WorldWideScience

Sample records for partially redundant genes

  1. Reliability Analysis and Calibration of Partial Safety Factors for Redundant Structures

    DEFF Research Database (Denmark)

    Sørensen, John Dalsgaard

    1998-01-01

    Redundancy is important to include in the design and analysis of structural systems. In most codes of practice redundancy is not directly taken into account. In the paper various definitions of a deterministic and reliability based redundancy measure are reviewed. It is described how reundancy can...... be included in the safety system and how partial safety factors can be calibrated. An example is presented illustrating how redundancy is taken into account in the safety system in e.g. the Danish codes. The example shows how partial safety factors can be calibrated to comply with the safety level...

  2. Polycomb complexes act redundantly to repress genomic repeats and genes

    DEFF Research Database (Denmark)

    Leeb, Martin; Pasini, Diego; Novatchkova, Maria

    2010-01-01

    Polycomb complexes establish chromatin modifications for maintaining gene repression and are essential for embryonic development in mice. Here we use pluripotent embryonic stem (ES) cells to demonstrate an unexpected redundancy between Polycomb-repressive complex 1 (PRC1) and PRC2 during...... the formation of differentiated cells. ES cells lacking the function of either PRC1 or PRC2 can differentiate into cells of the three germ layers, whereas simultaneous loss of PRC1 and PRC2 abrogates differentiation. On the molecular level, the differentiation defect is caused by the derepression of a set...

  3. TAF10 and TAF10b partially redundant roles during Drosophila melanogaster morphogenesis.

    Science.gov (United States)

    Pahi, Z; Borsos, B N; Vedelek, B; Shidlovskii, Y V; Georgieva, S G; Boros, I M; Pankotai, T

    2017-01-01

    Transcription of eukaryotic genes requires the cooperative action of the RNA polymerase complex, the general transcription factors (TFIIB, TFIID, TFIIE, TFIIF and TFIIH) and chromatin modifiers. The TFIID complex contributes to transcriptional activation by several mechanisms and has a subunit with associated histone acetyltransferase (HAT) activity. The histone modifier SAGA complex has both HAT and deubiquitylase (DUB) activities. TFIID and SAGA share several TBP-associated factors (TAFs), but not their HAT subunit. Recently, several duplicated TAF proteins have been identified in higher eukaryotes, but their functional diversity has been so far poorly characterized. Here, we report the functional similarities and differences of TAF10 and TAF10b, the two TAF10 orthologs of Drosophila melanogaster. Results from in silico modeling suggest that dTAF10 and dTAF10b have similar secondary structures characterized by the presence of a histone-fold domain. Additionally, dTAF10 and dTAF10b share interaction partners and show similar expression patterns in neuronal tissues. Nonetheless, dTAF10 and dTAF10b seem to have partly distinct functions. To investigate their roles, we generated dTaf10-dTaf10b double-mutants and rescued the mutant flies with transgenes, which allowed the translation of either dTAF10 or dTAF10b protein. We found that the loss of dTAF10b resulted in pupal lethality, while animals lacking dTAF10 were able to form puparium. dTaf10 mutant adults showed distorted eye morphology. During DNA repair, dTAF10 and dTAF10b act redundantly, suggesting that these proteins have distinct but partially overlapping functions.

  4. Sustainable Modular Adaptive Redundancy Technique Emphasizing Partial Reconfiguration for Reduced Power Consumption

    Directory of Open Access Journals (Sweden)

    R. Al-Haddad

    2011-01-01

    Full Text Available As reconfigurable devices' capacities and the complexity of applications that use them increase, the need for self-reliance of deployed systems becomes increasingly prominent. Organic computing paradigms have been proposed for fault-tolerant systems because they promote behaviors that allow complex digital systems to adapt and survive in demanding environments. In this paper, we develop a sustainable modular adaptive redundancy technique (SMART composed of a two-layered organic system. The hardware layer is implemented on a Xilinx Virtex-4 Field Programmable Gate Array (FPGA to provide self-repair using a novel approach called reconfigurable adaptive redundancy system (RARS. The software layer supervises the organic activities on the FPGA and extends the self-healing capabilities through application-independent, intrinsic, and evolutionary repair techniques that leverage the benefits of dynamic partial reconfiguration (PR. SMART was evaluated using a Sobel edge-detection application and was shown to tolerate stressful sequences of injected transient and permanent faults while reducing dynamic power consumption by 30% compared to conventional triple modular redundancy (TMR techniques, with nominal impact on the fault-tolerance capabilities. Moreover, PR is employed to keep the system on line while under repair and also to reduce repair time. Experiments have shown a 27.48% decrease in repair time when PR is employed compared to the full bitstream configuration case.

  5. Statistical Redundancy Testing for Improved Gene Selection in Cancer Classification Using Microarray Data

    Directory of Open Access Journals (Sweden)

    J. Sunil Rao

    2007-01-01

    Full Text Available In gene selection for cancer classifi cation using microarray data, we define an eigenvalue-ratio statistic to measure a gene’s contribution to the joint discriminability when this gene is included into a set of genes. Based on this eigenvalueratio statistic, we define a novel hypothesis testing for gene statistical redundancy and propose two gene selection methods. Simulation studies illustrate the agreement between statistical redundancy testing and gene selection methods. Real data examples show the proposed gene selection methods can select a compact gene subset which can not only be used to build high quality cancer classifiers but also show biological relevance.

  6. Redundant manipulator techniques for partially decentralized path planning and control of a platoon of autonomous vehicles.

    Science.gov (United States)

    Stilwell, Daniel J; Bishop, Bradley E; Sylvester, Caleb A

    2005-08-01

    An approach to real-time trajectory generation for platoons of autonomous vehicles is developed from well-known control techniques for redundant robotic manipulators. The partially decentralized structure of this approach permits each vehicle to independently compute its trajectory in real-time using only locally generated information and low-bandwidth feedback generated by a system exogenous to the platoon. Our work is motivated by applications for which communications bandwidth is severely limited, such for platoons of autonomous underwater vehicles. The communication requirements for our trajectory generation approach are independent of the number of vehicles in the platoon, enabling platoons composed of a large number of vehicles to be coordinated despite limited communication bandwidth.

  7. Configuration determination for k-out-of-n partially redundant systems

    International Nuclear Information System (INIS)

    Lu Lixuan; Lewis, Gregory

    2008-01-01

    The k-out-of-n configuration is a widely adopted structure for partially redundant safety systems. This configuration ensures a high level of reliability and safety with limited financial and space resources. It also facilitates on-line Test and Maintenance (T and M) without having to shut the system down. One question a decision maker needs to answer when adopting k-out-of-n systems is: what is the best configuration for the application, i.e. how many channels in total need to be utilized and among these channels, how many channels need to function simultaneously in order for the system to function. There are various factors to consider in order to make this decision. This paper looks at this problem from a reliability engineers point of view. A quantitative analysis is performed for both unavailability and probability of spurious operation due to independent failure. In particular, the relative gain and/or loss of these quantities that occurs due to changing from one configuration to another are compared through rigorous mathematical analysis. The results provide important information that can be used when choosing system configurations to meet regulatory requirements and financial constraints. The two different configurations for shutdown systems in Nuclear Power Plants, the 2-out-of-3 system and the 2-out-of-4 system, are utilized as an example to illustrate the theoretical results

  8. Gene prediction validation and functional analysis of redundant pathways

    DEFF Research Database (Denmark)

    Sønderkær, Mads

    2011-01-01

    have employed a large mRNA-seq data set to improve and validate ab initio predicted gene models. This direct experimental evidence also provides reliable determinations of UTR regions and polyadenylation sites, which are not easily predicted in plants. Furthermore, once an annotated genome sequence...... is available, gene expression by mRNA-Seq enables acquisition of a more complete overview of gene isoform usage in complex enzymatic pathways enabling the identification of key genes. Metabolism in potatoes This information is useful e.g. for crop improvement based on manipulation of agronomically important...

  9. Novel iterative reconstruction method with optimal dose usage for partially redundant CT-acquisition

    Science.gov (United States)

    Bruder, H.; Raupach, R.; Sunnegardh, J.; Allmendinger, T.; Klotz, E.; Stierstorfer, K.; Flohr, T.

    2015-11-01

    In CT imaging, a variety of applications exist which are strongly SNR limited. However, in some cases redundant data of the same body region provide additional quanta. Examples: in dual energy CT, the spatial resolution has to be compromised to provide good SNR for material decomposition. However, the respective spectral dataset of the same body region provides additional quanta which might be utilized to improve SNR of each spectral component. Perfusion CT is a high dose application, and dose reduction is highly desirable. However, a meaningful evaluation of perfusion parameters might be impaired by noisy time frames. On the other hand, the SNR of the average of all time frames is extremely high. In redundant CT acquisitions, multiple image datasets can be reconstructed and averaged to composite image data. These composite image data, however, might be compromised with respect to contrast resolution and/or spatial resolution and/or temporal resolution. These observations bring us to the idea of transferring high SNR of composite image data to low SNR ‘source’ image data, while maintaining their resolution. It has been shown that the noise characteristics of CT image data can be improved by iterative reconstruction (Popescu et al 2012 Book of Abstracts, 2nd CT Meeting (Salt Lake City, UT) p 148). In case of data dependent Gaussian noise it can be modelled with image-based iterative reconstruction at least in an approximate manner (Bruder et al 2011 Proc. SPIE 7961 79610J). We present a generalized update equation in image space, consisting of a linear combination of the previous update, a correction term which is constrained by the source image data, and a regularization prior, which is initialized by the composite image data. This iterative reconstruction approach we call bimodal reconstruction (BMR). Based on simulation data it is shown that BMR can improve low contrast detectability, substantially reduces the noise power and has the potential to recover

  10. Novel iterative reconstruction method with optimal dose usage for partially redundant CT-acquisition

    International Nuclear Information System (INIS)

    Bruder, H; Raupach, R; Sunnegardh, J; Allmendinger, T; Klotz, E; Stierstorfer, K; Flohr, T

    2015-01-01

    In CT imaging, a variety of applications exist which are strongly SNR limited. However, in some cases redundant data of the same body region provide additional quanta.Examples: in dual energy CT, the spatial resolution has to be compromised to provide good SNR for material decomposition. However, the respective spectral dataset of the same body region provides additional quanta which might be utilized to improve SNR of each spectral component. Perfusion CT is a high dose application, and dose reduction is highly desirable. However, a meaningful evaluation of perfusion parameters might be impaired by noisy time frames. On the other hand, the SNR of the average of all time frames is extremely high.In redundant CT acquisitions, multiple image datasets can be reconstructed and averaged to composite image data. These composite image data, however, might be compromised with respect to contrast resolution and/or spatial resolution and/or temporal resolution. These observations bring us to the idea of transferring high SNR of composite image data to low SNR ‘source’ image data, while maintaining their resolution.It has been shown that the noise characteristics of CT image data can be improved by iterative reconstruction (Popescu et al 2012 Book of Abstracts, 2nd CT Meeting (Salt Lake City, UT) p 148). In case of data dependent Gaussian noise it can be modelled with image-based iterative reconstruction at least in an approximate manner (Bruder et al 2011 Proc. SPIE 7961 79610J).We present a generalized update equation in image space, consisting of a linear combination of the previous update, a correction term which is constrained by the source image data, and a regularization prior, which is initialized by the composite image data. This iterative reconstruction approach we call bimodal reconstruction (BMR).Based on simulation data it is shown that BMR can improve low contrast detectability, substantially reduces the noise power and has the potential to recover spatial

  11. Intelligence and impact contests in systems with redundancy, false targets, and partial protection

    International Nuclear Information System (INIS)

    Levitin, Gregory; Hausken, Kjell

    2009-01-01

    The paper considers a system consisting of identical elements that can be intentionally attacked. The cumulative performance of the system elements should meet a demand. To prevent loss of demand the defender provides system redundancy (deploying genuine system elements (GEs) with cumulative performance exceeding the demand); deploys false elements (FEs), and protects the GEs. If the attacker cannot distinguish GEs and FEs, he chooses the number of elements to attack and attacks at random these elements distributing his resource evenly among the attacked elements. In order to get the information about the system the attacker allocates a part of his resource into the intelligence activity. Analogously, the defender allocates a part of his resource into the counter-intelligence activity. The attacker's strategy presumes distribution of his resource among the intelligence and attack effort and choice of the number of attacked elements. If the attacker wins the intelligence contest, he can identify both FEs and unprotected GEs ignoring the former ones and destroying the latter ones with negligible effort. The defender's strategy presumes distribution of his resource among the counter-intelligence and the three defensive actions. The paper considers a three-period non-cooperative minmax game between the defender and the attacker and presents an algorithm for determining the agents' optimal strategies.

  12. Developmental and environmental regulation of Aquaporin gene expression across Populus species: divergence or redundancy?

    Science.gov (United States)

    Cohen, David; Bogeat-Triboulot, Marie-Béatrice; Vialet-Chabrand, Silvère; Merret, Rémy; Courty, Pierre-Emmanuel; Moretti, Sébastien; Bizet, François; Guilliot, Agnès; Hummel, Irène

    2013-01-01

    Aquaporins (AQPs) are membrane channels belonging to the major intrinsic proteins family and are known for their ability to facilitate water movement. While in Populus trichocarpa, AQP proteins form a large family encompassing fifty-five genes, most of the experimental work focused on a few genes or subfamilies. The current work was undertaken to develop a comprehensive picture of the whole AQP gene family in Populus species by delineating gene expression domain and distinguishing responsiveness to developmental and environmental cues. Since duplication events amplified the poplar AQP family, we addressed the question of expression redundancy between gene duplicates. On these purposes, we carried a meta-analysis of all publicly available Affymetrix experiments. Our in-silico strategy controlled for previously identified biases in cross-species transcriptomics, a necessary step for any comparative transcriptomics based on multispecies design chips. Three poplar AQPs were not supported by any expression data, even in a large collection of situations (abiotic and biotic constraints, temporal oscillations and mutants). The expression of 11 AQPs was never or poorly regulated whatever the wideness of their expression domain and their expression level. Our work highlighted that PtTIP1;4 was the most responsive gene of the AQP family. A high functional divergence between gene duplicates was detected across species and in response to tested cues, except for the root-expressed PtTIP2;3/PtTIP2;4 pair exhibiting 80% convergent responses. Our meta-analysis assessed key features of aquaporin expression which had remained hidden in single experiments, such as expression wideness, response specificity and genotype and environment interactions. By consolidating expression profiles using independent experimental series, we showed that the large expansion of AQP family in poplar was accompanied with a strong divergence of gene expression, even if some cases of functional redundancy

  13. Developmental and environmental regulation of Aquaporin gene expression across Populus species: divergence or redundancy?

    Directory of Open Access Journals (Sweden)

    David Cohen

    Full Text Available Aquaporins (AQPs are membrane channels belonging to the major intrinsic proteins family and are known for their ability to facilitate water movement. While in Populus trichocarpa, AQP proteins form a large family encompassing fifty-five genes, most of the experimental work focused on a few genes or subfamilies. The current work was undertaken to develop a comprehensive picture of the whole AQP gene family in Populus species by delineating gene expression domain and distinguishing responsiveness to developmental and environmental cues. Since duplication events amplified the poplar AQP family, we addressed the question of expression redundancy between gene duplicates. On these purposes, we carried a meta-analysis of all publicly available Affymetrix experiments. Our in-silico strategy controlled for previously identified biases in cross-species transcriptomics, a necessary step for any comparative transcriptomics based on multispecies design chips. Three poplar AQPs were not supported by any expression data, even in a large collection of situations (abiotic and biotic constraints, temporal oscillations and mutants. The expression of 11 AQPs was never or poorly regulated whatever the wideness of their expression domain and their expression level. Our work highlighted that PtTIP1;4 was the most responsive gene of the AQP family. A high functional divergence between gene duplicates was detected across species and in response to tested cues, except for the root-expressed PtTIP2;3/PtTIP2;4 pair exhibiting 80% convergent responses. Our meta-analysis assessed key features of aquaporin expression which had remained hidden in single experiments, such as expression wideness, response specificity and genotype and environment interactions. By consolidating expression profiles using independent experimental series, we showed that the large expansion of AQP family in poplar was accompanied with a strong divergence of gene expression, even if some cases of

  14. Specific gene expression responses to parasite genotypes reveal redundancy of innate immunity in vertebrates.

    Directory of Open Access Journals (Sweden)

    David Haase

    Full Text Available Vertebrate innate immunity is the first line of defense against an invading pathogen and has long been assumed to be largely unspecific with respect to parasite/pathogen species. However, recent phenotypic evidence suggests that immunogenetic variation, i.e. allelic variability in genes associated with the immune system, results in host-parasite genotype-by-genotype interactions and thus specific innate immune responses. Immunogenetic variation is common in all vertebrate taxa and this reflects an effective immunological function in complex environments. However, the underlying variability in host gene expression patterns as response of innate immunity to within-species genetic diversity of macroparasites in vertebrates is unknown. We hypothesized that intra-specific variation among parasite genotypes must be reflected in host gene expression patterns. Here we used high-throughput RNA-sequencing to examine the effect of parasite genotypes on gene expression patterns of a vertebrate host, the three-spined stickleback (Gasterosteus aculeatus. By infecting naïve fish with distinct trematode genotypes of the species Diplostomum pseudospathaceum we show that gene activity of innate immunity in three-spined sticklebacks depended on the identity of an infecting macroparasite genotype. In addition to a suite of genes indicative for a general response against the trematode we also find parasite-strain specific gene expression, in particular in the complement system genes, despite similar infection rates of single clone treatments. The observed discrepancy between infection rates and gene expression indicates the presence of alternative pathways which execute similar functions. This suggests that the innate immune system can induce redundant responses specific to parasite genotypes.

  15. Deciphering a unique biotin scavenging pathway with redundant genes in the probiotic bacterium Lactococcus lactis.

    Science.gov (United States)

    Zhang, Huimin; Wang, Qingjing; Fisher, Derek J; Cai, Mingzhu; Chakravartty, Vandana; Ye, Huiyan; Li, Ping; Solbiati, Jose O; Feng, Youjun

    2016-05-10

    Biotin protein ligase (BPL) is widespread in the three domains of the life. The paradigm BPL is the Escherichia coli BirA protein, which also functions as a repressor for the biotin biosynthesis pathway. Here we report that Lactococcus lactis possesses two different orthologues of birA (birA1_LL and birA2_LL). Unlike the scenario in E. coli, L. lactis appears to be auxotrophic for biotin in that it lacks a full biotin biosynthesis pathway. In contrast, it retains two biotin transporter-encoding genes (bioY1_LL and bioY2_LL), suggesting the use of a scavenging strategy to obtain biotin from the environment. The in vivo function of the two L. lactis birA genes was judged by their abilities to complement the conditional lethal E. coli birA mutant. Thin-layer chromatography and mass spectroscopy assays demonstrated that these two recombinant BirA proteins catalyze the biotinylation reaction of the acceptor biotin carboxyl carrier protein (BCCP), through the expected biotinoyl-AMP intermediate. Gel shift assays were used to characterize bioY1_LL and BirA1_LL. We also determined the ability to uptake (3)H-biotin by L. lactis. Taken together, our results deciphered a unique biotin scavenging pathway with redundant genes present in the probiotic bacterium L. lactis.

  16. Functional redundancy and/or ongoing pseudogenization among F-box protein genes expressed in Arabidopsis male gametophyte.

