE occurred in 2008 updip of the repeating SSE in response to an M6 class interplate earthquake. In spite of the frequent occurrence of SSEs, there is no evidence for long-term strain accumulation in the Bonin Islands that may lead to future megathrust earthquakes. Plate convergence in Mariana-type subduction zones may occur, to a large extent, episodically as repeating SSEs.
On-Chip Quantum Repeater in Diamond for Space-Based Quantum Communication
National Aeronautics and Space Administration — The focus of my research is on the optical properties of diamond. A diamond is composed of a crystal arrangement of carbon atoms and it is this structure that gives...
George, Kerry A.; Cucinotta, Francis A.
2009-01-01
The yield of chromosome damage in astronauts blood lymphocytes has been shown to increase after long duration space missions of a few months or more. This provides a useful in vivo measurement of space radiation induced damage that takes into account individual radiosensitivity and considers the influence of microgravity and other stress conditions. We present our latest follow-up analyses of chromosome damage in astronauts blood lymphocytes assessed by fluorescence in situ hybridization (FISH) chromosome painting and collected at various times, from directly after return from space to several years after flight. For most individuals the analysis of individual time-courses for translocations revealed a temporal decline of yields with different half-lives. Dose was derived from frequencies of chromosome exchanges using preflight calibration curves, and estimates derived from samples collected a few days after return to earth lie within the range expected from physical dosimetry. However, a temporal decline in yields may indicate complications with the use of stable aberrations for retrospective dose reconstruction, and the differences in the decay time may reflect individual variability in risk from space radiation exposure. Limited data on three individuals who have participated in repeat long duration space flights indicates a lack of correlation between time in space and translocation yields, and show a possible adaptive response to space radiation exposure.
International Nuclear Information System (INIS)
Kyed, Mads
2014-01-01
The existence, uniqueness and regularity of time-periodic solutions to the Navier–Stokes equations in the three-dimensional whole space are investigated. We consider the Navier–Stokes equations with a non-zero drift term corresponding to the physical model of a fluid flow around a body that moves with a non-zero constant velocity. The existence of a strong time-periodic solution is shown for small time-periodic data. It is further shown that this solution is unique in a large class of weak solutions that can be considered physically reasonable. Finally, we establish regularity properties for any strong solution regardless of its size. (paper)
Zhou, Zhongxing; Gao, Feng; Zhao, Huijuan; Zhang, Lixin
2012-11-21
New x-ray phase contrast imaging techniques without using synchrotron radiation confront a common problem from the negative effects of finite source size and limited spatial resolution. These negative effects swamp the fine phase contrast fringes and make them almost undetectable. In order to alleviate this problem, deconvolution procedures should be applied to the blurred x-ray phase contrast images. In this study, three different deconvolution techniques, including Wiener filtering, Tikhonov regularization and Fourier-wavelet regularized deconvolution (ForWaRD), were applied to the simulated and experimental free space propagation x-ray phase contrast images of simple geometric phantoms. These algorithms were evaluated in terms of phase contrast improvement and signal-to-noise ratio. The results demonstrate that the ForWaRD algorithm is most appropriate for phase contrast image restoration among above-mentioned methods; it can effectively restore the lost information of phase contrast fringes while reduce the amplified noise during Fourier regularization.
International Nuclear Information System (INIS)
Carneiro, David; Sampaio, Marcos; Nemes, Maria Carolina; Scarpelli, Antonio Paulo Baeta
2003-01-01
We compute the three loop β function of the Wess-Zumino model to motivate implicit regularization (IR) as a consistent and practical momentum-space framework to study supersymmetric quantum field theories. In this framework which works essentially in the physical dimension of the theory we show that ultraviolet are clearly disentangled from infrared divergences. We obtain consistent results which motivate the method as a good choice to study supersymmetry anomalies in quantum field theories. (author)
Energy Technology Data Exchange (ETDEWEB)
Kumagai, Tomo' omi; Mudd, Ryan; Miyazawa, Yoshiyuki; Liu, Wen; Giambelluca, Thomas; Kobayashi, N.; Lim, Tiva Khan; Jomura, Mayuko; Matsumoto, Kazuho; Huang, Maoyi; Chen, Qi; Ziegler, Alan; Yin, Song
2013-09-10
We developed a soil-vegetation-atmosphere transfer (SVAT) model applicable to simulating CO2 and H2O fluxes from the canopies of rubber plantations, which are characterized by distinct canopy clumping produced by regular spacing of plantation trees. Rubber (Hevea brasiliensis Müll. Arg.) plantations, which are rapidly expanding into both climatically optimal and sub-optimal environments throughout mainland Southeast Asia, potentially change the partitioning of water, energy, and carbon at multiple scales, compared with traditional land covers it is replacing. Describing the biosphere-atmosphere exchange in rubber plantations via SVAT modeling is therefore essential to understanding the impacts on environmental processes. The regular spacing of plantation trees creates a peculiar canopy structure that is not well represented in most SVAT models, which generally assumes a non-uniform spacing of vegetation. Herein we develop a SVAT model applicable to rubber plantation and an evaluation method for its canopy structure, and examine how the peculiar canopy structure of rubber plantations affects canopy CO2 and H2O exchanges. Model results are compared with measurements collected at a field site in central Cambodia. Our findings suggest that it is crucial to account for intensive canopy clumping in order to reproduce observed rubber plantation fluxes. These results suggest a potentially optimal spacing of rubber trees to produce high productivity and water use efficiency.
van Duijn, Esther; Barbu, Ioana M; Barendregt, Arjan; Jore, Matthijs M; Wiedenheft, Blake; Lundgren, Magnus; Westra, Edze R; Brouns, Stan J J; Doudna, Jennifer A; van der Oost, John; Heck, Albert J R
2012-11-01
The CRISPR/Cas (clustered regularly interspaced short palindromic repeats/CRISPR-associated genes) immune system of bacteria and archaea provides acquired resistance against viruses and plasmids, by a strategy analogous to RNA-interference. Key components of the defense system are ribonucleoprotein complexes, the composition of which appears highly variable in different CRISPR/Cas subtypes. Previous studies combined mass spectrometry, electron microscopy, and small angle x-ray scattering to demonstrate that the E. coli Cascade complex (405 kDa) and the P. aeruginosa Csy-complex (350 kDa) are similar in that they share a central spiral-shaped hexameric structure, flanked by associating proteins and one CRISPR RNA. Recently, a cryo-electron microscopy structure of Cascade revealed that the CRISPR RNA molecule resides in a groove of the hexameric backbone. For both complexes we here describe the use of native mass spectrometry in combination with ion mobility mass spectrometry to assign a stable core surrounded by more loosely associated modules. Via computational modeling subcomplex structures were proposed that relate to the experimental IMMS data. Despite the absence of obvious sequence homology between several subunits, detailed analysis of sub-complexes strongly suggests analogy between subunits of the two complexes. Probing the specific association of E. coli Cascade/crRNA to its complementary DNA target reveals a conformational change. All together these findings provide relevant new information about the potential assembly process of the two CRISPR-associated complexes.
Duan, Yajian; Ma, Gaoen; Huang, Xionggao; D'Amore, Patricia A; Zhang, Feng; Lei, Hetian
2016-07-29
The G309 allele of SNPs in the mouse double minute (MDM2) promoter locus is associated with a higher risk of cancer and proliferative vitreoretinopathy (PVR), but whether SNP G309 contributes to the pathogenesis of PVR is to date unknown. The clustered regularly interspaced short palindromic repeats (CRISPR)-associated endonuclease (Cas) 9 from Streptococcus pyogenes (SpCas9) can be harnessed to manipulate a single or multiple nucleotides in mammalian cells. Here we delivered SpCas9 and guide RNAs using dual adeno-associated virus-derived vectors to target the MDM2 genomic locus together with a homologous repair template for creating the mutation of MDM2 T309G in human primary retinal pigment epithelial (hPRPE) cells whose genotype is MDM2 T309T. The next-generation sequencing results indicated that there was 42.51% MDM2 G309 in the edited hPRPE cells using adeno-associated viral CRISPR/Cas9. Our data showed that vitreous induced an increase in MDM2 and subsequent attenuation of p53 expression in MDM2 T309G hPRPE cells. Furthermore, our experimental results demonstrated that MDM2 T309G in hPRPE cells enhanced vitreous-induced cell proliferation and survival, suggesting that this SNP contributes to the pathogenesis of PVR. © 2016 by The American Society for Biochemistry and Molecular Biology, Inc.
Supersymmetric dimensional regularization
International Nuclear Information System (INIS)
Siegel, W.; Townsend, P.K.; van Nieuwenhuizen, P.
1980-01-01
There is a simple modification of dimension regularization which preserves supersymmetry: dimensional reduction to real D < 4, followed by analytic continuation to complex D. In terms of component fields, this means fixing the ranges of all indices on the fields (and therefore the numbers of Fermi and Bose components). For superfields, it means continuing in the dimensionality of x-space while fixing the dimensionality of theta-space. This regularization procedure allows the simple manipulation of spinor derivatives in supergraph calculations. The resulting rules are: (1) First do all algebra exactly as in D = 4; (2) Then do the momentum integrals as in ordinary dimensional regularization. This regularization procedure needs extra rules before one can say that it is consistent. Such extra rules needed for superconformal anomalies are discussed. Problems associated with renormalizability and higher order loops are also discussed
Brendel, Jutta; Stoll, Britta; Lange, Sita J; Sharma, Kundan; Lenz, Christof; Stachler, Aris-Edda; Maier, Lisa-Katharina; Richter, Hagen; Nickel, Lisa; Schmitz, Ruth A; Randau, Lennart; Allers, Thorsten; Urlaub, Henning; Backofen, Rolf; Marchfelder, Anita
2014-03-07
The clustered regularly interspaced short palindromic repeats/CRISPR-associated (CRISPR-Cas) system is a prokaryotic defense mechanism against foreign genetic elements. A plethora of CRISPR-Cas versions exist, with more than 40 different Cas protein families and several different molecular approaches to fight the invading DNA. One of the key players in the system is the CRISPR-derived RNA (crRNA), which directs the invader-degrading Cas protein complex to the invader. The CRISPR-Cas types I and III use the Cas6 protein to generate mature crRNAs. Here, we show that the Cas6 protein is necessary for crRNA production but that additional Cas proteins that form a CRISPR-associated complex for antiviral defense (Cascade)-like complex are needed for crRNA stability in the CRISPR-Cas type I-B system in Haloferax volcanii in vivo. Deletion of the cas6 gene results in the loss of mature crRNAs and interference. However, cells that have the complete cas gene cluster (cas1-8b) removed and are transformed with the cas6 gene are not able to produce and stably maintain mature crRNAs. crRNA production and stability is rescued only if cas5, -6, and -7 are present. Mutational analysis of the cas6 gene reveals three amino acids (His-41, Gly-256, and Gly-258) that are essential for pre-crRNA cleavage, whereas the mutation of two amino acids (Ser-115 and Ser-224) leads to an increase of crRNA amounts. This is the first systematic in vivo analysis of Cas6 protein variants. In addition, we show that the H. volcanii I-B system contains a Cascade-like complex with a Cas7, Cas5, and Cas6 core that protects the crRNA.
Brendel, Jutta; Stoll, Britta; Lange, Sita J.; Sharma, Kundan; Lenz, Christof; Stachler, Aris-Edda; Maier, Lisa-Katharina; Richter, Hagen; Nickel, Lisa; Schmitz, Ruth A.; Randau, Lennart; Allers, Thorsten; Urlaub, Henning; Backofen, Rolf; Marchfelder, Anita
2014-01-01
The clustered regularly interspaced short palindromic repeats/CRISPR-associated (CRISPR-Cas) system is a prokaryotic defense mechanism against foreign genetic elements. A plethora of CRISPR-Cas versions exist, with more than 40 different Cas protein families and several different molecular approaches to fight the invading DNA. One of the key players in the system is the CRISPR-derived RNA (crRNA), which directs the invader-degrading Cas protein complex to the invader. The CRISPR-Cas types I and III use the Cas6 protein to generate mature crRNAs. Here, we show that the Cas6 protein is necessary for crRNA production but that additional Cas proteins that form a CRISPR-associated complex for antiviral defense (Cascade)-like complex are needed for crRNA stability in the CRISPR-Cas type I-B system in Haloferax volcanii in vivo. Deletion of the cas6 gene results in the loss of mature crRNAs and interference. However, cells that have the complete cas gene cluster (cas1–8b) removed and are transformed with the cas6 gene are not able to produce and stably maintain mature crRNAs. crRNA production and stability is rescued only if cas5, -6, and -7 are present. Mutational analysis of the cas6 gene reveals three amino acids (His-41, Gly-256, and Gly-258) that are essential for pre-crRNA cleavage, whereas the mutation of two amino acids (Ser-115 and Ser-224) leads to an increase of crRNA amounts. This is the first systematic in vivo analysis of Cas6 protein variants. In addition, we show that the H. volcanii I-B system contains a Cascade-like complex with a Cas7, Cas5, and Cas6 core that protects the crRNA. PMID:24459147
DEFF Research Database (Denmark)
Hansen, Lars Kai; Rasmussen, Carl Edward; Svarer, C.
1994-01-01
Regularization, e.g., in the form of weight decay, is important for training and optimization of neural network architectures. In this work the authors provide a tool based on asymptotic sampling theory, for iterative estimation of weight decay parameters. The basic idea is to do a gradient desce...
Lai, Frank Pui-Ling; Lau, Sin-Ting; Wong, John Kwong-Leong; Gui, Hongsheng; Wang, Reeson Xu; Zhou, Tingwen; Lai, Wing Hon; Tse, Hung-Fat; Tam, Paul Kwong-Hang; Garcia-Barcelo, Maria-Mercedes; Ngan, Elly Sau-Wai
2017-07-01
Hirschsprung disease is caused by failure of enteric neural crest cells (ENCCs) to fully colonize the bowel, leading to bowel obstruction and megacolon. Heterozygous mutations in the coding region of the RET gene cause a severe form of Hirschsprung disease (total colonic aganglionosis). However, 80% of HSCR patients have short-segment Hirschsprung disease (S-HSCR), which has not been associated with genetic factors. We sought to identify mutations associated with S-HSCR, and used the clustered regularly interspaced short palindromic repeats (CRISPR)/Cas9 gene editing system to determine how mutations affect ENCC function. We created induced pluripotent stem cell (iPSC) lines from 1 patient with total colonic aganglionosis (with the G731del mutation in RET) and from 2 patients with S-HSCR (without a RET mutation), as well as RET +/- and RET -/- iPSCs. IMR90-iPSC cells were used as the control cell line. Migration and differentiation capacities of iPSC-derived ENCCs were analyzed in differentiation and migration assays. We searched for mutation(s) associated with S-HSCR by combining genetic and transcriptome data from patient blood- and iPSC-derived ENCCs, respectively. Mutations in the iPSCs were corrected using the CRISPR/Cas9 system. ENCCs derived from all iPSC lines, but not control iPSCs, had defects in migration and neuronal lineage differentiation. RET mutations were associated with differentiation and migration defects of ENCCs in vitro. Genetic and transcriptome analyses associated a mutation in the vinculin gene (VCL M209L) with S-HSCR. CRISPR/Cas9 correction of the RET G731del and VCL M209L mutations in iPSCs restored the differentiation and migration capacities of ENCCs. We identified mutations in VCL associated with S-HSCR. Correction of this mutation in iPSC using CRISPR/Cas9 editing, as well as the RET G731del mutation that causes Hirschsprung disease with total colonic aganglionosis, restored ENCC function. Our study demonstrates how human iPSCs can
Manifold Regularized Reinforcement Learning.
Li, Hongliang; Liu, Derong; Wang, Ding
2018-04-01
This paper introduces a novel manifold regularized reinforcement learning scheme for continuous Markov decision processes. Smooth feature representations for value function approximation can be automatically learned using the unsupervised manifold regularization method. The learned features are data-driven, and can be adapted to the geometry of the state space. Furthermore, the scheme provides a direct basis representation extension for novel samples during policy learning and control. The performance of the proposed scheme is evaluated on two benchmark control tasks, i.e., the inverted pendulum and the energy storage problem. Simulation results illustrate the concepts of the proposed scheme and show that it can obtain excellent performance.
George, Kerry; Rhone, Jordan; Chappell, L. J.; Cucinotta, F. A.
2010-01-01
Cytogenetic damage was assessed in blood lymphocytes from astronauts before and after they participated in long-duration space missions of three months or more. The frequency of chromosome damage was measured by fluorescence in situ hybridization (FISH) chromosome painting before flight and at various intervals from a few days to many months after return from the mission. For all individuals, the frequency of chromosome exchanges measured within a month of return from space was higher than their prefight yield. However, some individuals showed a temporal decline in chromosome damage with time after flight. Statistical analysis using combined data for all astronauts indicated a significant overall decreasing trend in total chromosome exchanges with time after flight, although this trend was not seen for all astronauts and the yield of chromosome damage in some individuals actually increased with time after flight. The decreasing trend in total exchanges was slightly more significant when statistical analysis was restricted to data collected more than 220 days after return from flight. In addition, limited data on multiple flights show a lack of correlation between time in space and translocation yields. Data from three crewmembers who has participated in two separate long-duration space missions provide limited information on the effect of repeat flights and show a possible adaptive response to space radiation exposure.
UNFOLDED REGULAR AND SEMI-REGULAR POLYHEDRA
Directory of Open Access Journals (Sweden)
IONIŢĂ Elena
2015-06-01
Full Text Available This paper proposes a presentation unfolding regular and semi-regular polyhedra. Regular polyhedra are convex polyhedra whose faces are regular and equal polygons, with the same number of sides, and whose polyhedral angles are also regular and equal. Semi-regular polyhedra are convex polyhedra with regular polygon faces, several types and equal solid angles of the same type. A net of a polyhedron is a collection of edges in the plane which are the unfolded edges of the solid. Modeling and unfolding Platonic and Arhimediene polyhedra will be using 3dsMAX program. This paper is intended as an example of descriptive geometry applications.
Manifold Regularized Correlation Object Tracking
Hu, Hongwei; Ma, Bo; Shen, Jianbing; Shao, Ling
2017-01-01
In this paper, we propose a manifold regularized correlation tracking method with augmented samples. To make better use of the unlabeled data and the manifold structure of the sample space, a manifold regularization-based correlation filter is introduced, which aims to assign similar labels to neighbor samples. Meanwhile, the regression model is learned by exploiting the block-circulant structure of matrices resulting from the augmented translated samples over multiple base samples cropped fr...
Continuum-regularized quantum gravity
International Nuclear Information System (INIS)
Chan Huesum; Halpern, M.B.
1987-01-01
The recent continuum regularization of d-dimensional Euclidean gravity is generalized to arbitrary power-law measure and studied in some detail as a representative example of coordinate-invariant regularization. The weak-coupling expansion of the theory illustrates a generic geometrization of regularized Schwinger-Dyson rules, generalizing previous rules in flat space and flat superspace. The rules are applied in a non-trivial explicit check of Einstein invariance at one loop: the cosmological counterterm is computed and its contribution is included in a verification that the graviton mass is zero. (orig.)
Telles, Rosa Weiss; Costa-Silva, Luciana; Machado, Luciana A C; Reis, Rodrigo Citton Padilha Dos; Barreto, Sandhi Maria
To describe the performance of a non-fluoroscopic fixed-flexion PA radiographic protocol with a new positioning device, developed for the assessment of knee osteoarthritis (OA) in Brazilian Longitudinal Study of Adult Health Musculoskeletal Study (ELSA-Brasil MSK). A test-retest design including 19 adults (38 knee images) was conducted. Feasibility of the radiographic protocol was assessed by image quality parameters and presence of radioanatomic alignment according to intermargin distance (IMD) values. Repeatability was assessed for IMD and joint space width (JSW) measured at three different locations. Approximately 90% of knee images presented excellent quality. Frequencies of nearly perfect radioanatomic alignment (IMD ≤1mm) ranged from 29% to 50%, and satisfactory alignment was found in up to 71% and 76% of the images (IMD ≤1.5mm and ≤1.7mm, respectively). Repeatability analyses yielded the following results: IMD [SD of mean difference=1.08; coefficient of variation (%CV)=54.68%; intraclass correlation coefficient (ICC) (95%CI)=0.59 (0.34-0.77)]; JSW [SD of mean difference=0.34-0.61; %CV=4.48%-9.80%; ICC (95%CI)=0.74 (0.55-0.85)-0.94 (0.87-0.97)]. Adequately reproducible measurements of IMD and JSW were found in 68% and 87% of the images, respectively. Despite the difficulty in achieving consistent radioanatomic alignment between subsequent radiographs in terms of IMD, the protocol produced highly repeatable JSW measurements when these were taken at midpoint and 10mm from the medial extremity of the medial tibial plateau. Therefore, measurements of JSW at these locations can be considered adequate for the assessment of knee OA in ELSA-Brasil MSK. Copyright © 2016. Published by Elsevier Editora Ltda.
Directory of Open Access Journals (Sweden)
Rosa Weiss Telles
Full Text Available Abstract Objective: To describe the performance of a non-fluoroscopic fixed-flexion PA radiographic protocol with a new positioning device, developed for the assessment of knee osteoarthritis (OA in Brazilian Longitudinal Study of Adult Health Musculoskeletal Study (ELSA-Brasil MSK. Material and methods: A test–retest design including 19 adults (38 knee images was conducted. Feasibility of the radiographic protocol was assessed by image quality parameters and presence of radioanatomic alignment according to intermargin distance (IMD values. Repeatability was assessed for IMD and joint space width (JSW measured at three different locations. Results: Approximately 90% of knee images presented excellent quality. Frequencies of nearly perfect radioanatomic alignment (IMD ≤1 mm ranged from 29% to 50%, and satisfactory alignment was found in up to 71% and 76% of the images (IMD ≤1.5 mm and ≤1.7 mm, respectively. Repeatability analyses yielded the following results: IMD [SD of mean difference = 1.08; coefficient of variation (%CV = 54.68%; intraclass correlation coefficient (ICC (95%CI = 0.59 (0.34–0.77]; JSW [SD of mean difference = 0.34–0.61; %CV = 4.48%–9.80%; ICC (95%CI = 0.74 (0.55–0.85–0.94 (0.87–0.97]. Adequately reproducible measurements of IMD and JSW were found in 68% and 87% of the images, respectively. Conclusions: Despite the difficulty in achieving consistent radioanatomic alignment between subsequent radiographs in terms of IMD, the protocol produced highly repeatable JSW measurements when these were taken at midpoint and 10 mm from the medial extremity of the medial tibial plateau. Therefore, measurements of JSW at these locations can be considered adequate for the assessment of knee OA in ELSA-Brasil MSK.
2016-04-01
evaluating the deployment repeatability builds upon the testing or analysis of deployment kinematics (Chapter 6) and adds repetition. Introduction...material yield or failure during a test. For the purposes of this chapter, zero shift will refer to permanent changes in the structure, while reversible ...the content of other chapters in this book: Gravity Compensation (Chapter 4) and Deployment Kinematics and Dynamics (Chapter 6). Repeating the
Pereira, Marcelo Alves; Martinez, Alexandre Souto
2009-01-01
The Prisoner's Dilemma (PD) game is used in several fields due to the emergence of cooperation among selfish players. Here, we have considered a one-dimensional lattice, where each cell represents a player, that can cooperate or defect. This one-dimensional geometry allows us to retrieve the results obtained for regular lattices and to keep track of the system spatio-temporal evolution. Players play PD with their neighbors and update their state using the Pavlovian Evolutionary Strategy. If t...
Metric regularity and subdifferential calculus
International Nuclear Information System (INIS)
Ioffe, A D
2000-01-01
The theory of metric regularity is an extension of two classical results: the Lyusternik tangent space theorem and the Graves surjection theorem. Developments in non-smooth analysis in the 1980s and 1990s paved the way for a number of far-reaching extensions of these results. It was also well understood that the phenomena behind the results are of metric origin, not connected with any linear structure. At the same time it became clear that some basic hypotheses of the subdifferential calculus are closely connected with the metric regularity of certain set-valued maps. The survey is devoted to the metric theory of metric regularity and its connection with subdifferential calculus in Banach spaces
Regularity effect in prospective memory during aging
Directory of Open Access Journals (Sweden)
Geoffrey Blondelle
2016-10-01
Full Text Available Background: Regularity effect can affect performance in prospective memory (PM, but little is known on the cognitive processes linked to this effect. Moreover, its impacts with regard to aging remain unknown. To our knowledge, this study is the first to examine regularity effect in PM in a lifespan perspective, with a sample of young, intermediate, and older adults. Objective and design: Our study examined the regularity effect in PM in three groups of participants: 28 young adults (18–30, 16 intermediate adults (40–55, and 25 older adults (65–80. The task, adapted from the Virtual Week, was designed to manipulate the regularity of the various activities of daily life that were to be recalled (regular repeated activities vs. irregular non-repeated activities. We examine the role of several cognitive functions including certain dimensions of executive functions (planning, inhibition, shifting, and binding, short-term memory, and retrospective episodic memory to identify those involved in PM, according to regularity and age. Results: A mixed-design ANOVA showed a main effect of task regularity and an interaction between age and regularity: an age-related difference in PM performances was found for irregular activities (older < young, but not for regular activities. All participants recalled more regular activities than irregular ones with no age effect. It appeared that recalling of regular activities only involved planning for both intermediate and older adults, while recalling of irregular ones were linked to planning, inhibition, short-term memory, binding, and retrospective episodic memory. Conclusion: Taken together, our data suggest that planning capacities seem to play a major role in remembering to perform intended actions with advancing age. Furthermore, the age-PM-paradox may be attenuated when the experimental design is adapted by implementing a familiar context through the use of activities of daily living. The clinical
Bielas, Wojciech; Plewik, Szymon
2018-01-01
Following Frink's characterization of completely regular spaces, we say that a regular T_1-space is an RC-space whenever the family of all regular open sets constitutes a regular normal base. Normal spaces are RC-spaces and there exist completely regular spaces which are not RC-spaces. So the question arises, which of the known examples of completely regular and not normal spaces are RC-spaces. We show that the Niemytzki plane and the Sorgenfrey plane are RC-spaces.
Matrix regularization of 4-manifolds
Trzetrzelewski, M.
2012-01-01
We consider products of two 2-manifolds such as S^2 x S^2, embedded in Euclidean space and show that the corresponding 4-volume preserving diffeomorphism algebra can be approximated by a tensor product SU(N)xSU(N) i.e. functions on a manifold are approximated by the Kronecker product of two SU(N) matrices. A regularization of the 4-sphere is also performed by constructing N^2 x N^2 matrix representations of the 4-algebra (and as a byproduct of the 3-algebra which makes the regularization of S...
DEFF Research Database (Denmark)
Fuchs, Christian; Monticelli, Lara
2018-01-01
This introduction sets out the context of the special issue “Karl Marx @ 200: Debating Capitalism & Perspectives for the Future of Radical Theory”, which was published on the occasion of Marx’s bicentenary on 5 May 2018. First, we give a brief overview of contemporary capitalism’s development...... and its crises. Second, we argue that it is important to repeat Marx today. Third, we reflect on lessons learned from 200 years of struggles for alternatives to capitalism. Fourth, we give an overview of the contributions in this special issue. Taken together, the contributions in this special issue show...... that Marx’s theory and politics remain key inspirations for understanding exploitation and domination in 21st-century society and for struggles that aim to overcome these phenomena and establishing a just and fair society. We need to repeat Marx today....
2016-08-31
large cohort of trials to spot unusual cases. However, deployment repeatability is inherently a nonlinear phenomenon, which makes modeling difficult...and GEMS tip position were both tracked during ground testing by a laser target tracking system. Earlier SAILMAST testing in 2005 [8] used...recalls the strategy used by SRTM, where a constellation of lights was installed at the tip of the boom and a modified star tracker was used to track tip
van Dam, Edwin R.; Koolen, Jack H.; Tanaka, Hajime
2016-01-01
This is a survey of distance-regular graphs. We present an introduction to distance-regular graphs for the reader who is unfamiliar with the subject, and then give an overview of some developments in the area of distance-regular graphs since the monograph 'BCN'[Brouwer, A.E., Cohen, A.M., Neumaier,
Nijholt, Antinus
1980-01-01
Culik II and Cogen introduced the class of LR-regular grammars, an extension of the LR(k) grammars. In this paper we consider an analogous extension of the LL(k) grammars called the LL-regular grammars. The relation of this class of grammars to other classes of grammars will be shown. Any LL-regular
Manifold Regularized Correlation Object Tracking.
Hu, Hongwei; Ma, Bo; Shen, Jianbing; Shao, Ling
2018-05-01
In this paper, we propose a manifold regularized correlation tracking method with augmented samples. To make better use of the unlabeled data and the manifold structure of the sample space, a manifold regularization-based correlation filter is introduced, which aims to assign similar labels to neighbor samples. Meanwhile, the regression model is learned by exploiting the block-circulant structure of matrices resulting from the augmented translated samples over multiple base samples cropped from both target and nontarget regions. Thus, the final classifier in our method is trained with positive, negative, and unlabeled base samples, which is a semisupervised learning framework. A block optimization strategy is further introduced to learn a manifold regularization-based correlation filter for efficient online tracking. Experiments on two public tracking data sets demonstrate the superior performance of our tracker compared with the state-of-the-art tracking approaches.
Hebner, Christy; Lasanen, Julie; Battle, Scott; Aiyar, Ashok
2003-07-05
Epstein-Barr virus (EBV) and the closely related Herpesvirus papio (HVP) are stably replicated as episomes in proliferating latently infected cells. Maintenance and partitioning of these viral plasmids requires a viral sequence in cis, termed the family of repeats (FR), that is bound by a viral protein, Epstein-Barr nuclear antigen 1 (EBNA1). Upon binding FR, EBNA1 maintains viral genomes in proliferating cells and activates transcription from viral promoters required for immortalization. FR from either virus encodes multiple binding sites for the viral maintenance protein, EBNA1, with the FR from the prototypic B95-8 strain of EBV containing 20 binding sites, and FR from HVP containing 8 binding sites. In addition to differences in the number of EBNA1-binding sites, adjacent binding sites in the EBV FR are typically separated by 14 base pairs (bp), but are separated by 10 bp in HVP. We tested whether the number of binding sites, as well as the distance between adjacent binding sites, affects the function of EBNA1 in transcription activation or plasmid maintenance. Our results indicate that EBNA1 activates transcription more efficiently when adjacent binding sites are separated by 10 bp, the spacing observed in HVP. In contrast, using two separate assays, we demonstrate that plasmid maintenance is greatly augmented when adjacent EBNA1-binding sites are separated by 14 bp, and therefore, presumably lie on the same face of the DNA double helix. These results provide indication that the functions of EBNA1 in transcription activation and plasmid maintenance are separable.
International Nuclear Information System (INIS)
Hebner, Christy; Lasanen, Julie; Battle, Scott; Aiyar, Ashok
2003-01-01
Epstein-Barr virus (EBV) and the closely related Herpesvirus papio (HVP) are stably replicated as episomes in proliferating latently infected cells. Maintenance and partitioning of these viral plasmids requires a viral sequence in cis, termed the family of repeats (FR), that is bound by a viral protein, Epstein-Barr nuclear antigen 1 (EBNA1). Upon binding FR, EBNA1 maintains viral genomes in proliferating cells and activates transcription from viral promoters required for immortalization. FR from either virus encodes multiple binding sites for the viral maintenance protein, EBNA1, with the FR from the prototypic B95-8 strain of EBV containing 20 binding sites, and FR from HVP containing 8 binding sites. In addition to differences in the number of EBNA1-binding sites, adjacent binding sites in the EBV FR are typically separated by 14 base pairs (bp), but are separated by 10 bp in HVP. We tested whether the number of binding sites, as well as the distance between adjacent binding sites, affects the function of EBNA1 in transcription activation or plasmid maintenance. Our results indicate that EBNA1 activates transcription more efficiently when adjacent binding sites are separated by 10 bp, the spacing observed in HVP. In contrast, using two separate assays, we demonstrate that plasmid maintenance is greatly augmented when adjacent EBNA1-binding sites are separated by 14 bp, and therefore, presumably lie on the same face of the DNA double helix. These results provide indication that the functions of EBNA1 in transcription activation and plasmid maintenance are separable
Regular Expression Pocket Reference
Stubblebine, Tony
2007-01-01
This handy little book offers programmers a complete overview of the syntax and semantics of regular expressions that are at the heart of every text-processing application. Ideal as a quick reference, Regular Expression Pocket Reference covers the regular expression APIs for Perl 5.8, Ruby (including some upcoming 1.9 features), Java, PHP, .NET and C#, Python, vi, JavaScript, and the PCRE regular expression libraries. This concise and easy-to-use reference puts a very powerful tool for manipulating text and data right at your fingertips. Composed of a mixture of symbols and text, regular exp
Physical model of dimensional regularization
Energy Technology Data Exchange (ETDEWEB)
Schonfeld, Jonathan F.
2016-12-15
We explicitly construct fractals of dimension 4-ε on which dimensional regularization approximates scalar-field-only quantum-field theory amplitudes. The construction does not require fractals to be Lorentz-invariant in any sense, and we argue that there probably is no Lorentz-invariant fractal of dimension greater than 2. We derive dimensional regularization's power-law screening first for fractals obtained by removing voids from 3-dimensional Euclidean space. The derivation applies techniques from elementary dielectric theory. Surprisingly, fractal geometry by itself does not guarantee the appropriate power-law behavior; boundary conditions at fractal voids also play an important role. We then extend the derivation to 4-dimensional Minkowski space. We comment on generalization to non-scalar fields, and speculate about implications for quantum gravity. (orig.)
Ensemble manifold regularization.
Geng, Bo; Tao, Dacheng; Xu, Chao; Yang, Linjun; Hua, Xian-Sheng
2012-06-01
We propose an automatic approximation of the intrinsic manifold for general semi-supervised learning (SSL) problems. Unfortunately, it is not trivial to define an optimization function to obtain optimal hyperparameters. Usually, cross validation is applied, but it does not necessarily scale up. Other problems derive from the suboptimality incurred by discrete grid search and the overfitting. Therefore, we develop an ensemble manifold regularization (EMR) framework to approximate the intrinsic manifold by combining several initial guesses. Algorithmically, we designed EMR carefully so it 1) learns both the composite manifold and the semi-supervised learner jointly, 2) is fully automatic for learning the intrinsic manifold hyperparameters implicitly, 3) is conditionally optimal for intrinsic manifold approximation under a mild and reasonable assumption, and 4) is scalable for a large number of candidate manifold hyperparameters, from both time and space perspectives. Furthermore, we prove the convergence property of EMR to the deterministic matrix at rate root-n. Extensive experiments over both synthetic and real data sets demonstrate the effectiveness of the proposed framework.
Regularization by External Variables
DEFF Research Database (Denmark)
Bossolini, Elena; Edwards, R.; Glendinning, P. A.
2016-01-01
Regularization was a big topic at the 2016 CRM Intensive Research Program on Advances in Nonsmooth Dynamics. There are many open questions concerning well known kinds of regularization (e.g., by smoothing or hysteresis). Here, we propose a framework for an alternative and important kind of regula......Regularization was a big topic at the 2016 CRM Intensive Research Program on Advances in Nonsmooth Dynamics. There are many open questions concerning well known kinds of regularization (e.g., by smoothing or hysteresis). Here, we propose a framework for an alternative and important kind...
Goyvaerts, Jan
2009-01-01
This cookbook provides more than 100 recipes to help you crunch data and manipulate text with regular expressions. Every programmer can find uses for regular expressions, but their power doesn't come worry-free. Even seasoned users often suffer from poor performance, false positives, false negatives, or perplexing bugs. Regular Expressions Cookbook offers step-by-step instructions for some of the most common tasks involving this tool, with recipes for C#, Java, JavaScript, Perl, PHP, Python, Ruby, and VB.NET. With this book, you will: Understand the basics of regular expressions through a
Barriot, Jean-Pierre; Serafini, Jonathan; Sichoix, Lydie; Benna, Mehdi; Kofman, Wlodek; Herique, Alain
We investigate the inverse problem of imaging the internal structure of comet 67P/ Churyumov-Gerasimenko from radiotomography CONSERT data by using a coupled regularized inversion of the Helmholtz equations. A first set of Helmholtz equations, written w.r.t a basis of 3D Hankel functions describes the wave propagation outside the comet at large distances, a second set of Helmholtz equations, written w.r.t. a basis of 3D Zernike functions describes the wave propagation throughout the comet with avariable permittivity. Both sets are connected by continuity equations over a sphere that surrounds the comet. This approach, derived from GPS water vapor tomography of the atmosphere,will permit a full 3D inversion of the internal structure of the comet, contrary to traditional approaches that use a discretization of space at a fraction of the radiowave wavelength.
Regularities of Multifractal Measures
Indian Academy of Sciences (India)
First, we prove the decomposition theorem for the regularities of multifractal Hausdorff measure and packing measure in R R d . This decomposition theorem enables us to split a set into regular and irregular parts, so that we can analyze each separately, and recombine them without affecting density properties. Next, we ...
Stochastic analytic regularization
International Nuclear Information System (INIS)
Alfaro, J.
1984-07-01
Stochastic regularization is reexamined, pointing out a restriction on its use due to a new type of divergence which is not present in the unregulated theory. Furthermore, we introduce a new form of stochastic regularization which permits the use of a minimal subtraction scheme to define the renormalized Green functions. (author)
Czech Academy of Sciences Publication Activity Database
Kałamajska, A.; Krbec, Miroslav
2015-01-01
Roč. 28, č. 3 (2015), s. 677-713 ISSN 1139-1138 R&D Projects: GA ČR GAP201/10/1920 Institutional research plan: CEZ:AV0Z1019905 Keywords : evolution problems * heat equation * Orlitz-Slobodetskii spaces * Orlitz-Sobolev spaces Subject RIV: BA - General Mathematics Impact factor: 0.631, year: 2015 http://link.springer.com/article/10.1007%2Fs13163-014-0164-4
Sparse structure regularized ranking
Wang, Jim Jing-Yan; Sun, Yijun; Gao, Xin
2014-01-01
Learning ranking scores is critical for the multimedia database retrieval problem. In this paper, we propose a novel ranking score learning algorithm by exploring the sparse structure and using it to regularize ranking scores. To explore the sparse
Regular expression containment
DEFF Research Database (Denmark)
Henglein, Fritz; Nielsen, Lasse
2011-01-01
We present a new sound and complete axiomatization of regular expression containment. It consists of the conventional axiomatiza- tion of concatenation, alternation, empty set and (the singleton set containing) the empty string as an idempotent semiring, the fixed- point rule E* = 1 + E × E......* for Kleene-star, and a general coin- duction rule as the only additional rule. Our axiomatization gives rise to a natural computational inter- pretation of regular expressions as simple types that represent parse trees, and of containment proofs as coercions. This gives the axiom- atization a Curry......-Howard-style constructive interpretation: Con- tainment proofs do not only certify a language-theoretic contain- ment, but, under our computational interpretation, constructively transform a membership proof of a string in one regular expres- sion into a membership proof of the same string in another regular expression. We...
Regularized maximum correntropy machine
Wang, Jim Jing-Yan; Wang, Yunji; Jing, Bing-Yi; Gao, Xin
2015-01-01
In this paper we investigate the usage of regularized correntropy framework for learning of classifiers from noisy labels. The class label predictors learned by minimizing transitional loss functions are sensitive to the noisy and outlying labels of training samples, because the transitional loss functions are equally applied to all the samples. To solve this problem, we propose to learn the class label predictors by maximizing the correntropy between the predicted labels and the true labels of the training samples, under the regularized Maximum Correntropy Criteria (MCC) framework. Moreover, we regularize the predictor parameter to control the complexity of the predictor. The learning problem is formulated by an objective function considering the parameter regularization and MCC simultaneously. By optimizing the objective function alternately, we develop a novel predictor learning algorithm. The experiments on two challenging pattern classification tasks show that it significantly outperforms the machines with transitional loss functions.
Regularized maximum correntropy machine
Wang, Jim Jing-Yan
2015-02-12
In this paper we investigate the usage of regularized correntropy framework for learning of classifiers from noisy labels. The class label predictors learned by minimizing transitional loss functions are sensitive to the noisy and outlying labels of training samples, because the transitional loss functions are equally applied to all the samples. To solve this problem, we propose to learn the class label predictors by maximizing the correntropy between the predicted labels and the true labels of the training samples, under the regularized Maximum Correntropy Criteria (MCC) framework. Moreover, we regularize the predictor parameter to control the complexity of the predictor. The learning problem is formulated by an objective function considering the parameter regularization and MCC simultaneously. By optimizing the objective function alternately, we develop a novel predictor learning algorithm. The experiments on two challenging pattern classification tasks show that it significantly outperforms the machines with transitional loss functions.
Fast and compact regular expression matching
DEFF Research Database (Denmark)
Bille, Philip; Farach-Colton, Martin
2008-01-01
We study 4 problems in string matching, namely, regular expression matching, approximate regular expression matching, string edit distance, and subsequence indexing, on a standard word RAM model of computation that allows logarithmic-sized words to be manipulated in constant time. We show how...... to improve the space and/or remove a dependency on the alphabet size for each problem using either an improved tabulation technique of an existing algorithm or by combining known algorithms in a new way....
Hierarchical regular small-world networks
International Nuclear Information System (INIS)
Boettcher, Stefan; Goncalves, Bruno; Guclu, Hasan
2008-01-01
Two new networks are introduced that resemble small-world properties. These networks are recursively constructed but retain a fixed, regular degree. They possess a unique one-dimensional lattice backbone overlaid by a hierarchical sequence of long-distance links, mixing real-space and small-world features. Both networks, one 3-regular and the other 4-regular, lead to distinct behaviors, as revealed by renormalization group studies. The 3-regular network is planar, has a diameter growing as √N with system size N, and leads to super-diffusion with an exact, anomalous exponent d w = 1.306..., but possesses only a trivial fixed point T c = 0 for the Ising ferromagnet. In turn, the 4-regular network is non-planar, has a diameter growing as ∼2 √(log 2 N 2 ) , exhibits 'ballistic' diffusion (d w = 1), and a non-trivial ferromagnetic transition, T c > 0. It suggests that the 3-regular network is still quite 'geometric', while the 4-regular network qualifies as a true small world with mean-field properties. As an engineering application we discuss synchronization of processors on these networks. (fast track communication)
Geometric regularizations and dual conifold transitions
International Nuclear Information System (INIS)
Landsteiner, Karl; Lazaroiu, Calin I.
2003-01-01
We consider a geometric regularization for the class of conifold transitions relating D-brane systems on noncompact Calabi-Yau spaces to certain flux backgrounds. This regularization respects the SL(2,Z) invariance of the flux superpotential, and allows for computation of the relevant periods through the method of Picard-Fuchs equations. The regularized geometry is a noncompact Calabi-Yau which can be viewed as a monodromic fibration, with the nontrivial monodromy being induced by the regulator. It reduces to the original, non-monodromic background when the regulator is removed. Using this regularization, we discuss the simple case of the local conifold, and show how the relevant field-theoretic information can be extracted in this approach. (author)
Diverse Regular Employees and Non-regular Employment (Japanese)
MORISHIMA Motohiro
2011-01-01
Currently there are high expectations for the introduction of policies related to diverse regular employees. These policies are a response to the problem of disparities between regular and non-regular employees (part-time, temporary, contract and other non-regular employees) and will make it more likely that workers can balance work and their private lives while companies benefit from the advantages of regular employment. In this paper, I look at two issues that underlie this discussion. The ...
Sparse structure regularized ranking
Wang, Jim Jing-Yan
2014-04-17
Learning ranking scores is critical for the multimedia database retrieval problem. In this paper, we propose a novel ranking score learning algorithm by exploring the sparse structure and using it to regularize ranking scores. To explore the sparse structure, we assume that each multimedia object could be represented as a sparse linear combination of all other objects, and combination coefficients are regarded as a similarity measure between objects and used to regularize their ranking scores. Moreover, we propose to learn the sparse combination coefficients and the ranking scores simultaneously. A unified objective function is constructed with regard to both the combination coefficients and the ranking scores, and is optimized by an iterative algorithm. Experiments on two multimedia database retrieval data sets demonstrate the significant improvements of the propose algorithm over state-of-the-art ranking score learning algorithms.
'Regular' and 'emergency' repair
International Nuclear Information System (INIS)
Luchnik, N.V.
1975-01-01
Experiments on the combined action of radiation and a DNA inhibitor using Crepis roots and on split-dose irradiation of human lymphocytes lead to the conclusion that there are two types of repair. The 'regular' repair takes place twice in each mitotic cycle and ensures the maintenance of genetic stability. The 'emergency' repair is induced at all stages of the mitotic cycle by high levels of injury. (author)
Regularization of divergent integrals
Felder, Giovanni; Kazhdan, David
2016-01-01
We study the Hadamard finite part of divergent integrals of differential forms with singularities on submanifolds. We give formulae for the dependence of the finite part on the choice of regularization and express them in terms of a suitable local residue map. The cases where the submanifold is a complex hypersurface in a complex manifold and where it is a boundary component of a manifold with boundary, arising in string perturbation theory, are treated in more detail.
Regularizing portfolio optimization
International Nuclear Information System (INIS)
Still, Susanne; Kondor, Imre
2010-01-01
The optimization of large portfolios displays an inherent instability due to estimation error. This poses a fundamental problem, because solutions that are not stable under sample fluctuations may look optimal for a given sample, but are, in effect, very far from optimal with respect to the average risk. In this paper, we approach the problem from the point of view of statistical learning theory. The occurrence of the instability is intimately related to over-fitting, which can be avoided using known regularization methods. We show how regularized portfolio optimization with the expected shortfall as a risk measure is related to support vector regression. The budget constraint dictates a modification. We present the resulting optimization problem and discuss the solution. The L2 norm of the weight vector is used as a regularizer, which corresponds to a diversification 'pressure'. This means that diversification, besides counteracting downward fluctuations in some assets by upward fluctuations in others, is also crucial because it improves the stability of the solution. The approach we provide here allows for the simultaneous treatment of optimization and diversification in one framework that enables the investor to trade off between the two, depending on the size of the available dataset.
Regularizing portfolio optimization
Still, Susanne; Kondor, Imre
2010-07-01
The optimization of large portfolios displays an inherent instability due to estimation error. This poses a fundamental problem, because solutions that are not stable under sample fluctuations may look optimal for a given sample, but are, in effect, very far from optimal with respect to the average risk. In this paper, we approach the problem from the point of view of statistical learning theory. The occurrence of the instability is intimately related to over-fitting, which can be avoided using known regularization methods. We show how regularized portfolio optimization with the expected shortfall as a risk measure is related to support vector regression. The budget constraint dictates a modification. We present the resulting optimization problem and discuss the solution. The L2 norm of the weight vector is used as a regularizer, which corresponds to a diversification 'pressure'. This means that diversification, besides counteracting downward fluctuations in some assets by upward fluctuations in others, is also crucial because it improves the stability of the solution. The approach we provide here allows for the simultaneous treatment of optimization and diversification in one framework that enables the investor to trade off between the two, depending on the size of the available dataset.
Regular Single Valued Neutrosophic Hypergraphs
Directory of Open Access Journals (Sweden)
Muhammad Aslam Malik
2016-12-01
Full Text Available In this paper, we define the regular and totally regular single valued neutrosophic hypergraphs, and discuss the order and size along with properties of regular and totally regular single valued neutrosophic hypergraphs. We also extend work on completeness of single valued neutrosophic hypergraphs.
The geometry of continuum regularization
International Nuclear Information System (INIS)
Halpern, M.B.
1987-03-01
This lecture is primarily an introduction to coordinate-invariant regularization, a recent advance in the continuum regularization program. In this context, the program is seen as fundamentally geometric, with all regularization contained in regularized DeWitt superstructures on field deformations
Regular Gleason Measures and Generalized Effect Algebras
Dvurečenskij, Anatolij; Janda, Jiří
2015-12-01
We study measures, finitely additive measures, regular measures, and σ-additive measures that can attain even infinite values on the quantum logic of a Hilbert space. We show when particular classes of non-negative measures can be studied in the frame of generalized effect algebras.
Accreting fluids onto regular black holes via Hamiltonian approach
Energy Technology Data Exchange (ETDEWEB)
Jawad, Abdul [COMSATS Institute of Information Technology, Department of Mathematics, Lahore (Pakistan); Shahzad, M.U. [COMSATS Institute of Information Technology, Department of Mathematics, Lahore (Pakistan); University of Central Punjab, CAMS, UCP Business School, Lahore (Pakistan)
2017-08-15
We investigate the accretion of test fluids onto regular black holes such as Kehagias-Sfetsos black holes and regular black holes with Dagum distribution function. We analyze the accretion process when different test fluids are falling onto these regular black holes. The accreting fluid is being classified through the equation of state according to the features of regular black holes. The behavior of fluid flow and the existence of sonic points is being checked for these regular black holes. It is noted that the three-velocity depends on critical points and the equation of state parameter on phase space. (orig.)
Annotation of Regular Polysemy
DEFF Research Database (Denmark)
Martinez Alonso, Hector
Regular polysemy has received a lot of attention from the theory of lexical semantics and from computational linguistics. However, there is no consensus on how to represent the sense of underspecified examples at the token level, namely when annotating or disambiguating senses of metonymic words...... and metonymic. We have conducted an analysis in English, Danish and Spanish. Later on, we have tried to replicate the human judgments by means of unsupervised and semi-supervised sense prediction. The automatic sense-prediction systems have been unable to find empiric evidence for the underspecified sense, even...
Regularity of Minimal Surfaces
Dierkes, Ulrich; Tromba, Anthony J; Kuster, Albrecht
2010-01-01
"Regularity of Minimal Surfaces" begins with a survey of minimal surfaces with free boundaries. Following this, the basic results concerning the boundary behaviour of minimal surfaces and H-surfaces with fixed or free boundaries are studied. In particular, the asymptotic expansions at interior and boundary branch points are derived, leading to general Gauss-Bonnet formulas. Furthermore, gradient estimates and asymptotic expansions for minimal surfaces with only piecewise smooth boundaries are obtained. One of the main features of free boundary value problems for minimal surfaces is t
Regularities of radiation heredity
International Nuclear Information System (INIS)
Skakov, M.K.; Melikhov, V.D.
2001-01-01
One analyzed regularities of radiation heredity in metals and alloys. One made conclusion about thermodynamically irreversible changes in structure of materials under irradiation. One offers possible ways of heredity transmittance of radiation effects at high-temperature transformations in the materials. Phenomenon of radiation heredity may be turned to practical use to control structure of liquid metal and, respectively, structure of ingot via preliminary radiation treatment of charge. Concentration microheterogeneities in material defect structure induced by preliminary irradiation represent the genetic factor of radiation heredity [ru
Matrix regularization of embedded 4-manifolds
International Nuclear Information System (INIS)
Trzetrzelewski, Maciej
2012-01-01
We consider products of two 2-manifolds such as S 2 ×S 2 , embedded in Euclidean space and show that the corresponding 4-volume preserving diffeomorphism algebra can be approximated by a tensor product SU(N)⊗SU(N) i.e. functions on a manifold are approximated by the Kronecker product of two SU(N) matrices. A regularization of the 4-sphere is also performed by constructing N 2 ×N 2 matrix representations of the 4-algebra (and as a byproduct of the 3-algebra which makes the regularization of S 3 also possible).
Effective field theory dimensional regularization
International Nuclear Information System (INIS)
Lehmann, Dirk; Prezeau, Gary
2002-01-01
A Lorentz-covariant regularization scheme for effective field theories with an arbitrary number of propagating heavy and light particles is given. This regularization scheme leaves the low-energy analytic structure of Greens functions intact and preserves all the symmetries of the underlying Lagrangian. The power divergences of regularized loop integrals are controlled by the low-energy kinematic variables. Simple diagrammatic rules are derived for the regularization of arbitrary one-loop graphs and the generalization to higher loops is discussed
Effective field theory dimensional regularization
Lehmann, Dirk; Prézeau, Gary
2002-01-01
A Lorentz-covariant regularization scheme for effective field theories with an arbitrary number of propagating heavy and light particles is given. This regularization scheme leaves the low-energy analytic structure of Greens functions intact and preserves all the symmetries of the underlying Lagrangian. The power divergences of regularized loop integrals are controlled by the low-energy kinematic variables. Simple diagrammatic rules are derived for the regularization of arbitrary one-loop graphs and the generalization to higher loops is discussed.
2010-12-07
... FARM CREDIT SYSTEM INSURANCE CORPORATION Regular Meeting AGENCY: Farm Credit System Insurance Corporation Board. ACTION: Regular meeting. SUMMARY: Notice is hereby given of the regular meeting of the Farm Credit System Insurance Corporation Board (Board). Date and Time: The meeting of the Board will be held...
International Nuclear Information System (INIS)
Obregon, Octavio; Quevedo, Hernando; Ryan, Michael P.
2004-01-01
We construct a family of time and angular dependent, regular S-brane solutions which corresponds to a simple analytical continuation of the Zipoy-Voorhees 4-dimensional vacuum spacetime. The solutions are asymptotically flat and turn out to be free of singularities without requiring a twist in space. They can be considered as the simplest non-singular generalization of the singular S0-brane solution. We analyze the properties of a representative of this family of solutions and show that it resembles to some extent the asymptotic properties of the regular Kerr S-brane. The R-symmetry corresponds, however, to the general lorentzian symmetry. Several generalizations of this regular solution are derived which include a charged S-brane and an additional dilatonic field. (author)
Selection of regularization parameter for l1-regularized damage detection
Hou, Rongrong; Xia, Yong; Bao, Yuequan; Zhou, Xiaoqing
2018-06-01
The l1 regularization technique has been developed for structural health monitoring and damage detection through employing the sparsity condition of structural damage. The regularization parameter, which controls the trade-off between data fidelity and solution size of the regularization problem, exerts a crucial effect on the solution. However, the l1 regularization problem has no closed-form solution, and the regularization parameter is usually selected by experience. This study proposes two strategies of selecting the regularization parameter for the l1-regularized damage detection problem. The first method utilizes the residual and solution norms of the optimization problem and ensures that they are both small. The other method is based on the discrepancy principle, which requires that the variance of the discrepancy between the calculated and measured responses is close to the variance of the measurement noise. The two methods are applied to a cantilever beam and a three-story frame. A range of the regularization parameter, rather than one single value, can be determined. When the regularization parameter in this range is selected, the damage can be accurately identified even for multiple damage scenarios. This range also indicates the sensitivity degree of the damage identification problem to the regularization parameter.
Regular black hole in three dimensions
Myung, Yun Soo; Yoon, Myungseok
2008-01-01
We find a new black hole in three dimensional anti-de Sitter space by introducing an anisotropic perfect fluid inspired by the noncommutative black hole. This is a regular black hole with two horizons. We compare thermodynamics of this black hole with that of non-rotating BTZ black hole. The first-law of thermodynamics is not compatible with the Bekenstein-Hawking entropy.
Adaptive Regularization of Neural Classifiers
DEFF Research Database (Denmark)
Andersen, Lars Nonboe; Larsen, Jan; Hansen, Lars Kai
1997-01-01
We present a regularization scheme which iteratively adapts the regularization parameters by minimizing the validation error. It is suggested to use the adaptive regularization scheme in conjunction with optimal brain damage pruning to optimize the architecture and to avoid overfitting. Furthermo......, we propose an improved neural classification architecture eliminating an inherent redundancy in the widely used SoftMax classification network. Numerical results demonstrate the viability of the method...
Directory of Open Access Journals (Sweden)
Dustin Kai Yan Lau
2014-03-01
Full Text Available Background Unlike alphabetic languages, Chinese uses a logographic script. However, the pronunciation of many character’s phonetic radical has the same pronunciation as the character as a whole. These are considered regular characters and can be read through a lexical non-semantic route (Weekes & Chen, 1999. Pseudocharacters are another way to study this non-semantic route. A pseudocharacter is the combination of existing semantic and phonetic radicals in their legal positions resulting in a non-existing character (Ho, Chan, Chung, Lee, & Tsang, 2007. Pseudocharacters can be pronounced by direct derivation from the sound of its phonetic radical. Conversely, if the pronunciation of a character does not follow that of the phonetic radical, it is considered as irregular and can only be correctly read through the lexical-semantic route. The aim of the current investigation was to examine reading aloud in normal adults. We hypothesized that the regularity effect, previously described for alphabetical scripts and acquired dyslexic patients of Chinese (Weekes & Chen, 1999; Wu, Liu, Sun, Chromik, & Zhang, 2014, would also be present in normal adult Chinese readers. Method Participants. Thirty (50% female native Hong Kong Cantonese speakers with a mean age of 19.6 years and a mean education of 12.9 years. Stimuli. Sixty regular-, 60 irregular-, and 60 pseudo-characters (with at least 75% of name agreement in Chinese were matched by initial phoneme, number of strokes and family size. Additionally, regular- and irregular-characters were matched by frequency (low and consistency. Procedure. Each participant was asked to read aloud the stimuli presented on a laptop using the DMDX software. The order of stimuli presentation was randomized. Data analysis. ANOVAs were carried out by participants and items with RTs and errors as dependent variables and type of stimuli (regular-, irregular- and pseudo-character as repeated measures (F1 or between subject
Generalization Performance of Regularized Ranking With Multiscale Kernels.
Zhou, Yicong; Chen, Hong; Lan, Rushi; Pan, Zhibin
2016-05-01
The regularized kernel method for the ranking problem has attracted increasing attentions in machine learning. The previous regularized ranking algorithms are usually based on reproducing kernel Hilbert spaces with a single kernel. In this paper, we go beyond this framework by investigating the generalization performance of the regularized ranking with multiscale kernels. A novel ranking algorithm with multiscale kernels is proposed and its representer theorem is proved. We establish the upper bound of the generalization error in terms of the complexity of hypothesis spaces. It shows that the multiscale ranking algorithm can achieve satisfactory learning rates under mild conditions. Experiments demonstrate the effectiveness of the proposed method for drug discovery and recommendation tasks.
2010-09-02
... FARM CREDIT SYSTEM INSURANCE CORPORATION Regular Meeting AGENCY: Farm Credit System Insurance Corporation Board. SUMMARY: Notice is hereby given of the regular meeting of the Farm Credit System Insurance Corporation Board (Board). DATE AND TIME: The meeting of the Board will be held at the offices of the Farm...
Online co-regularized algorithms
Ruijter, T. de; Tsivtsivadze, E.; Heskes, T.
2012-01-01
We propose an online co-regularized learning algorithm for classification and regression tasks. We demonstrate that by sequentially co-regularizing prediction functions on unlabeled data points, our algorithm provides improved performance in comparison to supervised methods on several UCI benchmarks
Regularity and chaos in cavity QED
International Nuclear Information System (INIS)
Bastarrachea-Magnani, Miguel Angel; López-del-Carpio, Baldemar; Chávez-Carlos, Jorge; Lerma-Hernández, Sergio; Hirsch, Jorge G
2017-01-01
The interaction of a quantized electromagnetic field in a cavity with a set of two-level atoms inside it can be described with algebraic Hamiltonians of increasing complexity, from the Rabi to the Dicke models. Their algebraic character allows, through the use of coherent states, a semiclassical description in phase space, where the non-integrable Dicke model has regions associated with regular and chaotic motion. The appearance of classical chaos can be quantified calculating the largest Lyapunov exponent over the whole available phase space for a given energy. In the quantum regime, employing efficient diagonalization techniques, we are able to perform a detailed quantitative study of the regular and chaotic regions, where the quantum participation ratio (P R ) of coherent states on the eigenenergy basis plays a role equivalent to the Lyapunov exponent. It is noted that, in the thermodynamic limit, dividing the participation ratio by the number of atoms leads to a positive value in chaotic regions, while it tends to zero in the regular ones. (paper)
Extreme values, regular variation and point processes
Resnick, Sidney I
1987-01-01
Extremes Values, Regular Variation and Point Processes is a readable and efficient account of the fundamental mathematical and stochastic process techniques needed to study the behavior of extreme values of phenomena based on independent and identically distributed random variables and vectors It presents a coherent treatment of the distributional and sample path fundamental properties of extremes and records It emphasizes the core primacy of three topics necessary for understanding extremes the analytical theory of regularly varying functions; the probabilistic theory of point processes and random measures; and the link to asymptotic distribution approximations provided by the theory of weak convergence of probability measures in metric spaces The book is self-contained and requires an introductory measure-theoretic course in probability as a prerequisite Almost all sections have an extensive list of exercises which extend developments in the text, offer alternate approaches, test mastery and provide for enj...
Describing chaotic attractors: Regular and perpetual points
Dudkowski, Dawid; Prasad, Awadhesh; Kapitaniak, Tomasz
2018-03-01
We study the concepts of regular and perpetual points for describing the behavior of chaotic attractors in dynamical systems. The idea of these points, which have been recently introduced to theoretical investigations, is thoroughly discussed and extended into new types of models. We analyze the correlation between regular and perpetual points, as well as their relation with phase space, showing the potential usefulness of both types of points in the qualitative description of co-existing states. The ability of perpetual points in finding attractors is indicated, along with its potential cause. The location of chaotic trajectories and sets of considered points is investigated and the study on the stability of systems is shown. The statistical analysis of the observing desired states is performed. We focus on various types of dynamical systems, i.e., chaotic flows with self-excited and hidden attractors, forced mechanical models, and semiconductor superlattices, exhibiting the universality of appearance of the observed patterns and relations.
Deng, Dong; Yan, Chuangye; Wu, Jianping; Pan, Xiaojing; Yan, Nieng
2014-04-01
Transcription activator-like (TAL) effectors specifically bind to double stranded (ds) DNA through a central domain of tandem repeats. Each TAL effector (TALE) repeat comprises 33-35 amino acids and recognizes one specific DNA base through a highly variable residue at a fixed position in the repeat. Structural studies have revealed the molecular basis of DNA recognition by TALE repeats. Examination of the overall structure reveals that the basic building block of TALE protein, namely a helical hairpin, is one-helix shifted from the previously defined TALE motif. Here we wish to suggest a structure-based re-demarcation of the TALE repeat which starts with the residues that bind to the DNA backbone phosphate and concludes with the base-recognition hyper-variable residue. This new numbering system is consistent with the α-solenoid superfamily to which TALE belongs, and reflects the structural integrity of TAL effectors. In addition, it confers integral number of TALE repeats that matches the number of bound DNA bases. We then present fifteen crystal structures of engineered dHax3 variants in complex with target DNA molecules, which elucidate the structural basis for the recognition of bases adenine (A) and guanine (G) by reported or uncharacterized TALE codes. Finally, we analyzed the sequence-structure correlation of the amino acid residues within a TALE repeat. The structural analyses reported here may advance the mechanistic understanding of TALE proteins and facilitate the design of TALEN with improved affinity and specificity.
Reconfigurable multiport EPON repeater
Oishi, Masayuki; Inohara, Ryo; Agata, Akira; Horiuchi, Yukio
2009-11-01
An extended reach EPON repeater is one of the solutions to effectively expand FTTH service areas. In this paper, we propose a reconfigurable multi-port EPON repeater for effective accommodation of multiple ODNs with a single OLT line card. The proposed repeater, which has multi-ports in both OLT and ODN sides, consists of TRs, BTRs with the CDR function and a reconfigurable electrical matrix switch, can accommodate multiple ODNs to a single OLT line card by controlling the connection of the matrix switch. Although conventional EPON repeaters require full OLT line cards to accommodate subscribers from the initial installation stage, the proposed repeater can dramatically reduce the number of required line cards especially when the number of subscribers is less than a half of the maximum registerable users per OLT. Numerical calculation results show that the extended reach EPON system with the proposed EPON repeater can save 17.5% of the initial installation cost compared with a conventional repeater, and can be less expensive than conventional systems up to the maximum subscribers especially when the percentage of ODNs in lightly-populated areas is higher.
Quantum repeated games revisited
International Nuclear Information System (INIS)
Frąckiewicz, Piotr
2012-01-01
We present a scheme for playing quantum repeated 2 × 2 games based on Marinatto and Weber’s approach to quantum games. As a potential application, we study the twice repeated Prisoner’s Dilemma game. We show that results not available in the classical game can be obtained when the game is played in the quantum way. Before we present our idea, we comment on the previous scheme of playing quantum repeated games proposed by Iqbal and Toor. We point out the drawbacks that make their results unacceptable. (paper)
New regular black hole solutions
International Nuclear Information System (INIS)
Lemos, Jose P. S.; Zanchin, Vilson T.
2011-01-01
In the present work we consider general relativity coupled to Maxwell's electromagnetism and charged matter. Under the assumption of spherical symmetry, there is a particular class of solutions that correspond to regular charged black holes whose interior region is de Sitter, the exterior region is Reissner-Nordstroem and there is a charged thin-layer in-between the two. The main physical and geometrical properties of such charged regular black holes are analyzed.
Regular variation on measure chains
Czech Academy of Sciences Publication Activity Database
Řehák, Pavel; Vitovec, J.
2010-01-01
Roč. 72, č. 1 (2010), s. 439-448 ISSN 0362-546X R&D Projects: GA AV ČR KJB100190701 Institutional research plan: CEZ:AV0Z10190503 Keywords : regularly varying function * regularly varying sequence * measure chain * time scale * embedding theorem * representation theorem * second order dynamic equation * asymptotic properties Subject RIV: BA - General Mathematics Impact factor: 1.279, year: 2010 http://www.sciencedirect.com/science/article/pii/S0362546X09008475
On geodesics in low regularity
Sämann, Clemens; Steinbauer, Roland
2018-02-01
We consider geodesics in both Riemannian and Lorentzian manifolds with metrics of low regularity. We discuss existence of extremal curves for continuous metrics and present several old and new examples that highlight their subtle interrelation with solutions of the geodesic equations. Then we turn to the initial value problem for geodesics for locally Lipschitz continuous metrics and generalize recent results on existence, regularity and uniqueness of solutions in the sense of Filippov.
Condition Number Regularized Covariance Estimation.
Won, Joong-Ho; Lim, Johan; Kim, Seung-Jean; Rajaratnam, Bala
2013-06-01
Estimation of high-dimensional covariance matrices is known to be a difficult problem, has many applications, and is of current interest to the larger statistics community. In many applications including so-called the "large p small n " setting, the estimate of the covariance matrix is required to be not only invertible, but also well-conditioned. Although many regularization schemes attempt to do this, none of them address the ill-conditioning problem directly. In this paper, we propose a maximum likelihood approach, with the direct goal of obtaining a well-conditioned estimator. No sparsity assumption on either the covariance matrix or its inverse are are imposed, thus making our procedure more widely applicable. We demonstrate that the proposed regularization scheme is computationally efficient, yields a type of Steinian shrinkage estimator, and has a natural Bayesian interpretation. We investigate the theoretical properties of the regularized covariance estimator comprehensively, including its regularization path, and proceed to develop an approach that adaptively determines the level of regularization that is required. Finally, we demonstrate the performance of the regularized estimator in decision-theoretic comparisons and in the financial portfolio optimization setting. The proposed approach has desirable properties, and can serve as a competitive procedure, especially when the sample size is small and when a well-conditioned estimator is required.
Condition Number Regularized Covariance Estimation*
Won, Joong-Ho; Lim, Johan; Kim, Seung-Jean; Rajaratnam, Bala
2012-01-01
Estimation of high-dimensional covariance matrices is known to be a difficult problem, has many applications, and is of current interest to the larger statistics community. In many applications including so-called the “large p small n” setting, the estimate of the covariance matrix is required to be not only invertible, but also well-conditioned. Although many regularization schemes attempt to do this, none of them address the ill-conditioning problem directly. In this paper, we propose a maximum likelihood approach, with the direct goal of obtaining a well-conditioned estimator. No sparsity assumption on either the covariance matrix or its inverse are are imposed, thus making our procedure more widely applicable. We demonstrate that the proposed regularization scheme is computationally efficient, yields a type of Steinian shrinkage estimator, and has a natural Bayesian interpretation. We investigate the theoretical properties of the regularized covariance estimator comprehensively, including its regularization path, and proceed to develop an approach that adaptively determines the level of regularization that is required. Finally, we demonstrate the performance of the regularized estimator in decision-theoretic comparisons and in the financial portfolio optimization setting. The proposed approach has desirable properties, and can serve as a competitive procedure, especially when the sample size is small and when a well-conditioned estimator is required. PMID:23730197
Effort variation regularization in sound field reproduction
DEFF Research Database (Denmark)
Stefanakis, Nick; Jacobsen, Finn; Sarris, Ioannis
2010-01-01
In this paper, active control is used in order to reproduce a given sound field in an extended spatial region. A method is proposed which minimizes the reproduction error at a number of control positions with the reproduction sources holding a certain relation within their complex strengths......), and adaptive wave field synthesis (AWFS), both under free-field conditions and in reverberant rooms. It is shown that effort variation regularization overcomes the problems associated with small spaces and with a low ratio of direct to reverberant energy, improving thus the reproduction accuracy...
Repeat migration and disappointment.
Grant, E K; Vanderkamp, J
1986-01-01
This article investigates the determinants of repeat migration among the 44 regions of Canada, using information from a large micro-database which spans the period 1968 to 1971. The explanation of repeat migration probabilities is a difficult task, and this attempt is only partly successful. May of the explanatory variables are not significant, and the overall explanatory power of the equations is not high. In the area of personal characteristics, the variables related to age, sex, and marital status are generally significant and with expected signs. The distance variable has a strongly positive effect on onward move probabilities. Variables related to prior migration experience have an important impact that differs between return and onward probabilities. In particular, the occurrence of prior moves has a striking effect on the probability of onward migration. The variable representing disappointment, or relative success of the initial move, plays a significant role in explaining repeat migration probabilities. The disappointment variable represents the ratio of actural versus expected wage income in the year after the initial move, and its effect on both repeat migration probabilities is always negative and almost always highly significant. The repeat probabilities diminish after a year's stay in the destination region, but disappointment in the most recent year still has a bearing on the delayed repeat probabilities. While the quantitative impact of the disappointment variable is not large, it is difficult to draw comparisons since similar estimates are not available elsewhere.
Dimensional versus lattice regularization within Luescher's Yang Mills theory
International Nuclear Information System (INIS)
Diekmann, B.; Langer, M.; Schuette, D.
1993-01-01
It is pointed out that the coefficients of Luescher's effective model space Hamiltonian, which is based upon dimensional regularization techniques, can be reproduced by applying folded diagram perturbation theory to the Kogut Susskind Hamiltonian and by performing a lattice continuum limit (keeping the volume fixed). Alternative cutoff regularizations of the Hamiltonian are in general inconsistent, the critical point beeing the correct prediction for Luescher's tadpole coefficient which is formally quadratically divergent and which has to become a well defined (negative) number. (orig.)
Geometric continuum regularization of quantum field theory
International Nuclear Information System (INIS)
Halpern, M.B.
1989-01-01
An overview of the continuum regularization program is given. The program is traced from its roots in stochastic quantization, with emphasis on the examples of regularized gauge theory, the regularized general nonlinear sigma model and regularized quantum gravity. In its coordinate-invariant form, the regularization is seen as entirely geometric: only the supermetric on field deformations is regularized, and the prescription provides universal nonperturbative invariant continuum regularization across all quantum field theory. 54 refs
Sparse regularization for force identification using dictionaries
Qiao, Baijie; Zhang, Xingwu; Wang, Chenxi; Zhang, Hang; Chen, Xuefeng
2016-04-01
The classical function expansion method based on minimizing l2-norm of the response residual employs various basis functions to represent the unknown force. Its difficulty lies in determining the optimum number of basis functions. Considering the sparsity of force in the time domain or in other basis space, we develop a general sparse regularization method based on minimizing l1-norm of the coefficient vector of basis functions. The number of basis functions is adaptively determined by minimizing the number of nonzero components in the coefficient vector during the sparse regularization process. First, according to the profile of the unknown force, the dictionary composed of basis functions is determined. Second, a sparsity convex optimization model for force identification is constructed. Third, given the transfer function and the operational response, Sparse reconstruction by separable approximation (SpaRSA) is developed to solve the sparse regularization problem of force identification. Finally, experiments including identification of impact and harmonic forces are conducted on a cantilever thin plate structure to illustrate the effectiveness and applicability of SpaRSA. Besides the Dirac dictionary, other three sparse dictionaries including Db6 wavelets, Sym4 wavelets and cubic B-spline functions can also accurately identify both the single and double impact forces from highly noisy responses in a sparse representation frame. The discrete cosine functions can also successfully reconstruct the harmonic forces including the sinusoidal, square and triangular forces. Conversely, the traditional Tikhonov regularization method with the L-curve criterion fails to identify both the impact and harmonic forces in these cases.
Regular algebra and finite machines
Conway, John Horton
2012-01-01
World-famous mathematician John H. Conway based this classic text on a 1966 course he taught at Cambridge University. Geared toward graduate students of mathematics, it will also prove a valuable guide to researchers and professional mathematicians.His topics cover Moore's theory of experiments, Kleene's theory of regular events and expressions, Kleene algebras, the differential calculus of events, factors and the factor matrix, and the theory of operators. Additional subjects include event classes and operator classes, some regulator algebras, context-free languages, communicative regular alg
The Pentapeptide Repeat Proteins
Vetting, Matthew W.; Hegde, Subray S.; Fajardo, J. Eduardo; Fiser, Andras; Roderick, Steven L.; Takiff, Howard E.; Blanchard, John S.
2006-01-01
The Pentapeptide Repeat Protein (PRP) family has over 500 members in the prokaryotic and eukaryotic kingdoms. These proteins are composed of, or contain domains composed of, tandemly repeated amino acid sequences with a consensus sequence of [S,T,A,V][D,N][L,F]-[S,T,R][G]. The biochemical function of the vast majority of PRP family members is unknown. The three-dimensional structure of the first member of the PRP family was determined for the fluoroquinolone resistance protein (MfpA) from Myc...
Regularization of Nonmonotone Variational Inequalities
International Nuclear Information System (INIS)
Konnov, Igor V.; Ali, M.S.S.; Mazurkevich, E.O.
2006-01-01
In this paper we extend the Tikhonov-Browder regularization scheme from monotone to rather a general class of nonmonotone multivalued variational inequalities. We show that their convergence conditions hold for some classes of perfectly and nonperfectly competitive economic equilibrium problems
Lattice regularized chiral perturbation theory
International Nuclear Information System (INIS)
Borasoy, Bugra; Lewis, Randy; Ouimet, Pierre-Philippe A.
2004-01-01
Chiral perturbation theory can be defined and regularized on a spacetime lattice. A few motivations are discussed here, and an explicit lattice Lagrangian is reviewed. A particular aspect of the connection between lattice chiral perturbation theory and lattice QCD is explored through a study of the Wess-Zumino-Witten term
2011-01-20
... Meeting SUMMARY: Notice is hereby given of the regular meeting of the Farm Credit System Insurance Corporation Board (Board). Date and Time: The meeting of the Board will be held at the offices of the Farm... meeting of the Board will be open to the [[Page 3630
Forcing absoluteness and regularity properties
Ikegami, D.
2010-01-01
For a large natural class of forcing notions, we prove general equivalence theorems between forcing absoluteness statements, regularity properties, and transcendence properties over L and the core model K. We use our results to answer open questions from set theory of the reals.
Globals of Completely Regular Monoids
Institute of Scientific and Technical Information of China (English)
Wu Qian-qian; Gan Ai-ping; Du Xian-kun
2015-01-01
An element of a semigroup S is called irreducible if it cannot be expressed as a product of two elements in S both distinct from itself. In this paper we show that the class C of all completely regular monoids with irreducible identity elements satisfies the strong isomorphism property and so it is globally determined.
Fluid queues and regular variation
Boxma, O.J.
1996-01-01
This paper considers a fluid queueing system, fed by N independent sources that alternate between silence and activity periods. We assume that the distribution of the activity periods of one or more sources is a regularly varying function of index ¿. We show that its fat tail gives rise to an even
Fluid queues and regular variation
O.J. Boxma (Onno)
1996-01-01
textabstractThis paper considers a fluid queueing system, fed by $N$ independent sources that alternate between silence and activity periods. We assume that the distribution of the activity periods of one or more sources is a regularly varying function of index $zeta$. We show that its fat tail
Empirical laws, regularity and necessity
Koningsveld, H.
1973-01-01
In this book I have tried to develop an analysis of the concept of an empirical law, an analysis that differs in many ways from the alternative analyse's found in contemporary literature dealing with the subject.
1 am referring especially to two well-known views, viz. the regularity and
Interval matrices: Regularity generates singularity
Czech Academy of Sciences Publication Activity Database
Rohn, Jiří; Shary, S.P.
2018-01-01
Roč. 540, 1 March (2018), s. 149-159 ISSN 0024-3795 Institutional support: RVO:67985807 Keywords : interval matrix * regularity * singularity * P-matrix * absolute value equation * diagonally singilarizable matrix Subject RIV: BA - General Mathematics Impact factor: 0.973, year: 2016
Regularization in Matrix Relevance Learning
Schneider, Petra; Bunte, Kerstin; Stiekema, Han; Hammer, Barbara; Villmann, Thomas; Biehl, Michael
A In this paper, we present a regularization technique to extend recently proposed matrix learning schemes in learning vector quantization (LVQ). These learning algorithms extend the concept of adaptive distance measures in LVQ to the use of relevance matrices. In general, metric learning can
Repeated Causal Decision Making
Hagmayer, York; Meder, Bjorn
2013-01-01
Many of our decisions refer to actions that have a causal impact on the external environment. Such actions may not only allow for the mere learning of expected values or utilities but also for acquiring knowledge about the causal structure of our world. We used a repeated decision-making paradigm to examine what kind of knowledge people acquire in…
African Journals Online (AJOL)
In the present study, 78 mapped simple sequence repeat (SSR) markers representing 11 linkage groups of adzuki bean were evaluated for transferability to mungbean and related Vigna spp. 41 markers amplified characteristic bands in at least one Vigna species. The transferability percentage across the genotypes ranged ...