    Science.gov (United States)

    Ikram, Sobia; Durandet, Monique; Vesa, Simona; Pereira, Serge; Guerche, Philippe; Bonhomme, Sandrine

    2014-06-01

    F-box protein genes family is one of the largest gene families in plants, with almost 700 predicted genes in the model plant Arabidopsis. F-box proteins are key components of the ubiquitin proteasome system that allows targeted protein degradation. Transcriptome analyses indicate that half of these F-box protein genes are found expressed in microspore and/or pollen, i.e., during male gametogenesis. To assess the role of F-box protein genes during this crucial developmental step, we selected 34 F-box protein genes recorded as highly and specifically expressed in pollen and isolated corresponding insertion mutants. We checked the expression level of each selected gene by RT-PCR and confirmed pollen expression for 25 genes, but specific expression for only 10 of the 34 F-box protein genes. In addition, we tested the expression level of selected F-box protein genes in 24 mutant lines and showed that 11 of them were null mutants. Transmission analysis of the mutations to the progeny showed that none of the single mutations was gametophytic lethal. These unaffected transmission efficiencies suggested leaky mutations or functional redundancy among F-box protein genes. Cytological observation of the gametophytes in the mutants confirmed these results. Combinations of mutations in F-box protein genes from the same subfamily did not lead to transmission defect either, further highlighting functional redundancy and/or a high proportion of pseudogenes among these F-box protein genes.

  17. A Network of Local and Redundant Gene Regulation Governs Arabidopsis Seed Maturation

    Science.gov (United States)

    To, Alexandra; Valon, Christiane; Savino, Gil; Guilleminot, Jocelyne; Devic, Martine; Giraudat, Jérôme; Parcy, François

    2006-01-01

    In Arabidopsis thaliana, four major regulators (ABSCISIC ACID INSENSITIVE3 [ABI3], FUSCA3 [FUS3], LEAFY COTYLEDON1 [LEC1], and LEC2) control most aspects of seed maturation, such as accumulation of storage compounds, cotyledon identity, acquisition of desiccation tolerance, and dormancy. The molecular basis for complex genetic interactions among these regulators is poorly understood. By analyzing ABI3 and FUS3 expression in various single, double, and triple maturation mutants, we have identified multiple regulatory links among all four genes. We found that one of the major roles of LEC2 was to upregulate FUS3 and ABI3. The lec2 mutation is responsible for a dramatic decrease in ABI3 and FUS3 expression, and most lec2 phenotypes can be rescued by ABI3 or FUS3 constitutive expression. In addition, ABI3 and FUS3 positively regulate themselves and each other, thereby forming feedback loops essential for their sustained and uniform expression in the embryo. Finally, LEC1 also positively regulates ABI3 and FUS3 in the cotyledons. Most of the genetic controls discovered were found to be local and redundant, explaining why they had previously been overlooked. This works establishes a genetic framework for seed maturation, organizing the key regulators of this process into a hierarchical network. In addition, it offers a molecular explanation for the puzzling variable features of lec2 mutant embryos. PMID:16731585

  18. Partial dispensability of Djp1's J domain in peroxisomal protein import in Saccharomyces cerevisiae results from genetic redundancy with another class II J protein, Caj1.

    Science.gov (United States)

    Dobriyal, Neha; Tripathi, Prerna; Sarkar, Susrita; Tak, Yogesh; Verma, Amit K; Sahi, Chandan

    2017-05-01

    J proteins are obligate co-chaperones of Hsp70s. Via their signature J domain, all J proteins interact with their partner Hsp70s and stimulate their weak ATPase activity, which is vital for Hsp70 functions. The dependency of J proteins on their J domain is such that mutations in critical amino acids in the J domain often results into a null phenotype for a particular J protein. Here, we show that the J domain of Djp1, a cytosolic J protein important for peroxisomal protein import in Saccharomyces cerevisiae, is partially dispensable. A complete deletion of Djp1 J domain resulted into only partial loss in peroxisomal protein import function. Instead, the C-terminal domain of Djp1 was found to be essential for proper localization of the peroxisomal targeted GFP-PTS1. Furthermore, we show that Caj1, another cytosolic J protein, also has some role in peroxisomal protein import. Caj1 was found to be partially redundant with Djp1 as cells lacking both Djp1 and Caj1 resulted into a much more severe defect in GFP-PTS1 localization. Based on these results, we propose that dispensability of J domains could be attributed to genetic redundancy between different J proteins sharing common structural topology and cellular localization.

  19. ERECTA-family receptor kinase genes redundantly prevent premature progression of secondary growth in the Arabidopsis hypocotyl.

    Science.gov (United States)

    Ikematsu, Shuka; Tasaka, Masao; Torii, Keiko U; Uchida, Naoyuki

    2017-03-01

    Secondary growth is driven by continuous cell proliferation and differentiation of the cambium that acts as vascular stem cells, producing xylem and phloem to expand vascular tissues laterally. During secondary growth of hypocotyls in Arabidopsis thaliana, the xylem undergoes a drastic phase transition from a parenchyma-producing phase to a fiber-producing phase at the appropriate time. However, it remains to be fully elucidated how progression of secondary growth is properly controlled. We focused on phenotypes of hypocotyl vasculatures caused by double mutation in ERECTA (ER) and ER-LIKE1 (ERL1) receptor-kinase genes to elucidate their roles in secondary growth. ER and ERL1 redundantly suppressed excessive radial growth of the hypocotyl vasculature during secondary growth. ER and ERL1 also prevented premature initiation of the fiber differentiation process mediated by the NAC SECONDARY WALL THICKENING PROMOTING FACTORs in the hypocotyl xylem. Upon floral transition, the hypocotyl xylem gained a competency to respond to GA in a BREVIPEDICELLUS-dependent manner, which was a prerequisite for fiber differentiation. However, even after the floral transition, ER and ERL1 prevented precocious initiation of the GA-mediated fiber formation. Collectively, our findings reveal that ER and ERL1 redundantly prevent premature progression of sequential events in secondary growth. © 2016 The Authors. New Phytologist © 2016 New Phytologist Trust.

  20. Ethernet redundancy

    Energy Technology Data Exchange (ETDEWEB)

    Burak, K. [Invensys Process Systems, M/S C42-2B, 33 Commercial Street, Foxboro, MA 02035 (United States)

    2006-07-01

    We describe the Ethernet systems and their evolution: LAN Segmentation, DUAL networks, network loops, network redundancy and redundant network access. Ethernet (IEEE 802.3) is an open standard with no licensing fees and its specifications are freely available. As a result, it is the most popular data link protocol in use. It is important that the network be redundant and standard Ethernet protocols like RSTP (IEEE 802.1w) provide the fast network fault detection and recovery times that is required today. As Ethernet does continue to evolve, network redundancy is and will be a mixture of technology standards. So it is very important that both end-stations and networking devices be Ethernet (IEEE 802.3) compliant. Then when new technologies, such as the IEEE 802.1aq Shortest Path Bridging protocol, come to market they can be easily deployed in the network without worry.

  1. Ethernet redundancy

    International Nuclear Information System (INIS)

    Burak, K.

    2006-01-01

    We describe the Ethernet systems and their evolution: LAN Segmentation, DUAL networks, network loops, network redundancy and redundant network access. Ethernet (IEEE 802.3) is an open standard with no licensing fees and its specifications are freely available. As a result, it is the most popular data link protocol in use. It is important that the network be redundant and standard Ethernet protocols like RSTP (IEEE 802.1w) provide the fast network fault detection and recovery times that is required today. As Ethernet does continue to evolve, network redundancy is and will be a mixture of technology standards. So it is very important that both end-stations and networking devices be Ethernet (IEEE 802.3) compliant. Then when new technologies, such as the IEEE 802.1aq Shortest Path Bridging protocol, come to market they can be easily deployed in the network without worry

  2. Solving binary-state multi-objective reliability redundancy allocation series-parallel problem using efficient epsilon-constraint, multi-start partial bound enumeration algorithm, and DEA

    International Nuclear Information System (INIS)

    Khalili-Damghani, Kaveh; Amiri, Maghsoud

    2012-01-01

    In this paper, a procedure based on efficient epsilon-constraint method and data envelopment analysis (DEA) is proposed for solving binary-state multi-objective reliability redundancy allocation series-parallel problem (MORAP). In first module, a set of qualified non-dominated solutions on Pareto front of binary-state MORAP is generated using an efficient epsilon-constraint method. In order to test the quality of generated non-dominated solutions in this module, a multi-start partial bound enumeration algorithm is also proposed for MORAP. The performance of both procedures is compared using different metrics on well-known benchmark instance. The statistical analysis represents that not only the proposed efficient epsilon-constraint method outperform the multi-start partial bound enumeration algorithm but also it improves the founded upper bound of benchmark instance. Then, in second module, a DEA model is supplied to prune the generated non-dominated solutions of efficient epsilon-constraint method. This helps reduction of non-dominated solutions in a systematic manner and eases the decision making process for practical implementations. - Highlights: ► A procedure based on efficient epsilon-constraint method and DEA was proposed for solving MORAP. ► The performance of proposed procedure was compared with a multi-start PBEA. ► Methods were statistically compared using multi-objective metrics.

  3. Expression profiling of S. pombe acetyltransferase mutants identifies redundant pathways of gene regulation

    Directory of Open Access Journals (Sweden)

    Wright Anthony PH

    2010-01-01

    Full Text Available Abstract Background Histone acetyltransferase enzymes (HATs are implicated in regulation of transcription. HATs from different families may overlap in target and substrate specificity. Results We isolated the elp3+ gene encoding the histone acetyltransferase subunit of the Elongator complex in fission yeast and characterized the phenotype of an Δelp3 mutant. We examined genetic interactions between Δelp3 and two other HAT mutants, Δmst2 and Δgcn5 and used whole genome microarray analysis to analyze their effects on gene expression. Conclusions Comparison of phenotypes and expression profiles in single, double and triple mutants indicate that these HAT enzymes have overlapping functions. Consistent with this, overlapping specificity in histone H3 acetylation is observed. However, there is no evidence for overlap with another HAT enzyme, encoded by the essential mst1+ gene.

  4. Fate of a redundant gamma-globin gene in the atelid clade of New World monkeys: implications concerning fetal globin gene expression.

    Science.gov (United States)

    Meireles, C M; Schneider, M P; Sampaio, M I; Schneider, H; Slightom, J L; Chiu, C H; Neiswanger, K; Gumucio, D L; Czelusniak, J; Goodman, M

    1995-01-01

    Conclusive evidence was provided that gamma 1, the upstream of the two linked simian gamma-globin loci (5'-gamma 1-gamma 2-3'), is a pseudogene in a major group of New World monkeys. Sequence analysis of PCR-amplified genomic fragments of predicted sizes revealed that all extant genera of the platyrrhine family Atelidae [Lagothrix (woolly monkeys), Brachyteles (woolly spider monkeys), Ateles (spider monkeys), and Alouatta (howler monkeys)] share a large deletion that removed most of exon 2, all of intron 2 and exon 3, and much of the 3' flanking sequence of gamma 1. The fact that two functional gamma-globin genes were not present in early ancestors of the Atelidae (and that gamma 1 was the dispensible gene) suggests that for much or even all of their evolution, platyrrhines have had gamma 2 as the primary fetally expressed gamma-globin gene, in contrast to catarrhines (e.g., humans and chimpanzees) that have gamma 1 as the primary fetally expressed gamma-globin gene. Results from promoter sequences further suggest that all three platyrrhine families (Atelidae, Cebidae, and Pitheciidae) have gamma 2 rather than gamma 1 as their primary fetally expressed gamma-globin gene. The implications of this suggestion were explored in terms of how gene redundancy, regulatory mutations, and distance of each gamma-globin gene from the locus control region were possibly involved in the acquisition and maintenance of fetal, rather than embryonic, expression. Images Fig. 2 PMID:7535927

  5. Zebrafish neurofibromatosis type 1 genes have redundant functions in tumorigenesis and embryonic development

    Directory of Open Access Journals (Sweden)

    Jimann Shin

    2012-11-01

    Neurofibromatosis type 1 (NF1 is a common, dominantly inherited genetic disorder that results from mutations in the neurofibromin 1 (NF1 gene. Affected individuals demonstrate abnormalities in neural-crest-derived tissues that include hyperpigmented skin lesions and benign peripheral nerve sheath tumors. NF1 patients also have a predisposition to malignancies including juvenile myelomonocytic leukemia (JMML, optic glioma, glioblastoma, schwannoma and malignant peripheral nerve sheath tumors (MPNSTs. In an effort to better define the molecular and cellular determinants of NF1 disease pathogenesis in vivo, we employed targeted mutagenesis strategies to generate zebrafish harboring stable germline mutations in nf1a and nf1b, orthologues of NF1. Animals homozygous for loss-of-function alleles of nf1a or nf1b alone are phenotypically normal and viable. Homozygous loss of both alleles in combination generates larval phenotypes that resemble aspects of the human disease and results in larval lethality between 7 and 10 days post fertilization. nf1-null larvae demonstrate significant central and peripheral nervous system defects. These include aberrant proliferation and differentiation of oligodendrocyte progenitor cells (OPCs, dysmorphic myelin sheaths and hyperplasia of Schwann cells. Loss of nf1 contributes to tumorigenesis as demonstrated by an accelerated onset and increased penetrance of high-grade gliomas and MPNSTs in adult nf1a+/−; nf1b−/−; p53e7/e7 animals. nf1-null larvae also demonstrate significant motor and learning defects. Importantly, we identify and quantitatively analyze a novel melanophore phenotype in nf1-null larvae, providing the first animal model of the pathognomonic pigmentation lesions of NF1. Together, these findings support a role for nf1a and nf1b as potent tumor suppressor genes that also function in the development of both central and peripheral glial cells as well as melanophores in zebrafish.

  6. Redundancy control in pathway databases (ReCiPa): an application for improving gene-set enrichment analysis in Omics studies and "Big data" biology.

    Science.gov (United States)

    Vivar, Juan C; Pemu, Priscilla; McPherson, Ruth; Ghosh, Sujoy

    2013-08-01

    Abstract Unparalleled technological advances have fueled an explosive growth in the scope and scale of biological data and have propelled life sciences into the realm of "Big Data" that cannot be managed or analyzed by conventional approaches. Big Data in the life sciences are driven primarily via a diverse collection of 'omics'-based technologies, including genomics, proteomics, metabolomics, transcriptomics, metagenomics, and lipidomics. Gene-set enrichment analysis is a powerful approach for interrogating large 'omics' datasets, leading to the identification of biological mechanisms associated with observed outcomes. While several factors influence the results from such analysis, the impact from the contents of pathway databases is often under-appreciated. Pathway databases often contain variously named pathways that overlap with one another to varying degrees. Ignoring such redundancies during pathway analysis can lead to the designation of several pathways as being significant due to high content-similarity, rather than truly independent biological mechanisms. Statistically, such dependencies also result in correlated p values and overdispersion, leading to biased results. We investigated the level of redundancies in multiple pathway databases and observed large discrepancies in the nature and extent of pathway overlap. This prompted us to develop the application, ReCiPa (Redundancy Control in Pathway Databases), to control redundancies in pathway databases based on user-defined thresholds. Analysis of genomic and genetic datasets, using ReCiPa-generated overlap-controlled versions of KEGG and Reactome pathways, led to a reduction in redundancy among the top-scoring gene-sets and allowed for the inclusion of additional gene-sets representing possibly novel biological mechanisms. Using obesity as an example, bioinformatic analysis further demonstrated that gene-sets identified from overlap-controlled pathway databases show stronger evidence of prior association

  7. Genome-wide investigation and expression analysis suggest diverse roles and genetic redundancy of Pht1 family genes in response to Pi deficiency in tomato.

    Science.gov (United States)

    Chen, Aiqun; Chen, Xiao; Wang, Huimin; Liao, Dehua; Gu, Mian; Qu, Hongye; Sun, Shubin; Xu, Guohua

    2014-03-11

    Phosphorus (P) deficiency is one of the major nutrient stresses limiting plant growth. The uptake of P by plants is well considered to be mediated by a number of high-affinity phosphate (Pi) transporters belonging to the Pht1 family. Although the Pht1 genes have been extensively identified in several plant species, there is a lack of systematic analysis of the Pht1 gene family in any solanaceous species thus far. Here, we report the genome-wide analysis, phylogenetic evolution and expression patterns of the Pht1 genes in tomato (Solanum lycopersicum). A total of eight putative Pht1 genes (LePT1 to 8), distributed on three chromosomes (3, 6 and 9), were identified through extensive searches of the released tomato genome sequence database. Chromosomal organization and phylogenetic tree analysis suggested that the six Pht1 paralogues, LePT1/3, LePT2/6 and LePT4/5, which were assigned into three pairs with very close physical distance, were produced from recent tandem duplication events that occurred after Solanaceae splitting with other dicot families. Expression analysis of these Pht1 members revealed that except LePT8, of which the transcript was undetectable in all tissues, the other seven paralogues showed differential but partial-overlapping expression patterns. LePT1 and LePT7 were ubiquitously expressed in all tissues examined, and their transcripts were induced abundantly in response to Pi starvation; LePT2 and LePT6, the two paralogues harboring identical coding sequence, were predominantly expressed in Pi-deficient roots; LePT3, LePT4 and LePT5 were strongly activated in the roots colonized by arbuscular mycorrhizal fungi under low-P, but not high-P condition. Histochemical analysis revealed that a 1250-bp LePT3 promoter fragment and a 471-bp LePT5 promoter fragment containing the two elements, MYCS and P1BS, were sufficient to direct the GUS reporter expression in mycorrhizal roots and were limited to distinct cells harboring AM fungal structures

  8. Characterization of five partial deletions of the factor VIII gene

    International Nuclear Information System (INIS)

    Youssoufian, H.; Antonarakis, S.E.; Aronis, S.; Tsiftis, G.; Phillips, D.G.; Kazazian, H.H. Jr.

    1987-01-01

    Hemophilia A is an X-linked disorder of coagulation caused by a deficiency of factor VIII. By using cloned DNA probes, the authors have characterized the following five different partial deletions of the factor VIII gene from a panel of 83 patients with hemophilia A: (i) a 7-kilobase (kb) deletion that eliminates exon 6; (ii) a 2.5-kb deletion that eliminates 5' sequences of exon 14; (iii) a deletion of at least 7 kb that eliminates exons 24 and 25; (iv) a deletion of at least 16 kb that eliminates exons 23-25; and (v) a 5.5-kb deletion that eliminates exon 22. The first four deletions are associated with severe hemophilia A. By contrast, the last deletion is associated with moderate disease, possibly because of in-frame splicing from adjacent exons. None of those patients with partial gene deletions had circulating inhibitors to factor VIII. One deletion occurred de novo in a germ cell of the maternal grandmother, while a second deletion occurred in a germ cell of the maternal grandfather. These observations demonstrate that de novo deletions of X-linked genes can occur in either male or female gametes

  9. The Arabidopsis NF-YA3 and NF-YA8 genes are functionally redundant and are required in early embryogenesis.

    Directory of Open Access Journals (Sweden)

    Monica Fornari

    Full Text Available Nuclear factor Y (NF-Y is a trimeric transcription factor composed of three distinct subunits called NF-YA, NF-YB and NF-YC. In Arabidopsis thaliana, NF-Y subunits are known to play roles in many processes, such as gametogenesis, embryogenesis, seed development, drought resistance, ABA signaling, flowering time, primary root elongation, Endoplasmic Reticulum (ER stress response and blue light responses. Here, we report that the closely related NF-YA3 and NF-YA8 genes control early embryogenesis. Detailed GUS and in situ analyses showed that NF-YA3 and NF-YA8 are expressed in vegetative and reproductive tissues with the highest expression being during embryo development from the globular to the torpedo embryo stage. Plants from the nf-ya3 and nf-ya8 single mutants do not display any obvious phenotypic alteration, whereas nf-ya3 nf-ya8 double mutants are embryo lethal. Morphological analyses showed that the nf-ya3 nf-ya8 embryos fail to undergo to the heart stage and develop into abnormal globular embryos with both proembryo and suspensor characterized by a disordered cell cluster with an irregular shape, suggesting defects in embryo development. The suppression of both NF-YA3 and NF-YA8 gene expression by RNAi experiments resulted in defective embryos that phenocopied the nf-ya3 nf-ya8 double mutants, whereas complementation experiments partially rescued the abnormal globular nf-ya3 nf-ya8 embryos, confirming that NF-YA3 and NF-YA8 are required in early embryogenesis. Finally, the lack of GFP expression of the auxin responsive DR5rev::GFP marker line in double mutant embryos suggested that mutations in both NF-YA3 and NF-YA8 affect auxin response in early developing embryos. Our findings indicate that NF-YA3 and NF-YA8 are functionally redundant genes required in early embryogenesis of Arabidopsis thaliana.

  10. Knock-down of transcript abundance of a family of Kunitz proteinase inhibitor genes in white clover (Trifolium repens) reveals a redundancy and diversity of gene function.

    Science.gov (United States)

    Islam, Afsana; Leung, Susanna; Burgess, Elisabeth P J; Laing, William A; Richardson, Kim A; Hofmann, Rainer W; Dijkwel, Paul P; McManus, Michael T

    2015-12-01

    The transcriptional regulation of four phylogenetically distinct members of a family of Kunitz proteinase inhibitor (KPI) genes isolated from white clover (Trifolium repens; designated Tr-KPI1, Tr-KPI2, Tr-KPI4 and Tr-KPI5) has been investigated to determine their wider functional role. The four genes displayed differential transcription during seed germination, and in different tissues of the mature plant, and transcription was also ontogenetically regulated. Heterologous over-expression of Tr-KPI1, Tr-KPI2, Tr-KPI4 and Tr-KPI5 in Nicotiana tabacum retarded larval growth of the herbivore Spodoptera litura, and an increase in the transcription of the pathogenesis-related genes PR1 and PR4 was observed in the Tr-KPI1 and Tr-KPI4 over-expressing lines. RNA interference (RNAi) knock-down lines in white clover displayed significantly altered vegetative growth phenotypes with inhibition of shoot growth and a stimulation of root growth, while knock-down of Tr-KPI1, Tr-KPI2 and Tr-KPI5 transcript abundance also retarded larval growth of S. litura. Examination of these RNAi lines revealed constitutive stress-associated phenotypes as well as altered transcription of cellular signalling genes. These results reveal a functional redundancy across members of the KPI gene family. Further, the regulation of transcription of at least one member of the family, Tr-KPI2, may occupy a central role in the maintenance of a cellular homeostasis. © 2015 The Authors. New Phytologist © 2015 New Phytologist Trust.

  11. Partial functional redundancy of MreB isoforms, MreB, Mbl and MreBH, in cell morphogenesis of Bacillus subtilis.

    Science.gov (United States)

    Kawai, Yoshikazu; Asai, Kei; Errington, Jeffery

    2009-08-01

    MreB proteins are bacterial actin homologues thought to have a role in cell shape determination by positioning the cell wall synthetic machinery. Many bacteria, particularly Gram-positives, have more than one MreB isoform. Bacillus subtilis has three, MreB, Mbl and MreBH, which colocalize in a single helical structure. We now show that the helical pattern of peptidoglycan (PG) synthesis in the cylindrical part of the rod-shaped cell is governed by the redundant action of the three MreB isoforms. Single mutants for any one of mreB isoforms can still incorporate PG in a helical pattern and generate a rod shape. However, after depletion of MreB in an mbl mutant (or depletion of all three isoforms) lateral wall PG synthesis was impaired and the cells became spherical and lytic. Overexpression of any one of the MreB isoforms overcame the lethality as well as the defects in lateral PG synthesis and cell shape. Furthermore, MreB and Mbl can associate with the peptidoglycan biosynthetic machinery independently. However, no single MreB isoform was able to support normal growth under various stress conditions, suggesting that the multiple isoforms are used to allow cells to maintain proper growth and morphogenesis under changing and sometimes adverse conditions.

  12. Partial characterization of nif genes from the bacterium Azospirillum amazonense

    Directory of Open Access Journals (Sweden)

    D.P. Potrich

    2001-09-01

    Full Text Available Azospirillum amazonense revealed genomic organization patterns of the nitrogen fixation genes similar to those of the distantly related species A. brasilense. Our work suggests that A. brasilense nifHDK, nifENX, fixABC operons and nifA and glnB genes may be structurally homologous to the counterpart genes of A. amazonense. This is the first analysis revealing homology between A. brasilense nif genes and the A. amazonense genome. Sequence analysis of PCR amplification products revealed similarities between the amino acid sequences of the highly conserved nifD and glnB genes of A. amazonense and related genes of A. brasilense and other bacteria. However, the A. amazonense non-coding regions (the upstream activator sequence region and the region between the nifH and nifD genes differed from related regions of A. brasilense even in nitrogenase structural genes which are highly conserved among diazotrophic bacteria. The feasibility of the 16S ribosomal RNA gene-based PCR system for specific detection of A. amazonense was shown. Our results indicate that the PCR primers for 16S rDNA defined in this article are highly specific to A. amazonense and can distinguish this species from A. brasilense.

  13. Predicting genome-wide redundancy using machine learning

    Directory of Open Access Journals (Sweden)

    Shasha Dennis E

    2010-11-01

    Full Text Available Abstract Background Gene duplication can lead to genetic redundancy, which masks the function of mutated genes in genetic analyses. Methods to increase sensitivity in identifying genetic redundancy can improve the efficiency of reverse genetics and lend insights into the evolutionary outcomes of gene duplication. Machine learning techniques are well suited to classifying gene family members into redundant and non-redundant gene pairs in model species where sufficient genetic and genomic data is available, such as Arabidopsis thaliana, the test case used here. Results Machine learning techniques that combine multiple attributes led to a dramatic improvement in predicting genetic redundancy over single trait classifiers alone, such as BLAST E-values or expression correlation. In withholding analysis, one of the methods used here, Support Vector Machines, was two-fold more precise than single attribute classifiers, reaching a level where the majority of redundant calls were correctly labeled. Using this higher confidence in identifying redundancy, machine learning predicts that about half of all genes in Arabidopsis showed the signature of predicted redundancy with at least one but typically less than three other family members. Interestingly, a large proportion of predicted redundant gene pairs were relatively old duplications (e.g., Ks > 1, suggesting that redundancy is stable over long evolutionary periods. Conclusions Machine learning predicts that most genes will have a functionally redundant paralog but will exhibit redundancy with relatively few genes within a family. The predictions and gene pair attributes for Arabidopsis provide a new resource for research in genetics and genome evolution. These techniques can now be applied to other organisms.

  14. Analysis of the robustness of network-based disease-gene prioritization methods reveals redundancy in the human interactome and functional diversity of disease-genes.

    Directory of Open Access Journals (Sweden)

    Emre Guney

    Full Text Available Complex biological systems usually pose a trade-off between robustness and fragility where a small number of perturbations can substantially disrupt the system. Although biological systems are robust against changes in many external and internal conditions, even a single mutation can perturb the system substantially, giving rise to a pathophenotype. Recent advances in identifying and analyzing the sequential variations beneath human disorders help to comprehend a systemic view of the mechanisms underlying various disease phenotypes. Network-based disease-gene prioritization methods rank the relevance of genes in a disease under the hypothesis that genes whose proteins interact with each other tend to exhibit similar phenotypes. In this study, we have tested the robustness of several network-based disease-gene prioritization methods with respect to the perturbations of the system using various disease phenotypes from the Online Mendelian Inheritance in Man database. These perturbations have been introduced either in the protein-protein interaction network or in the set of known disease-gene associations. As the network-based disease-gene prioritization methods are based on the connectivity between known disease-gene associations, we have further used these methods to categorize the pathophenotypes with respect to the recoverability of hidden disease-genes. Our results have suggested that, in general, disease-genes are connected through multiple paths in the human interactome. Moreover, even when these paths are disturbed, network-based prioritization can reveal hidden disease-gene associations in some pathophenotypes such as breast cancer, cardiomyopathy, diabetes, leukemia, parkinson disease and obesity to a greater extend compared to the rest of the pathophenotypes tested in this study. Gene Ontology (GO analysis highlighted the role of functional diversity for such diseases.

  15. Diagnosis of partial body radiation exposure in mice using peripheral blood gene expression profiles.

    Directory of Open Access Journals (Sweden)

    Sarah K Meadows

    2010-07-01

    Full Text Available In the event of a terrorist-mediated attack in the United States using radiological or improvised nuclear weapons, it is expected that hundreds of thousands of people could be exposed to life-threatening levels of ionizing radiation. We have recently shown that genome-wide expression analysis of the peripheral blood (PB can generate gene expression profiles that can predict radiation exposure and distinguish the dose level of exposure following total body irradiation (TBI. However, in the event a radiation-mass casualty scenario, many victims will have heterogeneous exposure due to partial shielding and it is unknown whether PB gene expression profiles would be useful in predicting the status of partially irradiated individuals. Here, we identified gene expression profiles in the PB that were characteristic of anterior hemibody-, posterior hemibody- and single limb-irradiation at 0.5 Gy, 2 Gy and 10 Gy in C57Bl6 mice. These PB signatures predicted the radiation status of partially irradiated mice with a high level of accuracy (range 79-100% compared to non-irradiated mice. Interestingly, PB signatures of partial body irradiation were poorly predictive of radiation status by site of injury (range 16-43%, suggesting that the PB molecular response to partial body irradiation was anatomic site specific. Importantly, PB gene signatures generated from TBI-treated mice failed completely to predict the radiation status of partially irradiated animals or non-irradiated controls. These data demonstrate that partial body irradiation, even to a single limb, generates a characteristic PB signature of radiation injury and thus may necessitate the use of multiple signatures, both partial body and total body, to accurately assess the status of an individual exposed to radiation.

  16. Bioinformatics approach of three partial polyprenol reductase genes in Kandelia obovata

    Science.gov (United States)

    Basyuni, M.; Wati, R.; Sagami, H.; Oku, H.; Baba, S.

    2018-03-01

    This present study describesthe bioinformatics approach to analyze three partial polyprenol reductase genes from mangrove plant, Kandeliaobovataas well aspredictedphysical and chemical properties, potential peptide, subcellular localization, and phylogenetic. The diversity was noted in the physical and chemical properties of three partial polyprenol reductase genes. The values of chloroplast were relatively high, showed that chloroplast transit peptide occurred in mangrove polyprenol reductase. The target peptide value of mitochondria varied from 0.088 to 0.198 indicated it was possible to be present. These results suggested the importance of understanding the diversity of physicochemical properties of the different amino acids in polyprenol reductase. The subcellular localization of two partial genes located in the plasma membrane. To confirm the homology among the polyprenol reductase in the database, a dendrogram was drawn. The phylogenetic tree depicts that there are three clusters, the partial genes of K. obovata joined the largest one: C23157 was close to Ricinus communis polyprenol reductase. Whereas, C23901 and C24171 were grouped with Ipomoea nil polyprenol reductase, suggested that these polyprenol reductase genes form distinct separation into tropical habitat plants.

  17. Partial characterization of three β-defensin gene transcripts in river ...

    African Journals Online (AJOL)

    In this study, the tracheal tissues from Egyptian river buffalo and cattle were screened for the presence of three bovine β-defensin gene transcripts. Three primer pairs were designed on the basis of published Bos taurus sequences for partial amplification of β-defensin 4, β-defensin 10 and β-defensin 11 complementary DNA ...

  18. Specificity versus redundancy in the RAP2.4 transcription factor family of Arabidopsis thaliana: transcriptional regulation of genes for chloroplast peroxidases.

    Science.gov (United States)

    Rudnik, Radoslaw; Bulcha, Jote Tafese; Reifschneider, Elena; Ellersiek, Ulrike; Baier, Margarete

    2017-08-23

    The Arabidopsis ERFIb / RAP2.4 transcription factor family consists of eight members with highly conserved DNA binding domains. Selected members have been characterized individually, but a systematic comparison is pending. The redox-sensitive transcription factor RAP2.4a mediates chloroplast-to-nucleus redox signaling and controls induction of the three most prominent chloroplast peroxidases, namely 2-Cys peroxiredoxin A (2CPA) and thylakoid- and stromal ascorbate peroxidase (tAPx and sAPx). To test the specificity and redundancy of RAP2.4 transcription factors in the regulation of genes for chloroplast peroxidases, we compared the DNA-binding sites of the transcription factors in tertiary structure models, analyzed transcription factor and target gene regulation by qRT-PCR in RAP2.4, 2-Cys peroxiredoxin and ascorbate peroxidase T-DNA insertion lines and RAP2.4 overexpressing lines of Arabidopsis thaliana and performed promoter binding studies. All RAP2.4 proteins bound the tAPx promoter, but only the four RAP2.4 proteins with identical DNA contact sites, namely RAP2.4a, RAP2.4b, RAP2.4d and RAP2.4h, interacted stably with the redox-sensitive part of the 2CPA promoter. Gene expression analysis in RAP2.4 knockout lines revealed that RAP2.4a is the only one supporting 2CPA and chloroplast APx expression. Rap2.4h binds to the same promoter region as Rap2.4a and antagonizes 2CPA expression. Like the other six RAP2.4 proteins, Rap2.4 h promotes APx mRNA accumulation. Chloroplast ROS signals induced RAP2.4b and RAP2.4d expression, but these two transcription factor genes are (in contrast to RAP2.4a) insensitive to low 2CP availability, and their expression decreased in APx knockout lines. RAP2.4e and RAP2.4f gradually responded to chloroplast APx availability and activated specifically APx expression. These transcription factors bound, like RAP2.4c and RAP2.4g, the tAPx promoter, but hardly the 2CPA promoter. The RAP2.4 transcription factors form an environmentally and

  19. Partial least squares based gene expression analysis in estrogen receptor positive and negative breast tumors.

    Science.gov (United States)

    Ma, W; Zhang, T-F; Lu, P; Lu, S H

    2014-01-01

    Breast cancer is categorized into two broad groups: estrogen receptor positive (ER+) and ER negative (ER-) groups. Previous study proposed that under trastuzumab-based neoadjuvant chemotherapy, tumor initiating cell (TIC) featured ER- tumors response better than ER+ tumors. Exploration of the molecular difference of these two groups may help developing new therapeutic strategies, especially for ER- patients. With gene expression profile from the Gene Expression Omnibus (GEO) database, we performed partial least squares (PLS) based analysis, which is more sensitive than common variance/regression analysis. We acquired 512 differentially expressed genes. Four pathways were found to be enriched with differentially expressed genes, involving immune system, metabolism and genetic information processing process. Network analysis identified five hub genes with degrees higher than 10, including APP, ESR1, SMAD3, HDAC2, and PRKAA1. Our findings provide new understanding for the molecular difference between TIC featured ER- and ER+ breast tumors with the hope offer supports for therapeutic studies.

  20. Outbreak tracking of Aleutian mink disease virus (AMDV) using partial NS1 gene sequencing

    DEFF Research Database (Denmark)

    Ryt-Hansen, Pia; Hjulsager, Charlotte Kristiane; Hagberg, E. E.

    2017-01-01

    . However, in 2015, several outbreaks of AMDV occurred at mink farms throughout Denmark, and the sources of these outbreaks were not known. Partial NS1 gene sequencing, phylogenetic analyses data were utilized along with epidemiological to determine the origin of the outbreaks. The phylogenetic analyses...... not be excluded. This study confirmed that partial NS1 sequencing can be used in outbreak tracking to determine major viral clusters of AMDV. Using this method, two new distinct AMDV clusters with low intra-cluster sequence diversity were identified, and epidemiological data helped to reveal possible ways...

  1. Palpebral redundancy from hypothyroidism.

    Science.gov (United States)

    Wortsman, J; Wavak, P

    1980-01-01

    A patient is described with disabling palpebral edema. Primary hypothyroidism had been previously diagnosed and treated. Testing of thyroid function revealed persistence of the hypothyroidism. Treatment with L-thyroxine produced normalization of the biochemical parameters and resolution of palpebral edema. The search for hypothyrodism in patients with palpebral redundancy is emphasized.

  2. In Vivo Gene Therapy of Hemophilia B: Sustained Partial Correction in Factor IX-Deficient Dogs

    Science.gov (United States)

    Kay, Mark A.; Rothenberg, Steven; Landen, Charles N.; Bellinger, Dwight A.; Leland, Frances; Toman, Carol; Finegold, Milton; Thompson, Arthur R.; Read, M. S.; Brinkhous, Kenneth M.; Woo, Savio L. C.

    1993-10-01

    The liver represents a model organ for gene therapy. A method has been developed for hepatic gene transfer in vivo by the direct infusion of recombinant retroviral vectors into the portal vasculature, which results in the persistent expression of exogenous genes. To determine if these technologies are applicable for the treatment of hemophilia B patients, preclinical efficacy studies were done in a hemophilia B dog model. When the canine factor IX complementary DNA was transduced directly into the hepatocytes of affected dogs in vivo, the animals constitutively expressed low levels of canine factor IX for more than 5 months. Persistent expression of the clotting. factor resulted in reductions of whole blood clotting and partial thromboplastin times of the treated animals. Thus, long-term treatment of hemophilia B patients may be feasible by direct hepatic gene therapy in vivo.

  3. Directed partial correlation: inferring large-scale gene regulatory network through induced topology disruptions.

    Directory of Open Access Journals (Sweden)

    Yinyin Yuan

    Full Text Available Inferring regulatory relationships among many genes based on their temporal variation in transcript abundance has been a popular research topic. Due to the nature of microarray experiments, classical tools for time series analysis lose power since the number of variables far exceeds the number of the samples. In this paper, we describe some of the existing multivariate inference techniques that are applicable to hundreds of variables and show the potential challenges for small-sample, large-scale data. We propose a directed partial correlation (DPC method as an efficient and effective solution to regulatory network inference using these data. Specifically for genomic data, the proposed method is designed to deal with large-scale datasets. It combines the efficiency of partial correlation for setting up network topology by testing conditional independence, and the concept of Granger causality to assess topology change with induced interruptions. The idea is that when a transcription factor is induced artificially within a gene network, the disruption of the network by the induction signifies a genes role in transcriptional regulation. The benchmarking results using GeneNetWeaver, the simulator for the DREAM challenges, provide strong evidence of the outstanding performance of the proposed DPC method. When applied to real biological data, the inferred starch metabolism network in Arabidopsis reveals many biologically meaningful network modules worthy of further investigation. These results collectively suggest DPC is a versatile tool for genomics research. The R package DPC is available for download (http://code.google.com/p/dpcnet/.