Regular and conformal regular cores for static and rotating solutions
Energy Technology Data Exchange (ETDEWEB)
Azreg-Aïnou, Mustapha
2014-03-07
Using a new metric for generating rotating solutions, we derive in a general fashion the solution of an imperfect fluid and that of its conformal homolog. We discuss the conditions that the stress–energy tensors and invariant scalars be regular. On classical physical grounds, it is stressed that conformal fluids used as cores for static or rotating solutions are exempt from any malicious behavior in that they are finite and defined everywhere.
Regular and conformal regular cores for static and rotating solutions
International Nuclear Information System (INIS)
Azreg-Aïnou, Mustapha
2014-01-01
Using a new metric for generating rotating solutions, we derive in a general fashion the solution of an imperfect fluid and that of its conformal homolog. We discuss the conditions that the stress–energy tensors and invariant scalars be regular. On classical physical grounds, it is stressed that conformal fluids used as cores for static or rotating solutions are exempt from any malicious behavior in that they are finite and defined everywhere.
Sparsity regularization for parameter identification problems
International Nuclear Information System (INIS)
Jin, Bangti; Maass, Peter
2012-01-01
The investigation of regularization schemes with sparsity promoting penalty terms has been one of the dominant topics in the field of inverse problems over the last years, and Tikhonov functionals with ℓ p -penalty terms for 1 ⩽ p ⩽ 2 have been studied extensively. The first investigations focused on regularization properties of the minimizers of such functionals with linear operators and on iteration schemes for approximating the minimizers. These results were quickly transferred to nonlinear operator equations, including nonsmooth operators and more general function space settings. The latest results on regularization properties additionally assume a sparse representation of the true solution as well as generalized source conditions, which yield some surprising and optimal convergence rates. The regularization theory with ℓ p sparsity constraints is relatively complete in this setting; see the first part of this review. In contrast, the development of efficient numerical schemes for approximating minimizers of Tikhonov functionals with sparsity constraints for nonlinear operators is still ongoing. The basic iterated soft shrinkage approach has been extended in several directions and semi-smooth Newton methods are becoming applicable in this field. In particular, the extension to more general non-convex, non-differentiable functionals by variational principles leads to a variety of generalized iteration schemes. We focus on such iteration schemes in the second part of this review. A major part of this survey is devoted to applying sparsity constrained regularization techniques to parameter identification problems for partial differential equations, which we regard as the prototypical setting for nonlinear inverse problems. Parameter identification problems exhibit different levels of complexity and we aim at characterizing a hierarchy of such problems. The operator defining these inverse problems is the parameter-to-state mapping. We first summarize some
Lavrentiev regularization method for nonlinear ill-posed problems
International Nuclear Information System (INIS)
Kinh, Nguyen Van
2002-10-01
In this paper we shall be concerned with Lavientiev regularization method to reconstruct solutions x 0 of non ill-posed problems F(x)=y o , where instead of y 0 noisy data y δ is an element of X with absolut(y δ -y 0 ) ≤ δ are given and F:X→X is an accretive nonlinear operator from a real reflexive Banach space X into itself. In this regularization method solutions x α δ are obtained by solving the singularly perturbed nonlinear operator equation F(x)+α(x-x*)=y δ with some initial guess x*. Assuming certain conditions concerning the operator F and the smoothness of the element x*-x 0 we derive stability estimates which show that the accuracy of the regularized solutions is order optimal provided that the regularization parameter α has been chosen properly. (author)
Energy functions for regularization algorithms
Delingette, H.; Hebert, M.; Ikeuchi, K.
1991-01-01
Regularization techniques are widely used for inverse problem solving in computer vision such as surface reconstruction, edge detection, or optical flow estimation. Energy functions used for regularization algorithms measure how smooth a curve or surface is, and to render acceptable solutions these energies must verify certain properties such as invariance with Euclidean transformations or invariance with parameterization. The notion of smoothness energy is extended here to the notion of a differential stabilizer, and it is shown that to void the systematic underestimation of undercurvature for planar curve fitting, it is necessary that circles be the curves of maximum smoothness. A set of stabilizers is proposed that meet this condition as well as invariance with rotation and parameterization.
Maximum mutual information regularized classification
Wang, Jim Jing-Yan
2014-09-07
In this paper, a novel pattern classification approach is proposed by regularizing the classifier learning to maximize mutual information between the classification response and the true class label. We argue that, with the learned classifier, the uncertainty of the true class label of a data sample should be reduced by knowing its classification response as much as possible. The reduced uncertainty is measured by the mutual information between the classification response and the true class label. To this end, when learning a linear classifier, we propose to maximize the mutual information between classification responses and true class labels of training samples, besides minimizing the classification error and reducing the classifier complexity. An objective function is constructed by modeling mutual information with entropy estimation, and it is optimized by a gradient descend method in an iterative algorithm. Experiments on two real world pattern classification problems show the significant improvements achieved by maximum mutual information regularization.
Maximum mutual information regularized classification
Wang, Jim Jing-Yan; Wang, Yi; Zhao, Shiguang; Gao, Xin
2014-01-01
In this paper, a novel pattern classification approach is proposed by regularizing the classifier learning to maximize mutual information between the classification response and the true class label. We argue that, with the learned classifier, the uncertainty of the true class label of a data sample should be reduced by knowing its classification response as much as possible. The reduced uncertainty is measured by the mutual information between the classification response and the true class label. To this end, when learning a linear classifier, we propose to maximize the mutual information between classification responses and true class labels of training samples, besides minimizing the classification error and reducing the classifier complexity. An objective function is constructed by modeling mutual information with entropy estimation, and it is optimized by a gradient descend method in an iterative algorithm. Experiments on two real world pattern classification problems show the significant improvements achieved by maximum mutual information regularization.
Automated genotyping of dinucleotide repeat markers
Energy Technology Data Exchange (ETDEWEB)
Perlin, M.W.; Hoffman, E.P. [Carnegie Mellon Univ., Pittsburgh, PA (United States)]|[Univ. of Pittsburgh, PA (United States)
1994-09-01
The dinucleotide repeats (i.e., microsatellites) such as CA-repeats are a highly polymorphic, highly abundant class of PCR-amplifiable markers that have greatly streamlined genetic mapping experimentation. It is expected that over 30,000 such markers (including tri- and tetranucleotide repeats) will be characterized for routine use in the next few years. Since only size determination, and not sequencing, is required to determine alleles, in principle, dinucleotide repeat genotyping is easily performed on electrophoretic gels, and can be automated using DNA sequencers. Unfortunately, PCR stuttering with these markers generates not one band for each allele, but a pattern of bands. Since closely spaced alleles must be disambiguated by human scoring, this poses a key obstacle to full automation. We have developed methods that overcome this obstacle. Our model is that the observed data is generated by arithmetic superposition (i.e., convolution) of multiple allele patterns. By quantitatively measuring the size of each component band, and exploiting the unique stutter pattern associated with each marker, closely spaced alleles can be deconvolved; this unambiguously reconstructs the {open_quotes}true{close_quotes} allele bands, with stutter artifact removed. We used this approach in a system for automated diagnosis of (X-linked) Duchenne muscular dystrophy; four multiplexed CA-repeats within the dystrophin gene were assayed on a DNA sequencer. Our method accurately detected small variations in gel migration that shifted the allele size estimate. In 167 nonmutated alleles, 89% (149/167) showed no size variation, 9% (15/167) showed 1 bp variation, and 2% (3/167) showed 2 bp variation. We are currently developing a library of dinucleotide repeat patterns; together with our deconvolution methods, this library will enable fully automated genotyping of dinucleotide repeats from sizing data.
Regularized strings with extrinsic curvature
International Nuclear Information System (INIS)
Ambjoern, J.; Durhuus, B.
1987-07-01
We analyze models of discretized string theories, where the path integral over world sheet variables is regularized by summing over triangulated surfaces. The inclusion of curvature in the action is a necessity for the scaling of the string tension. We discuss the physical properties of models with extrinsic curvature terms in the action and show that the string tension vanishes at the critical point where the bare extrinsic curvature coupling tends to infinity. Similar results are derived for models with intrinsic curvature. (orig.)
Circuit complexity of regular languages
Czech Academy of Sciences Publication Activity Database
Koucký, Michal
2009-01-01
Roč. 45, č. 4 (2009), s. 865-879 ISSN 1432-4350 R&D Projects: GA ČR GP201/07/P276; GA MŠk(CZ) 1M0545 Institutional research plan: CEZ:AV0Z10190503 Keywords : regular languages * circuit complexity * upper and lower bounds Subject RIV: BA - General Mathematics Impact factor: 0.726, year: 2009
Variational analysis of regular mappings theory and applications
Ioffe, Alexander D
2017-01-01
This monograph offers the first systematic account of (metric) regularity theory in variational analysis. It presents new developments alongside classical results and demonstrates the power of the theory through applications to various problems in analysis and optimization theory. The origins of metric regularity theory can be traced back to a series of fundamental ideas and results of nonlinear functional analysis and global analysis centered around problems of existence and stability of solutions of nonlinear equations. In variational analysis, regularity theory goes far beyond the classical setting and is also concerned with non-differentiable and multi-valued operators. The present volume explores all basic aspects of the theory, from the most general problems for mappings between metric spaces to those connected with fairly concrete and important classes of operators acting in Banach and finite dimensional spaces. Written by a leading expert in the field, the book covers new and powerful techniques, whic...
General inverse problems for regular variation
DEFF Research Database (Denmark)
Damek, Ewa; Mikosch, Thomas Valentin; Rosinski, Jan
2014-01-01
Regular variation of distributional tails is known to be preserved by various linear transformations of some random structures. An inverse problem for regular variation aims at understanding whether the regular variation of a transformed random object is caused by regular variation of components ...
Regular and stochastic particle motion in plasma dynamics
International Nuclear Information System (INIS)
Kaufman, A.N.
1979-08-01
A Hamiltonian formalism is presented for the study of charged-particle trajectories in the self-consistent field of the particles. The intention is to develop a general approach to plasma dynamics. Transformations of phase-space variables are used to separate out the regular, adiabatic motion from the irregular, stochastic trajectories. Several new techniques are included in this presentation
Color correction optimization with hue regularization
Zhang, Heng; Liu, Huaping; Quan, Shuxue
2011-01-01
Previous work has suggested that observers are capable of judging the quality of an image without any knowledge of the original scene. When no reference is available, observers can extract the apparent objects in an image and compare them with the typical colors of similar objects recalled from their memories. Some generally agreed upon research results indicate that although perfect colorimetric rendering is not conspicuous and color errors can be well tolerated, the appropriate rendition of certain memory colors such as skin, grass, and sky is an important factor in the overall perceived image quality. These colors are appreciated in a fairly consistent manner and are memorized with slightly different hues and higher color saturation. The aim of color correction for a digital color pipeline is to transform the image data from a device dependent color space to a target color space, usually through a color correction matrix which in its most basic form is optimized through linear regressions between the two sets of data in two color spaces in the sense of minimized Euclidean color error. Unfortunately, this method could result in objectionable distortions if the color error biased certain colors undesirably. In this paper, we propose a color correction optimization method with preferred color reproduction in mind through hue regularization and present some experimental results.
EIT image reconstruction with four dimensional regularization.
Dai, Tao; Soleimani, Manuchehr; Adler, Andy
2008-09-01
Electrical impedance tomography (EIT) reconstructs internal impedance images of the body from electrical measurements on body surface. The temporal resolution of EIT data can be very high, although the spatial resolution of the images is relatively low. Most EIT reconstruction algorithms calculate images from data frames independently, although data are actually highly correlated especially in high speed EIT systems. This paper proposes a 4-D EIT image reconstruction for functional EIT. The new approach is developed to directly use prior models of the temporal correlations among images and 3-D spatial correlations among image elements. A fast algorithm is also developed to reconstruct the regularized images. Image reconstruction is posed in terms of an augmented image and measurement vector which are concatenated from a specific number of previous and future frames. The reconstruction is then based on an augmented regularization matrix which reflects the a priori constraints on temporal and 3-D spatial correlations of image elements. A temporal factor reflecting the relative strength of the image correlation is objectively calculated from measurement data. Results show that image reconstruction models which account for inter-element correlations, in both space and time, show improved resolution and noise performance, in comparison to simpler image models.
Graph Regularized Auto-Encoders for Image Representation.
Yiyi Liao; Yue Wang; Yong Liu
2017-06-01
Image representation has been intensively explored in the domain of computer vision for its significant influence on the relative tasks such as image clustering and classification. It is valuable to learn a low-dimensional representation of an image which preserves its inherent information from the original image space. At the perspective of manifold learning, this is implemented with the local invariant idea to capture the intrinsic low-dimensional manifold embedded in the high-dimensional input space. Inspired by the recent successes of deep architectures, we propose a local invariant deep nonlinear mapping algorithm, called graph regularized auto-encoder (GAE). With the graph regularization, the proposed method preserves the local connectivity from the original image space to the representation space, while the stacked auto-encoders provide explicit encoding model for fast inference and powerful expressive capacity for complex modeling. Theoretical analysis shows that the graph regularizer penalizes the weighted Frobenius norm of the Jacobian matrix of the encoder mapping, where the weight matrix captures the local property in the input space. Furthermore, the underlying effects on the hidden representation space are revealed, providing insightful explanation to the advantage of the proposed method. Finally, the experimental results on both clustering and classification tasks demonstrate the effectiveness of our GAE as well as the correctness of the proposed theoretical analysis, and it also suggests that GAE is a superior solution to the current deep representation learning techniques comparing with variant auto-encoders and existing local invariant methods.
Trembach, Vera
2014-01-01
Space is an introduction to the mysteries of the Universe. Included are Task Cards for independent learning, Journal Word Cards for creative writing, and Hands-On Activities for reinforcing skills in Math and Language Arts. Space is a perfect introduction to further research of the Solar System.
Characterisation of the Repeat Breeding Syndrome in Swedish Dairy Cattle
Directory of Open Access Journals (Sweden)
Emanuelson U
2002-06-01
Full Text Available Repeat breeding (RB, defined as cows failure to conceive from 3 or more regularly spaced services in the absence of detectable abnormalities, is a costly problem for the dairy producer. To elucidate the occurrence of RB in Swedish dairy herds and to identify risk factors of the syndrome totally 57,616 dairy cows in 1,541 herds were investigated based on data from the official Swedish production-, AI- and disease- recording schemes. The characteristics of the RB syndrome were studied on both herd and individual cow level. The effects of risk factors on the herd frequency of RB were studied by logistic regression. A generalised linear mixed model with logit link, and accounting for herd-level variation by including a random effect of herd, was used to study the individual animal risk for RB. The total percentage of RB animals was 10.1% and the median proportion of RB animals in the herds studied was 7.5%. The proportion of RB cows in herds increased with decreased herd sizes with decreased average days from calving to first AI, with increased herd incidence of clinical mastitis, with decreased reproductive disorders, and increased other diseases treated by a veterinarian. On animal level, the risk factors were milk yield, lactation number, difficult calving or dystocia, season at first service, days in milk at first service and veterinary treatment for reproductive disorders before the first service. Cows being an RB animal in the previous lactation had a higher risk of becoming an RB animal also in the present lactation. In conclusion our results show that the repeat breeding syndrome is a multifactorial problem involving a number of extrinsic factors as well as intrinsic factors coupled to the individual animal.
Generalized Bregman distances and convergence rates for non-convex regularization methods
International Nuclear Information System (INIS)
Grasmair, Markus
2010-01-01
We generalize the notion of Bregman distance using concepts from abstract convexity in order to derive convergence rates for Tikhonov regularization with non-convex regularization terms. In particular, we study the non-convex regularization of linear operator equations on Hilbert spaces, showing that the conditions required for the application of the convergence rates results are strongly related to the standard range conditions from the convex case. Moreover, we consider the setting of sparse regularization, where we show that a rate of order δ 1/p holds, if the regularization term has a slightly faster growth at zero than |t| p
Regularized Statistical Analysis of Anatomy
DEFF Research Database (Denmark)
Sjöstrand, Karl
2007-01-01
This thesis presents the application and development of regularized methods for the statistical analysis of anatomical structures. Focus is on structure-function relationships in the human brain, such as the connection between early onset of Alzheimer’s disease and shape changes of the corpus...... and mind. Statistics represents a quintessential part of such investigations as they are preluded by a clinical hypothesis that must be verified based on observed data. The massive amounts of image data produced in each examination pose an important and interesting statistical challenge...... efficient algorithms which make the analysis of large data sets feasible, and gives examples of applications....
Academic Training Lecture - Regular Programme
PH Department
2011-01-01
Regular Lecture Programme 9 May 2011 ACT Lectures on Detectors - Inner Tracking Detectors by Pippa Wells (CERN) 10 May 2011 ACT Lectures on Detectors - Calorimeters (2/5) by Philippe Bloch (CERN) 11 May 2011 ACT Lectures on Detectors - Muon systems (3/5) by Kerstin Hoepfner (RWTH Aachen) 12 May 2011 ACT Lectures on Detectors - Particle Identification and Forward Detectors by Peter Krizan (University of Ljubljana and J. Stefan Institute, Ljubljana, Slovenia) 13 May 2011 ACT Lectures on Detectors - Trigger and Data Acquisition (5/5) by Dr. Brian Petersen (CERN) from 11:00 to 12:00 at CERN ( Bldg. 222-R-001 - Filtration Plant )
Regularity criteria for incompressible magnetohydrodynamics equations in three dimensions
International Nuclear Information System (INIS)
Lin, Hongxia; Du, Lili
2013-01-01
In this paper, we give some new global regularity criteria for three-dimensional incompressible magnetohydrodynamics (MHD) equations. More precisely, we provide some sufficient conditions in terms of the derivatives of the velocity or pressure, for the global regularity of strong solutions to 3D incompressible MHD equations in the whole space, as well as for periodic boundary conditions. Moreover, the regularity criterion involving three of the nine components of the velocity gradient tensor is also obtained. The main results generalize the recent work by Cao and Wu (2010 Two regularity criteria for the 3D MHD equations J. Diff. Eqns 248 2263–74) and the analysis in part is based on the works by Cao C and Titi E (2008 Regularity criteria for the three-dimensional Navier–Stokes equations Indiana Univ. Math. J. 57 2643–61; 2011 Gobal regularity criterion for the 3D Navier–Stokes equations involving one entry of the velocity gradient tensor Arch. Rational Mech. Anal. 202 919–32) for 3D incompressible Navier–Stokes equations. (paper)
Repeatability of Cryogenic Multilayer Insulation
Johnson, W. L.; Vanderlaan, M.; Wood, J. J.; Rhys, N. O.; Guo, W.; Van Sciver, S.; Chato, D. J.
2017-12-01
Due to the variety of requirements across aerospace platforms, and one off projects, the repeatability of cryogenic multilayer insulation (MLI) has never been fully established. The objective of this test program is to provide a more basic understanding of the thermal performance repeatability of MLI systems that are applicable to large scale tanks. There are several different types of repeatability that can be accounted for: these include repeatability between identical blankets, repeatability of installation of the same blanket, and repeatability of a test apparatus. The focus of the work in this report is on the first two types of repeatability. Statistically, repeatability can mean many different things. In simplest form, it refers to the range of performance that a population exhibits and the average of the population. However, as more and more identical components are made (i.e. the population of concern grows), the simple range morphs into a standard deviation from an average performance. Initial repeatability testing on MLI blankets has been completed at Florida State University. Repeatability of five Glenn Research Center (GRC) provided coupons with 25 layers was shown to be +/- 8.4% whereas repeatability of repeatedly installing a single coupon was shown to be +/- 8.0%. A second group of 10 coupons has been fabricated by Yetispace and tested by Florida State University, the repeatability between coupons has been shown to be +/- 15-25%. Based on detailed statistical analysis, the data has been shown to be statistically significant.
RES: Regularized Stochastic BFGS Algorithm
Mokhtari, Aryan; Ribeiro, Alejandro
2014-12-01
RES, a regularized stochastic version of the Broyden-Fletcher-Goldfarb-Shanno (BFGS) quasi-Newton method is proposed to solve convex optimization problems with stochastic objectives. The use of stochastic gradient descent algorithms is widespread, but the number of iterations required to approximate optimal arguments can be prohibitive in high dimensional problems. Application of second order methods, on the other hand, is impracticable because computation of objective function Hessian inverses incurs excessive computational cost. BFGS modifies gradient descent by introducing a Hessian approximation matrix computed from finite gradient differences. RES utilizes stochastic gradients in lieu of deterministic gradients for both, the determination of descent directions and the approximation of the objective function's curvature. Since stochastic gradients can be computed at manageable computational cost RES is realizable and retains the convergence rate advantages of its deterministic counterparts. Convergence results show that lower and upper bounds on the Hessian egeinvalues of the sample functions are sufficient to guarantee convergence to optimal arguments. Numerical experiments showcase reductions in convergence time relative to stochastic gradient descent algorithms and non-regularized stochastic versions of BFGS. An application of RES to the implementation of support vector machines is developed.
Regularized Label Relaxation Linear Regression.
Fang, Xiaozhao; Xu, Yong; Li, Xuelong; Lai, Zhihui; Wong, Wai Keung; Fang, Bingwu
2018-04-01
Linear regression (LR) and some of its variants have been widely used for classification problems. Most of these methods assume that during the learning phase, the training samples can be exactly transformed into a strict binary label matrix, which has too little freedom to fit the labels adequately. To address this problem, in this paper, we propose a novel regularized label relaxation LR method, which has the following notable characteristics. First, the proposed method relaxes the strict binary label matrix into a slack variable matrix by introducing a nonnegative label relaxation matrix into LR, which provides more freedom to fit the labels and simultaneously enlarges the margins between different classes as much as possible. Second, the proposed method constructs the class compactness graph based on manifold learning and uses it as the regularization item to avoid the problem of overfitting. The class compactness graph is used to ensure that the samples sharing the same labels can be kept close after they are transformed. Two different algorithms, which are, respectively, based on -norm and -norm loss functions are devised. These two algorithms have compact closed-form solutions in each iteration so that they are easily implemented. Extensive experiments show that these two algorithms outperform the state-of-the-art algorithms in terms of the classification accuracy and running time.
Mathematical Modeling the Geometric Regularity in Proteus Mirabilis Colonies
Zhang, Bin; Jiang, Yi; Minsu Kim Collaboration
Proteus Mirabilis colony exhibits striking spatiotemporal regularity, with concentric ring patterns with alternative high and low bacteria density in space, and periodicity for repetition process of growth and swarm in time. We present a simple mathematical model to explain the spatiotemporal regularity of P. Mirabilis colonies. We study a one-dimensional system. Using a reaction-diffusion model with thresholds in cell density and nutrient concentration, we recreated periodic growth and spread patterns, suggesting that the nutrient constraint and cell density regulation might be sufficient to explain the spatiotemporal periodicity in P. Mirabilis colonies. We further verify this result using a cell based model.
Wave dynamics of regular and chaotic rays
International Nuclear Information System (INIS)
McDonald, S.W.
1983-09-01
In order to investigate general relationships between waves and rays in chaotic systems, I study the eigenfunctions and spectrum of a simple model, the two-dimensional Helmholtz equation in a stadium boundary, for which the rays are ergodic. Statistical measurements are performed so that the apparent randomness of the stadium modes can be quantitatively contrasted with the familiar regularities observed for the modes in a circular boundary (with integrable rays). The local spatial autocorrelation of the eigenfunctions is constructed in order to indirectly test theoretical predictions for the nature of the Wigner distribution corresponding to chaotic waves. A portion of the large-eigenvalue spectrum is computed and reported in an appendix; the probability distribution of successive level spacings is analyzed and compared with theoretical predictions. The two principal conclusions are: 1) waves associated with chaotic rays may exhibit randomly situated localized regions of high intensity; 2) the Wigner function for these waves may depart significantly from being uniformly distributed over the surface of constant frequency in the ray phase space
Repeat Customer Success in Extension
Bess, Melissa M.; Traub, Sarah M.
2013-01-01
Four multi-session research-based programs were offered by two Extension specialist in one rural Missouri county. Eleven participants who came to multiple Extension programs could be called "repeat customers." Based on the total number of participants for all four programs, 25% could be deemed as repeat customers. Repeat customers had…
78 FR 65594 - Vehicular Repeaters
2013-11-01
... coordinators estimate the effect on coordination fees? Does the supposed benefit that mobile repeater stations... allow the licensing and operation of vehicular repeater systems and other mobile repeaters by public... email: [email protected] or phone: 202-418- 0530 or TTY: 202-418-0432. For detailed instructions for...
From inactive to regular jogger
DEFF Research Database (Denmark)
Lund-Cramer, Pernille; Brinkmann Løite, Vibeke; Bredahl, Thomas Viskum Gjelstrup
study was conducted using individual semi-structured interviews on how a successful long-term behavior change had been achieved. Ten informants were purposely selected from participants in the DANO-RUN research project (7 men, 3 women, average age 41.5). Interviews were performed on the basis of Theory...... of Planned Behavior (TPB) and The Transtheoretical Model (TTM). Coding and analysis of interviews were performed using NVivo 10 software. Results TPB: During the behavior change process, the intention to jogging shifted from a focus on weight loss and improved fitness to both physical health, psychological......Title From inactive to regular jogger - a qualitative study of achieved behavioral change among recreational joggers Authors Pernille Lund-Cramer & Vibeke Brinkmann Løite Purpose Despite extensive knowledge of barriers to physical activity, most interventions promoting physical activity have proven...
Academic Training Lecture Regular Programme
2012-01-01
AMS_02 Particle Physics Detector Technologies Orbiting the Earth (1/2), by Corrado Gargiulo (CERN). Thursday, April 19, 2012 from 11:00 to 12:30 (Europe/Zurich) at CERN ( 4-3-006 - TH Conference Room ) AMS-02 has taken the high performance technologies used in particle physics and implemented them for use in low Earth orbit. Safety aspects for the Space Shuttle flight, that carried AMS_02 to the International Space Station, Space environment and inaccessibility during the life of AMS_02 are some of the aspects which have driven the design of the experiment. The technical challenges to build such a detector have been surmounted through the close collaboration amongst the AMS scientists and industries around the world. Their efforts have resulted in the development of new technologies and higher standards of precision.
Tessellating the Sphere with Regular Polygons
Soto-Johnson, Hortensia; Bechthold, Dawn
2004-01-01
Tessellations in the Euclidean plane and regular polygons that tessellate the sphere are reviewed. The regular polygons that can possibly tesellate the sphere are spherical triangles, squares and pentagons.
On the equivalence of different regularization methods
International Nuclear Information System (INIS)
Brzezowski, S.
1985-01-01
The R-circunflex-operation preceded by the regularization procedure is discussed. Some arguments are given, according to which the results may depend on the method of regularization, introduced in order to avoid divergences in perturbation calculations. 10 refs. (author)
The uniqueness of the regularization procedure
International Nuclear Information System (INIS)
Brzezowski, S.
1981-01-01
On the grounds of the BPHZ procedure, the criteria of correct regularization in perturbation calculations of QFT are given, together with the prescription for dividing the regularized formulas into the finite and infinite parts. (author)
Dennis, V A; Klei, T R; Miller, M A; Chapman, M R; McClure, J R
1992-04-01
Ten helminth-free pony foals divided into three groups were used in this study. Eight foals were each experimentally infected per os with 50 Strongylus vulgaris infective larvae weekly for 4 weeks, at which time one foal died of acute verminous arteritis. The remaining seven foals subsequently received 50 S. vulgaris infective larvae every 2 weeks for an additional 20 weeks. Four of the infected foals remained untreated (Group 1) and three of the infected foals were given ivermectin at 8, 16 and 24 weeks post initial infection (Group 2). Two foals served as controls (Group 3). Foals in Group 1 developed eosinophilia, which was sustained throughout the course of infection. A mild eosinophilia also developed in Group 2 foals; however, the eosinophil numbers were markedly reduced for 3 weeks after each ivermectin treatment. Only foals in Group 1 developed significant (P less than 0.05) hyperproteinemia, hyperbetaglobulinemia and a reversal of the albumin/globulin (A/G) ratio 4 weeks after initial infection. Significant (P less than 0.05) IgG anti-S. vulgaris ELISA titers developed in foals in Groups 1 and 2 3 weeks after infection and were sustained for the duration of the experiment. Western blot analysis of soluble somatic antigens of S. vulgaris adult female and male worms probed with sera from foals in Groups 1 and 2 revealed only subtle differences between these animals. The blastogenic reactivity of peripheral blood mononuclear cells (PBMC) to phytohemagglutinin and concanavalin A was not significantly different between groups. Peripheral blood mononuclear cells from foals in Groups 1 and 2 developed significant (P less than 0.05) blastogenic reactivity to S. vulgaris soluble adult somatic antigen when examined at 25 weeks after infection. Mesenteric lymph node cells from foals in Group 2, although not statistically significant, were more reactive to antigen than were the mesenteric lymph node cells from foals in Group 1 when examined at 27 weeks after infection. These results suggest that significant alterations in the immune response of ponies to S. vulgaris does not occur after intravascular killing of larvae by ivermectin treatments.
Discriminative Elastic-Net Regularized Linear Regression.
Zhang, Zheng; Lai, Zhihui; Xu, Yong; Shao, Ling; Wu, Jian; Xie, Guo-Sen
2017-03-01
In this paper, we aim at learning compact and discriminative linear regression models. Linear regression has been widely used in different problems. However, most of the existing linear regression methods exploit the conventional zero-one matrix as the regression targets, which greatly narrows the flexibility of the regression model. Another major limitation of these methods is that the learned projection matrix fails to precisely project the image features to the target space due to their weak discriminative capability. To this end, we present an elastic-net regularized linear regression (ENLR) framework, and develop two robust linear regression models which possess the following special characteristics. First, our methods exploit two particular strategies to enlarge the margins of different classes by relaxing the strict binary targets into a more feasible variable matrix. Second, a robust elastic-net regularization of singular values is introduced to enhance the compactness and effectiveness of the learned projection matrix. Third, the resulting optimization problem of ENLR has a closed-form solution in each iteration, which can be solved efficiently. Finally, rather than directly exploiting the projection matrix for recognition, our methods employ the transformed features as the new discriminate representations to make final image classification. Compared with the traditional linear regression model and some of its variants, our method is much more accurate in image classification. Extensive experiments conducted on publicly available data sets well demonstrate that the proposed framework can outperform the state-of-the-art methods. The MATLAB codes of our methods can be available at http://www.yongxu.org/lunwen.html.
Application of Turchin's method of statistical regularization
Zelenyi, Mikhail; Poliakova, Mariia; Nozik, Alexander; Khudyakov, Alexey
2018-04-01
During analysis of experimental data, one usually needs to restore a signal after it has been convoluted with some kind of apparatus function. According to Hadamard's definition this problem is ill-posed and requires regularization to provide sensible results. In this article we describe an implementation of the Turchin's method of statistical regularization based on the Bayesian approach to the regularization strategy.
Regular extensions of some classes of grammars
Nijholt, Antinus
Culik and Cohen introduced the class of LR-regular grammars, an extension of the LR(k) grammars. In this report we consider the analogous extension of the LL(k) grammers, called the LL-regular grammars. The relations of this class of grammars to other classes of grammars are shown. Every LL-regular
Interactive facades analysis and synthesis of semi-regular facades
AlHalawani, Sawsan; Yang, Yongliang; Liu, Han; Mitra, Niloy J.
2013-01-01
Urban facades regularly contain interesting variations due to allowed deformations of repeated elements (e.g., windows in different open or close positions) posing challenges to state-of-the-art facade analysis algorithms. We propose a semi-automatic framework to recover both repetition patterns of the elements and their individual deformation parameters to produce a factored facade representation. Such a representation enables a range of applications including interactive facade images, improved multi-view stereo reconstruction, facade-level change detection, and novel image editing possibilities. © 2013 The Author(s) Computer Graphics Forum © 2013 The Eurographics Association and Blackwell Publishing Ltd.
Interactive facades analysis and synthesis of semi-regular facades
AlHalawani, Sawsan
2013-05-01
Urban facades regularly contain interesting variations due to allowed deformations of repeated elements (e.g., windows in different open or close positions) posing challenges to state-of-the-art facade analysis algorithms. We propose a semi-automatic framework to recover both repetition patterns of the elements and their individual deformation parameters to produce a factored facade representation. Such a representation enables a range of applications including interactive facade images, improved multi-view stereo reconstruction, facade-level change detection, and novel image editing possibilities. © 2013 The Author(s) Computer Graphics Forum © 2013 The Eurographics Association and Blackwell Publishing Ltd.
Filippone, Michele; Brouwer, Piet
2016-01-01
Tunneling between a point contact and a one-dimensional wire is usually described with the help of a tunneling Hamiltonian that contains a delta function in position space. Whereas the leading order contribution to the tunneling current is independent of the way this delta function is regularized, higher-order corrections with respect to the tunneling amplitude are known to depend on the regularization. Instead of regularizing the delta function in the tunneling Hamiltonian, one may also obta...
Repeated causal decision making.
Hagmayer, York; Meder, Björn
2013-01-01
Many of our decisions refer to actions that have a causal impact on the external environment. Such actions may not only allow for the mere learning of expected values or utilities but also for acquiring knowledge about the causal structure of our world. We used a repeated decision-making paradigm to examine what kind of knowledge people acquire in such situations and how they use their knowledge to adapt to changes in the decision context. Our studies show that decision makers' behavior is strongly contingent on their causal beliefs and that people exploit their causal knowledge to assess the consequences of changes in the decision problem. A high consistency between hypotheses about causal structure, causally expected values, and actual choices was observed. The experiments show that (a) existing causal hypotheses guide the interpretation of decision feedback, (b) consequences of decisions are used to revise existing causal beliefs, and (c) decision makers use the experienced feedback to induce a causal model of the choice situation even when they have no initial causal hypotheses, which (d) enables them to adapt their choices to changes of the decision problem. (PsycINFO Database Record (c) 2013 APA, all rights reserved).
Class of regular bouncing cosmologies
Vasilić, Milovan
2017-06-01
In this paper, I construct a class of everywhere regular geometric sigma models that possess bouncing solutions. Precisely, I show that every bouncing metric can be made a solution of such a model. My previous attempt to do so by employing one scalar field has failed due to the appearance of harmful singularities near the bounce. In this work, I use four scalar fields to construct a class of geometric sigma models which are free of singularities. The models within the class are parametrized by their background geometries. I prove that, whatever background is chosen, the dynamics of its small perturbations is classically stable on the whole time axis. Contrary to what one expects from the structure of the initial Lagrangian, the physics of background fluctuations is found to carry two tensor, two vector, and two scalar degrees of freedom. The graviton mass, which naturally appears in these models, is shown to be several orders of magnitude smaller than its experimental bound. I provide three simple examples to demonstrate how this is done in practice. In particular, I show that graviton mass can be made arbitrarily small.
Partial Regularity for Holonomic Minimisers of Quasiconvex Functionals
Hopper, Christopher P.
2016-10-01
We prove partial regularity for local minimisers of certain strictly quasiconvex integral functionals, over a class of Sobolev mappings into a compact Riemannian manifold, to which such mappings are said to be holonomically constrained. Our approach uses the lifting of Sobolev mappings to the universal covering space, the connectedness of the covering space, an application of Ekeland's variational principle and a certain tangential A-harmonic approximation lemma obtained directly via a Lipschitz approximation argument. This allows regularity to be established directly on the level of the gradient. Several applications to variational problems in condensed matter physics with broken symmetries are also discussed, in particular those concerning the superfluidity of liquid helium-3 and nematic liquid crystals.
Expansion of protein domain repeats.
Directory of Open Access Journals (Sweden)
Asa K Björklund
2006-08-01
Full Text Available Many proteins, especially in eukaryotes, contain tandem repeats of several domains from the same family. These repeats have a variety of binding properties and are involved in protein-protein interactions as well as binding to other ligands such as DNA and RNA. The rapid expansion of protein domain repeats is assumed to have evolved through internal tandem duplications. However, the exact mechanisms behind these tandem duplications are not well-understood. Here, we have studied the evolution, function, protein structure, gene structure, and phylogenetic distribution of domain repeats. For this purpose we have assigned Pfam-A domain families to 24 proteomes with more sensitive domain assignments in the repeat regions. These assignments confirmed previous findings that eukaryotes, and in particular vertebrates, contain a much higher fraction of proteins with repeats compared with prokaryotes. The internal sequence similarity in each protein revealed that the domain repeats are often expanded through duplications of several domains at a time, while the duplication of one domain is less common. Many of the repeats appear to have been duplicated in the middle of the repeat region. This is in strong contrast to the evolution of other proteins that mainly works through additions of single domains at either terminus. Further, we found that some domain families show distinct duplication patterns, e.g., nebulin domains have mainly been expanded with a unit of seven domains at a time, while duplications of other domain families involve varying numbers of domains. Finally, no common mechanism for the expansion of all repeats could be detected. We found that the duplication patterns show no dependence on the size of the domains. Further, repeat expansion in some families can possibly be explained by shuffling of exons. However, exon shuffling could not have created all repeats.
The Validity of Dimensional Regularization Method on Fractal Spacetime
Directory of Open Access Journals (Sweden)
Yong Tao
2013-01-01
Full Text Available Svozil developed a regularization method for quantum field theory on fractal spacetime (1987. Such a method can be applied to the low-order perturbative renormalization of quantum electrodynamics but will depend on a conjectural integral formula on non-integer-dimensional topological spaces. The main purpose of this paper is to construct a fractal measure so as to guarantee the validity of the conjectural integral formula.
Regularization scheme dependence of virtual corrections to DY and DIS
International Nuclear Information System (INIS)
Khalafi, F.; Landshoff, P.V.
1981-01-01
One loop virtual corrections to the quark photon vertex are calculated under various assumptions and their sensitivity to the manner in which infra-red and mass singularities are regularized is studied. A method based on the use of Mellin-transforms in the Feynman parametric space is developed and shown to be convenient in calculating virtual diagrams beyond the leading logarithm in perturbative QCD. (orig.)
A Boyer-Moore (or Watson-Watson) type algorithm for regular tree pattern matching
Watson, B.W.; Aarts, E.H.L.; Eikelder, ten H.M.M.; Hemerik, C.; Rem, M.
1995-01-01
In this chapter, I outline a new algorithm for regular tree pattern matching. The existence of this algorithm was first mentioned in the statements accompanying my dissertation, [2]. In order to avoid repeating the material in my dissertation, it is assumed that the reader is familiar with Chapters
Reducing errors in the GRACE gravity solutions using regularization
Save, Himanshu; Bettadpur, Srinivas; Tapley, Byron D.
2012-09-01
solutions (RL04) from the Center for Space Research (CSR). Post-fit residual analysis shows that the regularized solutions fit the data to within the noise level of GRACE. A time series of filtered hydrological model is used to confirm that signal attenuation for basins in the Total Runoff Integrating Pathways (TRIP) database over 320 km radii is less than 1 cm equivalent water height RMS, which is within the noise level of GRACE.
Adaptive regularization of noisy linear inverse problems
DEFF Research Database (Denmark)
Hansen, Lars Kai; Madsen, Kristoffer Hougaard; Lehn-Schiøler, Tue
2006-01-01
In the Bayesian modeling framework there is a close relation between regularization and the prior distribution over parameters. For prior distributions in the exponential family, we show that the optimal hyper-parameter, i.e., the optimal strength of regularization, satisfies a simple relation: T......: The expectation of the regularization function, i.e., takes the same value in the posterior and prior distribution. We present three examples: two simulations, and application in fMRI neuroimaging....