  4. Isolation, cloning, and characterization of a partial novel aro A gene in common reed (Phragmites australis).

    Science.gov (United States)

    Taravat, Elham; Zebarjadi, Alireza; Kahrizi, Danial; Yari, Kheirollah

    2015-05-01

    Among the essential amino acids, phenylalanine, tryptophan, and tyrosine are aromatic amino acids which are synthesized by the shikimate pathway in plants and bacteria. Herbicide glyphosate can inhibit the biosynthesis of these amino acids. So, identification of the gene tolerant to glyphosate is very important. It has been shown that the common reed or Phragmites australis Cav. (Poaceae) is relatively tolerant to glyphosate. The aim of the current research is identification, cloning, sequencing, and registering of partial aro A gene of the common reed P. australis. The partial aro A gene of common reed (P. australis) was cloned in Escherichia coli and the amino acid sequence was identified/determined for the first time. This is the first report for isolation, cloning, and sequencing of a part of aro A gene from the common reed. A 670 bp fragment including two introns (86 bp and 289 bp) was obtained. The open reading frame (ORF) region in part of gene was encoded for 98 amino acids. Alignment showed high similarity among this region with Zea mays (L.) (Poaceae) (94.6%), Eleusine indica L. Gaertn (Poaceae) (94.2%), and Zoysia japonica Steud. (Poaceae) (94.2%). The alignment of amino acid sequence of the investigated part of the gene showed a homology with aro A from several other plants. This conserved region forms the enzyme active site. The alignment results of nucleotide and amino acid residues with related sequences showed that there are some differences among them. The relative glyphosate tolerance in the common reed may be related to these differences.

  5. Phylogenetic relationships of seven previously unclassified viruses within the family Rhabdoviridae using partial nucleoprotein gene sequences.

    Science.gov (United States)

    Kuzmin, I V; Hughes, G J; Rupprecht, C E

    2006-08-01

    Partial nucleoprotein (N) gene sequences of the rhabdoviruses Obodhiang (OBOV), Kotonkon (KOTV), Rochambeau (RBUV), Kern canyon (KCV), Mount Elgon bat (MEBV), Kolongo (KOLV) and Sandjimba (SJAV) were generated and their phylogenetic positions within the family Rhabdoviridae were determined. Both OBOV and KOTV were placed within the genus Ephemerovirus. RBUV was joined to the same cluster, but more distantly. MEBV and KCV were grouped into a monophyletic cluster (putative genus) with Oita virus (OITAV). These three viruses, originating from different regions of the world, were all isolated from insectivorous bats and may be specific for these mammals. African avian viruses KOLV and SJAV were joined to each other and formed another clade at the genus level. Further, they were grouped with the recently characterized rhabdovirus Tupaia virus (TRV). Although the genetic distance was great, the grouping was supported by consistent bootstrap values. This observation suggests that viruses of this group may be distributed widely in the Old World. Non-synonymous/synonymous substitution ratio estimations (dN/dS) using a partial N gene fragment (241 codons) for the three rhabdovirus genera revealed contrasting patterns of evolution, where dN/dS values follow the pattern Ephemerovirus > Vesiculovirus > Lyssavirus. The magnitude of this ratio corresponds well with the number of negatively selected codons. The accumulation of dS appears evenly distributed along the gene fragment for all three genera. These estimations demonstrated clearly that lyssaviruses are subjected to the strongest constraints against amino acid substitutions, probably related to their particular niche and unique pathobiology.

  6. Partial Gene Cloning and Enzyme Structure Modeling of Exolevanase Fragment from Bacillus subtilis

    Science.gov (United States)

    Azhar, M.; Natalia, D.; Syukur, S.; Andriani, N.; Jamsari, J.

    2018-04-01

    Inulin hydrolysis thermophilic and thermotolerant bacteria are potential sources of inulin hydrolysis enzymes. Partial gene that encodes inulin hydrolysis enzymes had been isolated from Bacillus subtilis using polymerase chain reaction (PCR) method with the DPE.slFandDPE.eR degenerative primers. The partial gene was cloned into pGEM-T Easy vector with E. coli as host cells and analyzed using BLASTx, CrustalW2, and Phyre2 programs. Size of thepartial gene had been found539 bp that encoded 179aminoacid residues of protein fragment. The sequences of protein fragment was more similar to exolevanase than exoinulinase. The protein fragment had conserved motif FSGS, and specific hits GH32 β-fructosidase. It had three residues of active site and five residues of substrate binding. The active site on the protein fragment were D (1-WLNDP-5), D (125-FRDPK-129) and E (177-WEC-179). Substrate binding on the protein fragment were ND (1-WLNDP-5), Q (18-FYQY-21), FS (60-FSGS-63) RD (125-FRDPK-129) and E (177-WEC-179).

  7. Globicatella sanguinis bacteraemia identified by partial 16S rRNA gene sequencing

    DEFF Research Database (Denmark)

    Abdul-Redha, Rawaa Jalil; Balslew, Ulla; Christensen, Jens Jørgen

    2007-01-01

    Globicatella sanguinis is a gram-positive coccus, resembling non-haemolytic streptococci. The organism has been isolated infrequently from normally sterile sites of humans. Three isolates obtained by blood culture could not be identified by Rapid 32 ID Strep, but partial sequencing of the 16S r......RNA gene revealed the identity of the isolated bacteria, and supplementary biochemical tests confirmed the species identification. The cases histories illustrate the dilemma of finding relevant, newly recognized, opportunistic pathogens and the identification achievement (s) that can be obtained by using...

  8. PPARγ partial agonist GQ-16 strongly represses a subset of genes in 3T3-L1 adipocytes

    Energy Technology Data Exchange (ETDEWEB)

    Milton, Flora Aparecida [Faculdade de Ciências da Saúde, Laboratório de Farmacologia Molecular, Universidade de Brasília (Brazil); Genomic Medicine, Houston Methodist Research Institute, Houston, TX (United States); Cvoro, Aleksandra [Genomic Medicine, Houston Methodist Research Institute, Houston, TX (United States); Amato, Angelica A. [Faculdade de Ciências da Saúde, Laboratório de Farmacologia Molecular, Universidade de Brasília (Brazil); Sieglaff, Douglas H.; Filgueira, Carly S.; Arumanayagam, Anithachristy Sigamani [Genomic Medicine, Houston Methodist Research Institute, Houston, TX (United States); Caro Alves de Lima, Maria do; Rocha Pitta, Ivan [Laboratório de Planejamento e Síntese de Fármacos – LPSF, Universidade Federal de Pernambuco (Brazil); Assis Rocha Neves, Francisco de [Faculdade de Ciências da Saúde, Laboratório de Farmacologia Molecular, Universidade de Brasília (Brazil); Webb, Paul, E-mail: pwebb@HoustonMethodist.org [Genomic Medicine, Houston Methodist Research Institute, Houston, TX (United States)

    2015-08-28

    Thiazolidinediones (TZDs) are peroxisome proliferator-activated receptor gamma (PPARγ) agonists that improve insulin resistance but trigger side effects such as weight gain, edema, congestive heart failure and bone loss. GQ-16 is a PPARγ partial agonist that improves glucose tolerance and insulin sensitivity in mouse models of obesity and diabetes without inducing weight gain or edema. It is not clear whether GQ-16 acts as a partial agonist at all PPARγ target genes, or whether it displays gene-selective actions. To determine how GQ-16 influences PPARγ activity on a gene by gene basis, we compared effects of rosiglitazone (Rosi) and GQ-16 in mature 3T3-L1 adipocytes using microarray and qRT-PCR. Rosi changed expression of 1156 genes in 3T3-L1, but GQ-16 only changed 89 genes. GQ-16 generally showed weak effects upon Rosi induced genes, consistent with partial agonist actions, but a subset of modestly Rosi induced and strongly repressed genes displayed disproportionately strong GQ-16 responses. PPARγ partial agonists MLR24 and SR1664 also exhibit disproportionately strong effects on transcriptional repression. We conclude that GQ-16 displays a continuum of weak partial agonist effects but efficiently represses some negatively regulated PPARγ responsive genes. Strong repressive effects could contribute to physiologic actions of GQ-16. - Highlights: • GQ-16 is an insulin sensitizing PPARγ ligand with reduced harmful side effects. • GQ-16 displays a continuum of weak partial agonist activities at PPARγ-induced genes. • GQ-16 exerts strong repressive effects at a subset of genes. • These inhibitor actions should be evaluated in models of adipose tissue inflammation.

  9. PPARγ partial agonist GQ-16 strongly represses a subset of genes in 3T3-L1 adipocytes

    International Nuclear Information System (INIS)

    Milton, Flora Aparecida; Cvoro, Aleksandra; Amato, Angelica A.; Sieglaff, Douglas H.; Filgueira, Carly S.; Arumanayagam, Anithachristy Sigamani; Caro Alves de Lima, Maria do; Rocha Pitta, Ivan; Assis Rocha Neves, Francisco de; Webb, Paul

    2015-01-01

    Thiazolidinediones (TZDs) are peroxisome proliferator-activated receptor gamma (PPARγ) agonists that improve insulin resistance but trigger side effects such as weight gain, edema, congestive heart failure and bone loss. GQ-16 is a PPARγ partial agonist that improves glucose tolerance and insulin sensitivity in mouse models of obesity and diabetes without inducing weight gain or edema. It is not clear whether GQ-16 acts as a partial agonist at all PPARγ target genes, or whether it displays gene-selective actions. To determine how GQ-16 influences PPARγ activity on a gene by gene basis, we compared effects of rosiglitazone (Rosi) and GQ-16 in mature 3T3-L1 adipocytes using microarray and qRT-PCR. Rosi changed expression of 1156 genes in 3T3-L1, but GQ-16 only changed 89 genes. GQ-16 generally showed weak effects upon Rosi induced genes, consistent with partial agonist actions, but a subset of modestly Rosi induced and strongly repressed genes displayed disproportionately strong GQ-16 responses. PPARγ partial agonists MLR24 and SR1664 also exhibit disproportionately strong effects on transcriptional repression. We conclude that GQ-16 displays a continuum of weak partial agonist effects but efficiently represses some negatively regulated PPARγ responsive genes. Strong repressive effects could contribute to physiologic actions of GQ-16. - Highlights: • GQ-16 is an insulin sensitizing PPARγ ligand with reduced harmful side effects. • GQ-16 displays a continuum of weak partial agonist activities at PPARγ-induced genes. • GQ-16 exerts strong repressive effects at a subset of genes. • These inhibitor actions should be evaluated in models of adipose tissue inflammation

  10. A Partial Least Square Approach for Modeling Gene-gene and Gene-environment Interactions When Multiple Markers Are Genotyped

    Science.gov (United States)

    Wang, Tao; Ho, Gloria; Ye, Kenny; Strickler, Howard; Elston, Robert C.

    2008-01-01

    Genetic association studies achieve an unprecedented level of resolution in mapping disease genes by genotyping dense SNPs in a gene region. Meanwhile, these studies require new powerful statistical tools that can optimally handle a large amount of information provided by genotype data. A question that arises is how to model interactions between two genes. Simply modeling all possible interactions between the SNPs in two gene regions is not desirable because a greatly increased number of degrees of freedom can be involved in the test statistic. We introduce an approach to reduce the genotype dimension in modeling interactions. The genotype compression of this approach is built upon the information on both the trait and the cross-locus gametic disequilibrium between SNPs in two interacting genes, in such a way as to parsimoniously model the interactions without loss of useful information in the process of dimension reduction. As a result, it improves power to detect association in the presence of gene-gene interactions. This approach can be similarly applied for modeling gene-environment interactions. We compare this method with other approaches: the corresponding test without modeling any interaction, that based on a saturated interaction model, that based on principal component analysis, and that based on Tukey’s 1-df model. Our simulations suggest that this new approach has superior power to that of the other methods. In an application to endometrial cancer case-control data from the Women’s Health Initiative (WHI), this approach detected AKT1 and AKT2 as being significantly associated with endometrial cancer susceptibility by taking into account their interactions with BMI. PMID:18615621

  11. Partial duplication of the APBA2 gene in chromosome 15q13 corresponds to duplicon structures

    Directory of Open Access Journals (Sweden)

    Kesterson Robert A

    2003-04-01

    Full Text Available Abstract Background Chromosomal abnormalities affecting human chromosome 15q11-q13 underlie multiple genomic disorders caused by deletion, duplication and triplication of intervals in this region. These events are mediated by highly homologous segments of DNA, or duplicons, that facilitate mispairing and unequal cross-over in meiosis. The gene encoding an amyloid precursor protein-binding protein (APBA2 was previously mapped to the distal portion of the interval commonly deleted in Prader-Willi and Angelman syndromes and duplicated in cases of autism. Results We show that this gene actually maps to a more telomeric location and is partially duplicated within the broader region. Two highly homologous copies of an interval containing a large 5' exon and downstream sequence are located ~5 Mb distal to the intact locus. The duplicated copies, containing the first coding exon of APBA2, can be distinguished by single nucleotide sequence differences and are transcriptionally inactive. Adjacent to APBA2 maps a gene termed KIAA0574. The protein encoded by this gene is weakly homologous to a protein termed X123 that in turn maps adjacent to APBA1 on 9q21.12; APBA1 is highly homologous to APBA2 in the C-terminal region and is distinguished from APBA2 by the N-terminal region encoded by this duplicated exon. Conclusion The duplication of APBA2 sequences in this region adds to a complex picture of different low copy repeats present across this region and elsewhere on the chromosome.

  12. Software engineering : redundancy is key

    NARCIS (Netherlands)

    Brand, van den M.G.J.; Groote, J.F.

    2015-01-01

    Software engineers are humans and so they make lots of mistakes. Typically 1 out of 10 to 100 tasks go wrong. The only way to avoid these mistakes is to introduce redundancy in the software engineering process. This article is a plea to consciously introduce several levels of redundancy for each

  13. DNA methylation dynamics in the rat EGF gene promoter after partial hepatectomy

    Directory of Open Access Journals (Sweden)

    Deming Li

    2014-06-01

    Full Text Available Epidermal growth factor (EGF, a multifunctional growth factor, is a regulator in a wide variety of physiological processes. EGF plays an important role in the regulation of liver regeneration. This study was aimed at investigating the methylation level of EGF gene throughout liver regeneration. DNA of liver tissue from control rats and partial hepatectomy (PH rats at 10 time points was extracted and a 354 bp fragment including 10 CpG sites from the transcription start was amplified after DNA was modified by sodium bisulfate. The result of sequencing suggested that methylation ratio of four CpG sites was found to be significantly changed when PH group was compared to control group, in particular two of them were extremely striking. mRNA expression of EGF was down-regulated in total during liver regeneration. We think that the rat EGF promoter region is regulated by variation in DNA methylation during liver regeneration.

  14. Synergy and redundancy in the Granger causal analysis of dynamical networks

    International Nuclear Information System (INIS)

    Stramaglia, Sebastiano; M Cortes, Jesus; Marinazzo, Daniele

    2014-01-01

    We analyze, by means of Granger causality (GC), the effect of synergy and redundancy in the inference (from time series data) of the information flow between subsystems of a complex network. While we show that fully conditioned GC (CGC) is not affected by synergy, the pairwise analysis fails to prove synergetic effects. In cases when the number of samples is low, thus making the fully conditioned approach unfeasible, we show that partially conditioned GC (PCGC) is an effective approach if the set of conditioning variables is properly chosen. Here we consider two different strategies (based either on informational content for the candidate driver or on selecting the variables with highest pairwise influences) for PCGC and show that, depending on the data structure, either one or the other might be equally valid. On the other hand, we observe that fully conditioned approaches do not work well in the presence of redundancy, thus suggesting the strategy of separating the pairwise links in two subsets: those corresponding to indirect connections of the CGC (which should thus be excluded) and links that can be ascribed to redundancy effects and, together with the results from the fully connected approach, provide a better description of the causality pattern in the presence of redundancy. Finally we apply these methods to two different real datasets. First, analyzing electrophysiological data from an epileptic brain, we show that synergetic effects are dominant just before seizure occurrences. Second, our analysis applied to gene expression time series from HeLa culture shows that the underlying regulatory networks are characterized by both redundancy and synergy. (paper)

  15. Gene Expression Responses to FUS, EWS, and TAF15 Reduction and Stress Granule Sequestration Analyses Identifies FET-Protein Non-Redundant Functions

    DEFF Research Database (Denmark)

    Blechingberg, Jenny; Luo, Yonglun; Bolund, Lars

    2012-01-01

    The FET family of proteins is composed of FUS/TLS, EWS/EWSR1, and TAF15 and possesses RNA- and DNA-binding capacities. The FET-proteins are involved in transcriptional regulation and RNA processing, and FET-gene deregulation is associated with development of cancer and protein granule formations...... in amyotrophic lateral sclerosis, frontotemporal lobar degeneration, and trinucleotide repeat expansion diseases. We here describe a comparative characterization of FET-protein localization and gene regulatory functions. We show that FUS and TAF15 locate to cellular stress granules to a larger extend than EWS....... FET-proteins have no major importance for stress granule formation and cellular stress responses, indicating that FET-protein stress granule association most likely is a downstream response to cellular stress. Gene expression analyses showed that the cellular response towards FUS and TAF15 reduction...

  16. Human genetics of infectious diseases: Unique insights into immunological redundancy.

    Science.gov (United States)

    Casanova, Jean-Laurent; Abel, Laurent

    2018-04-01

    For almost any given human-tropic virus, bacterium, fungus, or parasite, the clinical outcome of primary infection is enormously variable, ranging from asymptomatic to lethal infection. This variability has long been thought to be largely determined by the germline genetics of the human host, and this is increasingly being demonstrated to be the case. The number and diversity of known inborn errors of immunity is continually increasing, and we focus here on autosomal and X-linked recessive traits underlying complete deficiencies of the encoded protein. Schematically, four types of infectious phenotype have been observed in individuals with such deficiencies, each providing information about the redundancy of the corresponding human gene, in terms of host defense in natural conditions. The lack of a protein can confer vulnerability to a broad range of microbes in most, if not all patients, through the disruption of a key immunological component. In such cases, the gene concerned is of low redundancy. However, the lack of a protein may also confer vulnerability to a narrow range of microbes, sometimes a single pathogen, and not necessarily in all patients. In such cases, the gene concerned is highly redundant. Conversely, the deficiency may be apparently neutral, conferring no detectable predisposition to infection in any individual. In such cases, the gene concerned is completely redundant. Finally, the lack of a protein may, paradoxically, be advantageous to the host, conferring resistance to one or more infections. In such cases, the gene is considered to display beneficial redundancy. These findings reflect the current state of evolution of humans and microbes, and should not be considered predictive of redundancy, or of a lack of redundancy, in the distant future. Nevertheless, these observations are of potential interest to present-day biologists testing immunological hypotheses experimentally and physicians managing patients with immunological or infectious

  17. Quantum redundancies and local realism

    International Nuclear Information System (INIS)

    Horodecki, R.; Horodecki, P.

    1994-01-01

    The basic properties of quantum redundancies are presented. The previous definitions of the informationally coherent quantum (ICQ) system are generalized in terms of the redundancies. The ICQ systems are also considered in the context of local realism in terms of the information integrity factor η. The classical region η≤qslant[1]/[2] for the two classes of mixed, nonfactorizable states admitting the local hidden variable model is found. ((orig.))

  18. The long-term outcome of boys with partial androgen insensitivity syndrome and a mutation in the androgen receptor gene

    NARCIS (Netherlands)

    Lucas-Herald, A.; S. Bertelloni (Silvano); A. Juul (Anders); J. Bryce (Jillian); Jiang, J.; M. Rodie (Martina); R. Sinnott (Richard); Boroujerdi, M.; Lindhardt Johansen, M.; O. Hiort (Olaf); P-M. Holterhus (Paul-Martin); M.L. Cools (Martine); Guaragna-Filho, G.; Guerra-Junior, G.; N. Weintrob (Naomi); S.E. Hannema (Sabine); S.L.S. Drop (Stenvert); T. Guran (Tulay); F. Darendeliler (Feyza); A. Nordenström (Anna); I.A. Hughes (Ieuan A.); Acerini, C.; Tadokoro-Cuccaro, R.; S.F. Ahmed (Faisal)

    2016-01-01

    textabstractBackground: In boys with suspected partial androgen insensitivity syndrome (PAIS), systematic evidence that supports the long-term prognostic value of identifying a mutation in the androgen receptor gene (AR) is lacking. Objective: To assess the clinical characteristics and long-term

  19. Molecular typing of canine parvovirus from Sulaimani, Iraq and phylogenetic analysis using partial VP2 gene

    Directory of Open Access Journals (Sweden)

    M.O.Baba Sheikh

    2017-09-01

    Full Text Available Canine parvovirus (CPV remains the most significant viral cause of haemorrhagic enteritis and bloody diarrhoea in puppies over the age of 12 weeks. The objective of the present study was to detect and genotype CPV-2 by polymerase chain reaction (PCR and to perform phylogenetic analysis using partial VP2 gene sequences. We analysed eight faecal samples of unvaccinated dogs with signs of vomiting and bloody diarrhoea during the period from December 2013 to May 2014 in different locations in Sulaimani, Kurdistan, Iraq. After PCR detection, we found that all viral sequences in our study were CPV-2b variants, which differed genetically by 0.8% to 3.6% from five commercially available vaccines. Alignment between eight nucleotides of field virus sequences showed 95% to 99.5% similarity. The phylogenetic analysis for the 8 field sequences formed two distinct clusters with two sequences belonging to strains from China and Thailand and the other six – with a strain from Egypt. Molecular characterisation and CPV typing are crucial in epidemiological studies for future prevention and control of the disease.

  20. Overproduction and partial purification of the Norrie disease gene product, norrin, from a recombinant baculovirus.

    Science.gov (United States)

    Shastry, Barkur S; Trese, Michael T

    2003-12-05

    Abnormal vascularization of the peripheral retina and retinal detachment are common clinical characteristics of Norrie disease (ND), familial exudative vitreoretinopathy, Coats' disease, and retinopathy of prematurity. Although little is known about the molecular basis of these diseases, studies have shown that all of these diseases are associated with mutations in the ND gene. In spite of this, little is known about norrin, its molecular mechanism of action, and its functional relationship with the development of abnormal retinal vasculature. To obtain a large quantity of norrin for structural and functional studies, we have overproduced it in insect cells. For this purpose, a cDNA fragment (869 bp) was isolated from a human retinal cDNA library by amplification and was cloned into an expression vector. The purified plasmid was co-transfected with wild-type linearized Bac-N-Blue DNA into S. frugiperda Sf21 insect cells. The recombinant virus plaques were purified and clones were selected based on the level of recombinant protein expressed in Sf21 cells infected with a purified recombinant virus. From these, a high-titer stock was generated and subsequently used to prepare a fused protein on a large scale. The protein was partially purified by the process of immobilized metal affinity chromatography and the use of ion exchange chromatography

  1. Changes in Gene Expression of Arabidopsis Thaliana Cell Cultures Upon Exposure to Real and Simulated Partial- g Forces

    Science.gov (United States)

    Fengler, Svenja; Spirer, Ina; Neef, Maren; Ecke, Margret; Hauslage, Jens; Hampp, Rüdiger

    2016-06-01

    Cell cultures of the plant model organism Arabidopsis thaliana were exposed to partial- g forces during parabolic flight and clinostat experiments (0.16 g, 0.38 g and 0.5 g were tested). In order to investigate gravity-dependent alterations in gene expression, samples were metabolically quenched by the fixative RNA later Ⓡ to stabilize nucleic acids and used for whole-genome microarray analysis. An attempt to identify the potential threshold acceleration for the gravity-dependent response showed that the smaller the experienced g-force, the greater was the susceptibility of the cell cultures. Compared to short-term μ g during a parabolic flight, the number of differentially expressed genes under partial- g was lower. In addition, the effect on the alteration of amounts of transcripts decreased during partial- g parabolic flight due to the sequence of the different parabolas (0.38 g, 0.16 g and μ g). A time-dependent analysis under simulated 0.5 g indicates that adaptation occurs within minutes. Differentially expressed genes (at least 2-fold up- or down-regulated in expression) under real flight conditions were to some extent identical with those affected by clinorotation. The highest number of homologuous genes was detected within seconds of exposure to 0.38 g (both flight and clinorotation). To a considerable part, these genes deal with cell wall properties. Additionally, responses specific for clinorotation were observed.

  2. The cellular robustness by genetic redundancy in budding yeast.

    Directory of Open Access Journals (Sweden)

    Jingjing Li

    2010-11-01

    Full Text Available The frequent dispensability of duplicated genes in budding yeast is heralded as a hallmark of genetic robustness contributed by genetic redundancy. However, theoretical predictions suggest such backup by redundancy is evolutionarily unstable, and the extent of genetic robustness contributed from redundancy remains controversial. It is anticipated that, to achieve mutual buffering, the duplicated paralogs must at least share some functional overlap. However, counter-intuitively, several recent studies reported little functional redundancy between these buffering duplicates. The large yeast genetic interactions released recently allowed us to address these issues on a genome-wide scale. We herein characterized the synthetic genetic interactions for ∼500 pairs of yeast duplicated genes originated from either whole-genome duplication (WGD or small-scale duplication (SSD events. We established that functional redundancy between duplicates is a pre-requisite and thus is highly predictive of their backup capacity. This observation was particularly pronounced with the use of a newly introduced metric in scoring functional overlap between paralogs on the basis of gene ontology annotations. Even though mutual buffering was observed to be prevalent among duplicated genes, we showed that the observed backup capacity is largely an evolutionarily transient state. The loss of backup capacity generally follows a neutral mode, with the buffering strength decreasing in proportion to divergence time, and the vast majority of the paralogs have already lost their backup capacity. These observations validated previous theoretic predictions about instability of genetic redundancy. However, departing from the general neutral mode, intriguingly, our analysis revealed the presence of natural selection in stabilizing functional overlap between SSD pairs. These selected pairs, both WGD and SSD, tend to have decelerated functional evolution, have higher propensities of co

  3. Dissection of two soybean QTL conferring partial resistance to Phytophthora sojae through sequence and gene expression analysis

    Directory of Open Access Journals (Sweden)

    Wang Hehe

    2012-08-01

    Full Text Available Abstract Background Phytophthora sojae is the primary pathogen of soybeans that are grown on poorly drained soils. Race-specific resistance to P. sojae in soybean is gene-for-gene, although in many areas of the US and worldwide there are populations that have adapted to the most commonly deployed resistance to P. sojae ( Rps genes. Hence, this system has received increased attention towards identifying mechanisms and molecular markers associated with partial resistance to this pathogen. Several quantitative trait loci (QTL have been identified in the soybean cultivar ‘Conrad’ that contributes to the expression of partial resistance to multiple P. sojae isolates. Results In this study, two of the Conrad QTL on chromosome 19 were dissected through sequence and expression analysis of genes in both resistant (Conrad and susceptible (‘Sloan’ genotypes. There were 1025 single nucleotide polymorphisms (SNPs in 87 of 153 genes sequenced from Conrad and Sloan. There were 304 SNPs in 54 genes sequenced from Conrad compared to those from both Sloan and Williams 82, of which 11 genes had SNPs unique to Conrad. Eleven of 19 genes in these regions analyzed with qRT-PCR had significant differences in fold change of transcript abundance in response to infection with P. sojae in lines with QTL haplotype from the resistant parent compared to those with the susceptible parent haplotype. From these, 8 of the 11 genes had SNPs in the upstream, untranslated region, exon, intron, and/or downstream region. These 11 candidate genes encode proteins potentially involved in signal transduction, hormone-mediated pathways, plant cell structural modification, ubiquitination, and basal resistance. Conclusions These findings may indicate a complex defense network with multiple mechanisms underlying these two soybean QTL conferring resistance to P. sojae. SNP markers derived from these candidate genes can contribute to fine mapping of QTL and marker assisted breeding for

  4. Transcriptome analysis highlights defense and signaling pathways mediated by rice pi21 gene with partial resistance to Magnaporthe oryzae

    Directory of Open Access Journals (Sweden)

    Yu Zhang

    2016-12-01

    Full Text Available Rice blast disease is one of the most destructive rice diseases worldwide. The pi21 gene confers partial and durable resistance to Magnaporthe oryzae. However, little is known regarding the molecular mechanisms of resistance mediated by the loss-of-function of Pi21. In this study, comparative transcriptome profiling of the Pi21-RNAi transgenic rice line and Nipponbare with M. oryzae infection at different time points (0, 12, 24, 48, and 72 hpi were investigated using RNA sequencing. The results generated 43,222 unique genes mapped to the rice genome. In total, 1,109 differentially expressed genes (DEGs were identified between the Pi21-RNAi line and Nipponbare with M. oryzae infection, with 103, 281, 209, 69, and 678 DEGs at 0, 12, 24, 48, and 72 hpi, respectively. Functional analysis showed that most of the DEGs were involved in metabolism, transport, signaling, and defense. Among the genes assigned to plant–pathogen interaction, we identified 43 receptor kinase genes associated with pathogen-associated molecular pattern recognition and calcium ion influx. The expression levels of brassinolide-insensitive 1, flagellin sensitive 2 and elongation factor Tu receptor, ethylene (ET biosynthesis and signaling genes, were higher in the Pi21-RNAi line than Nipponbare. This suggested that there was a more robust PTI response in Pi21-RNAi plants and that ET signaling was important to rice blast resistance. We also identified 53 transcription factor genes, including WRKY, NAC, DOF, and ERF families that show differential expression between the two genotypes. This study highlights possible candidate genes that may serve a function in the partial rice blast resistance mediated by the loss-of-function of Pi21 and increase our understanding of the molecular mechanisms involved in partial resistance against M. oryzae.

  5. Memoization in Type-Directed Partial Evaluation

    DEFF Research Database (Denmark)

    Balat, Vincent; Danvy, Olivier

    2002-01-01

    the functions and type-directed partial evaluation provides a convenient setting to obtain the normal form of their composition. However, off-the-shelf type-directed partial evaluation turns out to yield gigantic normal forms. We identify that this gigantism is due to redundancies, and that these redundancies...

  6. Evaluation of retinoids for induction of the redundant gene ABCD2 as an alternative treatment option in X-linked adrenoleukodystrophy.

    Directory of Open Access Journals (Sweden)

    Franziska D Weber

    Full Text Available X-linked adrenoleukodystrophy (X-ALD, the most common peroxisomal disorder, is a clinically heterogeneous disease that can manifest as devastating inflammatory cerebral demyelination (CALD leading to death of affected males. Currently, the only curative treatment is allogeneic hematopoietic stem cell transplantation (HSCT. However, HSCT is only effective when performed at an early stage because the inflammation may progress for eighteen months after HSCT. Thus, alternative treatment options able to immediately halt the progression are urgently needed. X-ALD is caused by mutations in the ABCD1 gene, encoding the peroxisomal membrane protein ABCD1, resulting in impaired very long-chain fatty acid metabolism. The related ABCD2 protein is able to functionally compensate for ABCD1-deficiency both in vitro and in vivo. Recently, we demonstrated that of the cell types derived from CD34+ stem cells, predominantly monocytes but not lymphocytes are metabolically impaired in X-ALD. As ABCD2 is virtually not expressed in these cells, we hypothesize that a pharmacological up-regulation of ABCD2 should compensate metabolically and halt the inflammation in CALD. Retinoids are anti-inflammatory compounds known to act on ABCD2. Here, we investigated the capacity of selected retinoids for ABCD2 induction in human monocytes/macrophages. In THP-1 cells, 13-cis-retinoic acid reached the highest, fivefold, increase in ABCD2 expression. To test the efficacy of retinoids in vivo, we analyzed ABCD2 mRNA levels in blood cells isolated from acne patients receiving 13-cis-retinoic acid therapy. In treated acne patients, ABCD2 mRNA levels were comparable to pre-treatment levels in monocytes and lymphocytes. Nevertheless, when primary monocytes were in vitro differentiated into macrophages and treated with 13-cis-retinoic acid, we observed a fourfold induction of ABCD2. However, the level of ABCD2 induction obtained by retinoids alone is probably not of therapeutic relevance

  7. Partial Sequence Analysis of Merozoite Surface Proteine-3α Gene in Plasmodium vivax Isolates from Malarious Areas of Iran

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    H Mirhendi

    2008-12-01

    Full Text Available Background: Approximately 85-90% of malaria infections in Iran are attributed to Plasmodium vivax, while little is known about the genetic of the parasite and its strain types in this region. This study was designed and performed for describing genetic characteristics of Plasmodium vivax population of Iran based on the merozoite surface protein-3α gene sequence. Methods: Through a descriptive study we analyzed partial P. vivax merozoite surface protein-3α gene sequences from 17 clinical P. vivax isolates collected from malarious areas of Iran. Genomic DNA was extracted by Q1Aamp® DNA blood mini kit, amplified through nested PCR for a partial nucleotide sequence of PvMSP-3 gene in P. vivax. PCR-amplified products were sequenced with an ABI Prism Perkin-Elmer 310 sequencer machine and the data were analyzed with clustal W software. Results: Analysis of PvMSP-3 gene sequences demonstrated extensive polymorphisms, but the sequence identity between isolates of same types was relatively high. We identified specific insertions and deletions for the types A, B and C variants of P. vivax in our isolates. In phylogenetic comparison of geographically separated isolates, there was not a significant geo­graphical branching of the parasite populations. Conclusion: The highly polymorphic nature of isolates suggests that more investigations of the PvMSP-3 gene are needed to explore its vaccine potential.

  8. Absence of association between major vault protein (MVP) gene polymorphisms and drug resistance in Chinese Han patients with partial epilepsy.

    Science.gov (United States)

    Zhou, Luo; Zhang, Mengqi; Long, Hongyu; Long, Lili; Xie, Yuanyuan; Liu, Zhaoqian; Kang, Jin; Chen, Qihua; Feng, Li; Xiao, Bo

    2015-11-15

    Drug resistance in epilepsy is common despite many antiepileptic drugs (AEDs) available for treatment. The development of drug resistant epilepsy may be a result of multiple factors. Several previous studies reported that the major vault protein (MVP) was significantly increased in epileptogenic brain tissues resected from patients with partial-onset seizures, indicating the possible involvement of MVP in drug resistance. In this article, we aimed to identify the association between single nucleotide polymorphisms (SNPs) of MVP gene and drug resistance of partial epilepsy in a Chinese Han population. A total of 510 patients with partial-onset seizures and 206 healthy controls were recruited. Among the patients, 222 were drug resistant and 288 were responsive. The selection of tagging SNPs was based on the Hapmap database and Haploview software and the genotyping was conducted on the Sequenom MassARRAY iPLEX platform. For the selected loci rs12149746, rs9938630 and rs4788186 in the MVP gene, there was no significant difference in allele or genotype distribution between the drug resistant and responsive groups, or between all of the patients and healthy controls. Linkage disequilibrium between any two loci was detected but there was no significant difference in haplotype frequency between the drug resistant and responsive groups. Our results suggest that MVP genetic polymorphisms and haplotypes may not be associated with drug resistance of partial epilepsy in the Chinese Han population. Copyright © 2015 Elsevier B.V. All rights reserved.

  9. Cloning of partial cry1Ac gene from an indigenous isolate of Bacillus ...

    African Journals Online (AJOL)

    The discoveries of novel cry genes of Bacillus thuringiensis (Bt) with higher toxicity are important for the development of new products. The cry1 family genes are more toxic to the lepidopteran insects according to the previous reports. In the present study, nine indigenous isolates of Bt were used for screening of cry1 genes ...

  10. Comparative genomic analysis of the arthropod muscle myosin heavy chain genes allows ancestral gene reconstruction and reveals a new type of 'partially' processed pseudogene

    Directory of Open Access Journals (Sweden)

    Kollmar Martin

    2008-02-01

    Full Text Available Abstract Background Alternative splicing of mutually exclusive exons is an important mechanism for increasing protein diversity in eukaryotes. The insect Mhc (myosin heavy chain gene produces all different muscle myosins as a result of alternative splicing in contrast to most other organisms of the Metazoa lineage, that have a family of muscle genes with each gene coding for a protein specialized for a functional niche. Results The muscle myosin heavy chain genes of 22 species of the Arthropoda ranging from the waterflea to wasp and Drosophila have been annotated. The analysis of the gene structures allowed the reconstruction of an ancient muscle myosin heavy chain gene and showed that during evolution of the arthropods introns have mainly been lost in these genes although intron gain might have happened in a few cases. Surprisingly, the genome of Aedes aegypti contains another and that of Culex pipiens quinquefasciatus two further muscle myosin heavy chain genes, called Mhc3 and Mhc4, that contain only one variant of the corresponding alternative exons of the Mhc1 gene. Mhc3 transcription in Aedes aegypti is documented by EST data. Mhc3 and Mhc4 inserted in the Aedes and Culex genomes either by gene duplication followed by the loss of all but one variant of the alternative exons, or by incorporation of a transcript of which all other variants have been spliced out retaining the exon-intron structure. The second and more likely possibility represents a new type of a 'partially' processed pseudogene. Conclusion Based on the comparative genomic analysis of the alternatively spliced arthropod muscle myosin heavy chain genes we propose that the splicing process operates sequentially on the transcript. The process consists of the splicing of the mutually exclusive exons until one exon out of the cluster remains while retaining surrounding intronic sequence. In a second step splicing of introns takes place. A related mechanism could be responsible for

  11. Redundant information encoding in QED during decoherence

    Science.gov (United States)

    Tuziemski, J.; Witas, P.; Korbicz, J. K.

    2018-01-01

    Broadly understood decoherence processes in quantum electrodynamics, induced by neglecting either the radiation [L. Landau, Z. Phys. 45, 430 (1927), 10.1007/BF01343064] or the charged matter [N. Bohr and L. Rosenfeld, K. Danske Vidensk. Selsk, Math.-Fys. Medd. XII, 8 (1933)], have been studied from the dawn of the theory. However, what happens in between, when a part of the radiation may be observed, as is the case in many real-life situations, has not been analyzed yet. We present such an analysis for a nonrelativistic, pointlike charge and thermal radiation. In the dipole approximation, we solve the dynamics and show that there is a regime where, despite the noise, the observed field carries away almost perfect and hugely redundant information about the charge momentum. We analyze a partial charge-field state and show that it approaches a so-called spectrum broadcast structure.

  12. Partial Least Squares Based Gene Expression Analysis in EBV- Positive and EBV-Negative Posttransplant Lymphoproliferative Disorders.

    Science.gov (United States)

    Wu, Sa; Zhang, Xin; Li, Zhi-Ming; Shi, Yan-Xia; Huang, Jia-Jia; Xia, Yi; Yang, Hang; Jiang, Wen-Qi

    2013-01-01

    Post-transplant lymphoproliferative disorder (PTLD) is a common complication of therapeutic immunosuppression after organ transplantation. Gene expression profile facilitates the identification of biological difference between Epstein-Barr virus (EBV) positive and negative PTLDs. Previous studies mainly implemented variance/regression analysis without considering unaccounted array specific factors. The aim of this study is to investigate the gene expression difference between EBV positive and negative PTLDs through partial least squares (PLS) based analysis. With a microarray data set from the Gene Expression Omnibus database, we performed PLS based analysis. We acquired 1188 differentially expressed genes. Pathway and Gene Ontology enrichment analysis identified significantly over-representation of dysregulated genes in immune response and cancer related biological processes. Network analysis identified three hub genes with degrees higher than 15, including CREBBP, ATXN1, and PML. Proteins encoded by CREBBP and PML have been reported to be interact with EBV before. Our findings shed light on expression distinction of EBV positive and negative PTLDs with the hope to offer theoretical support for future therapeutic study.