Higher derivative regularization and chiral anomaly
International Nuclear Information System (INIS)
Nagahama, Yoshinori.
1985-02-01
A higher derivative regularization which automatically leads to the consistent chiral anomaly is analyzed in detail. It explicitly breaks all the local gauge symmetry but preserves global chiral symmetry and leads to the chirally symmetric consistent anomaly. This regularization thus clarifies the physics content contained in the consistent anomaly. We also briefly comment on the application of this higher derivative regularization to massless QED. (author)
Regularity effect in prospective memory during aging
Blondelle, Geoffrey; Hainselin, Mathieu; Gounden, Yannick; Heurley, Laurent; Voisin, Hélène; Megalakaki, Olga; Bressous, Estelle; Quaglino, Véronique
2016-01-01
Background: Regularity effect can affect performance in prospective memory (PM), but little is known on the cognitive processes linked to this effect. Moreover, its impacts with regard to aging remain unknown. To our knowledge, this study is the first to examine regularity effect in PM in a lifespan perspective, with a sample of young, intermediate, and older adults.Objective and design: Our study examined the regularity effect in PM in three groups of participants: 28 young adults (18–30), 1...
Film repeats in radiology department
International Nuclear Information System (INIS)
Suwan, A. Z.; Al-Shakharah, A. I
1997-01-01
During a one year period, 4910 radiographs of 55780 films were repeated. The objective of our study was to analyse and to classify the causes in order to minimize the repeats, cut the expenses and to provide optimal radiographs for accurate diagnosis. Analysis of the different factors revealed that, 43.6% of film repeats in our service were due to faults in exposure factors, centering comprises 15.9% of the repeats, while too much collimation was responsible for 7.6% of these repeats. All of which can be decreased by awareness and programmed training of technicians. Film blurring caused by patient motion was also responsible for 4.9% for radiographs reexamination, which can be minimized by detailed explanation to the patient and providing the necessary privacy. Fogging of X-Ray films by improper storage or inadequate handling or processing faults were responsible for 14.5% in repeats in our study. Methods and criteria for proper storage and handling of films were discussed. Recommendation for using modern day-light and laser processor has been high lighted. Artefacts are noticeably high in our cases, due to spinal dresses and frequent usage of precious metals for c osmotic purposes in this part of the world. The repeated films comprise 8.8% of all films We conclude that, the main factor responsible for repeats of up to 81.6% of cases was the technologists, thus emphasizing the importance of adequate training of the technologists. (authors). 15 refs., 9 figs., 1 table
Nifty Nines and Repeating Decimals
Brown, Scott A.
2016-01-01
The traditional technique for converting repeating decimals to common fractions can be found in nearly every algebra textbook that has been published, as well as in many precalculus texts. However, students generally encounter repeating decimal numerals earlier than high school when they study rational numbers in prealgebra classes. Therefore, how…
Repeated Prescribed Burning in Aspen
Donald A. Perala
1974-01-01
Infrequent burning weather, low flammability of the aspen-hardwood association, and prolific sprouting and seeding of shrubs and hardwoods made repeated dormant season burning a poor tool to convert good site aspen to conifers. Repeat fall burns for wildlife habitat maintenance is workable if species composition changes are not important.
Regularization and error assignment to unfolded distributions
Zech, Gunter
2011-01-01
The commonly used approach to present unfolded data only in graphical formwith the diagonal error depending on the regularization strength is unsatisfac-tory. It does not permit the adjustment of parameters of theories, the exclusionof theories that are admitted by the observed data and does not allow the com-bination of data from different experiments. We propose fixing the regulariza-tion strength by a p-value criterion, indicating the experimental uncertaintiesindependent of the regularization and publishing the unfolded data in additionwithout regularization. These considerations are illustrated with three differentunfolding and smoothing approaches applied to a toy example.
Iterative Regularization with Minimum-Residual Methods
DEFF Research Database (Denmark)
Jensen, Toke Koldborg; Hansen, Per Christian
2007-01-01
subspaces. We provide a combination of theory and numerical examples, and our analysis confirms the experience that MINRES and MR-II can work as general regularization methods. We also demonstrate theoretically and experimentally that the same is not true, in general, for GMRES and RRGMRES their success......We study the regularization properties of iterative minimum-residual methods applied to discrete ill-posed problems. In these methods, the projection onto the underlying Krylov subspace acts as a regularizer, and the emphasis of this work is on the role played by the basis vectors of these Krylov...... as regularization methods is highly problem dependent....
Iterative regularization with minimum-residual methods
DEFF Research Database (Denmark)
Jensen, Toke Koldborg; Hansen, Per Christian
2006-01-01
subspaces. We provide a combination of theory and numerical examples, and our analysis confirms the experience that MINRES and MR-II can work as general regularization methods. We also demonstrate theoretically and experimentally that the same is not true, in general, for GMRES and RRGMRES - their success......We study the regularization properties of iterative minimum-residual methods applied to discrete ill-posed problems. In these methods, the projection onto the underlying Krylov subspace acts as a regularizer, and the emphasis of this work is on the role played by the basis vectors of these Krylov...... as regularization methods is highly problem dependent....
Tevatron serial data repeater system
International Nuclear Information System (INIS)
Ducar, R.J.
1981-01-01
A ten megabit per second serial data repeater system has been developed for the 6.28km Tevatron accelerator. The repeaters are positioned at each of the thirty service buildings and accommodate control and abort system communications as well as distribution of the Tevatron time and energy clocks. The repeaters are transparent to the particular protocol of the transmissions. Serial data are encoded locally as unipolar two volt signals employing the self-clocking Manchester Bi-Phase code. The repeaters modulate the local signals to low-power bursts of 50 MHz rf carrier for the 260m transmission between service buildings. The repeaters also demodulate the transmission and restructure the data for local utilization. The employment of frequency discrimination techniques yields high immunity to the characteristic noise spectrum
All-photonic quantum repeaters
Azuma, Koji; Tamaki, Kiyoshi; Lo, Hoi-Kwong
2015-01-01
Quantum communication holds promise for unconditionally secure transmission of secret messages and faithful transfer of unknown quantum states. Photons appear to be the medium of choice for quantum communication. Owing to photon losses, robust quantum communication over long lossy channels requires quantum repeaters. It is widely believed that a necessary and highly demanding requirement for quantum repeaters is the existence of matter quantum memories. Here we show that such a requirement is, in fact, unnecessary by introducing the concept of all-photonic quantum repeaters based on flying qubits. In particular, we present a protocol based on photonic cluster-state machine guns and a loss-tolerant measurement equipped with local high-speed active feedforwards. We show that, with such all-photonic quantum repeaters, the communication efficiency scales polynomially with the channel distance. Our result paves a new route towards quantum repeaters with efficient single-photon sources rather than matter quantum memories. PMID:25873153
Repeatability of visual acuity measurement.
Raasch, T W; Bailey, I L; Bullimore, M A
1998-05-01
This study investigates features of visual acuity chart design and acuity testing scoring methods which affect the validity and repeatability of visual acuity measurements. Visual acuity was measured using the Sloan and British Standard letter series, and Landolt rings. Identifiability of the different letters as a function of size was estimated, and expressed in the form of frequency-of-seeing curves. These functions were then used to simulate acuity measurements with a variety of chart designs and scoring criteria. Systematic relationships exist between chart design parameters and acuity score, and acuity score repeatability. In particular, an important feature of a chart, that largely determines the repeatability of visual acuity measurement, is the amount of size change attributed to each letter. The methods used to score visual acuity performance also affect repeatability. It is possible to evaluate acuity score validity and repeatability using the statistical principles discussed here.
Regular graph construction for semi-supervised learning
International Nuclear Information System (INIS)
Vega-Oliveros, Didier A; Berton, Lilian; Eberle, Andre Mantini; Lopes, Alneu de Andrade; Zhao, Liang
2014-01-01
Semi-supervised learning (SSL) stands out for using a small amount of labeled points for data clustering and classification. In this scenario graph-based methods allow the analysis of local and global characteristics of the available data by identifying classes or groups regardless data distribution and representing submanifold in Euclidean space. Most of methods used in literature for SSL classification do not worry about graph construction. However, regular graphs can obtain better classification accuracy compared to traditional methods such as k-nearest neighbor (kNN), since kNN benefits the generation of hubs and it is not appropriate for high-dimensionality data. Nevertheless, methods commonly used for generating regular graphs have high computational cost. We tackle this problem introducing an alternative method for generation of regular graphs with better runtime performance compared to methods usually find in the area. Our technique is based on the preferential selection of vertices according some topological measures, like closeness, generating at the end of the process a regular graph. Experiments using the global and local consistency method for label propagation show that our method provides better or equal classification rate in comparison with kNN
A regularized stationary mean-field game
Yang, Xianjin
2016-01-01
In the thesis, we discuss the existence and numerical approximations of solutions of a regularized mean-field game with a low-order regularization. In the first part, we prove a priori estimates and use the continuation method to obtain the existence of a solution with a positive density. Finally, we introduce the monotone flow method and solve the system numerically.
A regularized stationary mean-field game
Yang, Xianjin
2016-04-19
In the thesis, we discuss the existence and numerical approximations of solutions of a regularized mean-field game with a low-order regularization. In the first part, we prove a priori estimates and use the continuation method to obtain the existence of a solution with a positive density. Finally, we introduce the monotone flow method and solve the system numerically.
On infinite regular and chiral maps
Arredondo, John A.; Valdez, Camilo Ramírez y Ferrán
2015-01-01
We prove that infinite regular and chiral maps take place on surfaces with at most one end. Moreover, we prove that an infinite regular or chiral map on an orientable surface with genus can only be realized on the Loch Ness monster, that is, the topological surface of infinite genus with one end.
From recreational to regular drug use
DEFF Research Database (Denmark)
Järvinen, Margaretha; Ravn, Signe
2011-01-01
This article analyses the process of going from recreational use to regular and problematic use of illegal drugs. We present a model containing six career contingencies relevant for young people’s progress from recreational to regular drug use: the closing of social networks, changes in forms...
Automating InDesign with Regular Expressions
Kahrel, Peter
2006-01-01
If you need to make automated changes to InDesign documents beyond what basic search and replace can handle, you need regular expressions, and a bit of scripting to make them work. This Short Cut explains both how to write regular expressions, so you can find and replace the right things, and how to use them in InDesign specifically.
Regularization modeling for large-eddy simulation
Geurts, Bernardus J.; Holm, D.D.
2003-01-01
A new modeling approach for large-eddy simulation (LES) is obtained by combining a "regularization principle" with an explicit filter and its inversion. This regularization approach allows a systematic derivation of the implied subgrid model, which resolves the closure problem. The central role of
2010-07-01
... employee under subsection (a) or in excess of the employee's normal working hours or regular working hours... Relating to Labor (Continued) WAGE AND HOUR DIVISION, DEPARTMENT OF LABOR STATEMENTS OF GENERAL POLICY OR... not less than one and one-half times their regular rates of pay. Section 7(e) of the Act defines...
Nonlocal Regularized Algebraic Reconstruction Techniques for MRI: An Experimental Study
Directory of Open Access Journals (Sweden)
Xin Li
2013-01-01
Full Text Available We attempt to revitalize researchers' interest in algebraic reconstruction techniques (ART by expanding their capabilities and demonstrating their potential in speeding up the process of MRI acquisition. Using a continuous-to-discrete model, we experimentally study the application of ART into MRI reconstruction which unifies previous nonuniform-fast-Fourier-transform- (NUFFT- based and gridding-based approaches. Under the framework of ART, we advocate the use of nonlocal regularization techniques which are leveraged from our previous research on modeling photographic images. It is experimentally shown that nonlocal regularization ART (NR-ART can often outperform their local counterparts in terms of both subjective and objective qualities of reconstructed images. On one real-world k-space data set, we find that nonlocal regularization can achieve satisfactory reconstruction from as few as one-third of samples. We also address an issue related to image reconstruction from real-world k-space data but overlooked in the open literature: the consistency of reconstructed images across different resolutions. A resolution-consistent extension of NR-ART is developed and shown to effectively suppress the artifacts arising from frequency extrapolation. Both source codes and experimental results of this work are made fully reproducible.
Elementary Particle Spectroscopy in Regular Solid Rewrite
International Nuclear Information System (INIS)
Trell, Erik
2008-01-01
The Nilpotent Universal Computer Rewrite System (NUCRS) has operationalized the radical ontological dilemma of Nothing at All versus Anything at All down to the ground recursive syntax and principal mathematical realisation of this categorical dichotomy as such and so governing all its sui generis modalities, leading to fulfilment of their individual terms and compass when the respective choice sequence operations are brought to closure. Focussing on the general grammar, NUCRS by pure logic and its algebraic notations hence bootstraps Quantum Mechanics, aware that it ''is the likely keystone of a fundamental computational foundation'' also for e.g. physics, molecular biology and neuroscience. The present work deals with classical geometry where morphology is the modality, and ventures that the ancient regular solids are its specific rewrite system, in effect extensively anticipating the detailed elementary particle spectroscopy, and further on to essential structures at large both over the inorganic and organic realms. The geodetic antipode to Nothing is extension, with natural eigenvector the endless straight line which when deployed according to the NUCRS as well as Plotelemeian topographic prescriptions forms a real three-dimensional eigenspace with cubical eigenelements where observed quark-skewed quantum-chromodynamical particle events self-generate as an Aristotelean phase transition between the straight and round extremes of absolute endlessness under the symmetry- and gauge-preserving, canonical coset decomposition SO(3)xO(5) of Lie algebra SU(3). The cubical eigen-space and eigen-elements are the parental state and frame, and the other solids are a range of transition matrix elements and portions adapting to the spherical root vector symmetries and so reproducibly reproducing the elementary particle spectroscopy, including a modular, truncated octahedron nano-composition of the Electron which piecemeal enter into molecular structures or compressed to each
Chistyakov, Vyacheslav
2015-01-01
Aimed toward researchers and graduate students familiar with elements of functional analysis, linear algebra, and general topology; this book contains a general study of modulars, modular spaces, and metric modular spaces. Modulars may be thought of as generalized velocity fields and serve two important purposes: generate metric spaces in a unified manner and provide a weaker convergence, the modular convergence, whose topology is non-metrizable in general. Metric modular spaces are extensions of metric spaces, metric linear spaces, and classical modular linear spaces. The topics covered include the classification of modulars, metrizability of modular spaces, modular transforms and duality between modular spaces, metric and modular topologies. Applications illustrated in this book include: the description of superposition operators acting in modular spaces, the existence of regular selections of set-valued mappings, new interpretations of spaces of Lipschitzian and absolutely continuous mappings, the existe...
Analysis of repeated measures data
Islam, M Ataharul
2017-01-01
This book presents a broad range of statistical techniques to address emerging needs in the field of repeated measures. It also provides a comprehensive overview of extensions of generalized linear models for the bivariate exponential family of distributions, which represent a new development in analysing repeated measures data. The demand for statistical models for correlated outcomes has grown rapidly recently, mainly due to presence of two types of underlying associations: associations between outcomes, and associations between explanatory variables and outcomes. The book systematically addresses key problems arising in the modelling of repeated measures data, bearing in mind those factors that play a major role in estimating the underlying relationships between covariates and outcome variables for correlated outcome data. In addition, it presents new approaches to addressing current challenges in the field of repeated measures and models based on conditional and joint probabilities. Markov models of first...
Repeated DNA sequences in fungi
Energy Technology Data Exchange (ETDEWEB)
Dutta, S K
1974-11-01
Several fungal species, representatives of all broad groups like basidiomycetes, ascomycetes and phycomycetes, were examined for the nature of repeated DNA sequences by DNA:DNA reassociation studies using hydroxyapatite chromatography. All of the fungal species tested contained 10 to 20 percent repeated DNA sequences. There are approximately 100 to 110 copies of repeated DNA sequences of approximately 4 x 10/sup 7/ daltons piece size of each. Repeated DNA sequence homoduplexes showed on average 5/sup 0/C difference of T/sub e/50 (temperature at which 50 percent duplexes dissociate) values from the corresponding homoduplexes of unfractionated whole DNA. It is suggested that a part of repetitive sequences in fungi constitutes mitochondrial DNA and a part of it constitutes nuclear DNA. (auth)
An iterative method for Tikhonov regularization with a general linear regularization operator
Hochstenbach, M.E.; Reichel, L.
2010-01-01
Tikhonov regularization is one of the most popular approaches to solve discrete ill-posed problems with error-contaminated data. A regularization operator and a suitable value of a regularization parameter have to be chosen. This paper describes an iterative method, based on Golub-Kahan
Fostering repeat donations in Ghana.
Owusu-Ofori, S; Asenso-Mensah, K; Boateng, P; Sarkodie, F; Allain, J-P
2010-01-01
Most African countries are challenged in recruiting and retaining voluntary blood donors by cost and other complexities and in establishing and implementing national blood policies. The availability of replacement donors who are a cheaper source of blood has not enhanced repeat voluntary donor initiatives. An overview of activities for recruiting and retaining voluntary blood donors was carried out. Donor records from mobile sessions were reviewed from 2002 to 2008. A total of 71,701 blood donations; 45,515 (63.5%) being voluntary donations with 11,680 (25%) repeat donations were collected during the study period. Donations from schools and colleges contributed a steady 60% of total voluntary whilst radio station blood drives increased contribution from 10 to 27%. Though Muslim population is less than 20%, blood collection was above the 30-donation cost-effectiveness threshold with a repeat donation trend reaching 60%. In contrast Christian worshippers provided donations. Repeat donation trends amongst school donors and radio blood drives were 20% and 70% respectively. Repeat donations rates have been variable amongst different blood donor groups in Kumasi, Ghana. The impact of community leaders in propagating altruism cannot be overemphasized. Programs aiming at motivating replacement donors to be repeat donors should be developed and assessed. Copyright 2009 The International Association for Biologicals. All rights reserved.
A two-way regularization method for MEG source reconstruction
Tian, Tian Siva; Huang, Jianhua Z.; Shen, Haipeng; Li, Zhimin
2012-01-01
The MEG inverse problem refers to the reconstruction of the neural activity of the brain from magnetoencephalography (MEG) measurements. We propose a two-way regularization (TWR) method to solve the MEG inverse problem under the assumptions that only a small number of locations in space are responsible for the measured signals (focality), and each source time course is smooth in time (smoothness). The focality and smoothness of the reconstructed signals are ensured respectively by imposing a sparsity-inducing penalty and a roughness penalty in the data fitting criterion. A two-stage algorithm is developed for fast computation, where a raw estimate of the source time course is obtained in the first stage and then refined in the second stage by the two-way regularization. The proposed method is shown to be effective on both synthetic and real-world examples. © Institute of Mathematical Statistics, 2012.
Regularity of C*-algebras and central sequence algebras
DEFF Research Database (Denmark)
Christensen, Martin S.
The main topic of this thesis is regularity properties of C*-algebras and how these regularity properties are re ected in their associated central sequence algebras. The thesis consists of an introduction followed by four papers [A], [B], [C], [D]. In [A], we show that for the class of simple...... Villadsen algebra of either the rst type with seed space a nite dimensional CW complex, or the second type, tensorial absorption of the Jiang-Su algebra is characterized by the absence of characters on the central sequence algebra. Additionally, in a joint appendix with Joan Bosa, we show that the Villadsen...... algebra of the second type with innite stable rank fails the corona factorization property. In [B], we consider the class of separable C*-algebras which do not admit characters on their central sequence algebra, and show that it has nice permanence properties. We also introduce a new divisibility property...
A two-way regularization method for MEG source reconstruction
Tian, Tian Siva
2012-09-01
The MEG inverse problem refers to the reconstruction of the neural activity of the brain from magnetoencephalography (MEG) measurements. We propose a two-way regularization (TWR) method to solve the MEG inverse problem under the assumptions that only a small number of locations in space are responsible for the measured signals (focality), and each source time course is smooth in time (smoothness). The focality and smoothness of the reconstructed signals are ensured respectively by imposing a sparsity-inducing penalty and a roughness penalty in the data fitting criterion. A two-stage algorithm is developed for fast computation, where a raw estimate of the source time course is obtained in the first stage and then refined in the second stage by the two-way regularization. The proposed method is shown to be effective on both synthetic and real-world examples. © Institute of Mathematical Statistics, 2012.
Multiview vector-valued manifold regularization for multilabel image classification.
Luo, Yong; Tao, Dacheng; Xu, Chang; Xu, Chao; Liu, Hong; Wen, Yonggang
2013-05-01
In computer vision, image datasets used for classification are naturally associated with multiple labels and comprised of multiple views, because each image may contain several objects (e.g., pedestrian, bicycle, and tree) and is properly characterized by multiple visual features (e.g., color, texture, and shape). Currently, available tools ignore either the label relationship or the view complementarily. Motivated by the success of the vector-valued function that constructs matrix-valued kernels to explore the multilabel structure in the output space, we introduce multiview vector-valued manifold regularization (MV(3)MR) to integrate multiple features. MV(3)MR exploits the complementary property of different features and discovers the intrinsic local geometry of the compact support shared by different features under the theme of manifold regularization. We conduct extensive experiments on two challenging, but popular, datasets, PASCAL VOC' 07 and MIR Flickr, and validate the effectiveness of the proposed MV(3)MR for image classification.
Multiple graph regularized protein domain ranking
Wang, Jim Jing-Yan
2012-11-19
Background: Protein domain ranking is a fundamental task in structural biology. Most protein domain ranking methods rely on the pairwise comparison of protein domains while neglecting the global manifold structure of the protein domain database. Recently, graph regularized ranking that exploits the global structure of the graph defined by the pairwise similarities has been proposed. However, the existing graph regularized ranking methods are very sensitive to the choice of the graph model and parameters, and this remains a difficult problem for most of the protein domain ranking methods.Results: To tackle this problem, we have developed the Multiple Graph regularized Ranking algorithm, MultiG-Rank. Instead of using a single graph to regularize the ranking scores, MultiG-Rank approximates the intrinsic manifold of protein domain distribution by combining multiple initial graphs for the regularization. Graph weights are learned with ranking scores jointly and automatically, by alternately minimizing an objective function in an iterative algorithm. Experimental results on a subset of the ASTRAL SCOP protein domain database demonstrate that MultiG-Rank achieves a better ranking performance than single graph regularized ranking methods and pairwise similarity based ranking methods.Conclusion: The problem of graph model and parameter selection in graph regularized protein domain ranking can be solved effectively by combining multiple graphs. This aspect of generalization introduces a new frontier in applying multiple graphs to solving protein domain ranking applications. 2012 Wang et al; licensee BioMed Central Ltd.
Multiple graph regularized protein domain ranking
Wang, Jim Jing-Yan; Bensmail, Halima; Gao, Xin
2012-01-01
Background: Protein domain ranking is a fundamental task in structural biology. Most protein domain ranking methods rely on the pairwise comparison of protein domains while neglecting the global manifold structure of the protein domain database. Recently, graph regularized ranking that exploits the global structure of the graph defined by the pairwise similarities has been proposed. However, the existing graph regularized ranking methods are very sensitive to the choice of the graph model and parameters, and this remains a difficult problem for most of the protein domain ranking methods.Results: To tackle this problem, we have developed the Multiple Graph regularized Ranking algorithm, MultiG-Rank. Instead of using a single graph to regularize the ranking scores, MultiG-Rank approximates the intrinsic manifold of protein domain distribution by combining multiple initial graphs for the regularization. Graph weights are learned with ranking scores jointly and automatically, by alternately minimizing an objective function in an iterative algorithm. Experimental results on a subset of the ASTRAL SCOP protein domain database demonstrate that MultiG-Rank achieves a better ranking performance than single graph regularized ranking methods and pairwise similarity based ranking methods.Conclusion: The problem of graph model and parameter selection in graph regularized protein domain ranking can be solved effectively by combining multiple graphs. This aspect of generalization introduces a new frontier in applying multiple graphs to solving protein domain ranking applications. 2012 Wang et al; licensee BioMed Central Ltd.
Multiple graph regularized protein domain ranking.
Wang, Jim Jing-Yan; Bensmail, Halima; Gao, Xin
2012-11-19
Protein domain ranking is a fundamental task in structural biology. Most protein domain ranking methods rely on the pairwise comparison of protein domains while neglecting the global manifold structure of the protein domain database. Recently, graph regularized ranking that exploits the global structure of the graph defined by the pairwise similarities has been proposed. However, the existing graph regularized ranking methods are very sensitive to the choice of the graph model and parameters, and this remains a difficult problem for most of the protein domain ranking methods. To tackle this problem, we have developed the Multiple Graph regularized Ranking algorithm, MultiG-Rank. Instead of using a single graph to regularize the ranking scores, MultiG-Rank approximates the intrinsic manifold of protein domain distribution by combining multiple initial graphs for the regularization. Graph weights are learned with ranking scores jointly and automatically, by alternately minimizing an objective function in an iterative algorithm. Experimental results on a subset of the ASTRAL SCOP protein domain database demonstrate that MultiG-Rank achieves a better ranking performance than single graph regularized ranking methods and pairwise similarity based ranking methods. The problem of graph model and parameter selection in graph regularized protein domain ranking can be solved effectively by combining multiple graphs. This aspect of generalization introduces a new frontier in applying multiple graphs to solving protein domain ranking applications.
Coupling regularizes individual units in noisy populations
International Nuclear Information System (INIS)
Ly Cheng; Ermentrout, G. Bard
2010-01-01
The regularity of a noisy system can modulate in various ways. It is well known that coupling in a population can lower the variability of the entire network; the collective activity is more regular. Here, we show that diffusive (reciprocal) coupling of two simple Ornstein-Uhlenbeck (O-U) processes can regularize the individual, even when it is coupled to a noisier process. In cellular networks, the regularity of individual cells is important when a select few play a significant role. The regularizing effect of coupling surprisingly applies also to general nonlinear noisy oscillators. However, unlike with the O-U process, coupling-induced regularity is robust to different kinds of coupling. With two coupled noisy oscillators, we derive an asymptotic formula assuming weak noise and coupling for the variance of the period (i.e., spike times) that accurately captures this effect. Moreover, we find that reciprocal coupling can regularize the individual period of higher dimensional oscillators such as the Morris-Lecar and Brusselator models, even when coupled to noisier oscillators. Coupling can have a counterintuitive and beneficial effect on noisy systems. These results have implications for the role of connectivity with noisy oscillators and the modulation of variability of individual oscillators.
Multiple graph regularized protein domain ranking
Directory of Open Access Journals (Sweden)
Wang Jim
2012-11-01
Full Text Available Abstract Background Protein domain ranking is a fundamental task in structural biology. Most protein domain ranking methods rely on the pairwise comparison of protein domains while neglecting the global manifold structure of the protein domain database. Recently, graph regularized ranking that exploits the global structure of the graph defined by the pairwise similarities has been proposed. However, the existing graph regularized ranking methods are very sensitive to the choice of the graph model and parameters, and this remains a difficult problem for most of the protein domain ranking methods. Results To tackle this problem, we have developed the Multiple Graph regularized Ranking algorithm, MultiG-Rank. Instead of using a single graph to regularize the ranking scores, MultiG-Rank approximates the intrinsic manifold of protein domain distribution by combining multiple initial graphs for the regularization. Graph weights are learned with ranking scores jointly and automatically, by alternately minimizing an objective function in an iterative algorithm. Experimental results on a subset of the ASTRAL SCOP protein domain database demonstrate that MultiG-Rank achieves a better ranking performance than single graph regularized ranking methods and pairwise similarity based ranking methods. Conclusion The problem of graph model and parameter selection in graph regularized protein domain ranking can be solved effectively by combining multiple graphs. This aspect of generalization introduces a new frontier in applying multiple graphs to solving protein domain ranking applications.
J-regular rings with injectivities
Shen, Liang
2010-01-01
A ring $R$ is called a J-regular ring if R/J(R) is von Neumann regular, where J(R) is the Jacobson radical of R. It is proved that if R is J-regular, then (i) R is right n-injective if and only if every homomorphism from an $n$-generated small right ideal of $R$ to $R_{R}$ can be extended to one from $R_{R}$ to $R_{R}$; (ii) R is right FP-injective if and only if R is right (J, R)-FP-injective. Some known results are improved.
International Nuclear Information System (INIS)
Olson, Gordon L.
2008-01-01
In binary stochastic media in two- and three-dimensions consisting of randomly placed impenetrable disks or spheres, the chord lengths in the background material between disks and spheres closely follow exponential distributions if the disks and spheres occupy less than 10% of the medium. This work demonstrates that for regular spatial structures of disks and spheres, the tails of the chord length distributions (CLDs) follow power laws rather than exponentials. In dilute media, when the disks and spheres are widely spaced, the slope of the power law seems to be independent of the details of the structure. When approaching a close-packed arrangement, the exact placement of the spheres can make a significant difference. When regular structures are perturbed by small random displacements, the CLDs become power laws with steeper slopes. An example CLD from a quasi-random distribution of spheres in clusters shows a modified exponential distribution
Energy Technology Data Exchange (ETDEWEB)
Olson, Gordon L. [Computer and Computational Sciences Division (CCS-2), Los Alamos National Laboratory, 5 Foxglove Circle, Madison, WI 53717 (United States)], E-mail: olson99@tds.net
2008-11-15
In binary stochastic media in two- and three-dimensions consisting of randomly placed impenetrable disks or spheres, the chord lengths in the background material between disks and spheres closely follow exponential distributions if the disks and spheres occupy less than 10% of the medium. This work demonstrates that for regular spatial structures of disks and spheres, the tails of the chord length distributions (CLDs) follow power laws rather than exponentials. In dilute media, when the disks and spheres are widely spaced, the slope of the power law seems to be independent of the details of the structure. When approaching a close-packed arrangement, the exact placement of the spheres can make a significant difference. When regular structures are perturbed by small random displacements, the CLDs become power laws with steeper slopes. An example CLD from a quasi-random distribution of spheres in clusters shows a modified exponential distribution.
Regularized quasinormal modes for plasmonic resonators and open cavities
Kamandar Dezfouli, Mohsen; Hughes, Stephen
2018-03-01
Optical mode theory and analysis of open cavities and plasmonic particles is an essential component of optical resonator physics, offering considerable insight and efficiency for connecting to classical and quantum optical properties such as the Purcell effect. However, obtaining the dissipative modes in normalized form for arbitrarily shaped open-cavity systems is notoriously difficult, often involving complex spatial integrations, even after performing the necessary full space solutions to Maxwell's equations. The formal solutions are termed quasinormal modes, which are known to diverge in space, and additional techniques are frequently required to obtain more accurate field representations in the far field. In this work, we introduce a finite-difference time-domain technique that can be used to obtain normalized quasinormal modes using a simple dipole-excitation source, and an inverse Green function technique, in real frequency space, without having to perform any spatial integrations. Moreover, we show how these modes are naturally regularized to ensure the correct field decay behavior in the far field, and thus can be used at any position within and outside the resonator. We term these modes "regularized quasinormal modes" and show the reliability and generality of the theory by studying the generalized Purcell factor of dipole emitters near metallic nanoresonators, hybrid devices with metal nanoparticles coupled to dielectric waveguides, as well as coupled cavity-waveguides in photonic crystals slabs. We also directly compare our results with full-dipole simulations of Maxwell's equations without any approximations, and show excellent agreement.
Generalized regular genus for manifolds with boundary
Directory of Open Access Journals (Sweden)
Paola Cristofori
2003-05-01
Full Text Available We introduce a generalization of the regular genus, a combinatorial invariant of PL manifolds ([10], which is proved to be strictly related, in dimension three, to generalized Heegaard splittings defined in [12].
Regular-fat dairy and human health
DEFF Research Database (Denmark)
Astrup, Arne; Bradley, Beth H Rice; Brenna, J Thomas
2016-01-01
In recent history, some dietary recommendations have treated dairy fat as an unnecessary source of calories and saturated fat in the human diet. These assumptions, however, have recently been brought into question by current research on regular fat dairy products and human health. In an effort to......, cheese and yogurt, can be important components of an overall healthy dietary pattern. Systematic examination of the effects of dietary patterns that include regular-fat milk, cheese and yogurt on human health is warranted....
Deterministic automata for extended regular expressions
Directory of Open Access Journals (Sweden)
Syzdykov Mirzakhmet
2017-12-01
Full Text Available In this work we present the algorithms to produce deterministic finite automaton (DFA for extended operators in regular expressions like intersection, subtraction and complement. The method like “overriding” of the source NFA(NFA not defined with subset construction rules is used. The past work described only the algorithm for AND-operator (or intersection of regular languages; in this paper the construction for the MINUS-operator (and complement is shown.
Regularities of intermediate adsorption complex relaxation
International Nuclear Information System (INIS)
Manukova, L.A.
1982-01-01
The experimental data, characterizing the regularities of intermediate adsorption complex relaxation in the polycrystalline Mo-N 2 system at 77 K are given. The method of molecular beam has been used in the investigation. The analytical expressions of change regularity in the relaxation process of full and specific rates - of transition from intermediate state into ''non-reversible'', of desorption into the gas phase and accumUlation of the particles in the intermediate state are obtained
Online Manifold Regularization by Dual Ascending Procedure
Sun, Boliang; Li, Guohui; Jia, Li; Zhang, Hui
2013-01-01
We propose a novel online manifold regularization framework based on the notion of duality in constrained optimization. The Fenchel conjugate of hinge functions is a key to transfer manifold regularization from offline to online in this paper. Our algorithms are derived by gradient ascent in the dual function. For practical purpose, we propose two buffering strategies and two sparse approximations to reduce the computational complexity. Detailed experiments verify the utility of our approache...
Regularization in global sound equalization based on effort variation
DEFF Research Database (Denmark)
Stefanakis, Nick; Sarris, John; Jacobsen, Finn
2009-01-01
. Effort variation equalization involves modifying the conventional cost function in sound equalization, which is based on minimizing least-squares reproduction errors, by adding a term that is proportional to the squared deviations between complex source strengths, calculated independently for the sources......Sound equalization in closed spaces can be significantly improved by generating propagating waves that are naturally associated with the geometry, as, for example, plane waves in rectangular enclosures. This paper presents a control approach termed effort variation regularization based on this idea...
Analytic semigroups and optimal regularity in parabolic problems
Lunardi, Alessandra
2012-01-01
The book shows how the abstract methods of analytic semigroups and evolution equations in Banach spaces can be fruitfully applied to the study of parabolic problems. Particular attention is paid to optimal regularity results in linear equations. Furthermore, these results are used to study several other problems, especially fully nonlinear ones. Owing to the new unified approach chosen, known theorems are presented from a novel perspective and new results are derived. The book is self-contained. It is addressed to PhD students and researchers interested in abstract evolution equations and in p
Regularity of p(ṡ)-superharmonic functions, the Kellogg property and semiregular boundary points
Adamowicz, Tomasz; Björn, Anders; Björn, Jana
2014-11-01
We study various boundary and inner regularity questions for $p(\\cdot)$-(super)harmonic functions in Euclidean domains. In particular, we prove the Kellogg property and introduce a classification of boundary points for $p(\\cdot)$-harmonic functions into three disjoint classes: regular, semiregular and strongly irregular points. Regular and especially semiregular points are characterized in many ways. The discussion is illustrated by examples. Along the way, we present a removability result for bounded $p(\\cdot)$-harmonic functions and give some new characterizations of $W^{1, p(\\cdot)}_0$ spaces. We also show that $p(\\cdot)$-superharmonic functions are lower semicontinuously regularized, and characterize them in terms of lower semicontinuously regularized supersolutions.
Hysteresis of magnetostructural transitions: Repeatable and non-repeatable processes
Provenzano, Virgil; Della Torre, Edward; Bennett, Lawrence H.; ElBidweihy, Hatem
2014-02-01
The Gd5Ge2Si2 alloy and the off-stoichiometric Ni50Mn35In15 Heusler alloy belong to a special class of metallic materials that exhibit first-order magnetostructural transitions near room temperature. The magnetic properties of this class of materials have been extensively studied due to their interesting magnetic behavior and their potential for a number of technological applications such as refrigerants for near-room-temperature magnetic refrigeration. The thermally driven first-order transitions in these materials can be field-induced in the reverse order by applying a strong enough field. The field-induced transitions are typically accompanied by the presence of large magnetic hysteresis, the characteristics of which are a complicated function of temperature, field, and magneto-thermal history. In this study we show that the virgin curve, the major loop, and sequentially measured MH loops are the results of both repeatable and non-repeatable processes, in which the starting magnetostructural state, prior to the cycling of field, plays a major role. Using the Gd5Ge2Si2 and Ni50Mn35In15 alloys, as model materials, we show that a starting single phase state results in fully repeatable processes and large magnetic hysteresis, whereas a mixed phase starting state results in non-repeatable processes and smaller hysteresis.
Hysteresis of magnetostructural transitions: Repeatable and non-repeatable processes
International Nuclear Information System (INIS)
Provenzano, Virgil; Della Torre, Edward; Bennett, Lawrence H.; ElBidweihy, Hatem
2014-01-01
The Gd 5 Ge 2 Si 2 alloy and the off-stoichiometric Ni 50 Mn 35 In 15 Heusler alloy belong to a special class of metallic materials that exhibit first-order magnetostructural transitions near room temperature. The magnetic properties of this class of materials have been extensively studied due to their interesting magnetic behavior and their potential for a number of technological applications such as refrigerants for near-room-temperature magnetic refrigeration. The thermally driven first-order transitions in these materials can be field-induced in the reverse order by applying a strong enough field. The field-induced transitions are typically accompanied by the presence of large magnetic hysteresis, the characteristics of which are a complicated function of temperature, field, and magneto-thermal history. In this study we show that the virgin curve, the major loop, and sequentially measured MH loops are the results of both repeatable and non-repeatable processes, in which the starting magnetostructural state, prior to the cycling of field, plays a major role. Using the Gd 5 Ge 2 Si 2 and Ni 50 Mn 35 In 15 alloys, as model materials, we show that a starting single phase state results in fully repeatable processes and large magnetic hysteresis, whereas a mixed phase starting state results in non-repeatable processes and smaller hysteresis
Regularized inversion of controlled source and earthquake data
International Nuclear Information System (INIS)
Ramachandran, Kumar
2012-01-01
Estimation of the seismic velocity structure of the Earth's crust and upper mantle from travel-time data has advanced greatly in recent years. Forward modelling trial-and-error methods have been superseded by tomographic methods which allow more objective analysis of large two-dimensional and three-dimensional refraction and/or reflection data sets. The fundamental purpose of travel-time tomography is to determine the velocity structure of a medium by analysing the time it takes for a wave generated at a source point within the medium to arrive at a distribution of receiver points. Tomographic inversion of first-arrival travel-time data is a nonlinear problem since both the velocity of the medium and ray paths in the medium are unknown. The solution for such a problem is typically obtained by repeated application of linearized inversion. Regularization of the nonlinear problem reduces the ill posedness inherent in the tomographic inversion due to the under-determined nature of the problem and the inconsistencies in the observed data. This paper discusses the theory of regularized inversion for joint inversion of controlled source and earthquake data, and results from synthetic data testing and application to real data. The results obtained from tomographic inversion of synthetic data and real data from the northern Cascadia subduction zone show that the velocity model and hypocentral parameters can be efficiently estimated using this approach. (paper)
Regularization and asymptotic expansion of certain distributions defined by divergent series
Directory of Open Access Journals (Sweden)
Ricardo Estrada
1995-01-01
Full Text Available The regularization of the distribution ∑n=−∞∞δ(x−pn. which gives a regularized value to the divergent series ∑n=−∞∞φ(pn is obtained in several spaces of test functions. The asymptotic expansion as ϵ→0+of series of the type ∑n=0∞φ(ϵ pn is also obtained.
Improvements in GRACE Gravity Fields Using Regularization
Save, H.; Bettadpur, S.; Tapley, B. D.
2008-12-01
The unconstrained global gravity field models derived from GRACE are susceptible to systematic errors that show up as broad "stripes" aligned in a North-South direction on the global maps of mass flux. These errors are believed to be a consequence of both systematic and random errors in the data that are amplified by the nature of the gravity field inverse problem. These errors impede scientific exploitation of the GRACE data products, and limit the realizable spatial resolution of the GRACE global gravity fields in certain regions. We use regularization techniques to reduce these "stripe" errors in the gravity field products. The regularization criteria are designed such that there is no attenuation of the signal and that the solutions fit the observations as well as an unconstrained solution. We have used a computationally inexpensive method, normally referred to as "L-ribbon", to find the regularization parameter. This paper discusses the characteristics and statistics of a 5-year time-series of regularized gravity field solutions. The solutions show markedly reduced stripes, are of uniformly good quality over time, and leave little or no systematic observation residuals, which is a frequent consequence of signal suppression from regularization. Up to degree 14, the signal in regularized solution shows correlation greater than 0.8 with the un-regularized CSR Release-04 solutions. Signals from large-amplitude and small-spatial extent events - such as the Great Sumatra Andaman Earthquake of 2004 - are visible in the global solutions without using special post-facto error reduction techniques employed previously in the literature. Hydrological signals as small as 5 cm water-layer equivalent in the small river basins, like Indus and Nile for example, are clearly evident, in contrast to noisy estimates from RL04. The residual variability over the oceans relative to a seasonal fit is small except at higher latitudes, and is evident without the need for de-striping or
Enhanced manifold regularization for semi-supervised classification.
Gan, Haitao; Luo, Zhizeng; Fan, Yingle; Sang, Nong
2016-06-01
Manifold regularization (MR) has become one of the most widely used approaches in the semi-supervised learning field. It has shown superiority by exploiting the local manifold structure of both labeled and unlabeled data. The manifold structure is modeled by constructing a Laplacian graph and then incorporated in learning through a smoothness regularization term. Hence the labels of labeled and unlabeled data vary smoothly along the geodesics on the manifold. However, MR has ignored the discriminative ability of the labeled and unlabeled data. To address the problem, we propose an enhanced MR framework for semi-supervised classification in which the local discriminative information of the labeled and unlabeled data is explicitly exploited. To make full use of labeled data, we firstly employ a semi-supervised clustering method to discover the underlying data space structure of the whole dataset. Then we construct a local discrimination graph to model the discriminative information of labeled and unlabeled data according to the discovered intrinsic structure. Therefore, the data points that may be from different clusters, though similar on the manifold, are enforced far away from each other. Finally, the discrimination graph is incorporated into the MR framework. In particular, we utilize semi-supervised fuzzy c-means and Laplacian regularized Kernel minimum squared error for semi-supervised clustering and classification, respectively. Experimental results on several benchmark datasets and face recognition demonstrate the effectiveness of our proposed method.
Coordination in continuously repeated games
Weeren, A.J.T.M.; Schumacher, J.M.; Engwerda, J.C.
1995-01-01
In this paper we propose a model to describe the effectiveness of coordination in a continuously repeated two-player game. We study how the choice of a decision rule by a coordinator affects the strategic behavior of the players, resulting in more or less cooperation. Our model requires the analysis
Repeated checking causes memory distrust
van den Hout, M.; Kindt, M.
2003-01-01
This paper attempts to explain why in obsessive-compulsive disorder (OCD) checkers distrust in memory persists despite extensive checking. It is argued that: (1) repeated checking increases familiarity with the issues checked; (2) increased familiarity promotes conceptual processing which inhibits
Regular Expression Matching and Operational Semantics
Directory of Open Access Journals (Sweden)
Asiri Rathnayake
2011-08-01
Full Text Available Many programming languages and tools, ranging from grep to the Java String library, contain regular expression matchers. Rather than first translating a regular expression into a deterministic finite automaton, such implementations typically match the regular expression on the fly. Thus they can be seen as virtual machines interpreting the regular expression much as if it were a program with some non-deterministic constructs such as the Kleene star. We formalize this implementation technique for regular expression matching using operational semantics. Specifically, we derive a series of abstract machines, moving from the abstract definition of matching to increasingly realistic machines. First a continuation is added to the operational semantics to describe what remains to be matched after the current expression. Next, we represent the expression as a data structure using pointers, which enables redundant searches to be eliminated via testing for pointer equality. From there, we arrive both at Thompson's lockstep construction and a machine that performs some operations in parallel, suitable for implementation on a large number of cores, such as a GPU. We formalize the parallel machine using process algebra and report some preliminary experiments with an implementation on a graphics processor using CUDA.
Regularities, Natural Patterns and Laws of Nature
Directory of Open Access Journals (Sweden)
Stathis Psillos
2014-02-01
Full Text Available The goal of this paper is to sketch an empiricist metaphysics of laws of nature. The key idea is that there are regularities without regularity-enforcers. Differently put, there are natural laws without law-makers of a distinct metaphysical kind. This sketch will rely on the concept of a natural pattern and more significantly on the existence of a network of natural patterns in nature. The relation between a regularity and a pattern will be analysed in terms of mereology. Here is the road map. In section 2, I will briefly discuss the relation between empiricism and metaphysics, aiming to show that an empiricist metaphysics is possible. In section 3, I will offer arguments against stronger metaphysical views of laws. Then, in section 4 I will motivate nomic objectivism. In section 5, I will address the question ‘what is a regularity?’ and will develop a novel answer to it, based on the notion of a natural pattern. In section 6, I will raise the question: ‘what is a law of nature?’, the answer to which will be: a law of nature is a regularity that is characterised by the unity of a natural pattern.
C1,1 regularity for degenerate elliptic obstacle problems
Daskalopoulos, Panagiota; Feehan, Paul M. N.
2016-03-01
The Heston stochastic volatility process is a degenerate diffusion process where the degeneracy in the diffusion coefficient is proportional to the square root of the distance to the boundary of the half-plane. The generator of this process with killing, called the elliptic Heston operator, is a second-order, degenerate-elliptic partial differential operator, where the degeneracy in the operator symbol is proportional to the distance to the boundary of the half-plane. In mathematical finance, solutions to the obstacle problem for the elliptic Heston operator correspond to value functions for perpetual American-style options on the underlying asset. With the aid of weighted Sobolev spaces and weighted Hölder spaces, we establish the optimal C 1 , 1 regularity (up to the boundary of the half-plane) for solutions to obstacle problems for the elliptic Heston operator when the obstacle functions are sufficiently smooth.
Fractional Regularization Term for Variational Image Registration
Directory of Open Access Journals (Sweden)
Rafael Verdú-Monedero
2009-01-01
Full Text Available Image registration is a widely used task of image analysis with applications in many fields. Its classical formulation and current improvements are given in the spatial domain. In this paper a regularization term based on fractional order derivatives is formulated. This term is defined and implemented in the frequency domain by translating the energy functional into the frequency domain and obtaining the Euler-Lagrange equations which minimize it. The new regularization term leads to a simple formulation and design, being applicable to higher dimensions by using the corresponding multidimensional Fourier transform. The proposed regularization term allows for a real gradual transition from a diffusion registration to a curvature registration which is best suited to some applications and it is not possible in the spatial domain. Results with 3D actual images show the validity of this approach.
Online Manifold Regularization by Dual Ascending Procedure
Directory of Open Access Journals (Sweden)
Boliang Sun
2013-01-01
Full Text Available We propose a novel online manifold regularization framework based on the notion of duality in constrained optimization. The Fenchel conjugate of hinge functions is a key to transfer manifold regularization from offline to online in this paper. Our algorithms are derived by gradient ascent in the dual function. For practical purpose, we propose two buffering strategies and two sparse approximations to reduce the computational complexity. Detailed experiments verify the utility of our approaches. An important conclusion is that our online MR algorithms can handle the settings where the target hypothesis is not fixed but drifts with the sequence of examples. We also recap and draw connections to earlier works. This paper paves a way to the design and analysis of online manifold regularization algorithms.
Regular transport dynamics produce chaotic travel times.
Villalobos, Jorge; Muñoz, Víctor; Rogan, José; Zarama, Roberto; Johnson, Neil F; Toledo, Benjamín; Valdivia, Juan Alejandro
2014-06-01
In the hope of making passenger travel times shorter and more reliable, many cities are introducing dedicated bus lanes (e.g., Bogota, London, Miami). Here we show that chaotic travel times are actually a natural consequence of individual bus function, and hence of public transport systems more generally, i.e., chaotic dynamics emerge even when the route is empty and straight, stops and lights are equidistant and regular, and loading times are negligible. More generally, our findings provide a novel example of chaotic dynamics emerging from a single object following Newton's laws of motion in a regularized one-dimensional system.
PET regularization by envelope guided conjugate gradients
International Nuclear Information System (INIS)
Kaufman, L.; Neumaier, A.
1996-01-01
The authors propose a new way to iteratively solve large scale ill-posed problems and in particular the image reconstruction problem in positron emission tomography by exploiting the relation between Tikhonov regularization and multiobjective optimization to obtain iteratively approximations to the Tikhonov L-curve and its corner. Monitoring the change of the approximate L-curves allows us to adjust the regularization parameter adaptively during a preconditioned conjugate gradient iteration, so that the desired solution can be reconstructed with a small number of iterations
On a correspondence between regular and non-regular operator monotone functions
DEFF Research Database (Denmark)
Gibilisco, P.; Hansen, Frank; Isola, T.
2009-01-01
We prove the existence of a bijection between the regular and the non-regular operator monotone functions satisfying a certain functional equation. As an application we give a new proof of the operator monotonicity of certain functions related to the Wigner-Yanase-Dyson skew information....
Online learning in repeated auctions
Weed, Jonathan; Perchet, Vianney; Rigollet, Philippe
2015-01-01
Motivated by online advertising auctions, we consider repeated Vickrey auctions where goods of unknown value are sold sequentially and bidders only learn (potentially noisy) information about a good's value once it is purchased. We adopt an online learning approach with bandit feedback to model this problem and derive bidding strategies for two models: stochastic and adversarial. In the stochastic model, the observed values of the goods are random variables centered around the true value of t...
Automated detection of repeated structures in building facades
Directory of Open Access Journals (Sweden)
M. Previtali
2013-10-01
Full Text Available Automatic identification of high-level repeated structures in 3D point clouds of building façades is crucial for applications like digitalization and building modelling. Indeed, in many architectural styles building façades are governed by arrangements of objects into repeated patterns. In particular, façades are generally designed as the repetition of some few basic objects organized into interlaced and\\or concatenated grid structures. Starting from this key observation, this paper presents an algorithm for Repeated Structure Detection (RSD in 3D point clouds of building façades. The presented methodology consists of three main phases. First, in the point cloud segmentation stage (i the building façade is decomposed into planar patches which are classified by means of some weak prior knowledge of urban buildings formulated in a classification tree. Secondly (ii, in the element clustering phase detected patches are grouped together by means of a similarity function and pairwise transformations between patches are computed. Eventually (iii, in the structure regularity estimation step the parameters of repeated grid patterns are calculated by using a Least- Squares optimization. Workability of the presented approach is tested using some real data from urban scenes.
Spitler, L G; Scholz, P; Hessels, J W T; Bogdanov, S; Brazier, A; Camilo, F; Chatterjee, S; Cordes, J M; Crawford, F; Deneva, J; Ferdman, R D; Freire, P C C; Kaspi, V M; Lazarus, P; Lynch, R; Madsen, E C; McLaughlin, M A; Patel, C; Ransom, S M; Seymour, A; Stairs, I H; Stappers, B W; van Leeuwen, J; Zhu, W W
2016-03-10
Fast radio bursts are millisecond-duration astronomical radio pulses of unknown physical origin that appear to come from extragalactic distances. Previous follow-up observations have failed to find additional bursts at the same dispersion measure (that is, the integrated column density of free electrons between source and telescope) and sky position as the original detections. The apparent non-repeating nature of these bursts has led to the suggestion that they originate in cataclysmic events. Here we report observations of ten additional bursts from the direction of the fast radio burst FRB 121102. These bursts have dispersion measures and sky positions consistent with the original burst. This unambiguously identifies FRB 121102 as repeating and demonstrates that its source survives the energetic events that cause the bursts. Additionally, the bursts from FRB 121102 show a wide range of spectral shapes that appear to be predominantly intrinsic to the source and which vary on timescales of minutes or less. Although there may be multiple physical origins for the population of fast radio bursts, these repeat bursts with high dispersion measure and variable spectra specifically seen from the direction of FRB 121102 support an origin in a young, highly magnetized, extragalactic neutron star.
Regularity and irreversibility of weekly travel behavior
Kitamura, R.; van der Hoorn, A.I.J.M.
1987-01-01
Dynamic characteristics of travel behavior are analyzed in this paper using weekly travel diaries from two waves of panel surveys conducted six months apart. An analysis of activity engagement indicates the presence of significant regularity in weekly activity participation between the two waves.
Regular and context-free nominal traces
DEFF Research Database (Denmark)
Degano, Pierpaolo; Ferrari, Gian-Luigi; Mezzetti, Gianluca
2017-01-01
Two kinds of automata are presented, for recognising new classes of regular and context-free nominal languages. We compare their expressive power with analogous proposals in the literature, showing that they express novel classes of languages. Although many properties of classical languages hold ...
Faster 2-regular information-set decoding
Bernstein, D.J.; Lange, T.; Peters, C.P.; Schwabe, P.; Chee, Y.M.
2011-01-01
Fix positive integers B and w. Let C be a linear code over F 2 of length Bw. The 2-regular-decoding problem is to find a nonzero codeword consisting of w length-B blocks, each of which has Hamming weight 0 or 2. This problem appears in attacks on the FSB (fast syndrome-based) hash function and
Complexity in union-free regular languages
Czech Academy of Sciences Publication Activity Database
Jirásková, G.; Masopust, Tomáš
2011-01-01
Roč. 22, č. 7 (2011), s. 1639-1653 ISSN 0129-0541 Institutional research plan: CEZ:AV0Z10190503 Keywords : Union-free regular language * one-cycle-free-path automaton * descriptional complexity Subject RIV: BA - General Mathematics Impact factor: 0.379, year: 2011 http://www.worldscinet.com/ijfcs/22/2207/S0129054111008933.html
Regularization of finite temperature string theories
International Nuclear Information System (INIS)
Leblanc, Y.; Knecht, M.; Wallet, J.C.
1990-01-01
The tachyonic divergences occurring in the free energy of various string theories at finite temperature are eliminated through the use of regularization schemes and analytic continuations. For closed strings, we obtain finite expressions which, however, develop an imaginary part above the Hagedorn temperature, whereas open string theories are still plagued with dilatonic divergences. (orig.)
A Sim(2 invariant dimensional regularization
Directory of Open Access Journals (Sweden)
J. Alfaro
2017-09-01
Full Text Available We introduce a Sim(2 invariant dimensional regularization of loop integrals. Then we can compute the one loop quantum corrections to the photon self energy, electron self energy and vertex in the Electrodynamics sector of the Very Special Relativity Standard Model (VSRSM.
Continuum regularized Yang-Mills theory
International Nuclear Information System (INIS)
Sadun, L.A.
1987-01-01
Using the machinery of stochastic quantization, Z. Bern, M. B. Halpern, C. Taubes and I recently proposed a continuum regularization technique for quantum field theory. This regularization may be implemented by applying a regulator to either the (d + 1)-dimensional Parisi-Wu Langevin equation or, equivalently, to the d-dimensional second order Schwinger-Dyson (SD) equations. This technique is non-perturbative, respects all gauge and Lorentz symmetries, and is consistent with a ghost-free gauge fixing (Zwanziger's). This thesis is a detailed study of this regulator, and of regularized Yang-Mills theory, using both perturbative and non-perturbative techniques. The perturbative analysis comes first. The mechanism of stochastic quantization is reviewed, and a perturbative expansion based on second-order SD equations is developed. A diagrammatic method (SD diagrams) for evaluating terms of this expansion is developed. We apply the continuum regulator to a scalar field theory. Using SD diagrams, we show that all Green functions can be rendered finite to all orders in perturbation theory. Even non-renormalizable theories can be regularized. The continuum regulator is then applied to Yang-Mills theory, in conjunction with Zwanziger's gauge fixing. A perturbative expansion of the regulator is incorporated into the diagrammatic method. It is hoped that the techniques discussed in this thesis will contribute to the construction of a renormalized Yang-Mills theory is 3 and 4 dimensions
Gravitational lensing by a regular black hole
International Nuclear Information System (INIS)
Eiroa, Ernesto F; Sendra, Carlos M
2011-01-01
In this paper, we study a regular Bardeen black hole as a gravitational lens. We find the strong deflection limit for the deflection angle, from which we obtain the positions and magnifications of the relativistic images. As an example, we apply the results to the particular case of the supermassive black hole at the center of our galaxy.
Gravitational lensing by a regular black hole
Energy Technology Data Exchange (ETDEWEB)
Eiroa, Ernesto F; Sendra, Carlos M, E-mail: eiroa@iafe.uba.ar, E-mail: cmsendra@iafe.uba.ar [Instituto de Astronomia y Fisica del Espacio, CC 67, Suc. 28, 1428, Buenos Aires (Argentina)
2011-04-21
In this paper, we study a regular Bardeen black hole as a gravitational lens. We find the strong deflection limit for the deflection angle, from which we obtain the positions and magnifications of the relativistic images. As an example, we apply the results to the particular case of the supermassive black hole at the center of our galaxy.
Analytic stochastic regularization and gange invariance
International Nuclear Information System (INIS)
Abdalla, E.; Gomes, M.; Lima-Santos, A.
1986-05-01
A proof that analytic stochastic regularization breaks gauge invariance is presented. This is done by an explicit one loop calculation of the vaccum polarization tensor in scalar electrodynamics, which turns out not to be transversal. The counterterm structure, Langevin equations and the construction of composite operators in the general framework of stochastic quantization, are also analysed. (Author) [pt
Annotation of regular polysemy and underspecification
DEFF Research Database (Denmark)
Martínez Alonso, Héctor; Pedersen, Bolette Sandford; Bel, Núria
2013-01-01
We present the result of an annotation task on regular polysemy for a series of seman- tic classes or dot types in English, Dan- ish and Spanish. This article describes the annotation process, the results in terms of inter-encoder agreement, and the sense distributions obtained with two methods...
Stabilization, pole placement, and regular implementability
Belur, MN; Trentelman, HL
In this paper, we study control by interconnection of linear differential systems. We give necessary and sufficient conditions for regular implementability of a-given linear, differential system. We formulate the problems of stabilization and pole placement as problems of finding a suitable,
12 CFR 725.3 - Regular membership.
2010-01-01
... UNION ADMINISTRATION CENTRAL LIQUIDITY FACILITY § 725.3 Regular membership. (a) A natural person credit....5(b) of this part, and forwarding with its completed application funds equal to one-half of this... 1, 1979, is not required to forward these funds to the Facility until October 1, 1979. (3...
Supervised scale-regularized linear convolutionary filters
DEFF Research Database (Denmark)
Loog, Marco; Lauze, Francois Bernard
2017-01-01
also be solved relatively efficient. All in all, the idea is to properly control the scale of a trained filter, which we solve by introducing a specific regularization term into the overall objective function. We demonstrate, on an artificial filter learning problem, the capabil- ities of our basic...
On regular riesz operators | Raubenheimer | Quaestiones ...
African Journals Online (AJOL)
The r-asymptotically quasi finite rank operators on Banach lattices are examples of regular Riesz operators. We characterise Riesz elements in a subalgebra of a Banach algebra in terms of Riesz elements in the Banach algebra. This enables us to characterise r-asymptotically quasi finite rank operators in terms of adjoint ...
Regularized Discriminant Analysis: A Large Dimensional Study
Yang, Xiaoke
2018-04-28
In this thesis, we focus on studying the performance of general regularized discriminant analysis (RDA) classifiers. The data used for analysis is assumed to follow Gaussian mixture model with different means and covariances. RDA offers a rich class of regularization options, covering as special cases the regularized linear discriminant analysis (RLDA) and the regularized quadratic discriminant analysis (RQDA) classi ers. We analyze RDA under the double asymptotic regime where the data dimension and the training size both increase in a proportional way. This double asymptotic regime allows for application of fundamental results from random matrix theory. Under the double asymptotic regime and some mild assumptions, we show that the asymptotic classification error converges to a deterministic quantity that only depends on the data statistical parameters and dimensions. This result not only implicates some mathematical relations between the misclassification error and the class statistics, but also can be leveraged to select the optimal parameters that minimize the classification error, thus yielding the optimal classifier. Validation results on the synthetic data show a good accuracy of our theoretical findings. We also construct a general consistent estimator to approximate the true classification error in consideration of the unknown previous statistics. We benchmark the performance of our proposed consistent estimator against classical estimator on synthetic data. The observations demonstrate that the general estimator outperforms others in terms of mean squared error (MSE).
Complexity in union-free regular languages
Czech Academy of Sciences Publication Activity Database
Jirásková, G.; Masopust, Tomáš
2011-01-01
Roč. 22, č. 7 (2011), s. 1639-1653 ISSN 0129-0541 Institutional research plan: CEZ:AV0Z10190503 Keywords : Union-free regular language * one-cycle-free- path automaton * descriptional complexity Subject RIV: BA - General Mathematics Impact factor: 0.379, year: 2011 http://www.worldscinet.com/ijfcs/22/2207/S0129054111008933.html
Bit-coded regular expression parsing
DEFF Research Database (Denmark)
Nielsen, Lasse; Henglein, Fritz
2011-01-01
the DFA-based parsing algorithm due to Dub ´e and Feeley to emit the bits of the bit representation without explicitly materializing the parse tree itself. We furthermore show that Frisch and Cardelli’s greedy regular expression parsing algorithm can be straightforwardly modified to produce bit codings...
Tetravalent one-regular graphs of order 4p2
DEFF Research Database (Denmark)
Feng, Yan-Quan; Kutnar, Klavdija; Marusic, Dragan
2014-01-01
A graph is one-regular if its automorphism group acts regularly on the set of its arcs. In this paper tetravalent one-regular graphs of order 4p2, where p is a prime, are classified.......A graph is one-regular if its automorphism group acts regularly on the set of its arcs. In this paper tetravalent one-regular graphs of order 4p2, where p is a prime, are classified....
Solution properties of the archaeal CRISPR DNA repeat-binding homeodomain protein Cbp2
DEFF Research Database (Denmark)
Kenchappa, Chandra; Heiðarsson, Pétur Orri; Kragelund, Birthe
2013-01-01
Clustered regularly interspaced short palindromic repeats (CRISPR) form the basis of diverse adaptive immune systems directed primarily against invading genetic elements of archaea and bacteria. Cbp1 of the crenarchaeal thermoacidophilic order Sulfolobales, carrying three imperfect repeats, binds...... specifically to CRISPR DNA repeats and has been implicated in facilitating production of long transcripts from CRISPR loci. Here, a second related class of CRISPR DNA repeat-binding protein, denoted Cbp2, is characterized that contains two imperfect repeats and is found amongst members of the crenarchaeal...... in facilitating high affinity DNA binding of Cbp2 by tethering the two domains. Structural studies on mutant proteins provide support for Cys(7) and Cys(28) enhancing high thermal stability of Cbp2(Hb) through disulphide bridge formation. Consistent with their proposed CRISPR transcriptional regulatory role, Cbp2...
Stochastic dynamic modeling of regular and slow earthquakes
Aso, N.; Ando, R.; Ide, S.
2017-12-01
Both regular and slow earthquakes are slip phenomena on plate boundaries and are simulated by a (quasi-)dynamic modeling [Liu and Rice, 2005]. In these numerical simulations, spatial heterogeneity is usually considered not only for explaining real physical properties but also for evaluating the stability of the calculations or the sensitivity of the results on the condition. However, even though we discretize the model space with small grids, heterogeneity at smaller scales than the grid size is not considered in the models with deterministic governing equations. To evaluate the effect of heterogeneity at the smaller scales we need to consider stochastic interactions between slip and stress in a dynamic modeling. Tidal stress is known to trigger or affect both regular and slow earthquakes [Yabe et al., 2015; Ide et al., 2016], and such an external force with fluctuation can also be considered as a stochastic external force. A healing process of faults may also be stochastic, so we introduce stochastic friction law. In the present study, we propose a stochastic dynamic model to explain both regular and slow earthquakes. We solve mode III problem, which corresponds to the rupture propagation along the strike direction. We use BIEM (boundary integral equation method) scheme to simulate slip evolution, but we add stochastic perturbations in the governing equations, which is usually written in a deterministic manner. As the simplest type of perturbations, we adopt Gaussian deviations in the formulation of the slip-stress kernel, external force, and friction. By increasing the amplitude of perturbations of the slip-stress kernel, we reproduce complicated rupture process of regular earthquakes including unilateral and bilateral ruptures. By perturbing external force, we reproduce slow rupture propagation at a scale of km/day. The slow propagation generated by a combination of fast interaction at S-wave velocity is analogous to the kinetic theory of gasses: thermal
Directory of Open Access Journals (Sweden)
Jinping Tang
2017-01-01
Full Text Available Optical tomography is an emerging and important molecular imaging modality. The aim of optical tomography is to reconstruct optical properties of human tissues. In this paper, we focus on reconstructing the absorption coefficient based on the radiative transfer equation (RTE. It is an ill-posed parameter identification problem. Regularization methods have been broadly applied to reconstruct the optical coefficients, such as the total variation (TV regularization and the L1 regularization. In order to better reconstruct the piecewise constant and sparse coefficient distributions, TV and L1 norms are combined as the regularization. The forward problem is discretized with the discontinuous Galerkin method on the spatial space and the finite element method on the angular space. The minimization problem is solved by a Jacobian-based Levenberg-Marquardt type method which is equipped with a split Bregman algorithms for the L1 regularization. We use the adjoint method to compute the Jacobian matrix which dramatically improves the computation efficiency. By comparing with the other imaging reconstruction methods based on TV and L1 regularizations, the simulation results show the validity and efficiency of the proposed method.
Sennhenn-Kirchner, S; Goerlich, Y; Kirchner, B; Notbohm, M; Schiekirka, S; Simmenroth, A; Raupach, T
2018-02-01
Recent studies in undergraduate medical education have demonstrated the advantage of repeated testing over repeated practice with regard to knowledge and skills retention. The aim of this study was to investigate whether this "testing effect" also applies to skills retention in undergraduate dental education. In this prospective, randomised controlled trial, fourth-year dental students at Göttingen University Medical Centre participated in a training session on surgical suturing in winter term 2014/2015. Following this, they were either assigned to two sessions of additional skills training (group A) or two sessions of skills assessment with feedback (group B). These sessions were spaced over a period of 4 weeks. Skills retention was assessed in a summative objective structured clinical examination (OSCE) at the end of term, that is 6 months after the initial teaching session. A total of 32 students completed the study. With regard to suturing, OSCE performance was significantly better in group B than group A (81.9±13.1% vs 63.0±15.4%; P=0.001; Cohen's d=1.33). There was no significant OSCE performance difference in the two groups with regard to other learning objectives that were addressed in the end-of-term examination. Thus, the group difference was specific to suturing skills. This is the first study to demonstrate that in dental education, repeated testing produces more favourable skills retention than repeated practice. Test-enhanced learning might be a viable concept for skills retention in undergraduate dentistry education. © 2017 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.
Maurer, Sara; Giess, Mario; Koch, Oliver; Summerer, Daniel
2016-12-16
Transcription-activator-like effector (TALE) proteins consist of concatenated repeats that recognize consecutive canonical nucleobases of DNA via the major groove in a programmable fashion. Since this groove displays unique chemical information for the four human epigenetic cytosine nucleobases, TALE repeats with epigenetic selectivity can be engineered, with potential to establish receptors for the programmable decoding of all human nucleobases. TALE repeats recognize nucleobases via key amino acids in a structurally conserved loop whose backbone is positioned very close to the cytosine 5-carbon. This complicates the engineering of selectivities for large 5-substituents. To interrogate a more promising structural space, we engineered size-reduced repeat loops, performed saturation mutagenesis of key positions, and screened a total of 200 repeat-nucleobase interactions for new selectivities. This provided insight into the structural requirements of TALE repeats for affinity and selectivity, revealed repeats with improved or relaxed selectivity, and resulted in the first selective sensor of 5-carboxylcytosine.
Save, H.; Bettadpur, S. V.
2013-12-01
It has been demonstrated before that using Tikhonov regularization produces spherical harmonic solutions from GRACE that have very little residual stripes while capturing all the signal observed by GRACE within the noise level. This paper demonstrates a two-step process and uses Tikhonov regularization to remove the residual stripes in the CSR regularized spherical harmonic coefficients when computing the spatial projections. We discuss methods to produce mass anomaly grids that have no stripe features while satisfying the necessary condition of capturing all observed signal within the GRACE noise level.
Improving repeatability by improving quality
Energy Technology Data Exchange (ETDEWEB)
Ronen, Shuki; Ackers, Mark; Schlumberger, Geco-Prakla; Brink, Mundy
1998-12-31
Time lapse (4-D) seismic is a promising tool for reservoir characterization and monitoring. The method is apparently simple: to acquire data repeatedly over the same reservoir, process and interpret the data sets, then changes between the data sets indicate changes in the reservoir. A problem with time lapse seismic data is that reservoirs are a relatively small part of the earth and important reservoir changes may cause very small differences to the time lapse data. The challenge is to acquire and process economical time lapse data such that reservoir changes can be detected above the noise of varying acquisition and environment. 7 refs., 9 figs.
Telomerase Repeated Amplification Protocol (TRAP).
Mender, Ilgen; Shay, Jerry W
2015-11-20
Telomeres are found at the end of eukaryotic linear chromosomes, and proteins that bind to telomeres protect DNA from being recognized as double-strand breaks thus preventing end-to-end fusions (Griffith et al. , 1999). However, due to the end replication problem and other factors such as oxidative damage, the limited life span of cultured cells (Hayflick limit) results in progressive shortening of these protective structures (Hayflick and Moorhead, 1961; Olovnikov, 1973). The ribonucleoprotein enzyme complex telomerase-consisting of a protein catalytic component hTERT and a functional RNA component hTR or hTERC - counteracts telomere shortening by adding telomeric repeats to the end of chromosomes in ~90% of primary human tumors and in some transiently proliferating stem-like cells (Shay and Wright, 1996; Shay and Wright, 2001). This results in continuous proliferation of cells which is a hallmark of cancer. Therefore, telomere biology has a central role in aging, cancer progression/metastasis as well as targeted cancer therapies. There are commonly used methods in telomere biology such as Telomere Restriction Fragment (TRF) (Mender and Shay, 2015b), Telomere Repeat Amplification Protocol (TRAP) and Telomere dysfunction Induced Foci (TIF) analysis (Mender and Shay, 2015a). In this detailed protocol we describe Telomere Repeat Amplification Protocol (TRAP). The TRAP assay is a popular method to determine telomerase activity in mammalian cells and tissue samples (Kim et al. , 1994). The TRAP assay includes three steps: extension, amplification, and detection of telomerase products. In the extension step, telomeric repeats are added to the telomerase substrate (which is actually a non telomeric oligonucleotide, TS) by telomerase. In the amplification step, the extension products are amplified by the polymerase chain reaction (PCR) using specific primers (TS upstream primer and ACX downstream primer) and in the detection step, the presence or absence of telomerase is
Coordinated hybrid automatic repeat request
Makki, Behrooz
2014-11-01
We develop a coordinated hybrid automatic repeat request (HARQ) approach. With the proposed scheme, if a user message is correctly decoded in the first HARQ rounds, its spectrum is allocated to other users, to improve the network outage probability and the users\\' fairness. The results, which are obtained for single- and multiple-antenna setups, demonstrate the efficiency of the proposed approach in different conditions. For instance, with a maximum of M retransmissions and single transmit/receive antennas, the diversity gain of a user increases from M to (J+1)(M-1)+1 where J is the number of users helping that user.
Stream Processing Using Grammars and Regular Expressions
DEFF Research Database (Denmark)
Rasmussen, Ulrik Terp
disambiguation. The first algorithm operates in two passes in a semi-streaming fashion, using a constant amount of working memory and an auxiliary tape storage which is written in the first pass and consumed by the second. The second algorithm is a single-pass and optimally streaming algorithm which outputs...... as much of the parse tree as is semantically possible based on the input prefix read so far, and resorts to buffering as many symbols as is required to resolve the next choice. Optimality is obtained by performing a PSPACE-complete pre-analysis on the regular expression. In the second part we present...... Kleenex, a language for expressing high-performance streaming string processing programs as regular grammars with embedded semantic actions, and its compilation to streaming string transducers with worst-case linear-time performance. Its underlying theory is based on transducer decomposition into oracle...
Chaos regularization of quantum tunneling rates
International Nuclear Information System (INIS)
Pecora, Louis M.; Wu Dongho; Lee, Hoshik; Antonsen, Thomas; Lee, Ming-Jer; Ott, Edward
2011-01-01
Quantum tunneling rates through a barrier separating two-dimensional, symmetric, double-well potentials are shown to depend on the classical dynamics of the billiard trajectories in each well and, hence, on the shape of the wells. For shapes that lead to regular (integrable) classical dynamics the tunneling rates fluctuate greatly with eigenenergies of the states sometimes by over two orders of magnitude. Contrarily, shapes that lead to completely chaotic trajectories lead to tunneling rates whose fluctuations are greatly reduced, a phenomenon we call regularization of tunneling rates. We show that a random-plane-wave theory of tunneling accounts for the mean tunneling rates and the small fluctuation variances for the chaotic systems.
Contour Propagation With Riemannian Elasticity Regularization
DEFF Research Database (Denmark)
Bjerre, Troels; Hansen, Mads Fogtmann; Sapru, W.
2011-01-01
Purpose/Objective(s): Adaptive techniques allow for correction of spatial changes during the time course of the fractionated radiotherapy. Spatial changes include tumor shrinkage and weight loss, causing tissue deformation and residual positional errors even after translational and rotational image...... the planning CT onto the rescans and correcting to reflect actual anatomical changes. For deformable registration, a free-form, multi-level, B-spline deformation model with Riemannian elasticity, penalizing non-rigid local deformations, and volumetric changes, was used. Regularization parameters was defined...... on the original delineation and tissue deformation in the time course between scans form a better starting point than rigid propagation. There was no significant difference of locally and globally defined regularization. The method used in the present study suggests that deformed contours need to be reviewed...
Thin accretion disk around regular black hole
Directory of Open Access Journals (Sweden)
QIU Tianqi
2014-08-01
Full Text Available The Penrose′s cosmic censorship conjecture says that naked singularities do not exist in nature.So,it seems reasonable to further conjecture that not even a singularity exists in nature.In this paper,a regular black hole without singularity is studied in detail,especially on its thin accretion disk,energy flux,radiation temperature and accretion efficiency.It is found that the interaction of regular black hole is stronger than that of the Schwarzschild black hole. Furthermore,the thin accretion will be more efficiency to lost energy while the mass of black hole decreased. These particular properties may be used to distinguish between black holes.
Convex nonnegative matrix factorization with manifold regularization.
Hu, Wenjun; Choi, Kup-Sze; Wang, Peiliang; Jiang, Yunliang; Wang, Shitong
2015-03-01
Nonnegative Matrix Factorization (NMF) has been extensively applied in many areas, including computer vision, pattern recognition, text mining, and signal processing. However, nonnegative entries are usually required for the data matrix in NMF, which limits its application. Besides, while the basis and encoding vectors obtained by NMF can represent the original data in low dimension, the representations do not always reflect the intrinsic geometric structure embedded in the data. Motivated by manifold learning and Convex NMF (CNMF), we propose a novel matrix factorization method called Graph Regularized and Convex Nonnegative Matrix Factorization (GCNMF) by introducing a graph regularized term into CNMF. The proposed matrix factorization technique not only inherits the intrinsic low-dimensional manifold structure, but also allows the processing of mixed-sign data matrix. Clustering experiments on nonnegative and mixed-sign real-world data sets are conducted to demonstrate the effectiveness of the proposed method. Copyright © 2014 Elsevier Ltd. All rights reserved.
A short proof of increased parabolic regularity
Directory of Open Access Journals (Sweden)
Stephen Pankavich
2015-08-01
Full Text Available We present a short proof of the increased regularity obtained by solutions to uniformly parabolic partial differential equations. Though this setting is fairly introductory, our new method of proof, which uses a priori estimates and an inductive method, can be extended to prove analogous results for problems with time-dependent coefficients, advection-diffusion or reaction diffusion equations, and nonlinear PDEs even when other tools, such as semigroup methods or the use of explicit fundamental solutions, are unavailable.
Analytic stochastic regularization and gauge theories
International Nuclear Information System (INIS)
Abdalla, E.; Gomes, M.; Lima-Santos, A.
1987-04-01
We prove that analytic stochatic regularization braks gauge invariance. This is done by an explicit one loop calculation of the two three and four point vertex functions of the gluon field in scalar chromodynamics, which turns out not to be geuge invariant. We analyse the counter term structure, Langevin equations and the construction of composite operators in the general framework of stochastic quantization. (author) [pt
Preconditioners for regularized saddle point matrices
Czech Academy of Sciences Publication Activity Database
Axelsson, Owe
2011-01-01
Roč. 19, č. 2 (2011), s. 91-112 ISSN 1570-2820 Institutional research plan: CEZ:AV0Z30860518 Keywords : saddle point matrices * preconditioning * regularization * eigenvalue clustering Subject RIV: BA - General Mathematics Impact factor: 0.533, year: 2011 http://www.degruyter.com/view/j/jnma.2011.19.issue-2/jnum.2011.005/jnum.2011.005. xml
Analytic stochastic regularization: gauge and supersymmetry theories
International Nuclear Information System (INIS)
Abdalla, M.C.B.
1988-01-01
Analytic stochastic regularization for gauge and supersymmetric theories is considered. Gauge invariance in spinor and scalar QCD is verified to brak fown by an explicit one loop computation of the two, theree and four point vertex function of the gluon field. As a result, non gauge invariant counterterms must be added. However, in the supersymmetric multiplets there is a cancellation rendering the counterterms gauge invariant. The calculation is considered at one loop order. (author) [pt
Regularized forecasting of chaotic dynamical systems
International Nuclear Information System (INIS)
Bollt, Erik M.