  13. [Phylogenetic analysis of closely related Leuconostoc citreum species based on partial housekeeping genes].

    Science.gov (United States)

    Lv, Qiang; Chen, Ming; Xu, Haiyan; Song, Yuqin; Sun, Zhihong; Dan, Tong; Sun, Tiansong

    2013-07-04

    Using the 16S rRNA, dnaA, murC and pyrG gene sequences, we identified the phylogenetic relationship among closely related Leuconostoc citreum species. Seven Leu. citreum strains originally isolated from sourdough were characterized by PCR methods to amplify the dnaA, murC and pyrG gene sequences, which were determined to assess the suitability as phylogenetic markers. Then, we estimated the genetic distance and constructed the phylogenetic trees including 16S rRNA and above mentioned three housekeeping genes combining with published corresponding sequences. By comparing the phylogenetic trees, the topology of three housekeeping genes trees were consistent with that of 16S rRNA gene. The homology of closely related Leu. citreum species among dnaA, murC, pyrG and 16S rRNA gene sequences were different, ranged from75.5% to 97.2%, 50.2% to 99.7%, 65.0% to 99.8% and 98.5% 100%, respectively. The phylogenetic relationship of three housekeeping genes sequences were highly consistent with the results of 16S rRNA gene sequence, while the genetic distance of these housekeeping genes were extremely high than 16S rRNA gene. Consequently, the dnaA, murC and pyrG gene are suitable for classification and identification closely related Leu. citreum species.

  14. Sexual selection, redundancy and survival of the most beautiful

    Indian Academy of Sciences (India)

    A model is described of a highly redundant complex organism that has overlapping banks of genes such that each vital function is specified by several different genetic systems. This generates a synergistic profile linking probability of survival to the number of deleterious mutations in the genome. Computer models show ...

  15. Analysis of functional redundancies within the Arabidopsis TCP transcription factor family

    NARCIS (Netherlands)

    Danisman, S.; Dijk, van A.D.J.; Bimbo, A.; Wal, van der F.; Hennig, L.; Folter, de S.; Angenent, G.C.; Immink, R.G.H.

    2013-01-01

    Analyses of the functions of TEOSINTE-LIKE1, CYCLOIDEA, and ROLIFERATING CELL FACTOR1 (TCP) transcription factors have been hampered by functional redundancy between its individual members. In general, putative functionally redundant genes are predicted based on sequence similarity and confirmed by

  16. Redundancy in Nigerian Business Organizations: Alternatives (Pp ...

    African Journals Online (AJOL)

    FIRST LADY

    Redundancy in Nigerian Business Organizations: Alternatives (Pp. ... When business downturns ... The galloping pace of information technologies is a harbinger of profound ... Redundant staff in public departments can also be retained as.

  17. Redundant measurements for controlling errors

    International Nuclear Information System (INIS)

    Ehinger, M.H.; Crawford, J.M.; Madeen, M.L.

    1979-07-01

    Current federal regulations for nuclear materials control require consideration of operating data as part of the quality control program and limits of error propagation. Recent work at the BNFP has revealed that operating data are subject to a number of measurement problems which are very difficult to detect and even more difficult to correct in a timely manner. Thus error estimates based on operational data reflect those problems. During the FY 1978 and FY 1979 R and D demonstration runs at the BNFP, redundant measurement techniques were shown to be effective in detecting these problems to allow corrective action. The net effect is a reduction in measurement errors and a significant increase in measurement sensitivity. Results show that normal operation process control measurements, in conjunction with routine accountability measurements, are sensitive problem indicators when incorporated in a redundant measurement program

  18. Characterization of the hybrid RHD gene leading to the partial D category IIIc phenotype

    NARCIS (Netherlands)

    Beckers, E. A.; Faas, B. H.; Ligthart, P.; Simsek, S.; Overbeeke, M. A.; von dem Borne, A. E.; van Rhenen, D. J.; van der Schoot, C. E.

    1996-01-01

    A D-positive white woman was found to have produced alloanti-D leading to hemolytic disease of the newborn in her third D-positive child. The maternal D was identified as the partial D category IIIc antigen (DIIIc). The molecular basis of this phenotype was studied. The proposita and her relatives

  19. Sibling rivalry: related bacterial small RNAs and their redundant and non-redundant roles.

    Science.gov (United States)

    Caswell, Clayton C; Oglesby-Sherrouse, Amanda G; Murphy, Erin R

    2014-01-01

    Small RNA molecules (sRNAs) are now recognized as key regulators controlling bacterial gene expression, as sRNAs provide a quick and efficient means of positively or negatively altering the expression of specific genes. To date, numerous sRNAs have been identified and characterized in a myriad of bacterial species, but more recently, a theme in bacterial sRNAs has emerged: the presence of more than one highly related sRNAs produced by a given bacterium, here termed sibling sRNAs. Sibling sRNAs are those that are highly similar at the nucleotide level, and while it might be expected that sibling sRNAs exert identical regulatory functions on the expression of target genes based on their high degree of relatedness, emerging evidence is demonstrating that this is not always the case. Indeed, there are several examples of bacterial sibling sRNAs with non-redundant regulatory functions, but there are also instances of apparent regulatory redundancy between sibling sRNAs. This review provides a comprehensive overview of the current knowledge of bacterial sibling sRNAs, and also discusses important questions about the significance and evolutionary implications of this emerging class of regulators.

  20. Sibling rivalry: Related bacterial small RNAs and their redundant and non-redundant roles

    Directory of Open Access Journals (Sweden)

    Clayton eCaswell

    2014-10-01

    Full Text Available Small RNA molecules (sRNAs are now recognized as key regulators controlling bacterial gene expression, as sRNAs provide a quick and efficient means of positively or negatively altering the expression of specific genes. To date, numerous sRNAs have been identified and characterized in a myriad of bacterial species, but more recently, a theme in bacterial sRNAs has emerged: the presence of more than one highly related sRNAs produced by a given bacterium, here termed sibling sRNAs. Sibling sRNAs are those that are highly similar at the nucleotide level, and while it might be expected that sibling sRNAs exert identical regulatory functions on the expression of target genes based on their high degree of relatedness, emerging evidence is demonstrating that this is not always the case. Indeed, there are several examples of bacterial sibling sRNAs with non-redundant regulatory functions, but there are also instances of apparent regulatory redundancy between sibling sRNAs. This review provides a comprehensive overview of the current knowledge of bacterial sibling sRNAs, and also discusses important questions about the significance and evolutionary implications of this emerging class of regulators.

  1. Partial Sequencing of 16S rRNA Gene of Selected Staphylococcus aureus Isolates and its Antibiotic Resistance

    Directory of Open Access Journals (Sweden)

    Harsi Dewantari Kusumaningrum

    2016-08-01

    Full Text Available The choice of primer used in 16S rRNA sequencing for identification of Staphylococcus species found in food is important. This study aimed to characterize Staphylococcus aureus isolates by partial sequencing based on 16S rRNA gene employing primers 16sF, 63F or 1387R. The isolates were isolated from milk, egg dishes and chicken dishes and selected based on the presence of sea gene that responsible for formation of enterotoxin-A. Antibiotic susceptibility of the isolates towards six antibiotics was also tested. The use of 16sF resulted generally in higher identity percentage and query coverage compared to the sequencing by 63F or 1387R. BLAST results of all isolates, sequenced by 16sF, showed 99% homology to complete genome of four S. aureus strains, with different characteristics on enterotoxin production and antibiotic resistance. Considering that all isolates were carrying sea gene, indicated by the occurence of 120 bp amplicon after PCR amplification using primer SEA1/SEA2,  the isolates were most in agreeing to S. aureus subsp. aureus ST288. This study indicated that 4 out of 8 selected isolates were resistant towards streptomycin. The 16S rRNA gene sequencing using 16sF is useful for identification of S. aureus. However, additional analysis such as PCR employing specific gene target, should give a valuable supplementary information, when specific characteristic is expected.

  2. Genetic Analysis Using Partial Sequencing of Melanocortin 4 Receptor (MC4R Gene in Bligon Goat

    Directory of Open Access Journals (Sweden)

    Latifah Latifah

    2017-08-01

    Full Text Available Melanocortin 4 Receptor gene is involved in sympathetic nerve activity, adrenal and thyroid functions, and media for leptin in regulating energy balance and homeostasis. The aim of this research was to perform genetic analysis of MC4R gene sequences from Bligon goats. Fourty blood samples of Bligon does were used for DNA extraction. The primers were designed after alignment of 12 DNA sequences of MC4R gene from goat, sheep, and cattle. The primers were constructed on the Capra hircus MC4R gene sequence from GenBank (accession No. NM_001285591. Two DNA polymorphisms of MC4R were revealed in exon region (g.998 A/G and g.1079 C/T. The SNP g.998 A/G was a non-synonymous polymorphism i.e., changing of amino acid from methionine (Met to isoleucine (Ile. The SNP g.1079 C/T was a synonymous polymorphism. Restriction enzyme mapping on Bligon goat MC4R gene revealed three restriction enzymes (RsaI (GT’AC, Acc651 (G’GTAC_C, and KpnI (G_GTAC’C, which can recognize the SNP at g.1079 C/T. The restriction enzymes may be used for genotyping of the gene target using PCR-RFLP method in the future research.

  3. Identification of small secreted peptides (SSPs) in maize and expression analysis of partial SSP genes in reproductive tissues.

    Science.gov (United States)

    Li, Ye Long; Dai, Xin Ren; Yue, Xun; Gao, Xin-Qi; Zhang, Xian Sheng

    2014-10-01

    Maize 1,491 small secreted peptides were identified, which were classified according to the character of peptide sequences. Partial SSP gene expressions in reproductive tissues were determined by qRT-PCR. Small secreted peptides (SSPs) are important cell-cell communication messengers in plants. Most information on plant SSPs come from Arabidopsis thaliana and Oryza sativa, while little is known about the SSPs of other grass species such as maize (Zea mays). In this study, we identified 1,491 SSP genes from maize genomic sequences. These putative SSP genes were distributed throughout the ten maize chromosomes. Among them, 611 SSPs were classified into 198 superfamilies according to their conserved domains, and 725 SSPs with four or more cysteines at their C-termini shared similar cysteine arrangements with their counterparts in other plant species. Moreover, the SSPs requiring post-translational modification, as well as defensin-like (DEFL) proteins, were identified. Further, the expression levels of 110 SSP genes were analyzed in reproductive tissues, including male flower, pollen, silk, and ovary. Most of the genes encoding basal-layer antifungal peptide-like, small coat proteins-like, thioredoxin-like proteins, γ-thionins-like, and DEFL proteins showed high expression levels in the ovary and male flower compared with their levels in silk and mature pollen. The rapid alkalinization factor-like genes were highly expressed only in the mature ovary and mature pollen, and pollen Ole e 1-like genes showed low expression in silk. The results of this study provide basic information for further analysis of SSP functions in the reproductive process of maize.

  4. The 380 kb pCMU01 plasmid encodes chloromethane utilization genes and redundant genes for vitamin B12- and tetrahydrofolate-dependent chloromethane metabolism in Methylobacterium extorquens CM4: a proteomic and bioinformatics study.

    Directory of Open Access Journals (Sweden)

    Sandro Roselli

    Full Text Available Chloromethane (CH3Cl is the most abundant volatile halocarbon in the atmosphere and contributes to the destruction of stratospheric ozone. The only known pathway for bacterial chloromethane utilization (cmu was characterized in Methylobacterium extorquens CM4, a methylotrophic bacterium able to utilize compounds without carbon-carbon bonds such as methanol and chloromethane as the sole carbon source for growth. Previous work demonstrated that tetrahydrofolate and vitamin B12 are essential cofactors of cmuA- and cmuB-encoded methyltransferases of chloromethane dehalogenase, and that the pathway for chloromethane utilization is distinct from that for methanol. This work reports genomic and proteomic data demonstrating that cognate cmu genes are located on the 380 kb pCMU01 plasmid, which drives the previously defined pathway for tetrahydrofolate-mediated chloromethane dehalogenation. Comparison of complete genome sequences of strain CM4 and that of four other M. extorquens strains unable to grow with chloromethane showed that plasmid pCMU01 harbors unique genes without homologs in the compared genomes (bluB2, btuB, cobA, cbiD, as well as 13 duplicated genes with homologs of chromosome-borne genes involved in vitamin B12-associated biosynthesis and transport, or in tetrahydrofolate-dependent metabolism (folC2. In addition, the presence of both chromosomal and plasmid-borne genes for corrinoid salvaging pathways may ensure corrinoid coenzyme supply in challenging environments. Proteomes of M. extorquens CM4 grown with one-carbon substrates chloromethane and methanol were compared. Of the 49 proteins with differential abundance identified, only five (CmuA, CmuB, PurU, CobH2 and a PaaE-like uncharacterized putative oxidoreductase are encoded by the pCMU01 plasmid. The mainly chromosome-encoded response to chloromethane involves gene clusters associated with oxidative stress, production of reducing equivalents (PntAA, Nuo complex, conversion of

  5. Partial loss of heterozygosity events at the mutated gene in tumors from MLH1/MSH2 large genomic rearrangement carriers

    Energy Technology Data Exchange (ETDEWEB)

    Zavodna, Katarina; Krivulcik, Tomas; Bujalkova, Maria Gerykova [Laboratory of Cancer Genetics, Cancer Research Institute of Slovak Academy of Sciences, Vlarska 7, 833 91 Bratislava (Slovakia); Slamka, Tomas; Martinicky, David; Ilencikova, Denisa [National Cancer Institute, Department of Oncologic Genetics, Klenova 1, 833 01 Bratislava (Slovakia); Bartosova, Zdena [Laboratory of Cancer Genetics, Cancer Research Institute of Slovak Academy of Sciences, Vlarska 7, 833 91 Bratislava (Slovakia)

    2009-11-20

    microsatellite) is a novel finding and can be regarded as a partial LOH. The conversion begins within the gene, and the details of conversion tracts are discussed for each case.

  6. Partial loss of heterozygosity events at the mutated gene in tumors from MLH1/MSH2 large genomic rearrangement carriers

    Directory of Open Access Journals (Sweden)

    Ilencikova Denisa

    2009-11-01

    or MSH2 gene (heterozygous LGR region, SNP, or microsatellite is a novel finding and can be regarded as a partial LOH. The conversion begins within the gene, and the details of conversion tracts are discussed for each case.

  7. Partial loss of heterozygosity events at the mutated gene in tumors from MLH1/MSH2 large genomic rearrangement carriers

    International Nuclear Information System (INIS)

    Zavodna, Katarina; Krivulcik, Tomas; Bujalkova, Maria Gerykova; Slamka, Tomas; Martinicky, David; Ilencikova, Denisa; Bartosova, Zdena

    2009-01-01

    microsatellite) is a novel finding and can be regarded as a partial LOH. The conversion begins within the gene, and the details of conversion tracts are discussed for each case

  8. Partial nephrogenic diabetes insipidus caused by a novel mutation in the AVPR2 gene

    DEFF Research Database (Denmark)

    Færch, Mia; Christensen, Jane H; Corydon, Thomas J

    2008-01-01

    and polyuria since infancy. Initial clinical testing confirmed a diagnosis of diabetes insipidus (DI). Urine osmolarity rose during fluid deprivation and after 20 microg of intranasal desmopressin [1-deamino-8-d-arginine-vasopressin (dDAVP)]. A similar DI phenotype was found in his brother. Methods The coding......Objective To identify the molecular basis and clinical characteristics of X-linked congenital nephrogenic diabetes insipidus (CNDI) presenting with an unusual phenotype characterized by partial resistance to AVP. Subjects The proband was admitted at the age of 4 years with a history of polydipsia...

  9. Partial correction of a severe molecular defect in hemophilia A, because of errors during expression of the factor VIII gene

    Energy Technology Data Exchange (ETDEWEB)

    Young, M.; Antonarakis, S.E. [Univ. of Geneva (Switzerland); Inaba, Hiroshi [Tokyo Medical College (Japan)] [and others

    1997-03-01

    Although the molecular defect in patients in a Japanese family with mild to moderately severe hemophilia A was a deletion of a single nucleotide T within an A{sub 8}TA{sub 2} sequence of exon 14 of the factor VIII gene, the severity of the clinical phenotype did not correspond to that expected of a frameshift mutation. A small amount of functional factor VIII protein was detected in the patient`s plasma. Analysis of DNA and RNA molecules from normal and affected individuals and in vitro transcription/translation suggested a partial correction of the molecular defect, because of the following: (i) DNA replication/RNA transcription errors resulting in restoration of the reading frame and/or (ii) {open_quotes}ribosomal frameshifting{close_quotes} resulting in the production of normal factor VIII polypeptide and, thus, in a milder than expected hemophilia A. All of these mechanisms probably were promoted by the longer run of adenines, A{sub 10} instead of A{sub 8}TA{sub 2}, after the delT. Errors in the complex steps of gene expression therefore may partially correct a severe frameshift defect and ameliorate an expected severe phenotype. 36 refs., 6 figs.

  10. The chimeric gene CHRFAM7A, a partial duplication of the CHRNA7 gene, is a dominant negative regulator of α7*nAChR function.

    Science.gov (United States)

    Araud, Tanguy; Graw, Sharon; Berger, Ralph; Lee, Michael; Neveu, Estele; Bertrand, Daniel; Leonard, Sherry

    2011-10-15

    The human α7 neuronal nicotinic acetylcholine receptor gene (CHRNA7) is a candidate gene for schizophrenia and an important drug target for cognitive deficits in the disorder. Activation of the α7*nAChR, results in opening of the channel and entry of mono- and divalent cations, including Ca(2+), that presynaptically participates to neurotransmitter release and postsynaptically to down-stream changes in gene expression. Schizophrenic patients have low levels of α7*nAChR, as measured by binding of the ligand [(125)I]-α-bungarotoxin (I-BTX). The structure of the gene, CHRNA7, is complex. During evolution, CHRNA7 was partially duplicated as a chimeric gene (CHRFAM7A), which is expressed in the human brain and elsewhere in the body. The association between a 2bp deletion in CHRFAM7A and schizophrenia suggested that this duplicate gene might contribute to cognitive impairment. To examine the putative contribution of CHRFAM7A on receptor function, co-expression of α7 and the duplicate genes was carried out in cell lines and Xenopus oocytes. Expression of the duplicate alone yielded protein expression but no functional receptor and co-expression with α7 caused a significant reduction of the amplitude of the ACh-evoked currents. Reduced current amplitude was not correlated with a reduction of I-BTX binding, suggesting the presence of non-functional (ACh-silent) receptors. This hypothesis is supported by a larger increase of the ACh-evoked current by the allosteric modulator 1-(5-chloro-2,4-dimethoxy-phenyl)-3-(5-methyl-isoxazol-3-yl)-urea (PNU-120596) in cells expressing the duplicate than in the control. These results suggest that CHRFAM7A acts as a dominant negative modulator of CHRNA7 function and is critical for receptor regulation in humans. Copyright © 2011 Elsevier Inc. All rights reserved.