2017-01-01
While local models of dynamical systems have been highly successful in terms of using extensive data sets observing even a chaotic dynamical system to produce useful forecasts, there is a typical problem as follows. Specifically, with k-near neighbors, kNN method, local observations occur due to recurrences in a chaotic system, and this allows for local models to be built by regression to low dimensional polynomial approximations of the underlying system estimating a Taylor series. This has been a popular approach, particularly in context of scalar data observations which have been represented by time-delay embedding methods. However such local models can generally allow for spatial discontinuities of forecasts when considered globally, meaning jumps in predictions because the collected near neighbors vary from point to point. The source of these discontinuities is generally that the set of near neighbors varies discontinuously with respect to the position of the sample point, and so therefore does the model built from the near neighbors. It is possible to utilize local information inferred from near neighbors as usual but at the same time to impose a degree of regularity on a global scale. We present here a new global perspective extending the general local modeling concept. In so doing, then we proceed to show how this perspective allows us to impose prior presumed regularity into the model, by involving the Tikhonov regularity theory, since this classic perspective of optimization in ill-posed problems naturally balances fitting an objective with some prior assumed form of the result, such as continuity or derivative regularity for example. This all reduces to matrix manipulations which we demonstrate on a simple data set, with the implication that it may find much broader context.
Minimal length uncertainty relation and ultraviolet regularization
Kempf, Achim; Mangano, Gianpiero
1997-06-01
Studies in string theory and quantum gravity suggest the existence of a finite lower limit Δx0 to the possible resolution of distances, at the latest on the scale of the Planck length of 10-35 m. Within the framework of the Euclidean path integral we explicitly show ultraviolet regularization in field theory through this short distance structure. Both rotation and translation invariance can be preserved. An example is studied in detail.
A multiresolution method for solving the Poisson equation using high order regularization
DEFF Research Database (Denmark)
Hejlesen, Mads Mølholm; Walther, Jens Honore
2016-01-01
We present a novel high order multiresolution Poisson solver based on regularized Green's function solutions to obtain exact free-space boundary conditions while using fast Fourier transforms for computational efficiency. Multiresolution is a achieved through local refinement patches and regulari......We present a novel high order multiresolution Poisson solver based on regularized Green's function solutions to obtain exact free-space boundary conditions while using fast Fourier transforms for computational efficiency. Multiresolution is a achieved through local refinement patches...... and regularized Green's functions corresponding to the difference in the spatial resolution between the patches. The full solution is obtained utilizing the linearity of the Poisson equation enabling super-position of solutions. We show that the multiresolution Poisson solver produces convergence rates...
Solution path for manifold regularized semisupervised classification.
Wang, Gang; Wang, Fei; Chen, Tao; Yeung, Dit-Yan; Lochovsky, Frederick H
2012-04-01
Traditional learning algorithms use only labeled data for training. However, labeled examples are often difficult or time consuming to obtain since they require substantial human labeling efforts. On the other hand, unlabeled data are often relatively easy to collect. Semisupervised learning addresses this problem by using large quantities of unlabeled data with labeled data to build better learning algorithms. In this paper, we use the manifold regularization approach to formulate the semisupervised learning problem where a regularization framework which balances a tradeoff between loss and penalty is established. We investigate different implementations of the loss function and identify the methods which have the least computational expense. The regularization hyperparameter, which determines the balance between loss and penalty, is crucial to model selection. Accordingly, we derive an algorithm that can fit the entire path of solutions for every value of the hyperparameter. Its computational complexity after preprocessing is quadratic only in the number of labeled examples rather than the total number of labeled and unlabeled examples.
Regularizations: different recipes for identical situations
International Nuclear Information System (INIS)
Gambin, E.; Lobo, C.O.; Battistel, O.A.
2004-03-01
We present a discussion where the choice of the regularization procedure and the routing for the internal lines momenta are put at the same level of arbitrariness in the analysis of Ward identities involving simple and well-known problems in QFT. They are the complex self-interacting scalar field and two simple models where the SVV and AVV process are pertinent. We show that, in all these problems, the conditions to symmetry relations preservation are put in terms of the same combination of divergent Feynman integrals, which are evaluated in the context of a very general calculational strategy, concerning the manipulations and calculations involving divergences. Within the adopted strategy, all the arbitrariness intrinsic to the problem are still maintained in the final results and, consequently, a perfect map can be obtained with the corresponding results of the traditional regularization techniques. We show that, when we require an universal interpretation for the arbitrariness involved, in order to get consistency with all stated physical constraints, a strong condition is imposed for regularizations which automatically eliminates the ambiguities associated to the routing of the internal lines momenta of loops. The conclusion is clean and sound: the association between ambiguities and unavoidable symmetry violations in Ward identities cannot be maintained if an unique recipe is required for identical situations in the evaluation of divergent physical amplitudes. (author)
Parekh, Ankit
Sparsity has become the basis of some important signal processing methods over the last ten years. Many signal processing problems (e.g., denoising, deconvolution, non-linear component analysis) can be expressed as inverse problems. Sparsity is invoked through the formulation of an inverse problem with suitably designed regularization terms. The regularization terms alone encode sparsity into the problem formulation. Often, the ℓ1 norm is used to induce sparsity, so much so that ℓ1 regularization is considered to be `modern least-squares'. The use of ℓ1 norm, as a sparsity-inducing regularizer, leads to a convex optimization problem, which has several benefits: the absence of extraneous local minima, well developed theory of globally convergent algorithms, even for large-scale problems. Convex regularization via the ℓ1 norm, however, tends to under-estimate the non-zero values of sparse signals. In order to estimate the non-zero values more accurately, non-convex regularization is often favored over convex regularization. However, non-convex regularization generally leads to non-convex optimization, which suffers from numerous issues: convergence may be guaranteed to only a stationary point, problem specific parameters may be difficult to set, and the solution is sensitive to the initialization of the algorithm. The first part of this thesis is aimed toward combining the benefits of non-convex regularization and convex optimization to estimate sparse signals more effectively. To this end, we propose to use parameterized non-convex regularizers with designated non-convexity and provide a range for the non-convex parameter so as to ensure that the objective function is strictly convex. By ensuring convexity of the objective function (sum of data-fidelity and non-convex regularizer), we can make use of a wide variety of convex optimization algorithms to obtain the unique global minimum reliably. The second part of this thesis proposes a non-linear signal
Wang, Jim Jing-Yan; Huang, Jianhua Z.; Sun, Yijun; Gao, Xin
2014-01-01
by regularizing NMF with a nearest neighbor graph constructed from the input data set. However, GNMF has two main bottlenecks. First, using the original feature space directly to construct the graph is not necessarily optimal because of the noisy and irrelevant
Universal regularization prescription for Lovelock AdS gravity
International Nuclear Information System (INIS)
Kofinas, Georgios; Olea, Rodrigo
2007-01-01
A definite form for the boundary term that produces the finiteness of both the conserved quantities and Euclidean action for any Lovelock gravity with AdS asymptotics is presented. This prescription merely tells even from odd bulk dimensions, regardless the particular theory considered, what is valid even for Einstein-Hilbert and Einstein-Gauss-Bonnet AdS gravity. The boundary term is a given polynomial of the boundary extrinsic and intrinsic curvatures (also referred to as Kounterterms series). Only the coupling constant of the boundary term changes accordingly, such that it always preserves a well-posed variational principle for boundary conditions suitable for asymptotically AdS spaces. The background-independent conserved charges associated to asymptotic symmetries are found. In odd bulk dimensions, this regularization produces a generalized formula for the vacuum energy in Lovelock AdS gravity. The standard entropy for asymptotically AdS black holes is recovered directly from the regularization of the Euclidean action, and not only from the first law of thermodynamics associated to the conserved quantities
Nonparametric additive regression for repeatedly measured data
Carroll, R. J.; Maity, A.; Mammen, E.; Yu, K.
2009-01-01
We develop an easily computed smooth backfitting algorithm for additive model fitting in repeated measures problems. Our methodology easily copes with various settings, such as when some covariates are the same over repeated response measurements
Regularized κ-distributions with non-diverging moments
Scherer, K.; Fichtner, H.; Lazar, M.
2017-12-01
For various plasma applications the so-called (non-relativistic) κ-distribution is widely used to reproduce and interpret the suprathermal particle populations exhibiting a power-law distribution in velocity or energy. Despite its reputation the standard κ-distribution as a concept is still disputable, mainly due to the velocity moments M l which make a macroscopic characterization possible, but whose existence is restricted only to low orders l definition of the κ-distribution itself is conditioned by the existence of the moment of order l = 2 (i.e., kinetic temperature) satisfied only for κ > 3/2 . In order to resolve these critical limitations we introduce the regularized κ-distribution with non-diverging moments. For the evaluation of all velocity moments a general analytical expression is provided enabling a significant step towards a macroscopic (fluid-like) description of space plasmas, and, in general, any system of κ-distributed particles.
Chiral Thirring–Wess model with Faddeevian regularization
International Nuclear Information System (INIS)
Rahaman, Anisur
2015-01-01
Replacing vector type of interaction of the Thirring–Wess model by the chiral type a new model is presented which is termed here as chiral Thirring–Wess model. Ambiguity parameters of regularization are so chosen that the model falls into the Faddeevian class. The resulting Faddeevian class of model in general does not possess Lorentz invariance. However we can exploit the arbitrariness admissible in the ambiguity parameters to relate the quantum mechanically generated ambiguity parameters with the classical parameter involved in the masslike term of the gauge field which helps to maintain physical Lorentz invariance instead of the absence of manifestly Lorentz covariance of the model. The phase space structure and the theoretical spectrum of this class of model have been determined through Dirac’s method of quantization of constraint system
Differential regularization of a non-relativistic anyon model
International Nuclear Information System (INIS)
Freedman, D.Z.; Rius, N.
1993-07-01
Differential regularization is applied to a field theory of a non-relativistic charged boson field φ with λ(φ * φ) 2 self-interaction and coupling to a statistics-changing 0(1) Chern-Simons gauge field. Renormalized configuration-space amplitudes for all diagrams contributing to the φ * φ * φφ 4-point function, which is the only primitively divergent Green's function, are obtained up to 3-loop order. The renormalization group equations are explicitly checked, and the scheme dependence of the β-function is investigated. If the renormalization scheme is fixed to agree with a previous 1-loop calculation, the 2- and 3-loop contributions to β(λ, e) vanish, and β(λ, ε) itself vanishes when the ''self-dual'' condition relating λ to the gauge coupling e is imposed. (author). 12 refs, 1 fig
Optimal analysis of structures by concepts of symmetry and regularity
Kaveh, Ali
2013-01-01
Optimal analysis is defined as an analysis that creates and uses sparse, well-structured and well-conditioned matrices. The focus is on efficient methods for eigensolution of matrices involved in static, dynamic and stability analyses of symmetric and regular structures, or those general structures containing such components. Powerful tools are also developed for configuration processing, which is an important issue in the analysis and design of space structures and finite element models. Different mathematical concepts are combined to make the optimal analysis of structures feasible. Canonical forms from matrix algebra, product graphs from graph theory and symmetry groups from group theory are some of the concepts involved in the variety of efficient methods and algorithms presented. The algorithms elucidated in this book enable analysts to handle large-scale structural systems by lowering their computational cost, thus fulfilling the requirement for faster analysis and design of future complex systems. The ...
Learning Sparse Visual Representations with Leaky Capped Norm Regularizers
Wangni, Jianqiao; Lin, Dahua
2017-01-01
Sparsity inducing regularization is an important part for learning over-complete visual representations. Despite the popularity of $\\ell_1$ regularization, in this paper, we investigate the usage of non-convex regularizations in this problem. Our contribution consists of three parts. First, we propose the leaky capped norm regularization (LCNR), which allows model weights below a certain threshold to be regularized more strongly as opposed to those above, therefore imposes strong sparsity and...
Temporal regularity of the environment drives time perception
van Rijn, H; Rhodes, D; Di Luca, M
2016-01-01
It’s reasonable to assume that a regularly paced sequence should be perceived as regular, but here we show that perceived regularity depends on the context in which the sequence is embedded. We presented one group of participants with perceptually regularly paced sequences, and another group of participants with mostly irregularly paced sequences (75% irregular, 25% regular). The timing of the final stimulus in each sequence could be var- ied. In one experiment, we asked whether the last stim...
Topological characteristics of helical repeat proteins
Groves, M R; Barford, D
The recent elucidation of protein structures based upon repeating amino acid motifs, including the armadillo motif, the HEAT motif and tetratricopeptide repeats, reveals that they belong to the class of helical repeat proteins. These proteins share the common property of being assembled from tandem
Digital storage of repeated signals
International Nuclear Information System (INIS)
Prozorov, S.P.
1984-01-01
An independent digital storage system designed for repeated signal discrimination from background noises is described. The signal averaging is performed off-line in the real time mode by means of multiple selection of the investigated signal and integration in each point. Digital values are added in a simple summator and the result is recorded the storage device with the volume of 1024X20 bit from where it can be output on an oscillograph, a plotter or transmitted to a compUter for subsequent processing. The described storage is reliable and simple device on one base of which the systems for the nuclear magnetic resonapce signal acquisition in different experiments are developed
Hungarian repeat station survey, 2010
Directory of Open Access Journals (Sweden)
Péter Kovács
2013-03-01
Full Text Available The last Hungarian repeat station survey was completed between October 2010 and February 2011. Declination, inclination and the total field were observed using one-axial DMI fluxgate magnetometer mounted on Zeiss20A theodolite and GSM 19 Overhauser magnetometer. The magnetic elements of the sites were reduced to the epoch of 2010.5 on the basis of the continuous recordings of Tihany Geophysical Observatory. In stations located far from the reference observatory, the observations were carried out in the morning and afternoon in order to decrease the effect of the distant temporal correction. To further increase the accuracy, on-site dIdD variometer has also been installed near the Aggtelek station, in the Baradla cave, during the survey of the easternmost sites. The paper presents the technical details and the results of our last campaign. The improvement of the accuracy of the temporal reduction by the use of the local variometer is also reported.
Linear Synchronous Motor Repeatability Tests
International Nuclear Information System (INIS)
Ward, C.R.
2002-01-01
A cart system using linear synchronous motors was being considered for the Plutonium Immobilization Plant (PIP). One of the applications in the PIP was the movement of a stack of furnace trays, filled with the waste form (pucks) from a stacking/unstacking station to several bottom loaded furnaces. A system was ordered to perform this function in the PIP Ceramic Prototype Test Facility (CPTF). This system was installed and started up in SRTC prior to being installed in the CPTF. The PIP was suspended and then canceled after the linear synchronous motor system was started up. This system was used to determine repeatability of a linear synchronous motor cart system for the Modern Pit Facility
Two-dimensional quantum repeaters
Wallnöfer, J.; Zwerger, M.; Muschik, C.; Sangouard, N.; Dür, W.
2016-11-01
The endeavor to develop quantum networks gave rise to a rapidly developing field with far-reaching applications such as secure communication and the realization of distributed computing tasks. This ultimately calls for the creation of flexible multiuser structures that allow for quantum communication between arbitrary pairs of parties in the network and facilitate also multiuser applications. To address this challenge, we propose a two-dimensional quantum repeater architecture to establish long-distance entanglement shared between multiple communication partners in the presence of channel noise and imperfect local control operations. The scheme is based on the creation of self-similar multiqubit entanglement structures at growing scale, where variants of entanglement swapping and multiparty entanglement purification are combined to create high-fidelity entangled states. We show how such networks can be implemented using trapped ions in cavities.
Hybrid FRC under repeated loading
International Nuclear Information System (INIS)
Komlos, K.; Babal, B.; Nuernbergerova, T.
1993-01-01
Fibre reinforced concretes (FRC) containing several volume fractions in different ratios of two types of fibres - polypropylene and steel, were tested under repeated loading. Mechanical properties of specimens - cubes 150/150/150 mm (for compressive strength), prisms 100/100/400 (for flexural strength), short cylinders 150/60 mm (for impact strength) have been experimentally investigated before and after cyclic loading at the age of 28 days curing time. Mix proportions were designed after DIN 1045 with max. aggregate size 8 mm and grading curve B 8. Portland Cement PC 400 in the amount of 450 kg. m -3 was applied and W/C ratio 0.55. Workability of mixes was measured by Vebe method and regulated by plasticizing admixture Ligoplast Na. Maximum hybrid fibre volume fraction (polypropylene + steel) was 1.0%. Dynamic forces generated in Schenck testing machine with frequency 16 Hz had sinusoidal wave form varying between 0.7 and 0.1 of static mechanical characteristics. The number of cycles in all tests was 10 5 . The residual MOR at static four point bending test and working diagram force-deflection was carried out as well. The impact properties after repeated loading in compression were tested by means of falling weight test. Relationships between composition of fibre composites with different combination of polypropylene (0.2, 0.3, 0.5% by volume) and steel (0.5, 0.7, and 0.8% by volume) fibre content were obtained and technological properties of mixes as well. (author)
Quality control during repeated fryings
Directory of Open Access Journals (Sweden)
Cuesta, C.
1998-08-01
Full Text Available Most of the debate ¡s about how the slow or frequent turnover of fresh fat affects the deterioration, of fat used in frying. Then, the modification of different oils used in repeated fryings of potatoes without or with turnover of fresh oil, under similar frying conditions, was evaluated by two criteria: by measuring the total polar component isolated by column chromatography and by the evaluation of the specific compounds related to thermoxidative and hydrolytic alteration by High Performance Size Exclusion Chromatography (HPSEC. The results indicate that with frequent turnover of fresh oil, the critical level of 25% of polar material is rarely reached, and there are fewer problems with fat deterioration because the frying tended to increase the level of polar material and thermoxidative compounds (polymers and dimers of triglycerides and oxidized triglycerides in the fryer oil during the first fryings, followed by minor changes and a tendency to reach a near-steady state in successive fryings. However, in repeated frying of potatoes using a null turnover the alteration rate was higher being linear the relationship found between polar material or the different thermoxidative compounds and the number of fryings. On the other hand chemical reactions produced during deep-fat frying can be minimized by using proper oils. In addition the increased level of consumers awareness toward fat composition and its impact on human health could had an impact on the selection of fats for snacks and for industry. In this way monoenic fats are the most adequate from a nutritional point of view and for its oxidative stability during frying.
Popović-Ćitić Branislava
2009-01-01
Cyber space bullying is a relatively new phenomenon that has received increased attention by scientists, researchers and practitioners in recent years. It is usually defined as an intentionally and repeatedly expression of aggression towards other people through information and communication technologies. Cyber space bullying is characterized by all the primary characteristics of traditional bullying and some specifics ones that clearly differ it from other forms of bullying. In addition to t...
The relationship of social support concept and repeat mammography among Iranian women.
Farhadifar, Fariba; Taymoori, Parvaneh; Bahrami, Mitra; Zarea, Shamsy
2015-10-24
Breast cancer ranks as the first most common cancer among the Iranian women. The regular repeat of mammography with 1-2 year intervals leads to the increased efficiency of early detection of breast cancer. The present study examined the predictors of repeat mammography. It was hypothesized that higher social support is connected with mammography repeat. A cross-sectional study was carried out among 400 women 50 years and older in Sanandaj, Iran. Data was collected by the questionnaire including information on socio demographical variables and measuring social support level. Data was analyzed by SPSS16 software. Multiple logistic regression was used to determine the predictive power of demographic variables and dimensions of social support for repeat mammography. Women aged 50-55 years had three times odds of repeat mammography compared to women aged 56-60 years) OR, 3.02). Married women had greater odds of repeat mammography compared to single women (P women with higher social support was 0.93 times greater than the women with lower social support (OR, 0.93; 95 % CI, 0.91-0.95; P women are less likely repeat mammography than other Asian women. Identifying the associations between perceived social support and repeat mammography may offer detailed information to allow for future study and guide the development of interventions not only for Iranian women but also for similar cultural that received pay too little attention to date in the breast cancer literature.
Convergence and fluctuations of Regularized Tyler estimators
Kammoun, Abla; Couillet, Romain; Pascal, Frederic; Alouini, Mohamed-Slim
2015-01-01
This article studies the behavior of regularized Tyler estimators (RTEs) of scatter matrices. The key advantages of these estimators are twofold. First, they guarantee by construction a good conditioning of the estimate and second, being a derivative of robust Tyler estimators, they inherit their robustness properties, notably their resilience to the presence of outliers. Nevertheless, one major problem that poses the use of RTEs in practice is represented by the question of setting the regularization parameter p. While a high value of p is likely to push all the eigenvalues away from zero, it comes at the cost of a larger bias with respect to the population covariance matrix. A deep understanding of the statistics of RTEs is essential to come up with appropriate choices for the regularization parameter. This is not an easy task and might be out of reach, unless one considers asymptotic regimes wherein the number of observations n and/or their size N increase together. First asymptotic results have recently been obtained under the assumption that N and n are large and commensurable. Interestingly, no results concerning the regime of n going to infinity with N fixed exist, even though the investigation of this assumption has usually predated the analysis of the most difficult N and n large case. This motivates our work. In particular, we prove in the present paper that the RTEs converge to a deterministic matrix when n → ∞ with N fixed, which is expressed as a function of the theoretical covariance matrix. We also derive the fluctuations of the RTEs around this deterministic matrix and establish that these fluctuations converge in distribution to a multivariate Gaussian distribution with zero mean and a covariance depending on the population covariance and the parameter.
Convergence and fluctuations of Regularized Tyler estimators
Kammoun, Abla
2015-10-26
This article studies the behavior of regularized Tyler estimators (RTEs) of scatter matrices. The key advantages of these estimators are twofold. First, they guarantee by construction a good conditioning of the estimate and second, being a derivative of robust Tyler estimators, they inherit their robustness properties, notably their resilience to the presence of outliers. Nevertheless, one major problem that poses the use of RTEs in practice is represented by the question of setting the regularization parameter p. While a high value of p is likely to push all the eigenvalues away from zero, it comes at the cost of a larger bias with respect to the population covariance matrix. A deep understanding of the statistics of RTEs is essential to come up with appropriate choices for the regularization parameter. This is not an easy task and might be out of reach, unless one considers asymptotic regimes wherein the number of observations n and/or their size N increase together. First asymptotic results have recently been obtained under the assumption that N and n are large and commensurable. Interestingly, no results concerning the regime of n going to infinity with N fixed exist, even though the investigation of this assumption has usually predated the analysis of the most difficult N and n large case. This motivates our work. In particular, we prove in the present paper that the RTEs converge to a deterministic matrix when n → ∞ with N fixed, which is expressed as a function of the theoretical covariance matrix. We also derive the fluctuations of the RTEs around this deterministic matrix and establish that these fluctuations converge in distribution to a multivariate Gaussian distribution with zero mean and a covariance depending on the population covariance and the parameter.
A variational regularization of Abel transform for GPS radio occultation
Directory of Open Access Journals (Sweden)
T.-K. Wee
2018-04-01
Full Text Available In the Global Positioning System (GPS radio occultation (RO technique, the inverse Abel transform of measured bending angle (Abel inversion, hereafter AI is the standard means of deriving the refractivity. While concise and straightforward to apply, the AI accumulates and propagates the measurement error downward. The measurement error propagation is detrimental to the refractivity in lower altitudes. In particular, it builds up negative refractivity bias in the tropical lower troposphere. An alternative to AI is the numerical inversion of the forward Abel transform, which does not incur the integration of error-possessing measurement and thus precludes the error propagation. The variational regularization (VR proposed in this study approximates the inversion of the forward Abel transform by an optimization problem in which the regularized solution describes the measurement as closely as possible within the measurement's considered accuracy. The optimization problem is then solved iteratively by means of the adjoint technique. VR is formulated with error covariance matrices, which permit a rigorous incorporation of prior information on measurement error characteristics and the solution's desired behavior into the regularization. VR holds the control variable in the measurement space to take advantage of the posterior height determination and to negate the measurement error due to the mismodeling of the refractional radius. The advantages of having the solution and the measurement in the same space are elaborated using a purposely corrupted synthetic sounding with a known true solution. The competency of VR relative to AI is validated with a large number of actual RO soundings. The comparison to nearby radiosonde observations shows that VR attains considerably smaller random and systematic errors compared to AI. A noteworthy finding is that in the heights and areas that the measurement bias is supposedly small, VR follows AI very closely in the
A variational regularization of Abel transform for GPS radio occultation
Wee, Tae-Kwon
2018-04-01
In the Global Positioning System (GPS) radio occultation (RO) technique, the inverse Abel transform of measured bending angle (Abel inversion, hereafter AI) is the standard means of deriving the refractivity. While concise and straightforward to apply, the AI accumulates and propagates the measurement error downward. The measurement error propagation is detrimental to the refractivity in lower altitudes. In particular, it builds up negative refractivity bias in the tropical lower troposphere. An alternative to AI is the numerical inversion of the forward Abel transform, which does not incur the integration of error-possessing measurement and thus precludes the error propagation. The variational regularization (VR) proposed in this study approximates the inversion of the forward Abel transform by an optimization problem in which the regularized solution describes the measurement as closely as possible within the measurement's considered accuracy. The optimization problem is then solved iteratively by means of the adjoint technique. VR is formulated with error covariance matrices, which permit a rigorous incorporation of prior information on measurement error characteristics and the solution's desired behavior into the regularization. VR holds the control variable in the measurement space to take advantage of the posterior height determination and to negate the measurement error due to the mismodeling of the refractional radius. The advantages of having the solution and the measurement in the same space are elaborated using a purposely corrupted synthetic sounding with a known true solution. The competency of VR relative to AI is validated with a large number of actual RO soundings. The comparison to nearby radiosonde observations shows that VR attains considerably smaller random and systematic errors compared to AI. A noteworthy finding is that in the heights and areas that the measurement bias is supposedly small, VR follows AI very closely in the mean refractivity
The use of regularization in inferential measurements
International Nuclear Information System (INIS)
Hines, J. Wesley; Gribok, Andrei V.; Attieh, Ibrahim; Uhrig, Robert E.
1999-01-01
Inferential sensing is the prediction of a plant variable through the use of correlated plant variables. A correct prediction of the variable can be used to monitor sensors for drift or other failures making periodic instrument calibrations unnecessary. This move from periodic to condition based maintenance can reduce costs and increase the reliability of the instrument. Having accurate, reliable measurements is important for signals that may impact safety or profitability. This paper investigates how collinearity adversely affects inferential sensing by making the results inconsistent and unrepeatable; and presents regularization as a potential solution (author) (ml)
Regularization ambiguities in loop quantum gravity
International Nuclear Information System (INIS)
Perez, Alejandro
2006-01-01
One of the main achievements of loop quantum gravity is the consistent quantization of the analog of the Wheeler-DeWitt equation which is free of ultraviolet divergences. However, ambiguities associated to the intermediate regularization procedure lead to an apparently infinite set of possible theories. The absence of an UV problem--the existence of well-behaved regularization of the constraints--is intimately linked with the ambiguities arising in the quantum theory. Among these ambiguities is the one associated to the SU(2) unitary representation used in the diffeomorphism covariant 'point-splitting' regularization of the nonlinear functionals of the connection. This ambiguity is labeled by a half-integer m and, here, it is referred to as the m ambiguity. The aim of this paper is to investigate the important implications of this ambiguity. We first study 2+1 gravity (and more generally BF theory) quantized in the canonical formulation of loop quantum gravity. Only when the regularization of the quantum constraints is performed in terms of the fundamental representation of the gauge group does one obtain the usual topological quantum field theory as a result. In all other cases unphysical local degrees of freedom arise at the level of the regulated theory that conspire against the existence of the continuum limit. This shows that there is a clear-cut choice in the quantization of the constraints in 2+1 loop quantum gravity. We then analyze the effects of the ambiguity in 3+1 gravity exhibiting the existence of spurious solutions for higher representation quantizations of the Hamiltonian constraint. Although the analysis is not complete in 3+1 dimensions - due to the difficulties associated to the definition of the physical inner product - it provides evidence supporting the definitions quantum dynamics of loop quantum gravity in terms of the fundamental representation of the gauge group as the only consistent possibilities. If the gauge group is SO(3) we find
New regularities in mass spectra of hadrons
International Nuclear Information System (INIS)
Kajdalov, A.B.
1989-01-01
The properties of bosonic and baryonic Regge trajectories for hadrons composed of light quarks are considered. Experimental data agree with an existence of daughter trajectories consistent with string models. It is pointed out that the parity doubling for baryonic trajectories, observed experimentally, is not understood in the existing quark models. Mass spectrum of bosons and baryons indicates to an approximate supersymmetry in the mass region M>1 GeV. These regularities indicates to a high degree of symmetry for the dynamics in the confinement region. 8 refs.; 5 figs
Total-variation regularization with bound constraints
International Nuclear Information System (INIS)
Chartrand, Rick; Wohlberg, Brendt
2009-01-01
We present a new algorithm for bound-constrained total-variation (TV) regularization that in comparison with its predecessors is simple, fast, and flexible. We use a splitting approach to decouple TV minimization from enforcing the constraints. Consequently, existing TV solvers can be employed with minimal alteration. This also makes the approach straightforward to generalize to any situation where TV can be applied. We consider deblurring of images with Gaussian or salt-and-pepper noise, as well as Abel inversion of radiographs with Poisson noise. We incorporate previous iterative reweighting algorithms to solve the TV portion.
Bayesian regularization of diffusion tensor images
DEFF Research Database (Denmark)
Frandsen, Jesper; Hobolth, Asger; Østergaard, Leif
2007-01-01
Diffusion tensor imaging (DTI) is a powerful tool in the study of the course of nerve fibre bundles in the human brain. Using DTI, the local fibre orientation in each image voxel can be described by a diffusion tensor which is constructed from local measurements of diffusion coefficients along...... several directions. The measured diffusion coefficients and thereby the diffusion tensors are subject to noise, leading to possibly flawed representations of the three dimensional fibre bundles. In this paper we develop a Bayesian procedure for regularizing the diffusion tensor field, fully utilizing...
Indefinite metric and regularization of electrodynamics
International Nuclear Information System (INIS)
Gaudin, M.
1984-06-01
The invariant regularization of Pauli and Villars in quantum electrodynamics can be considered as deriving from a local and causal lagrangian theory for spin 1/2 bosons, by introducing an indefinite metric and a condition on the allowed states similar to the Lorentz condition. The consequences are the asymptotic freedom of the photon's propagator. We present a calcultion of the effective charge to the fourth order in the coupling as a function of the auxiliary masses, the theory avoiding all mass divergencies to this order [fr
Strategies for regular segmented reductions on GPU
DEFF Research Database (Denmark)
Larsen, Rasmus Wriedt; Henriksen, Troels
2017-01-01
We present and evaluate an implementation technique for regular segmented reductions on GPUs. Existing techniques tend to be either consistent in performance but relatively inefficient in absolute terms, or optimised for specific workloads and thereby exhibiting bad performance for certain input...... is in the context of the Futhark compiler, the implementation technique is applicable to any library or language that has a need for segmented reductions. We evaluate the technique on four microbenchmarks, two of which we also compare to implementations in the CUB library for GPU programming, as well as on two...
Wang, Jim Jing-Yan
2014-09-20
Nonnegative matrix factorization (NMF), a popular part-based representation technique, does not capture the intrinsic local geometric structure of the data space. Graph regularized NMF (GNMF) was recently proposed to avoid this limitation by regularizing NMF with a nearest neighbor graph constructed from the input data set. However, GNMF has two main bottlenecks. First, using the original feature space directly to construct the graph is not necessarily optimal because of the noisy and irrelevant features and nonlinear distributions of data samples. Second, one possible way to handle the nonlinear distribution of data samples is by kernel embedding. However, it is often difficult to choose the most suitable kernel. To solve these bottlenecks, we propose two novel graph-regularized NMF methods, AGNMFFS and AGNMFMK, by introducing feature selection and multiple-kernel learning to the graph regularized NMF, respectively. Instead of using a fixed graph as in GNMF, the two proposed methods learn the nearest neighbor graph that is adaptive to the selected features and learned multiple kernels, respectively. For each method, we propose a unified objective function to conduct feature selection/multi-kernel learning, NMF and adaptive graph regularization simultaneously. We further develop two iterative algorithms to solve the two optimization problems. Experimental results on two challenging pattern classification tasks demonstrate that the proposed methods significantly outperform state-of-the-art data representation methods.
Schrödinger, Erwin
1985-01-01
In response to repeated requests this classic book on space-time structure by Professor Erwin Schrödinger is now available in the Cambridge Science Classics series. First published in 1950, and reprinted in 1954 and 1960, this lucid and profound exposition of Einstein's 1915 theory of gravitation still provides valuable reading for students and research workers in the field.
Analysis of regularized inversion of data corrupted by white Gaussian noise
International Nuclear Information System (INIS)
Kekkonen, Hanne; Lassas, Matti; Siltanen, Samuli
2014-01-01
Tikhonov regularization is studied in the case of linear pseudodifferential operator as the forward map and additive white Gaussian noise as the measurement error. The measurement model for an unknown function u(x) is m(x) = Au(x) + δ ε (x), where δ > 0 is the noise magnitude. If ε was an L 2 -function, Tikhonov regularization gives an estimate T α (m) = u∈H r arg min { ||Au-m|| L 2 2 + α||u|| H r 2 } for u where α = α(δ) is the regularization parameter. Here penalization of the Sobolev norm ||u|| H r covers the cases of standard Tikhonov regularization (r = 0) and first derivative penalty (r = 1). Realizations of white Gaussian noise are almost never in L 2 , but do belong to H s with probability one if s < 0 is small enough. A modification of Tikhonov regularization theory is presented, covering the case of white Gaussian measurement noise. Furthermore, the convergence of regularized reconstructions to the correct solution as δ → 0 is proven in appropriate function spaces using microlocal analysis. The convergence of the related finite-dimensional problems to the infinite-dimensional problem is also analysed. (paper)
The leucine-rich repeat structure.
Bella, J; Hindle, K L; McEwan, P A; Lovell, S C
2008-08-01
The leucine-rich repeat is a widespread structural motif of 20-30 amino acids with a characteristic repetitive sequence pattern rich in leucines. Leucine-rich repeat domains are built from tandems of two or more repeats and form curved solenoid structures that are particularly suitable for protein-protein interactions. Thousands of protein sequences containing leucine-rich repeats have been identified by automatic annotation methods. Three-dimensional structures of leucine-rich repeat domains determined to date reveal a degree of structural variability that translates into the considerable functional versatility of this protein superfamily. As the essential structural principles become well established, the leucine-rich repeat architecture is emerging as an attractive framework for structural prediction and protein engineering. This review presents an update of the current understanding of leucine-rich repeat structure at the primary, secondary, tertiary and quaternary levels and discusses specific examples from recently determined three-dimensional structures.
Regularized inner products and weakly holomorphic Hecke eigenforms
Bringmann, Kathrin; Kane, Ben
2018-01-01
We show that the image of repeated differentiation on weak cusp forms is precisely the subspace which is orthogonal to the space of weakly holomorphic modular forms. This gives a new interpretation of weakly holomorphic Hecke eigenforms. The research of the first author is supported by the Alfried Krupp Prize for Young University Teachers of the Krupp foundation and the research leading to these results receives funding from the European Research Council under the European Union’s Seventh Framework Programme (FP/2007-2013) / ERC Grant agreement n. 335220—AQSER. The research of the second author was supported by grants from the Research Grants Council of the Hong Kong SAR, China (project numbers HKU 27300314, 17302515, and 17316416).
Emotion regulation deficits in regular marijuana users.
Zimmermann, Kaeli; Walz, Christina; Derckx, Raissa T; Kendrick, Keith M; Weber, Bernd; Dore, Bruce; Ochsner, Kevin N; Hurlemann, René; Becker, Benjamin
2017-08-01
Effective regulation of negative affective states has been associated with mental health. Impaired regulation of negative affect represents a risk factor for dysfunctional coping mechanisms such as drug use and thus could contribute to the initiation and development of problematic substance use. This study investigated behavioral and neural indices of emotion regulation in regular marijuana users (n = 23) and demographically matched nonusing controls (n = 20) by means of an fMRI cognitive emotion regulation (reappraisal) paradigm. Relative to nonusing controls, marijuana users demonstrated increased neural activity in a bilateral frontal network comprising precentral, middle cingulate, and supplementary motor regions during reappraisal of negative affect (P marijuana users relative to controls. Together, the present findings could reflect an unsuccessful attempt of compensatory recruitment of additional neural resources in the context of disrupted amygdala-prefrontal interaction during volitional emotion regulation in marijuana users. As such, impaired volitional regulation of negative affect might represent a consequence of, or risk factor for, regular marijuana use. Hum Brain Mapp 38:4270-4279, 2017. © 2017 Wiley Periodicals, Inc. © 2017 Wiley Periodicals, Inc.
Efficient multidimensional regularization for Volterra series estimation
Birpoutsoukis, Georgios; Csurcsia, Péter Zoltán; Schoukens, Johan
2018-05-01
This paper presents an efficient nonparametric time domain nonlinear system identification method. It is shown how truncated Volterra series models can be efficiently estimated without the need of long, transient-free measurements. The method is a novel extension of the regularization methods that have been developed for impulse response estimates of linear time invariant systems. To avoid the excessive memory needs in case of long measurements or large number of estimated parameters, a practical gradient-based estimation method is also provided, leading to the same numerical results as the proposed Volterra estimation method. Moreover, the transient effects in the simulated output are removed by a special regularization method based on the novel ideas of transient removal for Linear Time-Varying (LTV) systems. Combining the proposed methodologies, the nonparametric Volterra models of the cascaded water tanks benchmark are presented in this paper. The results for different scenarios varying from a simple Finite Impulse Response (FIR) model to a 3rd degree Volterra series with and without transient removal are compared and studied. It is clear that the obtained models capture the system dynamics when tested on a validation dataset, and their performance is comparable with the white-box (physical) models.
Supporting Regularized Logistic Regression Privately and Efficiently
Li, Wenfa; Liu, Hongzhe; Yang, Peng; Xie, Wei
2016-01-01
As one of the most popular statistical and machine learning models, logistic regression with regularization has found wide adoption in biomedicine, social sciences, information technology, and so on. These domains often involve data of human subjects that are contingent upon strict privacy regulations. Concerns over data privacy make it increasingly difficult to coordinate and conduct large-scale collaborative studies, which typically rely on cross-institution data sharing and joint analysis. Our work here focuses on safeguarding regularized logistic regression, a widely-used statistical model while at the same time has not been investigated from a data security and privacy perspective. We consider a common use scenario of multi-institution collaborative studies, such as in the form of research consortia or networks as widely seen in genetics, epidemiology, social sciences, etc. To make our privacy-enhancing solution practical, we demonstrate a non-conventional and computationally efficient method leveraging distributing computing and strong cryptography to provide comprehensive protection over individual-level and summary data. Extensive empirical evaluations on several studies validate the privacy guarantee, efficiency and scalability of our proposal. We also discuss the practical implications of our solution for large-scale studies and applications from various disciplines, including genetic and biomedical studies, smart grid, network analysis, etc. PMID:27271738
Supporting Regularized Logistic Regression Privately and Efficiently.