  11. Partial antiviral activities detection of chicken Mx jointing with neuraminidase gene (NA against Newcastle disease virus.

    Directory of Open Access Journals (Sweden)

    Yani Zhang

    Full Text Available As an attempt to increase the resistance to Newcastle Disease Virus (NDV and so further reduction of its risk on the poultry industry. This work aimed to build the eukaryotic gene co-expression plasmid of neuraminidase (NA gene and myxo-virus resistance (Mx and detect the gene expression in transfected mouse fibroblasts (NIH-3T3 cells, it is most important to investigate the influence of the recombinant plasmid on the chicken embryonic fibroblasts (CEF cells. cDNA fragment of NA and mutant Mx gene were derived from pcDNA3.0-NA and pcDNA3.0-Mx plasmid via PCR, respectively, then NA and Mx cDNA fragment were inserted into the multiple cloning sites of pVITRO2 to generate the eukaryotic co-expression plasmid pVITRO2-Mx-NA. The recombinant plasmid was confirmed by restriction endonuclease treatment and sequencing, and it was transfected into the mouse fibroblasts (NIH-3T3 cells. The expression of genes in pVITRO2-Mx-NA were measured by RT-PCR and indirect immunofluorescence assay (IFA. The recombinant plasmid was transfected into CEF cells then RT-PCR and the micro-cell inhibition tests were used to test the antiviral activity for NDV. Our results showed that co-expression vector pVITRO2-Mx-NA was constructed successfully; the expression of Mx and NA could be detected in both NIH-3T3 and CEF cells. The recombinant proteins of Mx and NA protect CEF cells from NDV infection until after 72 h of incubation but the individually mutagenic Mx protein or NA protein protects CEF cells from NDV infection till 48 h post-infection, and co-transfection group decreased significantly NDV infection compared with single-gene transfection group (P<0. 05, indicating that Mx-NA jointing contributed to delaying the infection of NDV in single-cell level and the co-transfection of the jointed genes was more powerful than single one due to their synergistic effects.

  12. Association between NLPR1, NLPR3, and P2X7R Gene Polymorphisms with Partial Seizures

    Directory of Open Access Journals (Sweden)

    Haidong Wang

    2017-01-01

    Full Text Available Objectives. Clinical and experimental evidence has clarified that the inflammatory processes within the brain play a pivotal role in the pathophysiology of seizures and epilepsy. Inflammasomes and P2X7 purinergic receptor (P2X7R are important mediators during the inflammatory process. Therefore, we investigated the possible association between partial seizures and inflammasomes NLPR1, NLRP3, and P2X7R gene polymorphisms in the present study. Method. A total of 163 patients and 201 health controls were enrolled in this study and polymorphisms of NLPR1, NLRP3, and P2X7R genes were detected using polymerase chain reaction- (PCR- ligase detection reaction method. Result. The frequency of rs878329 (G>C genotype with C (CG + CC was significantly lower among patients with partial seizures relative to controls (OR = 2.033, 95% CI = 1.290–3.204, p=0.002 for GC + CC versus GG. Intriguingly, we found that the significant difference of rs878329 (G>C genotype and allele frequency only existed among males (OR = 2.542, 95% CI = 1.344–4.810, p=0.004 for GC + CC versus GG, while there was no statistically significant difference among females. However, no significant results were presented for the genotype distributions of rs8079034, rs4612666, rs10754558, rs2027432, rs3751143, and rs208294 polymorphisms between patients and controls. Conclusion. Our study demonstrated the potentially significant role of NLRP1 rs878329 (G>C in developing susceptibility to the partial seizures in a Chinese Han population.

  13. High precision redundant robotic manipulator

    International Nuclear Information System (INIS)

    Young, K.K.D.

    1998-01-01

    A high precision redundant robotic manipulator for overcoming contents imposed by obstacles or imposed by a highly congested work space is disclosed. One embodiment of the manipulator has four degrees of freedom and another embodiment has seven degrees of freedom. Each of the embodiments utilize a first selective compliant assembly robot arm (SCARA) configuration to provide high stiffness in the vertical plane, a second SCARA configuration to provide high stiffness in the horizontal plane. The seven degree of freedom embodiment also utilizes kinematic redundancy to provide the capability of avoiding obstacles that lie between the base of the manipulator and the end effector or link of the manipulator. These additional three degrees of freedom are added at the wrist link of the manipulator to provide pitch, yaw and roll. The seven degrees of freedom embodiment uses one revolute point per degree of freedom. For each of the revolute joints, a harmonic gear coupled to an electric motor is introduced, and together with properly designed based servo controllers provide an end point repeatability of less than 10 microns. 3 figs

  14. Redundant and distinct functions of the ABA response loci ABA-INSENSITIVE(ABI)5 and ABRE-BINDING FACTOR (ABF)3.

    Science.gov (United States)

    Finkelstein, Ruth; Gampala, Srinivas S L; Lynch, Tim J; Thomas, Terry L; Rock, Christopher D

    2005-09-01

    Abscisic acid-responsive gene expression is regulated by numerous transcription factors, including a subgroup of basic leucine zipper factors that bind to the conserved cis-acting sequences known as ABA-responsive elements. Although one of these factors, ABA-insensitive 5 (ABI5), was identified genetically, the paucity of genetic data for the other family members has left it unclear whether they perform unique functions or act redundantly to ABI5 or each other. To test for potential redundancy with ABI5, we identified the family members with most similar effects and interactions in transient expression systems (ABF3 and ABF1), then characterized loss-of-function lines for those loci. The abf1 and abf3 monogenic mutant lines had at most minimal effects on germination or seed-specific gene expression, but the enhanced ABA- and stress-resistance of abf3 abi5 double mutants revealed redundant action of these genes in multiple stress responses of seeds and seedlings. Although ABI5, ABF3, and ABF1 have some overlapping effects, they appear to antagonistically regulate each other's expression at specific stages. Consequently, loss of any one factor may be partially compensated by increased expression of other family members.

  15. Analysis of informational redundancy in the protein-assembling machinery

    Science.gov (United States)

    Berkovich, Simon

    2004-03-01

    Entropy analysis of the DNA structure does not reveal a significant departure from randomness indicating lack of informational redundancy. This signifies the absence of a hidden meaning in the genome text and supports the 'barcode' interpretation of DNA given in [1]. Lack of informational redundancy is a characteristic property of an identification label rather than of a message of instructions. Yet randomness of DNA has to induce non-random structures of the proteins. Protein synthesis is a two-step process: transcription into RNA with gene splicing and formation a structure of amino acids. Entropy estimations, performed by A. Djebbari, show typical values of redundancy of the biomolecules along these pathways: DNA gene 4proteins 15-40in gene expression, the RNA copy carries the same information as the original DNA template. Randomness is essentially eliminated only at the step of the protein creation by a degenerate code. According to [1], the significance of the substitution of U for T with a subsequent gene splicing is that these transformations result in a different pattern of RNA oscillations, so the vital DNA communications are protected against extraneous noise coming from the protein making activities. 1. S. Berkovich, "On the 'barcode' functionality of DNA, or the Phenomenon of Life in the Physical Universe", Dorrance Publishing Co., Pittsburgh, 2003

  16. Molecular characterization of partial fusion gene and C-terminus extension length of haemagglutinin-neuraminidase gene of recently isolated Newcastle disease virus isolates in Malaysia

    Directory of Open Access Journals (Sweden)

    Berhanu Ayalew

    2010-08-01

    Full Text Available Abstract Background Newcastle disease (ND, caused by Newcastle disease virus (NDV, is a highly contagious disease of birds and has been one of the major causes of economic losses in the poultry industry. Despite routine vaccination programs, sporadic cases have occasionally occurred in the country and remain a constant threat to commercial poultry. Hence, the present study was aimed to characterize NDV isolates obtained from clinical cases in various locations of Malaysia between 2004 and 2007 based on sequence and phylogenetic analysis of partial F gene and C-terminus extension length of HN gene. Results The coding region of eleven NDV isolates fusion (F gene and carboxyl terminal region of haemagglutinin-neuraminidase (HN gene including extensions were amplified by reverse transcriptase PCR and directly sequenced. All the isolates have shown to have non-synonymous to synonymous base substitution rate ranging between 0.081 - 0.264 demonstrating presence of negative selection. Analysis based on F gene showed the characterized isolates possess three different types of protease cleavage site motifs; namely 112RRQKRF117, 112RRRKRF117 and 112GRQGRL117 and appear to show maximum identities with isolates in the region such as cockatoo/14698/90 (Indonesia, Ch/2000 (China, local isolate AF2240 indicating the high similarity of isolates circulating in the South East Asian countries. Meanwhile, one of the isolates resembles commonly used lentogenic vaccine strains. On further characterization of the HN gene, Malaysian isolates had C-terminus extensions of 0, 6 and 11 amino acids. Analysis of the phylogenetic tree revealed that the existence of three genetic groups; namely, genotype II, VII and VIII. Conclusions The study concluded that the occurrence of three types of NDV genotypes and presence of varied carboxyl terminus extension lengths among Malaysian isolates incriminated for sporadic cases.

  17. Molecular characterization of partial fusion gene and C-terminus extension length of haemagglutinin-neuraminidase gene of recently isolated Newcastle disease virus isolates in Malaysia.

    Science.gov (United States)

    Berhanu, Ayalew; Ideris, Aini; Omar, Abdul R; Bejo, Mohd Hair

    2010-08-08

    Newcastle disease (ND), caused by Newcastle disease virus (NDV), is a highly contagious disease of birds and has been one of the major causes of economic losses in the poultry industry. Despite routine vaccination programs, sporadic cases have occasionally occurred in the country and remain a constant threat to commercial poultry. Hence, the present study was aimed to characterize NDV isolates obtained from clinical cases in various locations of Malaysia between 2004 and 2007 based on sequence and phylogenetic analysis of partial F gene and C-terminus extension length of HN gene. The coding region of eleven NDV isolates fusion (F) gene and carboxyl terminal region of haemagglutinin-neuraminidase (HN) gene including extensions were amplified by reverse transcriptase PCR and directly sequenced. All the isolates have shown to have non-synonymous to synonymous base substitution rate ranging between 0.081 - 0.264 demonstrating presence of negative selection. Analysis based on F gene showed the characterized isolates possess three different types of protease cleavage site motifs; namely 112RRQKRF117, 112RRRKRF117 and 112GRQGRL117 and appear to show maximum identities with isolates in the region such as cockatoo/14698/90 (Indonesia), Ch/2000 (China), local isolate AF2240 indicating the high similarity of isolates circulating in the South East Asian countries. Meanwhile, one of the isolates resembles commonly used lentogenic vaccine strains. On further characterization of the HN gene, Malaysian isolates had C-terminus extensions of 0, 6 and 11 amino acids. Analysis of the phylogenetic tree revealed that the existence of three genetic groups; namely, genotype II, VII and VIII. The study concluded that the occurrence of three types of NDV genotypes and presence of varied carboxyl terminus extension lengths among Malaysian isolates incriminated for sporadic cases.

  18. Retinal genes are differentially expressed in areas of primary versus secondary degeneration following partial optic nerve injury.

    Directory of Open Access Journals (Sweden)

    Wissam Chiha

    Full Text Available Partial transection (PT of the optic nerve is an established experimental model of secondary degeneration in the central nervous system. After a dorsal transection, retinal ganglion cells (RGCs with axons in ventral optic nerve are intact but vulnerable to secondary degeneration, whereas RGCs in dorsal retina with dorsal axons are affected by primary and secondary injuries. Using microarray, we quantified gene expression changes in dorsal and ventral retina at 1 and 7 days post PT, to characterize pathogenic pathways linked to primary and secondary degeneration.In comparison to uninjured retina Cryba1, Cryba2 and Crygs, were significantly downregulated in injured dorsal retina at days 1 and 7. While Ecel1, Timp1, Mt2A and CD74, which are associated with reducing excitotoxicity, oxidative stress and inflammation, were significantly upregulated. Genes associated with oxygen binding pathways, immune responses, cytokine receptor activity and apoptosis were enriched in dorsal retina at day 1 after PT. Oxygen binding and apoptosis remained enriched at day 7, as were pathways involved in extracellular matrix modification. Fewer changes were observed in ventral retina at day 1 after PT, most associated with the regulation of protein homodimerization activity. By day 7, apoptosis, matrix organization and signal transduction pathways were enriched. Discriminant analysis was also performed for specific functional gene groups to compare expression intensities at each time point. Altered expression of selected genes (ATF3, GFAP, Ecel1, TIMP1, Tp53 and proteins (GFAP, ECEL1 and ATF3 were semi-quantitatively assessed by qRT-PCR and immunohistochemistry respectively.There was an acute and complex primary injury response in dorsal retina indicative of a dynamic interaction between neuroprotective and neurodegenerative events; ventral retina vulnerable to secondary degeneration showed a delayed injury response. Both primary and secondary injury resulted in the

  19. A partial gene deletion of SLC45A2 causes oculocutaneous albinism in Doberman pinscher dogs.

    Directory of Open Access Journals (Sweden)

    Paige A Winkler

    Full Text Available The first white Doberman pinscher (WDP dog was registered by the American Kennel Club in 1976. The novelty of the white coat color resulted in extensive line breeding of this dog and her offspring. The WDP phenotype closely resembles human oculocutaneous albinism (OCA and clinicians noticed a seemingly high prevalence of pigmented masses on these dogs. This study had three specific aims: (1 produce a detailed description of the ocular phenotype of WDPs, (2 objectively determine if an increased prevalence of ocular and cutaneous melanocytic tumors was present in WDPs, and (3 determine if a genetic mutation in any of the genes known to cause human OCA is causal for the WDP phenotype. WDPs have a consistent ocular phenotype of photophobia, hypopigmented adnexal structures, blue irides with a tan periphery and hypopigmented retinal pigment epithelium and choroid. WDPs have a higher prevalence of cutaneous melanocytic neoplasms compared with control standard color Doberman pinschers (SDPs; cutaneous tumors were noted in 12/20 WDP (5 years of age: 8/8 and 1/20 SDPs (p<0.00001. Using exclusion analysis, four OCA causative genes were investigated for their association with WDP phenotype; TYR, OCA2, TYRP1 and SLC45A2. SLC45A2 was found to be linked to the phenotype and gene sequencing revealed a 4,081 base pair deletion resulting in loss of the terminus of exon seven of SLC45A2 (chr4∶77,062,968-77,067,051. This mutation is highly likely to be the cause of the WDP phenotype and is supported by a lack of detectable SLC45A2 transcript levels by reverse transcriptase PCR. The WDP provides a valuable model for studying OCA4 visual disturbances and melanocytic neoplasms in a large animal model.

  20. Partial nucleotide sequence analysis of 18S ribosomal RNA gene of the four genotypes of Trypanosoma congolense

    International Nuclear Information System (INIS)

    Osanya, A.; Majiwa, P.A.O.; Kinyanjui, P.W.

    2006-01-01

    Specific oligonucleotide primers based on conserved nucleotide sequences of 18s ribisomal RNA (18s rRNA) gene of Trypanosoma brucei, Leishmania donovani, Triponema aequale and Lagenidium gigantum have been designed and used in the ploymerase chain reaction (PCR) to amplify genomic DNA from four different clones each representing a different genotypic group of T. congolence. PCR products of approximately 1Kb were generated using as template DNA from each of the trypanosomes. The PCR products cross-hybridized with genomic DNA from T.brucei, T. simiae and the four genotypes of T.congolense implying significant sequence homology of 18S rRNA gene among trypanosomes. The nucleotide sequence of a segment of the PCR products were determined by direct sequencing to provide partial nucleotide sequence of the 18s rRNA gene in each T.congolense genotypic group. The sequences obtained together with those that have been published for T.brucei reveals that although most regions show inter and intra species nucleotide identity, there are several sites where deletions, insertions and base changes have occured in nucleotide sequence of of T.brucei and the four genotypes of T.congolense.(author)

  1. Multiclass Prediction with Partial Least Square Regression for Gene Expression Data: Applications in Breast Cancer Intrinsic Taxonomy

    Directory of Open Access Journals (Sweden)

    Chi-Cheng Huang

    2013-01-01

    Full Text Available Multiclass prediction remains an obstacle for high-throughput data analysis such as microarray gene expression profiles. Despite recent advancements in machine learning and bioinformatics, most classification tools were limited to the applications of binary responses. Our aim was to apply partial least square (PLS regression for breast cancer intrinsic taxonomy, of which five distinct molecular subtypes were identified. The PAM50 signature genes were used as predictive variables in PLS analysis, and the latent gene component scores were used in binary logistic regression for each molecular subtype. The 139 prototypical arrays for PAM50 development were used as training dataset, and three independent microarray studies with Han Chinese origin were used for independent validation (n=535. The agreement between PAM50 centroid-based single sample prediction (SSP and PLS-regression was excellent (weighted Kappa: 0.988 within the training samples, but deteriorated substantially in independent samples, which could attribute to much more unclassified samples by PLS-regression. If these unclassified samples were removed, the agreement between PAM50 SSP and PLS-regression improved enormously (weighted Kappa: 0.829 as opposed to 0.541 when unclassified samples were analyzed. Our study ascertained the feasibility of PLS-regression in multi-class prediction, and distinct clinical presentations and prognostic discrepancies were observed across breast cancer molecular subtypes.

  2. MDR-1 and MRP2 gene polymorphisms in Mexican epileptic pediatric patients with complex partial seizures.

    Directory of Open Access Journals (Sweden)

    David eEscalante-Santiago

    2014-10-01

    Full Text Available Although the Pgp efflux transport protein is overexpressed in resected tissue of patients with epilepsy, the presence of polymorphisms in MDR1 / ABCB1 and MRP2 / ABCC2 in patients with antiepileptic-drugs resistant epilepsy is controversial. The aim of this study was to perform an exploratory study to identify nucleotide changes and search new and reported mutations in patients with antiepileptic-drugs resistant epilepsy (ADR and patients with good response to anti-epileptic drugs (CTR in a rigorously selected population. We analyzed 22 samples from drug-resistant patients with epilepsy and 7 samples from patients with good response to anti-epileptic drugs. Genomic DNA was obtained from leukocytes. Eleven exons in both genes were genotyped. The concentration of drugs in saliva and plasma was determined. The concentration of valproic acid in saliva was lower in ADR than in CRT. In ABCB1, five reported SNPs and five unreported nucleotide changes were identified; rs2229109 (GA and rs2032582 (AT and AG were found only in the ADR. Of six SNPs associated with the ABCC2 that were found in the study population, rs3740066 (TT and 66744T>A (TG were found only in the ADR. The strongest risk factor in the ABCB1 gene was identified as the TA genotype of rs2032582, whereas for the ABCC2 gene the strongest risk factor was the T allele of rs3740066. The screening of SNPs in ACBC1 and ABCC2 indicates that the Mexican patients with epilepsy in this study display frequently reported ABCC1 polymorphisms; however, in the study subjects with a higher risk factor for drug resistance, new nucleotide changes were found in the ABCC2 gene. Thus, the population of Mexican patients with AED-resistant epilepsy used in this study exhibits genetic variability with respect to those reported in other study populations; however, it is necessary to explore this polymorphism in a larger population of patients with AED-resistant epilepsy.