Li, Wenfa; Liu, Hongzhe; Yang, Peng; Xie, Wei
2016-01-01
As one of the most popular statistical and machine learning models, logistic regression with regularization has found wide adoption in biomedicine, social sciences, information technology, and so on. These domains often involve data of human subjects that are contingent upon strict privacy regulations. Concerns over data privacy make it increasingly difficult to coordinate and conduct large-scale collaborative studies, which typically rely on cross-institution data sharing and joint analysis. Our work here focuses on safeguarding regularized logistic regression, a widely-used statistical model while at the same time has not been investigated from a data security and privacy perspective. We consider a common use scenario of multi-institution collaborative studies, such as in the form of research consortia or networks as widely seen in genetics, epidemiology, social sciences, etc. To make our privacy-enhancing solution practical, we demonstrate a non-conventional and computationally efficient method leveraging distributing computing and strong cryptography to provide comprehensive protection over individual-level and summary data. Extensive empirical evaluations on several studies validate the privacy guarantee, efficiency and scalability of our proposal. We also discuss the practical implications of our solution for large-scale studies and applications from various disciplines, including genetic and biomedical studies, smart grid, network analysis, etc.
Multiple graph regularized nonnegative matrix factorization
Wang, Jim Jing-Yan
2013-10-01
Non-negative matrix factorization (NMF) has been widely used as a data representation method based on components. To overcome the disadvantage of NMF in failing to consider the manifold structure of a data set, graph regularized NMF (GrNMF) has been proposed by Cai et al. by constructing an affinity graph and searching for a matrix factorization that respects graph structure. Selecting a graph model and its corresponding parameters is critical for this strategy. This process is usually carried out by cross-validation or discrete grid search, which are time consuming and prone to overfitting. In this paper, we propose a GrNMF, called MultiGrNMF, in which the intrinsic manifold is approximated by a linear combination of several graphs with different models and parameters inspired by ensemble manifold regularization. Factorization metrics and linear combination coefficients of graphs are determined simultaneously within a unified object function. They are alternately optimized in an iterative algorithm, thus resulting in a novel data representation algorithm. Extensive experiments on a protein subcellular localization task and an Alzheimer\\'s disease diagnosis task demonstrate the effectiveness of the proposed algorithm. © 2013 Elsevier Ltd. All rights reserved.
Accelerating Large Data Analysis By Exploiting Regularities
Moran, Patrick J.; Ellsworth, David
2003-01-01
We present techniques for discovering and exploiting regularity in large curvilinear data sets. The data can be based on a single mesh or a mesh composed of multiple submeshes (also known as zones). Multi-zone data are typical to Computational Fluid Dynamics (CFD) simulations. Regularities include axis-aligned rectilinear and cylindrical meshes as well as cases where one zone is equivalent to a rigid-body transformation of another. Our algorithms can also discover rigid-body motion of meshes in time-series data. Next, we describe a data model where we can utilize the results from the discovery process in order to accelerate large data visualizations. Where possible, we replace general curvilinear zones with rectilinear or cylindrical zones. In rigid-body motion cases we replace a time-series of meshes with a transformed mesh object where a reference mesh is dynamically transformed based on a given time value in order to satisfy geometry requests, on demand. The data model enables us to make these substitutions and dynamic transformations transparently with respect to the visualization algorithms. We present results with large data sets where we combine our mesh replacement and transformation techniques with out-of-core paging in order to achieve significant speed-ups in analysis.
Supporting Regularized Logistic Regression Privately and Efficiently.
Directory of Open Access Journals (Sweden)
Wenfa Li
Full Text Available As one of the most popular statistical and machine learning models, logistic regression with regularization has found wide adoption in biomedicine, social sciences, information technology, and so on. These domains often involve data of human subjects that are contingent upon strict privacy regulations. Concerns over data privacy make it increasingly difficult to coordinate and conduct large-scale collaborative studies, which typically rely on cross-institution data sharing and joint analysis. Our work here focuses on safeguarding regularized logistic regression, a widely-used statistical model while at the same time has not been investigated from a data security and privacy perspective. We consider a common use scenario of multi-institution collaborative studies, such as in the form of research consortia or networks as widely seen in genetics, epidemiology, social sciences, etc. To make our privacy-enhancing solution practical, we demonstrate a non-conventional and computationally efficient method leveraging distributing computing and strong cryptography to provide comprehensive protection over individual-level and summary data. Extensive empirical evaluations on several studies validate the privacy guarantee, efficiency and scalability of our proposal. We also discuss the practical implications of our solution for large-scale studies and applications from various disciplines, including genetic and biomedical studies, smart grid, network analysis, etc.
Multiview Hessian regularization for image annotation.
Liu, Weifeng; Tao, Dacheng
2013-07-01
The rapid development of computer hardware and Internet technology makes large scale data dependent models computationally tractable, and opens a bright avenue for annotating images through innovative machine learning algorithms. Semisupervised learning (SSL) therefore received intensive attention in recent years and was successfully deployed in image annotation. One representative work in SSL is Laplacian regularization (LR), which smoothes the conditional distribution for classification along the manifold encoded in the graph Laplacian, however, it is observed that LR biases the classification function toward a constant function that possibly results in poor generalization. In addition, LR is developed to handle uniformly distributed data (or single-view data), although instances or objects, such as images and videos, are usually represented by multiview features, such as color, shape, and texture. In this paper, we present multiview Hessian regularization (mHR) to address the above two problems in LR-based image annotation. In particular, mHR optimally combines multiple HR, each of which is obtained from a particular view of instances, and steers the classification function that varies linearly along the data manifold. We apply mHR to kernel least squares and support vector machines as two examples for image annotation. Extensive experiments on the PASCAL VOC'07 dataset validate the effectiveness of mHR by comparing it with baseline algorithms, including LR and HR.
International Nuclear Information System (INIS)
Flemming, Jens; Hofmann, Bernd
2011-01-01
In this paper, we enlighten the role of variational inequalities for obtaining convergence rates in Tikhonov regularization of nonlinear ill-posed problems with convex penalty functionals under convexity constraints in Banach spaces. Variational inequalities are able to cover solution smoothness and the structure of nonlinearity in a uniform manner, not only for unconstrained but, as we indicate, also for constrained Tikhonov regularization. In this context, we extend the concept of projected source conditions already known in Hilbert spaces to Banach spaces, and we show in the main theorem that such projected source conditions are to some extent equivalent to certain variational inequalities. The derived variational inequalities immediately yield convergence rates measured by Bregman distances
Drug–drug interaction of microdose and regular-dose omeprazole with a CYP2C19 inhibitor and inducer
Park, Gab-jin; Bae, Soo Hyeon; Park, Wan-Su; Han, Seunghoon; Park, Min-Ho; Shin, Seok-Ho; Shin, Young G; Yim, Dong-Seok
2017-01-01
Purpose A microdose drug–drug interaction (DDI) study may be a valuable tool for anticipating drug interaction at therapeutic doses. This study aimed to compare the magnitude of DDIs at microdoses and regular doses to explore the applicability of a microdose DDI study. Patients and methods Six healthy male volunteer subjects were enrolled into each DDI study of omeprazole (victim) and known perpetrators: fluconazole (inhibitor) and rifampin (inducer). For both studies, the microdose (100 μg, cold compound) and the regular dose (20 mg) of omeprazole were given at days 0 and 1, respectively. On days 2–9, the inhibitor or inducer was given daily, and the microdose and regular dose of omeprazole were repeated at days 8 and 9, respectively. Full omeprazole pharmacokinetic samplings were performed at days 0, 1, 8, and 9 of both studies for noncompartmental analysis. Results The magnitude of the DDI, the geometric mean ratios (with perpetrator/omeprazole only) of maximum concentration (Cmax) and area under the curve to the last measurement (AUCt) of the microdose and the regular dose were compared. The geometric mean ratios in the inhibition study were: 2.17 (micro) and 2.68 (regular) for Cmax, and 4.07 (micro), 4.33 (regular) for AUCt. For the induction study, they were 0.26 (micro) and 0.21 (regular) for Cmax, and 0.16 (micro) and 0.15 (regular) for AUCt. There were no significant statistical differences in the magnitudes of DDIs between microdose and regular-dose conditions, regardless of induction or inhibition. Conclusion Our results may be used as partial evidence that microdose DDI studies may replace regular-dose studies, or at least be used for DDI-screening purposes. PMID:28408803
Drug-drug interaction of microdose and regular-dose omeprazole with a CYP2C19 inhibitor and inducer.
Park, Gab-Jin; Bae, Soo Hyeon; Park, Wan-Su; Han, Seunghoon; Park, Min-Ho; Shin, Seok-Ho; Shin, Young G; Yim, Dong-Seok
2017-01-01
A microdose drug-drug interaction (DDI) study may be a valuable tool for anticipating drug interaction at therapeutic doses. This study aimed to compare the magnitude of DDIs at microdoses and regular doses to explore the applicability of a microdose DDI study. Six healthy male volunteer subjects were enrolled into each DDI study of omeprazole (victim) and known perpetrators: fluconazole (inhibitor) and rifampin (inducer). For both studies, the microdose (100 μg, cold compound) and the regular dose (20 mg) of omeprazole were given at days 0 and 1, respectively. On days 2-9, the inhibitor or inducer was given daily, and the microdose and regular dose of omeprazole were repeated at days 8 and 9, respectively. Full omeprazole pharmacokinetic samplings were performed at days 0, 1, 8, and 9 of both studies for noncompartmental analysis. The magnitude of the DDI, the geometric mean ratios (with perpetrator/omeprazole only) of maximum concentration (C max ) and area under the curve to the last measurement (AUC t ) of the microdose and the regular dose were compared. The geometric mean ratios in the inhibition study were: 2.17 (micro) and 2.68 (regular) for C max , and 4.07 (micro), 4.33 (regular) for AUC t . For the induction study, they were 0.26 (micro) and 0.21 (regular) for C max , and 0.16 (micro) and 0.15 (regular) for AUC t . There were no significant statistical differences in the magnitudes of DDIs between microdose and regular-dose conditions, regardless of induction or inhibition. Our results may be used as partial evidence that microdose DDI studies may replace regular-dose studies, or at least be used for DDI-screening purposes.
Accretion onto some well-known regular black holes
International Nuclear Information System (INIS)
Jawad, Abdul; Shahzad, M.U.
2016-01-01
In this work, we discuss the accretion onto static spherically symmetric regular black holes for specific choices of the equation of state parameter. The underlying regular black holes are charged regular black holes using the Fermi-Dirac distribution, logistic distribution, nonlinear electrodynamics, respectively, and Kehagias-Sftesos asymptotically flat regular black holes. We obtain the critical radius, critical speed, and squared sound speed during the accretion process near the regular black holes. We also study the behavior of radial velocity, energy density, and the rate of change of the mass for each of the regular black holes. (orig.)
Accretion onto some well-known regular black holes
Energy Technology Data Exchange (ETDEWEB)
Jawad, Abdul; Shahzad, M.U. [COMSATS Institute of Information Technology, Department of Mathematics, Lahore (Pakistan)
2016-03-15
In this work, we discuss the accretion onto static spherically symmetric regular black holes for specific choices of the equation of state parameter. The underlying regular black holes are charged regular black holes using the Fermi-Dirac distribution, logistic distribution, nonlinear electrodynamics, respectively, and Kehagias-Sftesos asymptotically flat regular black holes. We obtain the critical radius, critical speed, and squared sound speed during the accretion process near the regular black holes. We also study the behavior of radial velocity, energy density, and the rate of change of the mass for each of the regular black holes. (orig.)
Accretion onto some well-known regular black holes
Jawad, Abdul; Shahzad, M. Umair
2016-03-01
In this work, we discuss the accretion onto static spherically symmetric regular black holes for specific choices of the equation of state parameter. The underlying regular black holes are charged regular black holes using the Fermi-Dirac distribution, logistic distribution, nonlinear electrodynamics, respectively, and Kehagias-Sftesos asymptotically flat regular black holes. We obtain the critical radius, critical speed, and squared sound speed during the accretion process near the regular black holes. We also study the behavior of radial velocity, energy density, and the rate of change of the mass for each of the regular black holes.
Multineuronal Spike Sequences Repeat with Millisecond Precision
Directory of Open Access Journals (Sweden)
Koki eMatsumoto
2013-06-01
Full Text Available Cortical microcircuits are nonrandomly wired by neurons. As a natural consequence, spikes emitted by microcircuits are also nonrandomly patterned in time and space. One of the prominent spike organizations is a repetition of fixed patterns of spike series across multiple neurons. However, several questions remain unsolved, including how precisely spike sequences repeat, how the sequences are spatially organized, how many neurons participate in sequences, and how different sequences are functionally linked. To address these questions, we monitored spontaneous spikes of hippocampal CA3 neurons ex vivo using a high-speed functional multineuron calcium imaging technique that allowed us to monitor spikes with millisecond resolution and to record the location of spiking and nonspiking neurons. Multineuronal spike sequences were overrepresented in spontaneous activity compared to the statistical chance level. Approximately 75% of neurons participated in at least one sequence during our observation period. The participants were sparsely dispersed and did not show specific spatial organization. The number of sequences relative to the chance level decreased when larger time frames were used to detect sequences. Thus, sequences were precise at the millisecond level. Sequences often shared common spikes with other sequences; parts of sequences were subsequently relayed by following sequences, generating complex chains of multiple sequences.
Huang, Mengqi; Zhou, Xiaoming; Wang, Huiying; Xing, Da
2018-02-06
A novel CRISPR/Cas9 triggered isothermal exponential amplification reaction (CAS-EXPAR) strategy based on CRISPR/Cas9 cleavage and nicking endonuclease (NEase) mediated nucleic acids amplification was developed for rapid and site-specific nucleic acid detection. CAS-EXPAR was primed by the target DNA fragment produced by cleavage of CRISPR/Cas9, and the amplification reaction performed cyclically to generate a large number of DNA replicates which were detected using a real-time fluorescence monitoring method. This strategy that combines the advantages of CRISPR/Cas9 and exponential amplification showed high specificity as well as rapid amplification kinetics. Unlike conventional nucleic acids amplification reactions, CAS-EXPAR does not require exogenous primers, which often cause target-independent amplification. Instead, primers are first generated by Cas9/sgRNA directed site-specific cleavage of target and accumulated during the reaction. It was demonstrated this strategy gave a detection limit of 0.82 amol and showed excellent specificity in discriminating single-base mismatch. Moreover, the applicability of this method to detect DNA methylation and L. monocytogenes total RNA was also verified. Therefore, CAS-EXPAR may provide a new paradigm for efficient nucleic acid amplification and hold the potential for molecular diagnostic applications.
International Nuclear Information System (INIS)
Kang Zili.
1989-01-01
Based on summing up Guangxi geotectonic features and evolutionary regularities, this paper discusses the occurrence features, formation conditions and time-space distribution regularities of various U-rich strata during the development of geosyncline, platform and diwa stages, Especially, during diwa stage all those U-rich strata might be reworked to a certain degree and resulted in the mobilization of uranium, then enriching to form polygenetic composite uranium ore deposits with stratabound features. This study will be helpful for prospecting in the region
Regularization methods for ill-posed problems in multiple Hilbert scales
International Nuclear Information System (INIS)
Mazzieri, Gisela L; Spies, Ruben D
2012-01-01
Several convergence results in Hilbert scales under different source conditions are proved and orders of convergence and optimal orders of convergence are derived. Also, relations between those source conditions are proved. The concept of a multiple Hilbert scale on a product space is introduced, and regularization methods on these scales are defined, both for the case of a single observation and for the case of multiple observations. In the latter case, it is shown how vector-valued regularization functions in these multiple Hilbert scales can be used. In all cases, convergence is proved and orders and optimal orders of convergence are shown. Finally, some potential applications and open problems are discussed. (paper)
Regularity criteria for the Navier–Stokes equations based on one component of velocity
Czech Academy of Sciences Publication Activity Database
Guo, Z.; Caggio, M.; Skalák, Zdeněk
2017-01-01
Roč. 35, June (2017), s. 379-396 ISSN 1468-1218 R&D Projects: GA ČR GA14-02067S Grant - others:Západočeská univerzita(CZ) SGS-2016-003; National Natural Science Foundation of China (CN) 11301394 Institutional support: RVO:67985874 Keywords : Navier–Stokes equations * regularity of solutions * regularity criteria * Anisotropic Lebesgue spaces Subject RIV: BK - Fluid Dynamics OBOR OECD: Fluids and plasma physics (including surface physics) Impact factor: 1.659, year: 2016
UNIVERSAL REGULAR AUTONOMOUS ASYNCHRONOUS SYSTEMS: ω-LIMIT SETS, INVARIANCE AND BASINS OF ATTRACTION
Directory of Open Access Journals (Sweden)
Serban Vlad
2011-07-01
Full Text Available The asynchronous systems are the non-deterministic real timebinarymodels of the asynchronous circuits from electrical engineering.Autonomy means that the circuits and their models have no input.Regularity means analogies with the dynamical systems, thus such systems may be considered to be real time dynamical systems with a’vector field’, Universality refers to the case when the state space of the system is the greatest possible in the sense of theinclusion. The purpose of this paper is that of defining, by analogy with the dynamical systems theory, the omega-limit sets, the invariance and the basins of attraction of the universal regular autonomous asynchronous systems.
Regularity criteria for the Navier–Stokes equations based on one component of velocity
Czech Academy of Sciences Publication Activity Database
Guo, Z.; Caggio, M.; Skalák, Zdeněk
2017-01-01
Roč. 35, June (2017), s. 379-396 ISSN 1468-1218 R&D Projects: GA ČR GA14-02067S Grant - others:Západočeská univerzita(CZ) SGS-2016-003; National Natural Science Foundation of China(CN) 11301394 Institutional support: RVO:67985874 Keywords : Navier–Stokes equations * regularity of solutions * regularity criteria * Anisotropic Lebesgue spaces Subject RIV: BK - Fluid Dynamics OBOR OECD: Fluids and plasma physics (including surface physics) Impact factor: 1.659, year: 2016
Effective action for scalar fields and generalized zeta-function regularization
International Nuclear Information System (INIS)
Cognola, Guido; Zerbini, Sergio
2004-01-01
Motivated by the study of quantum fields in a Friedmann-Robertson-Walker space-time, the one-loop effective action for a scalar field defined in the ultrastatic manifold RxH 3 /Γ, H 3 /Γ being the finite volume, noncompact, hyperbolic spatial section, is investigated by a generalization of zeta-function regularization. It is shown that additional divergences may appear at the one-loop level. The one-loop renormalizability of the model is discussed and, making use of a generalization of zeta-function regularization, the one-loop renormalization group equations are derived
de Hoop, Maarten V.; Ilmavirta, Joonas
2017-12-01
We study ray transforms on spherically symmetric manifolds with a piecewise C1, 1 metric. Assuming the Herglotz condition, the x-ray transform is injective on the space of L 2 functions on such manifolds. We also prove injectivity results for broken ray transforms (with and without periodicity) on such manifolds with a C1, 1 metric. To make these problems tractable in low regularity, we introduce and study a class of generalized Abel transforms and study their properties. This low regularity setting is relevant for geophysical applications.
Directory of Open Access Journals (Sweden)
Patrick W. Keeley
2014-10-01
Full Text Available Retinal neurons are often arranged as non-random distributions called mosaics, as their somata minimize proximity to neighboring cells of the same type. The horizontal cells serve as an example of such a mosaic, but little is known about the developmental mechanisms that underlie their patterning. To identify genes involved in this process, we have used three different spatial statistics to assess the patterning of the horizontal cell mosaic across a panel of genetically distinct recombinant inbred strains. To avoid the confounding effect cell density, which varies two-fold across these different strains, we computed the real/random regularity ratio, expressing the regularity of a mosaic relative to a randomly distributed simulation of similarly sized cells. To test whether this latter statistic better reflects the variation in biological processes that contribute to horizontal cell spacing, we subsequently compared the genetic linkage for each of these two traits, the regularity index and the real/random regularity ratio, each computed from the distribution of nearest neighbor (NN distances and from the Voronoi domain (VD areas. Finally, we compared each of these analyses with another index of patterning, the packing factor. Variation in the regularity indexes, as well as their real/random regularity ratios, and the packing factor, mapped quantitative trait loci (QTL to the distal ends of Chromosomes 1 and 14. For the NN and VD analyses, we found that the degree of linkage was greater when using the real/random regularity ratio rather than the respective regularity index. Using informatic resources, we narrow the list of prospective genes positioned at these two intervals to a small collection of six genes that warrant further investigation to determine their potential role in shaping the patterning of the horizontal cell mosaic.
On Some General Regularities of Formation of the Planetary Systems
Directory of Open Access Journals (Sweden)
Belyakov A. V.
2014-01-01
Full Text Available J.Wheeler’s geometrodynamic concept has been used, in which space continuum is considered as a topologically non-unitary coherent surface admitting the existence of transitions of the input-output kind between distant regions of the space in an additional dimension. This model assumes the existence of closed structures (micro- and macro- contours formed due to the balance between main interactions: gravitational, electric, magnetic, and inertial forces. It is such macrocontours that have been demonstrated to form — independently of their material basis — the essential structure of objects at various levels of organization of matter. On the basis of this concept in this paper basic regularities acting during formation planetary systems have been obtained. The existence of two sharply different types of planetary systems has been determined. The dependencies linking the masses of the planets, the diameters of the planets, the orbital radii of the planet, and the mass of the central body have been deduced. The possibility of formation of Earth-like planets near brown dwarfs has been grounded. The minimum mass of the planet, which may arise in the planetary system, has been defined.
A regularized approach for geodesic-based semisupervised multimanifold learning.
Fan, Mingyu; Zhang, Xiaoqin; Lin, Zhouchen; Zhang, Zhongfei; Bao, Hujun
2014-05-01
Geodesic distance, as an essential measurement for data dissimilarity, has been successfully used in manifold learning. However, most geodesic distance-based manifold learning algorithms have two limitations when applied to classification: 1) class information is rarely used in computing the geodesic distances between data points on manifolds and 2) little attention has been paid to building an explicit dimension reduction mapping for extracting the discriminative information hidden in the geodesic distances. In this paper, we regard geodesic distance as a kind of kernel, which maps data from linearly inseparable space to linear separable distance space. In doing this, a new semisupervised manifold learning algorithm, namely regularized geodesic feature learning algorithm, is proposed. The method consists of three techniques: a semisupervised graph construction method, replacement of original data points with feature vectors which are built by geodesic distances, and a new semisupervised dimension reduction method for feature vectors. Experiments on the MNIST, USPS handwritten digit data sets, MIT CBCL face versus nonface data set, and an intelligent traffic data set show the effectiveness of the proposed algorithm.
Multiple Kernel Learning for adaptive graph regularized nonnegative matrix factorization
Wang, Jim Jing-Yan; AbdulJabbar, Mustafa Abdulmajeed
2012-01-01
Nonnegative Matrix Factorization (NMF) has been continuously evolving in several areas like pattern recognition and information retrieval methods. It factorizes a matrix into a product of 2 low-rank non-negative matrices that will define parts-based, and linear representation of non-negative data. Recently, Graph regularized NMF (GrNMF) is proposed to find a compact representation, which uncovers the hidden semantics and simultaneously respects the intrinsic geometric structure. In GNMF, an affinity graph is constructed from the original data space to encode the geometrical information. In this paper, we propose a novel idea which engages a Multiple Kernel Learning approach into refining the graph structure that reflects the factorization of the matrix and the new data space. The GrNMF is improved by utilizing the graph refined by the kernel learning, and then a novel kernel learning method is introduced under the GrNMF framework. Our approach shows encouraging results of the proposed algorithm in comparison to the state-of-the-art clustering algorithms like NMF, GrNMF, SVD etc.
Laplacian embedded regression for scalable manifold regularization.
Chen, Lin; Tsang, Ivor W; Xu, Dong
2012-06-01
Semi-supervised learning (SSL), as a powerful tool to learn from a limited number of labeled data and a large number of unlabeled data, has been attracting increasing attention in the machine learning community. In particular, the manifold regularization framework has laid solid theoretical foundations for a large family of SSL algorithms, such as Laplacian support vector machine (LapSVM) and Laplacian regularized least squares (LapRLS). However, most of these algorithms are limited to small scale problems due to the high computational cost of the matrix inversion operation involved in the optimization problem. In this paper, we propose a novel framework called Laplacian embedded regression by introducing an intermediate decision variable into the manifold regularization framework. By using ∈-insensitive loss, we obtain the Laplacian embedded support vector regression (LapESVR) algorithm, which inherits the sparse solution from SVR. Also, we derive Laplacian embedded RLS (LapERLS) corresponding to RLS under the proposed framework. Both LapESVR and LapERLS possess a simpler form of a transformed kernel, which is the summation of the original kernel and a graph kernel that captures the manifold structure. The benefits of the transformed kernel are two-fold: (1) we can deal with the original kernel matrix and the graph Laplacian matrix in the graph kernel separately and (2) if the graph Laplacian matrix is sparse, we only need to perform the inverse operation for a sparse matrix, which is much more efficient when compared with that for a dense one. Inspired by kernel principal component analysis, we further propose to project the introduced decision variable into a subspace spanned by a few eigenvectors of the graph Laplacian matrix in order to better reflect the data manifold, as well as accelerate the calculation of the graph kernel, allowing our methods to efficiently and effectively cope with large scale SSL problems. Extensive experiments on both toy and real
Directory of Open Access Journals (Sweden)
Popović-Ćitić Branislava
2009-01-01
Full Text Available Cyber space bullying is a relatively new phenomenon that has received increased attention by scientists, researchers and practitioners in recent years. It is usually defined as an intentionally and repeatedly expression of aggression towards other people through information and communication technologies. Cyber space bullying is characterized by all the primary characteristics of traditional bullying and some specifics ones that clearly differ it from other forms of bullying. In addition to the analysis of characteristics and specifics of cyber space bullying, the paper describes the basic forms of cyber space bullying (flaming, harassment, denigration, impersonation, outing, trickery, exclusion, stalking and happy slapping, as well as, the types of cyber space bullies (vengeful angel, power-hungry, revenge of the nerd, mean girls and inadvertent. The main goal of this paper is to provide initial theoretical guidelines for designing future empirical research on the complex phenomenon of cyber space bullying.
Orne-Gliemann, Joanna; Zuma, Thembelihle; Chikovore, Jeremiah; Gillespie, Natasha; Grant, Merridy; Iwuji, Collins; Larmarange, Joseph; McGrath, Nuala; Lert, France; Imrie, John
2016-01-01
In the context of the ANRS 12249 Treatment as Prevention (TasP) trial, we investigated perceptions of regular and repeat HIV-testing in rural KwaZulu-Natal (South Africa), an area of very high HIV prevalence and incidence. We conducted two qualitative studies, before (2010) and during the early implementation stages of the trial (2013-2014), to appreciate the evolution in community perceptions of repeat HIV-testing over this period of rapid changes in HIV-testing and treatment approaches. Repeated focus group discussions were organized with young adults, older adults and mixed groups. Repeat and regular HIV-testing was overall well perceived before, and well received during, trial implementation. Yet community members were not able to articulate reasons why people might want to test regularly or repeatedly, apart from individual sexual risk-taking. Repeat home-based HIV-testing was considered as feasible and convenient, and described as more acceptable than clinic-based HIV-testing, mostly because of privacy and confidentiality. However, socially regulated discourses around appropriate sexual behaviour and perceptions of stigma and prejudice regarding HIV and sexual risk-taking were consistently reported. This study suggests several avenues to improve HIV-testing acceptability, including implementing diverse and personalised approaches to HIV-testing and care, and providing opportunities for antiretroviral therapy initiation and care at home.
Constrained least squares regularization in PET
International Nuclear Information System (INIS)
Choudhury, K.R.; O'Sullivan, F.O.
1996-01-01
Standard reconstruction methods used in tomography produce images with undesirable negative artifacts in background and in areas of high local contrast. While sophisticated statistical reconstruction methods can be devised to correct for these artifacts, their computational implementation is excessive for routine operational use. This work describes a technique for rapid computation of approximate constrained least squares regularization estimates. The unique feature of the approach is that it involves no iterative projection or backprojection steps. This contrasts with the familiar computationally intensive algorithms based on algebraic reconstruction (ART) or expectation-maximization (EM) methods. Experimentation with the new approach for deconvolution and mixture analysis shows that the root mean square error quality of estimators based on the proposed algorithm matches and usually dominates that of more elaborate maximum likelihood, at a fraction of the computational effort
Regularities of radiorace formation in yeasts
International Nuclear Information System (INIS)
Korogodin, V.I.; Bliznik, K.M.; Kapul'tsevich, Yu.G.; Petin, V.G.; Akademiya Meditsinskikh Nauk SSSR, Obninsk. Nauchno-Issledovatel'skij Inst. Meditsinskoj Radiologii)
1977-01-01
Two strains of diploid yeast, namely, Saccharomyces ellipsoides, Megri 139-B, isolated under natural conditions, and Saccharomyces cerevisiae 5a x 3Bα, heterozygous by genes ade 1 and ade 2, were exposed to γ-quanta of Co 60 . The content of cells-saltants forming colonies with changed morphology, that of the nonviable cells, cells that are respiration mutants, and cells-recombinants by gene ade 1 and ade 2, has been determined. A certain regularity has been revealed in the distribution among the colonies of cells of the four types mentioned above: the higher the content of cells of some one of the types, the higher that of the cells having other hereditary changes
Regularization destriping of remote sensing imagery
Basnayake, Ranil; Bollt, Erik; Tufillaro, Nicholas; Sun, Jie; Gierach, Michelle
2017-07-01
We illustrate the utility of variational destriping for ocean color images from both multispectral and hyperspectral sensors. In particular, we examine data from a filter spectrometer, the Visible Infrared Imaging Radiometer Suite (VIIRS) on the Suomi National Polar Partnership (NPP) orbiter, and an airborne grating spectrometer, the Jet Population Laboratory's (JPL) hyperspectral Portable Remote Imaging Spectrometer (PRISM) sensor. We solve the destriping problem using a variational regularization method by giving weights spatially to preserve the other features of the image during the destriping process. The target functional penalizes the neighborhood of stripes (strictly, directionally uniform features) while promoting data fidelity, and the functional is minimized by solving the Euler-Lagrange equations with an explicit finite-difference scheme. We show the accuracy of our method from a benchmark data set which represents the sea surface temperature off the coast of Oregon, USA. Technical details, such as how to impose continuity across data gaps using inpainting, are also described.
The Regularity of Optimal Irrigation Patterns
Morel, Jean-Michel; Santambrogio, Filippo
2010-02-01
A branched structure is observable in draining and irrigation systems, in electric power supply systems, and in natural objects like blood vessels, the river basins or the trees. Recent approaches of these networks derive their branched structure from an energy functional whose essential feature is to favor wide routes. Given a flow s in a river, a road, a tube or a wire, the transportation cost per unit length is supposed in these models to be proportional to s α with 0 measure is the Lebesgue density on a smooth open set and the irrigating measure is a single source. In that case we prove that all branches of optimal irrigation trees satisfy an elliptic equation and that their curvature is a bounded measure. In consequence all branching points in the network have a tangent cone made of a finite number of segments, and all other points have a tangent. An explicit counterexample disproves these regularity properties for non-Lebesgue irrigated measures.
Singular tachyon kinks from regular profiles
International Nuclear Information System (INIS)
Copeland, E.J.; Saffin, P.M.; Steer, D.A.
2003-01-01
We demonstrate how Sen's singular kink solution of the Born-Infeld tachyon action can be constructed by taking the appropriate limit of initially regular profiles. It is shown that the order in which different limits are taken plays an important role in determining whether or not such a solution is obtained for a wide class of potentials. Indeed, by introducing a small parameter into the action, we are able circumvent the results of a recent paper which derived two conditions on the asymptotic tachyon potential such that the singular kink could be recovered in the large amplitude limit of periodic solutions. We show that this is explained by the non-commuting nature of two limits, and that Sen's solution is recovered if the order of the limits is chosen appropriately
Two-pass greedy regular expression parsing
DEFF Research Database (Denmark)
Grathwohl, Niels Bjørn Bugge; Henglein, Fritz; Nielsen, Lasse
2013-01-01
We present new algorithms for producing greedy parses for regular expressions (REs) in a semi-streaming fashion. Our lean-log algorithm executes in time O(mn) for REs of size m and input strings of size n and outputs a compact bit-coded parse tree representation. It improves on previous algorithms...... by: operating in only 2 passes; using only O(m) words of random-access memory (independent of n); requiring only kn bits of sequentially written and read log storage, where k ... and not requiring it to be stored at all. Previous RE parsing algorithms do not scale linearly with input size, or require substantially more log storage and employ 3 passes where the first consists of reversing the input, or do not or are not known to produce a greedy parse. The performance of our unoptimized C...
Regularization of Instantaneous Frequency Attribute Computations
Yedlin, M. J.; Margrave, G. F.; Van Vorst, D. G.; Ben Horin, Y.
2014-12-01
We compare two different methods of computation of a temporally local frequency:1) A stabilized instantaneous frequency using the theory of the analytic signal.2) A temporally variant centroid (or dominant) frequency estimated from a time-frequency decomposition.The first method derives from Taner et al (1979) as modified by Fomel (2007) and utilizes the derivative of the instantaneous phase of the analytic signal. The second method computes the power centroid (Cohen, 1995) of the time-frequency spectrum, obtained using either the Gabor or Stockwell Transform. Common to both methods is the necessity of division by a diagonal matrix, which requires appropriate regularization.We modify Fomel's (2007) method by explicitly penalizing the roughness of the estimate. Following Farquharson and Oldenburg (2004), we employ both the L curve and GCV methods to obtain the smoothest model that fits the data in the L2 norm.Using synthetic data, quarry blast, earthquakes and the DPRK tests, our results suggest that the optimal method depends on the data. One of the main applications for this work is the discrimination between blast events and earthquakesFomel, Sergey. " Local seismic attributes." , Geophysics, 72.3 (2007): A29-A33.Cohen, Leon. " Time frequency analysis theory and applications." USA: Prentice Hall, (1995).Farquharson, Colin G., and Douglas W. Oldenburg. "A comparison of automatic techniques for estimating the regularization parameter in non-linear inverse problems." Geophysical Journal International 156.3 (2004): 411-425.Taner, M. Turhan, Fulton Koehler, and R. E. Sheriff. " Complex seismic trace analysis." Geophysics, 44.6 (1979): 1041-1063.
Regularized Regression and Density Estimation based on Optimal Transport
Burger, M.; Franek, M.; Schonlieb, C.-B.
2012-01-01
for estimating densities and for preserving edges in the case of total variation regularization. In order to compute solutions of the variational problems, a regularized optimal transport problem needs to be solved, for which we discuss several formulations
Incremental projection approach of regularization for inverse problems
Energy Technology Data Exchange (ETDEWEB)
Souopgui, Innocent, E-mail: innocent.souopgui@usm.edu [The University of Southern Mississippi, Department of Marine Science (United States); Ngodock, Hans E., E-mail: hans.ngodock@nrlssc.navy.mil [Naval Research Laboratory (United States); Vidard, Arthur, E-mail: arthur.vidard@imag.fr; Le Dimet, François-Xavier, E-mail: ledimet@imag.fr [Laboratoire Jean Kuntzmann (France)
2016-10-15
This paper presents an alternative approach to the regularized least squares solution of ill-posed inverse problems. Instead of solving a minimization problem with an objective function composed of a data term and a regularization term, the regularization information is used to define a projection onto a convex subspace of regularized candidate solutions. The objective function is modified to include the projection of each iterate in the place of the regularization. Numerical experiments based on the problem of motion estimation for geophysical fluid images, show the improvement of the proposed method compared with regularization methods. For the presented test case, the incremental projection method uses 7 times less computation time than the regularization method, to reach the same error target. Moreover, at convergence, the incremental projection is two order of magnitude more accurate than the regularization method.
Dimensional regularization and analytical continuation at finite temperature
International Nuclear Information System (INIS)
Chen Xiangjun; Liu Lianshou
1998-01-01
The relationship between dimensional regularization and analytical continuation of infrared divergent integrals at finite temperature is discussed and a method of regularization of infrared divergent integrals and infrared divergent sums is given
Bounded Perturbation Regularization for Linear Least Squares Estimation
Ballal, Tarig; Suliman, Mohamed Abdalla Elhag; Al-Naffouri, Tareq Y.
2017-01-01
This paper addresses the problem of selecting the regularization parameter for linear least-squares estimation. We propose a new technique called bounded perturbation regularization (BPR). In the proposed BPR method, a perturbation with a bounded
Regular exercise is associated with emotional resilience to acute stress in healthy adults
Directory of Open Access Journals (Sweden)
Emma eChilds
2014-05-01
Full Text Available Physical activity has long been considered beneficial to health and regular exercise is purported to relieve stress. However empirical evidence demonstrating these effects is limited. In this study, we compared psychophysiological responses to an acute psychosocial stressor between individuals who did, or did not, report regular physical exercise. Healthy men and women (N=111 participated in two experimental sessions, one with the Trier Social Stress Test (TSST and one with a non-stressful control task. We measured heart rate, blood pressure, cortisol and self-reported mood before and at repeated times after the tasks.Individuals who reported physical exercise at least once per week exhibited lower heart rate at rest than non-exercisers, but the groups did not differ in their cardiovascular responses to the TSST. Level of habitual exercise did not influence self-reported mood before the tasks, but non-exercisers reported a greater decline in positive affect after the TSST in comparison to exercisers. These findings provide modest support for claims that regular exercise protects against the negative emotional consequences of stress, and suggest that exercise has beneficial effects in healthy individuals. These findings are limited by their correlational nature, and future prospective controlled studies on the effects of regular exercise on response to acute stress are needed.
Regular rehearsal helps in consolidation of long term memory.
Parle, Milind; Singh, Nirmal; Vasudevan, Mani
2006-01-01
Memory, one of the most complex functions of the brain comprises of multiple components such as perception, registration, consolidation, storage, retrieval and decay. The present study was undertaken to evaluate the impact of different training sessions on the retention capacity of rats. The capacity of retention of learnt task was measured using exteroceptive behavioral models such as Hexagonal swimming pool apparatus, Hebb-Williams maze and Elevated plus-maze. A total of 150 rats divided into fifteen groups were employed in the present study. The animals were subjected to different training sessions during first three days. The ability to retain the learned task was tested after single, sub-acute, acute, sub-chronic and chronic exposure to above exteroceptive memory models in separate groups of animals. The memory score of all animals was recorded after 72 h, 192 h and 432 h of their last training trial. Rats of single exposure group did not show any effect on memory. Sub-acute training group animals showed improved memory up to 72 h only, where as in acute and sub-chronic training groups this memory improvement was extended up to 192 h. The rats, which were subjected to chronic exposures showed a significant improvement in retention capacity that lasted up to a period of eighteen days. These observations suggest that repeated rehearsals at regular intervals are probably necessary for consolidation of long-term memory. It was observed that sub-acute, acute and sub-chronic exposures, improved the retrieval ability of rats but this memory improving effect was short lived. Thus, rehearsal or training plays a crucial role in enhancing one's capacity of retaining the learnt information. Key PointsThe present study underlines the importance of regular rehearsals in enhancing one's capacity of retaining the learnt information. " Sub-acute, acute & sub-chronic rehearsals result in storing of information for a limited period of time.Quick decay of information or
Exclusion of children with intellectual disabilities from regular ...
African Journals Online (AJOL)
Study investigated why teachers exclude children with intellectual disability from the regular classrooms in Nigeria. Participants were, 169 regular teachers randomly selected from Oyo and Ogun states. Questionnaire was used to collect data result revealed that 57.4% regular teachers could not cope with children with ID ...
39 CFR 6.1 - Regular meetings, annual meeting.
2010-07-01
... 39 Postal Service 1 2010-07-01 2010-07-01 false Regular meetings, annual meeting. 6.1 Section 6.1 Postal Service UNITED STATES POSTAL SERVICE THE BOARD OF GOVERNORS OF THE U.S. POSTAL SERVICE MEETINGS (ARTICLE VI) § 6.1 Regular meetings, annual meeting. The Board shall meet regularly on a schedule...
Recognition Memory for Novel Stimuli: The Structural Regularity Hypothesis
Cleary, Anne M.; Morris, Alison L.; Langley, Moses M.
2007-01-01
Early studies of human memory suggest that adherence to a known structural regularity (e.g., orthographic regularity) benefits memory for an otherwise novel stimulus (e.g., G. A. Miller, 1958). However, a more recent study suggests that structural regularity can lead to an increase in false-positive responses on recognition memory tests (B. W. A.…
5 CFR 551.421 - Regular working hours.
2010-01-01
... 5 Administrative Personnel 1 2010-01-01 2010-01-01 false Regular working hours. 551.421 Section... Activities § 551.421 Regular working hours. (a) Under the Act there is no requirement that a Federal employee... distinction based on whether the activity is performed by an employee during regular working hours or outside...
20 CFR 226.35 - Deductions from regular annuity rate.
2010-04-01
... 20 Employees' Benefits 1 2010-04-01 2010-04-01 false Deductions from regular annuity rate. 226.35... COMPUTING EMPLOYEE, SPOUSE, AND DIVORCED SPOUSE ANNUITIES Computing a Spouse or Divorced Spouse Annuity § 226.35 Deductions from regular annuity rate. The regular annuity rate of the spouse and divorced...
20 CFR 226.34 - Divorced spouse regular annuity rate.
2010-04-01
... 20 Employees' Benefits 1 2010-04-01 2010-04-01 false Divorced spouse regular annuity rate. 226.34... COMPUTING EMPLOYEE, SPOUSE, AND DIVORCED SPOUSE ANNUITIES Computing a Spouse or Divorced Spouse Annuity § 226.34 Divorced spouse regular annuity rate. The regular annuity rate of a divorced spouse is equal to...
20 CFR 226.14 - Employee regular annuity rate.
2010-04-01
... 20 Employees' Benefits 1 2010-04-01 2010-04-01 false Employee regular annuity rate. 226.14 Section... COMPUTING EMPLOYEE, SPOUSE, AND DIVORCED SPOUSE ANNUITIES Computing an Employee Annuity § 226.14 Employee regular annuity rate. The regular annuity rate payable to the employee is the total of the employee tier I...
Instabilities of the zeta-function regularization in the presence of symmetries
International Nuclear Information System (INIS)
Rasetti, M.
1980-01-01
The zeta-function regularization method requires the calculation of the spectrum-generating function zeta sub(M) of a generic real, elliptic, self-adjoint differential operator on a manifold M. An asymptotic expansion for zeta sub(M) is given for the class of all symmetric spaces of rank 1, sufficient to compute its Mellin transform and deduce the regularization of the corresponding quadratic path integrals. The summability properties of the generalized zeta-function introduce physical instabilities in the system as negative specific heat. The technique (and the instability as well) is shown to hold - under the assumed symmetry properties - in any dimension (preserving both the global and local properties of the manifold, as opposed to the dimensional regularization, where one adds extra flat dimensions only). (author)
Reconditioning perovskite films in vapor environments through repeated cation doping
Boonthum, Chirapa; Pinsuwan, Kusuma; Ponchai, Jitprabhat; Srikhirin, Toemsak; Kanjanaboos, Pongsakorn
2018-06-01
Perovskites have attracted considerable attention for application as high-efficiency photovoltaic devices owing to their low-cost and low-temperature fabrication. A good surface and high crystallinity are necessary for high-performance devices. We examine the negative effects of chemical ambiences on the perovskite crystal formation and morphology. The repeated cation doping (RCD) technique was developed to remedy these issues by gradually dropping methylammonium ions on top of about-to-form perovskite surfaces to cause recrystallization. RCD promotes pinhole-free, compact, and polygonal-like surfaces under various vapor conditions. Furthermore, it enhances the electronic properties and crystallization. The benefits of RCD extend beyond perovskites under vapor ambiences, as it can improve regular and wasted perovskites.
8. Asymptotically Flat and Regular Cauchy Data
Dain, Sergio
I describe the construction of a large class of asymptotically flat initial data with non-vanishing mass and angular momentum for which the metric and the extrinsic curvature have asymptotic expansions at space-like infinity in terms of powers of a radial coordinate. I emphasize the motivations and the main ideas behind the proofs.
On Orthogonal Decomposition of a Sobolev Space
Lakew, Dejenie A.
2016-01-01
The theme of this short article is to investigate an orthogonal decomposition of a Sobolev space and look at some properties of the inner product therein and the distance defined from the inner product. We also determine the dimension of the orthogonal difference space and show the expansion of spaces as their regularity increases.
REGULAR REHEARSAL HELPS IN CONSOLIDATION OF LONG TERM MEMORY
Directory of Open Access Journals (Sweden)
Milind Parle
2006-03-01
Full Text Available Memory, one of the most complex functions of the brain comprises of multiple components such as perception, registration, consolidation, storage, retrieval and decay. The present study was undertaken to evaluate the impact of different training sessions on the retention capacity of rats. The capacity of retention of learnt task was measured using exteroceptive behavioral models such as Hexagonal swimming pool apparatus, Hebb-Williams maze and Elevated plus-maze. A total of 150 rats divided into fifteen groups were employed in the present study. The animals were subjected to different training sessions during first three days. The ability to retain the learned task was tested after single, sub-acute, acute, sub-chronic and chronic exposure to above exteroceptive memory models in separate groups of animals. The memory score of all animals was recorded after 72 h, 192 h and 432 h of their last training trial. Rats of single exposure group did not show any effect on memory. Sub-acute training group animals showed improved memory up to 72 h only, where as in acute and sub-chronic training groups this memory improvement was extended up to 192 h. The rats, which were subjected to chronic exposures showed a significant improvement in retention capacity that lasted up to a period of eighteen days. These observations suggest that repeated rehearsals at regular intervals are probably necessary for consolidation of long-term memory. It was observed that sub-acute, acute and sub-chronic exposures, improved the retrieval ability of rats but this memory improving effect was short lived. Thus, rehearsal or training plays a crucial role in enhancing one's capacity of retaining the learnt information
On the regularized fermionic projector of the vacuum
Finster, Felix
2008-03-01
We construct families of fermionic projectors with spherically symmetric regularization, which satisfy the condition of a distributional MP-product. The method is to analyze regularization tails with a power law or logarithmic scaling in composite expressions in the fermionic projector. The resulting regularizations break the Lorentz symmetry and give rise to a multilayer structure of the fermionic projector near the light cone. Furthermore, we construct regularizations which go beyond the distributional MP-product in that they yield additional distributional contributions supported at the origin. The remaining freedom for the regularization parameters and the consequences for the normalization of the fermionic states are discussed.
On the regularized fermionic projector of the vacuum
International Nuclear Information System (INIS)
Finster, Felix
2008-01-01
We construct families of fermionic projectors with spherically symmetric regularization, which satisfy the condition of a distributional MP-product. The method is to analyze regularization tails with a power law or logarithmic scaling in composite expressions in the fermionic projector. The resulting regularizations break the Lorentz symmetry and give rise to a multilayer structure of the fermionic projector near the light cone. Furthermore, we construct regularizations which go beyond the distributional MP-product in that they yield additional distributional contributions supported at the origin. The remaining freedom for the regularization parameters and the consequences for the normalization of the fermionic states are discussed
MRI reconstruction with joint global regularization and transform learning.
Tanc, A Korhan; Eksioglu, Ender M
2016-10-01
Sparsity based regularization has been a popular approach to remedy the measurement scarcity in image reconstruction. Recently, sparsifying transforms learned from image patches have been utilized as an effective regularizer for the Magnetic Resonance Imaging (MRI) reconstruction. Here, we infuse additional global regularization terms to the patch-based transform learning. We develop an algorithm to solve the resulting novel cost function, which includes both patchwise and global regularization terms. Extensive simulation results indicate that the introduced mixed approach has improved MRI reconstruction performance, when compared to the algorithms which use either of the patchwise transform learning or global regularization terms alone. Copyright © 2016 Elsevier Ltd. All rights reserved.
Directory of Open Access Journals (Sweden)
Vergnaud Gilles
2007-05-01
Full Text Available Abstract Background In Archeae and Bacteria, the repeated elements called CRISPRs for "clustered regularly interspaced short palindromic repeats" are believed to participate in the defence against viruses. Short sequences called spacers are stored in-between repeated elements. In the current model, motifs comprising spacers and repeats may target an invading DNA and lead to its degradation through a proposed mechanism similar to RNA interference. Analysis of intra-species polymorphism shows that new motifs (one spacer and one repeated element are added in a polarised fashion. Although their principal characteristics have been described, a lot remains to be discovered on the way CRISPRs are created and evolve. As new genome sequences become available it appears necessary to develop automated scanning tools to make available CRISPRs related information and to facilitate additional investigations. Description We have produced a program, CRISPRFinder, which identifies CRISPRs and extracts the repeated and unique sequences. Using this software, a database is constructed which is automatically updated monthly from newly released genome sequences. Additional tools were created to allow the alignment of flanking sequences in search for similarities between different loci and to build dictionaries of unique sequences. To date, almost six hundred CRISPRs have been identified in 475 published genomes. Two Archeae out of thirty-seven and about half of Bacteria do not possess a CRISPR. Fine analysis of repeated sequences strongly supports the current view that new motifs are added at one end of the CRISPR adjacent to the putative promoter. Conclusion It is hoped that availability of a public database, regularly updated and which can be queried on the web will help in further dissecting and understanding CRISPR structure and flanking sequences evolution. Subsequent analyses of the intra-species CRISPR polymorphism will be facilitated by CRISPRFinder and the
Repeatibility of agroindustrial characters in sugarcane in different harvest cycles
Directory of Open Access Journals (Sweden)
Hudsonkléio Da Costa Silva
Full Text Available ABSTRACT In commercial cultivation of sugarcane, knowledge about the repetition of agroindustrial characters is essential to identify long-lived genotypes in production cycles, which when selected, will contribute to the significant increase in productivity. This work evaluated the agroindustrial performance of 16 sugarcane genotypes in the sugarcane microregion Litoral Norte of Pernambuco in four harvest cycles and the regularity in the repetition of characters. The experiment was conducted in the agricultural area of São José sugar mill, Igarassu, state of Pernambuco, Brazil. The experiment was carried out following a randomized block design with four replications. The variables evaluated were: tons of POL per hectare (TPH, tons of cane per hectare (TCH, fiber (FIB, adjusted POL% (PCC, soluble solids content (BRIX, and total recoverable sugar (TRS. The variance analysis detected significant differences among the genotypes along the four harvest seasons, indicating genetic variability and possibility of success in the selection of superior genotypes. Estimates of repeatability coefficient point to regularity in the repetition of agro-industrial characteristics allowing to identify genotypes with the highest longevity. The genotypes SP79-1011, RB863129, RB92579, RB813804, RB982559 e RB982613 presented best agroindustrial performance, and two evaluations based on TPH and TCH characters are enough to select superior genotypes with 90% predictability of their actual values.
Manifold Regularized Experimental Design for Active Learning.
Zhang, Lining; Shum, Hubert P H; Shao, Ling
2016-12-02
Various machine learning and data mining tasks in classification require abundant data samples to be labeled for training. Conventional active learning methods aim at labeling the most informative samples for alleviating the labor of the user. Many previous studies in active learning select one sample after another in a greedy manner. However, this is not very effective because the classification models has to be retrained for each newly labeled sample. Moreover, many popular active learning approaches utilize the most uncertain samples by leveraging the classification hyperplane of the classifier, which is not appropriate since the classification hyperplane is inaccurate when the training data are small-sized. The problem of insufficient training data in real-world systems limits the potential applications of these approaches. This paper presents a novel method of active learning called manifold regularized experimental design (MRED), which can label multiple informative samples at one time for training. In addition, MRED gives an explicit geometric explanation for the selected samples to be labeled by the user. Different from existing active learning methods, our method avoids the intrinsic problems caused by insufficiently labeled samples in real-world applications. Various experiments on synthetic datasets, the Yale face database and the Corel image database have been carried out to show how MRED outperforms existing methods.
Regularization of the Coulomb scattering problem
International Nuclear Information System (INIS)
Baryshevskii, V.G.; Feranchuk, I.D.; Kats, P.B.
2004-01-01
The exact solution of the Schroedinger equation for the Coulomb potential is used within the scope of both stationary and time-dependent scattering theories in order to find the parameters which determine the regularization of the Rutherford cross section when the scattering angle tends to zero but the distance r from the center remains finite. The angular distribution of the particles scattered in the Coulomb field is studied on rather a large but finite distance r from the center. It is shown that the standard asymptotic representation of the wave functions is inapplicable in the case when small scattering angles are considered. The unitary property of the scattering matrix is analyzed and the 'optical' theorem for this case is discussed. The total and transport cross sections for scattering the particle by the Coulomb center proved to be finite values and are calculated in the analytical form. It is shown that the effects under consideration can be important for the observed characteristics of the transport processes in semiconductors which are determined by the electron and hole scattering by the field of charged impurity centers
Regularities and irregularities in order flow data
Theissen, Martin; Krause, Sebastian M.; Guhr, Thomas
2017-11-01
We identify and analyze statistical regularities and irregularities in the recent order flow of different NASDAQ stocks, focusing on the positions where orders are placed in the order book. This includes limit orders being placed outside of the spread, inside the spread and (effective) market orders. Based on the pairwise comparison of the order flow of different stocks, we perform a clustering of stocks into groups with similar behavior. This is useful to assess systemic aspects of stock price dynamics. We find that limit order placement inside the spread is strongly determined by the dynamics of the spread size. Most orders, however, arrive outside of the spread. While for some stocks order placement on or next to the quotes is dominating, deeper price levels are more important for other stocks. As market orders are usually adjusted to the quote volume, the impact of market orders depends on the order book structure, which we find to be quite diverse among the analyzed stocks as a result of the way limit order placement takes place.
Library search with regular reflectance IR spectra
International Nuclear Information System (INIS)
Staat, H.; Korte, E.H.; Lampen, P.
1989-01-01
Characterisation in situ for coatings and other surface layers is generally favourable, but a prerequisite for precious items such as art objects. In infrared spectroscopy only reflection techniques are applicable here. However for attenuated total reflection (ATR) it is difficult to obtain the necessary optical contact of the crystal with the sample, when the latter is not perfectly plane or flexible. The measurement of diffuse reflectance demands a scattering sample and usually the reflectance is very poor. Therefore in most cases one is left with regular reflectance. Such spectra consist of dispersion-like feature instead of bands impeding their interpretation in the way the analyst is used to. Furthermore for computer search in common spectral libraries compiled from transmittance or absorbance spectra a transformation of the reflectance spectra is needed. The correct conversion is based on the Kramers-Kronig transformation. This somewhat time - consuming procedure can be speeded up by using appropriate approximations. A coarser conversion may be obtained from the first derivative of the reflectance spectrum which resembles the second derivative of a transmittance spectrum. The resulting distorted spectra can still be used successfully for the search in peak table libraries. Experiences with both transformations are presented. (author)
Regularities of praseodymium oxide dissolution in acids
International Nuclear Information System (INIS)
Savin, V.D.; Elyutin, A.V.; Mikhajlova, N.P.; Eremenko, Z.V.; Opolchenova, N.L.
1989-01-01
The regularities of Pr 2 O 3 , Pr 2 O 5 and Pr(OH) 3 interaction with inorganic acids are studied. pH of the solution and oxidation-reduction potential registrated at 20±1 deg C are the working parameters of studies. It is found that the amount of all oxides dissolved increase in the series of acids - nitric, hydrochloric and sulfuric, in this case for hydrochloric and sulfuric acid it increases in the series of oxides Pr 2 O 3 , Pr 2 O 5 and Pr(OH) 3 . It is noted that Pr 2 O 5 has a high value of oxidation-reduction potential with a positive sign in the whole disslolving range. A low positive value of a redox potential during dissolving belongs to Pr(OH) 3 and in the case of Pr 2 O 3 dissloving redox potential is negative. The schemes of dissolving processes which do not agree with classical assumptions are presented
Regular expressions compiler and some applications
International Nuclear Information System (INIS)
Saldana A, H.
1978-01-01
We deal with high level programming language of a Regular Expressions Compiler (REC). The first chapter is an introduction in which the history of the REC development and the problems related to its numerous applicatons are described. The syntactic and sematic rules as well as the language features are discussed just after the introduction. Concerning the applicatons as examples, an adaptation is given in order to solve numerical problems and another for the data manipulation. The last chapter is an exposition of ideas and techniques about the compiler construction. Examples of the adaptation to numerical problems show the applications to education, vector analysis, quantum mechanics, physics, mathematics and other sciences. The rudiments of an operating system for a minicomputer are the examples of the adaptation to symbolic data manipulaton. REC is a programming language that could be applied to solve problems in almost any human activity. Handling of computer graphics, control equipment, research on languages, microprocessors and general research are some of the fields in which this programming language can be applied and developed. (author)
Sparsity-regularized HMAX for visual recognition.
Directory of Open Access Journals (Sweden)
Xiaolin Hu
Full Text Available About ten years ago, HMAX was proposed as a simple and biologically feasible model for object recognition, based on how the visual cortex processes information. However, the model does not encompass sparse firing, which is a hallmark of neurons at all stages of the visual pathway. The current paper presents an improved model, called sparse HMAX, which integrates sparse firing. This model is able to learn higher-level features of objects on unlabeled training images. Unlike most other deep learning models that explicitly address global structure of images in every layer, sparse HMAX addresses local to global structure gradually along the hierarchy by applying patch-based learning to the output of the previous layer. As a consequence, the learning method can be standard sparse coding (SSC or independent component analysis (ICA, two techniques deeply rooted in neuroscience. What makes SSC and ICA applicable at higher levels is the introduction of linear higher-order statistical regularities by max pooling. After training, high-level units display sparse, invariant selectivity for particular individuals or for image categories like those observed in human inferior temporal cortex (ITC and medial temporal lobe (MTL. Finally, on an image classification benchmark, sparse HMAX outperforms the original HMAX by a large margin, suggesting its great potential for computer vision.
Quantum implications of a scale invariant regularization
Ghilencea, D. M.
2018-04-01
We study scale invariance at the quantum level in a perturbative approach. For a scale-invariant classical theory, the scalar potential is computed at a three-loop level while keeping manifest this symmetry. Spontaneous scale symmetry breaking is transmitted at a quantum level to the visible sector (of ϕ ) by the associated Goldstone mode (dilaton σ ), which enables a scale-invariant regularization and whose vacuum expectation value ⟨σ ⟩ generates the subtraction scale (μ ). While the hidden (σ ) and visible sector (ϕ ) are classically decoupled in d =4 due to an enhanced Poincaré symmetry, they interact through (a series of) evanescent couplings ∝ɛ , dictated by the scale invariance of the action in d =4 -2 ɛ . At the quantum level, these couplings generate new corrections to the potential, as scale-invariant nonpolynomial effective operators ϕ2 n +4/σ2 n. These are comparable in size to "standard" loop corrections and are important for values of ϕ close to ⟨σ ⟩. For n =1 , 2, the beta functions of their coefficient are computed at three loops. In the IR limit, dilaton fluctuations decouple, the effective operators are suppressed by large ⟨σ ⟩, and the effective potential becomes that of a renormalizable theory with explicit scale symmetry breaking by the DR scheme (of μ =constant).
Regularities development of entrepreneurial structures in regions
Directory of Open Access Journals (Sweden)
Julia Semenovna Pinkovetskaya
2012-12-01
Full Text Available Consider regularities and tendencies for the three types of entrepreneurial structures — small enterprises, medium enterprises and individual entrepreneurs. The aim of the research was to confirm the possibilities of describing indicators of aggregate entrepreneurial structures with the use of normal law distribution functions. Presented proposed by the author the methodological approach and results of construction of the functions of the density distribution for the main indicators for the various objects: the Russian Federation, regions, as well as aggregates ofentrepreneurial structures, specialized in certain forms ofeconomic activity. All the developed functions, as shown by the logical and statistical analysis, are of high quality and well-approximate the original data. In general, the proposed methodological approach is versatile and can be used in further studies of aggregates of entrepreneurial structures. The received results can be applied in solving a wide range of problems justify the need for personnel and financial resources at the federal, regional and municipal levels, as well as the formation of plans and forecasts of development entrepreneurship and improvement of this sector of the economy.
Repeatability & Workability Evaluation of SIGMOD 2009
Manegold, Stefan
2010-12-15
SIGMOD 2008 was the first database conference that offered to test submitters\\' programs against their data to verify the repeatability of the experiments published [1]. Given the positive feedback concerning the SIGMOD 2008 repeatability initiative, SIGMOD 2009 modified and expanded the initiative with a workability assessment.
simple sequence repeats (EST-SSR)
African Journals Online (AJOL)
Yomi
2012-01-19
Jan 19, 2012 ... 212 primer pairs selected, based on repeat patterns of n≥8 for di-, tri-, tetra- and penta-nucleotide repeat ... Cluster analysis revealed a high genetic similarity among the sugarcane (Saccharum spp.) breeding lines which could reduce the genetic gain in ..... The multiple allele characteristic of SSR com-.
Repeatability & Workability Evaluation of SIGMOD 2009
Manegold, Stefan; Manolescu, Ioana; Afanasiev, Loredana; Feng, Jieling; Gou, G.; Hadjieleftheriou, Marios; Harizopoulos, Stavros; Kalnis, Panos; Karanasos, Konstantinos; Laurent, Dominique; Lupu, M.; Onose, N.; Ré , C.; Sans, Virginie; Senellart, Pierre; Wu, T.; Shasha, Dennis E.
2010-01-01
SIGMOD 2008 was the first database conference that offered to test submitters' programs against their data to verify the repeatability of the experiments published [1]. Given the positive feedback concerning the SIGMOD 2008 repeatability initiative, SIGMOD 2009 modified and expanded the initiative with a workability assessment.
Donald, Cathey Nolan
This study was conducted to determine the impact of the inclusion of students with handicaps and disabilities in the regular education science classroom. Surveys were mailed to the members of the Alabama Science Teachers Association to obtain information from teachers in inclusive classrooms. Survey responses from teachers provide insight into these classrooms. This study reports the results of the teachers surveyed. Results indicate multiple changes occur in the educational opportunities presented to regular education students when students with handicaps and disabilities are included in the regular science classroom. Responding teachers (60%) report omitting activities that formerly provided experiences for students, such as laboratory activities using dangerous materials, field activities, and some group activities. Also omitted, in many instances (64.1%), are skill building opportunities of word problems and higher order thinking skills. Regular education students participate in classes where discipline problems related to included students are reported as the teachers most time consuming task. In these classrooms, directions are repeated frequently, reteaching of material already taught occurs, and the pace of instruction has been slowed. These changes to the regular classroom occur across school levels. Many teachers (44.9%) report they do not see benefits associated with the inclusion of students with special needs in the regular classroom.
UK 2009-2010 repeat station report
Directory of Open Access Journals (Sweden)
Thomas J.G. Shanahan
2013-03-01
Full Text Available The British Geological Survey is responsible for conducting the UK geomagnetic repeat station programme. Measurements made at the UK repeat station sites are used in conjunction with the three UK magnetic observatories: Hartland, Eskdalemuir and Lerwick, to produce a regional model of the local field each year. The UK network of repeat stations comprises 41 stations which are occupied at approximately 3-4 year intervals. Practices for conducting repeat station measurements continue to evolve as advances are made in survey instrumentation and as the usage of the data continues to change. Here, a summary of the 2009 and 2010 UK repeat station surveys is presented, highlighting the measurement process and techniques, density of network, reduction process and recent results.
Multi-view clustering via multi-manifold regularized non-negative matrix factorization.
Zong, Linlin; Zhang, Xianchao; Zhao, Long; Yu, Hong; Zhao, Qianli
2017-04-01
Non-negative matrix factorization based multi-view clustering algorithms have shown their competitiveness among different multi-view clustering algorithms. However, non-negative matrix factorization fails to preserve the locally geometrical structure of the data space. In this paper, we propose a multi-manifold regularized non-negative matrix factorization framework (MMNMF) which can preserve the locally geometrical structure of the manifolds for multi-view clustering. MMNMF incorporates consensus manifold and consensus coefficient matrix with multi-manifold regularization to preserve the locally geometrical structure of the multi-view data space. We use two methods to construct the consensus manifold and two methods to find the consensus coefficient matrix, which leads to four instances of the framework. Experimental results show that the proposed algorithms outperform existing non-negative matrix factorization based algorithms for multi-view clustering. Copyright © 2017 Elsevier Ltd. All rights reserved.
Aghamolaei, Maryam; Zarnowiec, Katarzyna; Grimm, Sabine; Escera, Carles
2016-02-01
Auditory deviance detection based on regularity encoding appears as one of the basic functional properties of the auditory system. It has traditionally been assessed with the mismatch negativity (MMN) long-latency component of the auditory evoked potential (AEP). Recent studies have found earlier correlates of deviance detection based on regularity encoding. They occur in humans in the first 50 ms after sound onset, at the level of the middle-latency response of the AEP, and parallel findings of stimulus-specific adaptation observed in animal studies. However, the functional relationship between these different levels of regularity encoding and deviance detection along the auditory hierarchy has not yet been clarified. Here we addressed this issue by examining deviant-related responses at different levels of the auditory hierarchy to stimulus changes varying in their degree of deviation regarding the spatial location of a repeated standard stimulus. Auditory stimuli were presented randomly from five loudspeakers at azimuthal angles of 0°, 12°, 24°, 36° and 48° during oddball and reversed-oddball conditions. Middle-latency responses and MMN were measured. Our results revealed that middle-latency responses were sensitive to deviance but not the degree of deviation, whereas the MMN amplitude increased as a function of deviance magnitude. These findings indicated that acoustic regularity can be encoded at the level of the middle-latency response but that it takes a higher step in the auditory hierarchy for deviance magnitude to be encoded, thus providing a functional dissociation between regularity encoding and deviance detection along the auditory hierarchy. © 2015 Federation of European Neuroscience Societies and John Wiley & Sons Ltd.
Regularized spherical polar fourier diffusion MRI with optimal dictionary learning.
Cheng, Jian; Jiang, Tianzi; Deriche, Rachid; Shen, Dinggang; Yap, Pew-Thian
2013-01-01
Compressed Sensing (CS) takes advantage of signal sparsity or compressibility and allows superb signal reconstruction from relatively few measurements. Based on CS theory, a suitable dictionary for sparse representation of the signal is required. In diffusion MRI (dMRI), CS methods proposed for reconstruction of diffusion-weighted signal and the Ensemble Average Propagator (EAP) utilize two kinds of Dictionary Learning (DL) methods: 1) Discrete Representation DL (DR-DL), and 2) Continuous Representation DL (CR-DL). DR-DL is susceptible to numerical inaccuracy owing to interpolation and regridding errors in a discretized q-space. In this paper, we propose a novel CR-DL approach, called Dictionary Learning - Spherical Polar Fourier Imaging (DL-SPFI) for effective compressed-sensing reconstruction of the q-space diffusion-weighted signal and the EAP. In DL-SPFI, a dictionary that sparsifies the signal is learned from the space of continuous Gaussian diffusion signals. The learned dictionary is then adaptively applied to different voxels using a weighted LASSO framework for robust signal reconstruction. Compared with the start-of-the-art CR-DL and DR-DL methods proposed by Merlet et al. and Bilgic et al., respectively, our work offers the following advantages. First, the learned dictionary is proved to be optimal for Gaussian diffusion signals. Second, to our knowledge, this is the first work to learn a voxel-adaptive dictionary. The importance of the adaptive dictionary in EAP reconstruction will be demonstrated theoretically and empirically. Third, optimization in DL-SPFI is only performed in a small subspace resided by the SPF coefficients, as opposed to the q-space approach utilized by Merlet et al. We experimentally evaluated DL-SPFI with respect to L1-norm regularized SPFI (L1-SPFI), which uses the original SPF basis, and the DR-DL method proposed by Bilgic et al. The experiment results on synthetic and real data indicate that the learned dictionary produces
Some regularities in invertebrate succession in different microhabitats on pine stumps
Franch, Joan
1989-01-01
Sixty eight pine stumps felled on known dates from one to sixteen years before the moment of sampling have been studied in the San Juan de la Peña woodland (province of Huesca). Four microhabitats were distinguished: bark, subcortical space, sapwood and heartwood. The object of the study is to compare the invertebrate macrofauna succession of the different microhabitats in order to find regularities among them. The biocenosis has not been completely studied: ipidae, diptera and annelidae are ...
TRANSIENT LUNAR PHENOMENA: REGULARITY AND REALITY
International Nuclear Information System (INIS)
Crotts, Arlin P. S.
2009-01-01
Transient lunar phenomena (TLPs) have been reported for centuries, but their nature is largely unsettled, and even their existence as a coherent phenomenon is controversial. Nonetheless, TLP data show regularities in the observations; a key question is whether this structure is imposed by processes tied to the lunar surface, or by terrestrial atmospheric or human observer effects. I interrogate an extensive catalog of TLPs to gauge how human factors determine the distribution of TLP reports. The sample is grouped according to variables which should produce differing results if determining factors involve humans, and not reflecting phenomena tied to the lunar surface. Features dependent on human factors can then be excluded. Regardless of how the sample is split, the results are similar: ∼50% of reports originate from near Aristarchus, ∼16% from Plato, ∼6% from recent, major impacts (Copernicus, Kepler, Tycho, and Aristarchus), plus several at Grimaldi. Mare Crisium produces a robust signal in some cases (however, Crisium is too large for a 'feature' as defined). TLP count consistency for these features indicates that ∼80% of these may be real. Some commonly reported sites disappear from the robust averages, including Alphonsus, Ross D, and Gassendi. These reports begin almost exclusively after 1955, when TLPs became widely known and many more (and inexperienced) observers searched for TLPs. In a companion paper, we compare the spatial distribution of robust TLP sites to transient outgassing (seen by Apollo and Lunar Prospector instruments). To a high confidence, robust TLP sites and those of lunar outgassing correlate strongly, further arguing for the reality of TLPs.
Color normalization of histology slides using graph regularized sparse NMF
Sha, Lingdao; Schonfeld, Dan; Sethi, Amit
2017-03-01
Computer based automatic medical image processing and quantification are becoming popular in digital pathology. However, preparation of histology slides can vary widely due to differences in staining equipment, procedures and reagents, which can reduce the accuracy of algorithms that analyze their color and texture information. To re- duce the unwanted color variations, various supervised and unsupervised color normalization methods have been proposed. Compared with supervised color normalization methods, unsupervised color normalization methods have advantages of time and cost efficient and universal applicability. Most of the unsupervised color normaliza- tion methods for histology are based on stain separation. Based on the fact that stain concentration cannot be negative and different parts of the tissue absorb different stains, nonnegative matrix factorization (NMF), and particular its sparse version (SNMF), are good candidates for stain separation. However, most of the existing unsupervised color normalization method like PCA, ICA, NMF and SNMF fail to consider important information about sparse manifolds that its pixels occupy, which could potentially result in loss of texture information during color normalization. Manifold learning methods like Graph Laplacian have proven to be very effective in interpreting high-dimensional data. In this paper, we propose a novel unsupervised stain separation method called graph regularized sparse nonnegative matrix factorization (GSNMF). By considering the sparse prior of stain concentration together with manifold information from high-dimensional image data, our method shows better performance in stain color deconvolution than existing unsupervised color deconvolution methods, especially in keeping connected texture information. To utilized the texture information, we construct a nearest neighbor graph between pixels within a spatial area of an image based on their distances using heat kernal in lαβ space. The
Ombud's corner: space invaders
Sudeshna Datta-Cockerill
2015-01-01
When normal communication breaks down and there is no sharing anymore, office-mates can become ‘space invaders’. Very often, the situation can be resolved effectively by taking just a few simple steps... The lack of office space at CERN is a permanent issue that the various departments regularly have to address. As a result, very often this precious space where we spend the entire day has to be shared with other colleagues. Office-mates may come from different backgrounds and cultures and may have very different habits and behaviours; they may also have different activities during the day, sometimes requiring unusual, (perhaps even strange?) interactions with the space they occupy; finally, their presence might be irregular, making it very difficult for us to establish a stable relationship. Mark and Claire share an office as well as some professional activities. In the beginning, the relationship seems to work normally but, over time, the communication between them ste...
Hytönen, Tuomas; Veraar, Mark; Weis, Lutz
The present volume develops the theory of integration in Banach spaces, martingales and UMD spaces, and culminates in a treatment of the Hilbert transform, Littlewood-Paley theory and the vector-valued Mihlin multiplier theorem. Over the past fifteen years, motivated by regularity problems in evolution equations, there has been tremendous progress in the analysis of Banach space-valued functions and processes. The contents of this extensive and powerful toolbox have been mostly scattered around in research papers and lecture notes. Collecting this diverse body of material into a unified and accessible presentation fills a gap in the existing literature. The principal audience that we have in mind consists of researchers who need and use Analysis in Banach Spaces as a tool for studying problems in partial differential equations, harmonic analysis, and stochastic analysis. Self-contained and offering complete proofs, this work is accessible to graduate students and researchers with a background in functional an...
Stability of the Regular Hayward Thin-Shell Wormholes
Directory of Open Access Journals (Sweden)
M. Sharif
2016-01-01
Full Text Available The aim of this paper is to construct regular Hayward thin-shell wormholes and analyze their stability. We adopt Israel formalism to calculate surface stresses of the shell and check the null and weak energy conditions for the constructed wormholes. It is found that the stress-energy tensor components violate the null and weak energy conditions leading to the presence of exotic matter at the throat. We analyze the attractive and repulsive characteristics of wormholes corresponding to ar>0 and ar<0, respectively. We also explore stability conditions for the existence of traversable thin-shell wormholes with arbitrarily small amount of fluid describing cosmic expansion. We find that the space-time has nonphysical regions which give rise to event horizon for 0
Descriptor Learning via Supervised Manifold Regularization for Multioutput Regression.
Zhen, Xiantong; Yu, Mengyang; Islam, Ali; Bhaduri, Mousumi; Chan, Ian; Li, Shuo
2017-09-01
Multioutput regression has recently shown great ability to solve challenging problems in both computer vision and medical image analysis. However, due to the huge image variability and ambiguity, it is fundamentally challenging to handle the highly complex input-target relationship of multioutput regression, especially with indiscriminate high-dimensional representations. In this paper, we propose a novel supervised descriptor learning (SDL) algorithm for multioutput regression, which can establish discriminative and compact feature representations to improve the multivariate estimation performance. The SDL is formulated as generalized low-rank approximations of matrices with a supervised manifold regularization. The SDL is able to simultaneously extract discriminative features closely related to multivariate targets and remove irrelevant and redundant information by transforming raw features into a new low-dimensional space aligned to targets. The achieved discriminative while compact descriptor largely reduces the variability and ambiguity for multioutput regression, which enables more accurate and efficient multivariate estimation. We conduct extensive evaluation of the proposed SDL on both synthetic data and real-world multioutput regression tasks for both computer vision and medical image analysis. Experimental results have shown that the proposed SDL can achieve high multivariate estimation accuracy on all tasks and largely outperforms the algorithms in the state of the arts. Our method establishes a novel SDL framework for multioutput regression, which can be widely used to boost the performance in different applications.
Progressive image denoising through hybrid graph Laplacian regularization: a unified framework.
Liu, Xianming; Zhai, Deming; Zhao, Debin; Zhai, Guangtao; Gao, Wen
2014-04-01
Recovering images from corrupted observations is necessary for many real-world applications. In this paper, we propose a unified framework to perform progressive image recovery based on hybrid graph Laplacian regularized regression. We first construct a multiscale representation of the target image by Laplacian pyramid, then progressively recover the degraded image in the scale space from coarse to fine so that the sharp edges and texture can be eventually recovered. On one hand, within each scale, a graph Laplacian regularization model represented by implicit kernel is learned, which simultaneously minimizes the least square error on the measured samples and preserves the geometrical structure of the image data space. In this procedure, the intrinsic manifold structure is explicitly considered using both measured and unmeasured samples, and the nonlocal self-similarity property is utilized as a fruitful resource for abstracting a priori knowledge of the images. On the other hand, between two successive scales, the proposed model is extended to a projected high-dimensional feature space through explicit kernel mapping to describe the interscale correlation, in which the local structure regularity is learned and propagated from coarser to finer scales. In this way, the proposed algorithm gradually recovers more and more image details and edges, which could not been recovered in previous scale. We test our algorithm on one typical image recovery task: impulse noise removal. Experimental results on benchmark test images demonstrate that the proposed method achieves better performance than state-of-the-art algorithms.
Zhang, Hua; Huang, Jing; Ma, Jianhua; Bian, Zhaoying; Feng, Qianjin; Lu, Hongbing; Liang, Zhengrong; Chen, Wufan
2014-09-01
Repeated X-ray computed tomography (CT) scans are often required in several specific applications such as perfusion imaging, image-guided biopsy needle, image-guided intervention, and radiotherapy with noticeable benefits. However, the associated cumulative radiation dose significantly increases as comparison with that used in the conventional CT scan, which has raised major concerns in patients. In this study, to realize radiation dose reduction by reducing the X-ray tube current and exposure time (mAs) in repeated CT scans, we propose a prior-image induced nonlocal (PINL) regularization for statistical iterative reconstruction via the penalized weighted least-squares (PWLS) criteria, which we refer to as "PWLS-PINL". Specifically, the PINL regularization utilizes the redundant information in the prior image and the weighted least-squares term considers a data-dependent variance estimation, aiming to improve current low-dose image quality. Subsequently, a modified iterative successive overrelaxation algorithm is adopted to optimize the associative objective function. Experimental results on both phantom and patient data show that the present PWLS-PINL method can achieve promising gains over the other existing methods in terms of the noise reduction, low-contrast object detection, and edge detail preservation.
Development of analog watch with minute repeater
Okigami, Tomio; Aoyama, Shigeru; Osa, Takashi; Igarashi, Kiyotaka; Ikegami, Tomomi
A complementary metal oxide semiconductor with large scale integration was developed for an electronic minute repeater. It is equipped with the synthetic struck sound circuit to generate natural struck sound necessary for the minute repeater. This circuit consists of an envelope curve drawing circuit, frequency mixer, polyphonic mixer, and booster circuit made by using analog circuit technology. This large scale integration is a single chip microcomputer with motor drivers and input ports in addition to the synthetic struck sound circuit, and it is possible to make an electronic system of minute repeater at a very low cost in comparison with the conventional type.
Regularization of plurisubharmonic functions with a net of good points
Li, Long
2017-01-01
The purpose of this article is to present a new regularization technique of quasi-plurisubharmoinc functions on a compact Kaehler manifold. The idea is to regularize the function on local coordinate balls first, and then glue each piece together. Therefore, all the higher order terms in the complex Hessian of this regularization vanish at the center of each coordinate ball, and all the centers build a delta-net of the manifold eventually.