  3. Partial Gene Deletions of PMP22 Causing Hereditary Neuropathy with Liability to Pressure Palsies

    Directory of Open Access Journals (Sweden)

    Sun-Mi Cho

    2014-01-01

    Full Text Available Hereditary neuropathy with liability to pressure palsies (HNPP is an autosomal neuropathy that is commonly caused by a reciprocal 1.5 Mb deletion on chromosome 17p11.2, at the site of the peripheral myelin protein 22 (PMP22 gene. Other patients with similar phenotypes have been shown to harbor point mutations or small deletions, although there is some clinical variation across these patients. In this report, we describe a case of HNPP with copy number changes in exon or promoter regions of PMP22. Multiplex ligation-dependent probe analysis revealed an exon 1b deletion in the patient, who had been diagnosed with HNPP in the first decade of life using molecular analysis.

  4. Cloning and sequence analysis of a partial CDS of leptospiral ligA gene in pET-32a - Escherichia coli DH5α system

    Directory of Open Access Journals (Sweden)

    Manju Soman

    2018-04-01

    Full Text Available Aim: This study aims at cloning, sequencing, and phylogenetic analysis of a partial CDS of ligA gene in pET-32a - Escherichia coli DH5α system, with the objective of identifying the conserved nature of the ligA gene in the genus Leptospira. Materials and Methods: A partial CDS (nucleotide 1873 to nucleotide 3363 of the ligA gene was amplified from genomic DNA of Leptospira interrogans serovar Canicola by polymerase chain reaction (PCR. The PCR-amplified DNA was cloned into pET-32a vector and transformed into competent E. coli DH5α bacterial cells. The partial ligA gene insert was sequenced and the nucleotide sequences obtained were aligned with the published ligA gene sequences of other Leptospira serovars, using nucleotide BLAST, NCBI. Phylogenetic analysis of the gene sequence was done by maximum likelihood method using Mega 6.06 software. Results: The PCR could amplify the 1491 nucleotide sequence spanning from nucleotide 1873 to nucleotide 3363 of the ligA gene and the partial ligA gene could be successfully cloned in E. coli DH5α cells. The nucleotide sequence when analyzed for homology with the reported gene sequences of other Leptospira serovars was found to have 100% homology to the 1910 bp to 3320 bp sequence of ligA gene of L. interrogans strain Kito serogroup Canicola. The predicted protein consisted of 470 aminoacids. Phylogenetic analysis revealed that the ligA gene was conserved in L. interrogans species. Conclusion: The partial ligA gene could be successfully cloned and sequenced from E. coli DH5α cells. The sequence showed 100% homology to the published ligA gene sequences. The phylogenetic analysis revealed the conserved nature of the ligA gene. Further studies on the expression and immunogenicity of the partial LigA protein need to be carried out to determine its competence as a subunit vaccine candidate.

  5. 16S partial gene mitochondrial DNA and internal transcribed spacers ribosomal DNA as differential markers of Trichuris discolor populations.

    Science.gov (United States)

    Callejón, R; Halajian, A; de Rojas, M; Marrugal, A; Guevara, D; Cutillas, C

    2012-05-25

    Comparative morphological, biometrical and molecular studies of Trichuris discolor isolated from Bos taurus from Spain and Iran was carried out. Furthermore, Trichuris ovis isolated from B. taurus and Capra hircus from Spain has been, molecularly, analyzed. Morphological studies revealed clear differences between T. ovis and T. discolor isolated from B. taurus but differences were not observed between populations of T. discolor isolated from different geographical regions. Nevertheless, the molecular studies based on the amplification and sequencing of the internal transcribed spacers 1 and 2 ribosomal DNA and 16S partial gene mitochondrial DNA showed clear differences between both populations of T. discolor from Spain and Iran suggesting two cryptic species. Phylogenetic studies corroborated these data. Thus, phylogenetic trees based on ITS1, ITS2 and 16S partial gene sequences showed that individuals of T. discolor from B. taurus from Iran clustered together and separated, with high bootstrap values, of T. discolor isolated from B. taurus from Spain, while populations of T. ovis from B. taurus and C. hircus from Spain clustered together but separated with high bootstrap values of both populations of T. discolor. Furthermore, a comparative phylogenetic study has been carried out with the ITS1and ITS2 sequences of Trichuris species from different hosts. Three clades were observed: the first clustered all the species of Trichuris parasitizing herbivores (T. discolor, T. ovis, Trichuris leporis and Trichuris skrjabini), the second clustered all the species of Trichuris parasitizing omnivores (Trichuris trichiura and Trichuris suis) and finally, the third clustered species of Trichuris parasitizing carnivores (Trichuris muris, Trichuris arvicolae and Trichuris vulpis). Copyright © 2011 Elsevier B.V. All rights reserved.

  6. Redundancy in Nigerian Business Organizations: Alternatives ...

    African Journals Online (AJOL)

    This theoretical discourse examined the incidence of work redundancy in Nigerian organizations as to offer alternative options. Certainly, some redundancy exercises may be necessary for the survival of the organizations but certain variables may influence employees' reactions to the exercises and thus influence the ...

  7. Increasing The Dexterity Of Redundant Robots

    Science.gov (United States)

    Seraji, Homayoun

    1990-01-01

    Redundant coordinates used to define additional tasks. Configuration control emerging as effective way to control motions of robot having more degrees of freedom than necessary to define trajectory of end effector and/or of object to be manipulated. Extra or redundant degrees of freedom used to give robot humanlike dexterity and versatility.

  8. Alteration of a recombinant protein N-glycan structure in silkworms by partial suppression of N-acetylglucosaminidase gene expression.

    Science.gov (United States)

    Kato, Tatsuya; Kikuta, Kotaro; Kanematsu, Ayumi; Kondo, Sachiko; Yagi, Hirokazu; Kato, Koichi; Park, Enoch Y

    2017-09-01

    To synthesize complex type N-glycans in silkworms, shRNAs against the fused lobe from Bombyx mori (BmFDL), which codes N-acetylglucosaminidase (GlcNAcase) in the Golgi, was expressed by recombinant B. mori nucleopolyhedrovirus (BmNPV) in silkworm larvae. Expression was under the control of the actin promoter of B. mori or the U6-2 and i.e.-2 promoters from Orgyia pseudotsugata multiple nucleopolyhedrovirus (OpMNPV). The reduction of specific GlcNAcase activity was observed in Bm5 cells and silkworm larvae using the U6-2 promoter. In silkworm larvae, the partial suppression of BmFDL gene expression was observed. When shRNA against BmFDL was expressed under the control of U6-2 promoter, the Man 3 GlcNAc(Fuc)GlcNAc structure appeared in a main N-glycans of recombinant human IgG. These results suggested that the control of BmFDL expression by its shRNA in silkworms caused the modification of its N-glycan synthetic pathway, which may lead to the alteration of N-glycans in the expressed recombinant proteins. Suppression of BmFDL gene expression by shRNA is not sufficient to synthesize complex N-glycans in silkworm larvae but can modify the N-glycan synthetic pathway.

  9. A partial least-square approach for modeling gene-gene and gene-environment interactions when multiple markers are genotyped.

    Science.gov (United States)

    Wang, Tao; Ho, Gloria; Ye, Kenny; Strickler, Howard; Elston, Robert C

    2009-01-01

    Genetic association studies achieve an unprecedented level of resolution in mapping disease genes by genotyping dense single nucleotype polymorphisms (SNPs) in a gene region. Meanwhile, these studies require new powerful statistical tools that can optimally handle a large amount of information provided by genotype data. A question that arises is how to model interactions between two genes. Simply modeling all possible interactions between the SNPs in two gene regions is not desirable because a greatly increased number of degrees of freedom can be involved in the test statistic. We introduce an approach to reduce the genotype dimension in modeling interactions. The genotype compression of this approach is built upon the information on both the trait and the cross-locus gametic disequilibrium between SNPs in two interacting genes, in such a way as to parsimoniously model the interactions without loss of useful information in the process of dimension reduction. As a result, it improves power to detect association in the presence of gene-gene interactions. This approach can be similarly applied for modeling gene-environment interactions. We compare this method with other approaches, the corresponding test without modeling any interaction, that based on a saturated interaction model, that based on principal component analysis, and that based on Tukey's one-degree-of-freedom model. Our simulations suggest that this new approach has superior power to that of the other methods. In an application to endometrial cancer case-control data from the Women's Health Initiative, this approach detected AKT1 and AKT2 as being significantly associated with endometrial cancer susceptibility by taking into account their interactions with body mass index.

  10. Impaired expression of mitochondrial and adipogenic genes in adipose tissue from a patient with acquired partial lipodystrophy (Barraquer-Simons syndrome: a case report

    Directory of Open Access Journals (Sweden)

    Guallar Jordi P

    2008-08-01

    Full Text Available Abstract Introduction Acquired partial lipodystrophy or Barraquer-Simons syndrome is a rare form of progressive lipodystrophy. The etiopathogenesis of adipose tissue atrophy in these patients is unknown. Case presentation This is a case report of a 44-year-old woman with acquired partial lipodystrophy. To obtain insight into the molecular basis of lipoatrophy in acquired partial lipodystrophy, we examined gene expression in adipose tissue from this patient newly diagnosed with acquired partial lipodystrophy. A biopsy of subcutaneous adipose tissue was obtained from the patient, and DNA and RNA were extracted in order to evaluate mitochondrial DNA abundance and mRNA expression levels. Conclusion The expression of marker genes of adipogenesis and adipocyte metabolism, including the master regulator PPARγ, was down-regulated in subcutaneous adipose tissue from this patient. Adiponectin mRNA expression was also reduced but leptin mRNA levels were unaltered. Markers of local inflammatory status were unaltered. Expression of genes related to mitochondrial function was reduced despite unaltered levels of mitochondrial DNA. It is concluded that adipogenic and mitochondrial gene expression is impaired in adipose tissue in this patient with acquired partial lipodystrophy.

  11. Copy-number and gene dependency analysis reveals partial copy loss of wild-type SF3B1 as a novel cancer vulnerability. | Office of Cancer Genomics

    Science.gov (United States)

    Genomic instability is a hallmark of human cancer, and results in widespread somatic copy number alterations. We used a genome-scale shRNA viability screen in human cancer cell lines to systematically identify genes that are essential in the context of particular copy-number alterations (copy-number associated gene dependencies). The most enriched class of copy-number associated gene dependencies was CYCLOPS (Copy-number alterations Yielding Cancer Liabilities Owing to Partial losS) genes, and spliceosome components were the most prevalent.

  12. Redundant arrays of IDE drives

    Energy Technology Data Exchange (ETDEWEB)

    D.A. Sanders et al.

    2002-01-02

    The authors report tests of redundant arrays of IDE disk drives for use in offline high energy physics data analysis. Parts costs of total systems using commodity EIDE disks are now at the $4000 per Terabyte level. Disk storage prices have now decreased to the point where they equal the cost per Terabyte of Storage Technology tape silos. The disks, however, offer far better granularity; even small institutions can afford to deploy systems. The tests include reports on software RAID-5 systems running under Linux 2.4 using Promise Ultra 100{trademark} disk controllers. RAID-5 protects data in case of a single disk failure by providing parity bits. Tape backup is not required. Journaling file systems are used to allow rapid recovery from crashes. The data analysis strategy is to encapsulate data and CPU processing power. Analysis for a particular part of a data set takes place on the PC where the data resides. The network is only used to put results together. They explore three methods of moving data between sites; internet transfers, not pluggable IDE disks in FireWire cases, and DVD-R disks.

  13. Redundant arrays of IDE drives

    International Nuclear Information System (INIS)

    Sanders, D.A.

    2002-01-01

    The authors report tests of redundant arrays of IDE disk drives for use in offline high energy physics data analysis. Parts costs of total systems using commodity EIDE disks are now at the $4000 per Terabyte level. Disk storage prices have now decreased to the point where they equal the cost per Terabyte of Storage Technology tape silos. The disks, however, offer far better granularity; even small institutions can afford to deploy systems. The tests include reports on software RAID-5 systems running under Linux 2.4 using Promise Ultra 100trademark disk controllers. RAID-5 protects data in case of a single disk failure by providing parity bits. Tape backup is not required. Journaling file systems are used to allow rapid recovery from crashes. The data analysis strategy is to encapsulate data and CPU processing power. Analysis for a particular part of a data set takes place on the PC where the data resides. The network is only used to put results together. They explore three methods of moving data between sites; internet transfers, not pluggable IDE disks in FireWire cases, and DVD-R disks

  14. Reliability–redundancy allocation problem considering optimal redundancy strategy using parallel genetic algorithm

    International Nuclear Information System (INIS)

    Kim, Heungseob; Kim, Pansoo

    2017-01-01

    To maximize the reliability of a system, the traditional reliability–redundancy allocation problem (RRAP) determines the component reliability and level of redundancy for each subsystem. This paper proposes an advanced RRAP that also considers the optimal redundancy strategy, either active or cold standby. In addition, new examples are presented for it. Furthermore, the exact reliability function for a cold standby redundant subsystem with an imperfect detector/switch is suggested, and is expected to replace the previous approximating model that has been used in most related studies. A parallel genetic algorithm for solving the RRAP as a mixed-integer nonlinear programming model is presented, and its performance is compared with those of previous studies by using numerical examples on three benchmark problems. - Highlights: • Optimal strategy is proposed to solve reliability redundancy allocation problem. • The redundancy strategy uses parallel genetic algorithm. • Improved reliability function for a cold standby subsystem is suggested. • Proposed redundancy strategy enhances the system reliability.

  15. Redundant correlation effect on personalized recommendation

    Science.gov (United States)

    Qiu, Tian; Han, Teng-Yue; Zhong, Li-Xin; Zhang, Zi-Ke; Chen, Guang

    2014-02-01

    The high-order redundant correlation effect is investigated for a hybrid algorithm of heat conduction and mass diffusion (HHM), through both heat conduction biased (HCB) and mass diffusion biased (MDB) correlation redundancy elimination processes. The HCB and MDB algorithms do not introduce any additional tunable parameters, but keep the simple character of the original HHM. Based on two empirical datasets, the Netflix and MovieLens, the HCB and MDB are found to show better recommendation accuracy for both the overall objects and the cold objects than the HHM algorithm. Our work suggests that properly eliminating the high-order redundant correlations can provide a simple and effective approach to accurate recommendation.

  16. A Modular Approach to Redundant Robot Control

    International Nuclear Information System (INIS)

    Anderson, R.J.

    1997-12-01

    This paper describes a modular approach for computing redundant robot kinematics. First some conventional redundant control methods are presented and shown to be 'passive control laws', i.e. they can be represented by a network consisting of passive elements. These networks are then put into modular form by applying scattering operator techniques. Additional subnetwork modules can then be added to further shape the motion. Modules for obstacle detection, joint limit avoidance, proximity sensing, and for imposing nonlinear velocity constraints are presented. The resulting redundant robot control system is modular, flexible and robust

  17. Exploiting Redundancy in an OFDM SDR Receiver

    Directory of Open Access Journals (Sweden)

    Tomas Palenik

    2009-01-01

    Full Text Available Common OFDM system contains redundancy necessary to mitigate interblock interference and allows computationally effective single-tap frequency domain equalization in receiver. Assuming the system implements an outer error correcting code and channel state information is available in the receiver, we show that it is possible to understand the cyclic prefix insertion as a weak inner ECC encoding and exploit the introduced redundancy to slightly improve error performance of such a system. In this paper, an easy way to implement modification to an existing SDR OFDM receiver is presented. This modification enables the utilization of prefix redundancy, while preserving full compatibility with existing OFDM-based communication standards.

  18. Molecular analysis of the androgen-receptor gene in a family with receptor-positive partial androgen insensitivity: an unusual type of intronic mutation

    NARCIS (Netherlands)

    H.T. Brüggenwirth (Hennie); A.L.M. Boehmer (Annemie); S. Ramnarain; M.C. Verleun-Mooijman; D.P.E. Satijn (David); J. Trapman (Jan); J.A. Grootegoed (Anton); A.O. Brinkmann (Albert)

    1997-01-01

    textabstractIn the coding part and the intron-exon boundaries of the androgen-receptor gene of a patient with partial androgen insensitivity, no mutation was found. The androgen receptor of this patient displayed normal ligand-binding parameters and migrated as a

  19. Effect of mutagens, chemotherapeutic agents and defects in DNA repair genes on recombination in F' partial diploid Escherichia coli

    International Nuclear Information System (INIS)

    Norin, A.J.; Goldschmidt, E.P.

    1979-01-01

    The ability of mutagenic agents, nonmutagenic substances and defects in DNA repair to alter the genotype of F' partial diploid (F30) Escherichia coli was determined. The frequency of auxotrophic mutants and histidine requiring (His - ) haploid colonies was increased by mutagen treatment but Hfr colonies were not detected in F30 E. coli even with specific selection techniques. Genotype changes due to nonreciprocal recombination were determined by measuring the frequency of His - homogenotes, eg. F' hisC780, hisI + /hisC780, hisI + , arising from a His + heterogenote, F' hisC780 hisI + /hisC + , his1903. At least 75% of the recombinants were homozygous for histidine alleles which were present on the F' plasmid (exogenote) of the parental hetergenote rather than for histidine alleles on the chromosome. Mutagens, chemotherapeutic agents which block DNA synthesis and a defective DNA polymerase I gene, polA1, were found to increase the frequency of nonreciprocal recombination. A defect in the ability to excise thymine dimers, uvrC34, did not increase spontaneous nonreciprocal recombination. However, UV irradiation but not methyl methanesulfonate (MMS) induced greater recombination in this excision-repair defective mutant than in DNA-repair-proficient strains. (Auth.)

  20. Pathogenesis of growth failure and partial reversal with gene therapy in murine and canine Glycogen Storage Disease type Ia.

    Science.gov (United States)

    Brooks, Elizabeth Drake; Little, Dianne; Arumugam, Ramamani; Sun, Baodong; Curtis, Sarah; Demaster, Amanda; Maranzano, Michael; Jackson, Mark W; Kishnani, Priya; Freemark, Michael S; Koeberl, Dwight D

    2013-06-01

    Glycogen Storage Disease type Ia (GSD-Ia) in humans frequently causes delayed bone maturation, decrease in final adult height, and decreased growth velocity. This study evaluates the pathogenesis of growth failure and the effect of gene therapy on growth in GSD-Ia affected dogs and mice. Here we found that homozygous G6pase (-/-) mice with GSD-Ia have normal growth hormone (GH) levels in response to hypoglycemia, decreased insulin-like growth factor (IGF) 1 levels, and attenuated weight gain following administration of GH. Expression of hepatic GH receptor and IGF 1 mRNAs and hepatic STAT5 (phospho Y694) protein levels are reduced prior to and after GH administration, indicating GH resistance. However, restoration of G6Pase expression in the liver by treatment with adeno-associated virus 8 pseudotyped vector expressing G6Pase (AAV2/8-G6Pase) corrected body weight, but failed to normalize plasma IGF 1 in G6pase (-/-) mice. Untreated G6pase (-/-) mice also demonstrated severe delay of growth plate ossification at 12 days of age; those treated with AAV2/8-G6Pase at 14 days of age demonstrated skeletal dysplasia and limb shortening when analyzed radiographically at 6 months of age, in spite of apparent metabolic correction. Moreover, gene therapy with AAV2/9-G6Pase only partially corrected growth in GSD-Ia affected dogs as detected by weight and bone measurements and serum IGF 1 concentrations were persistently low in treated dogs. We also found that heterozygous GSD-Ia carrier dogs had decreased serum IGF 1, adult body weights and bone dimensions compared to wild-type littermates. In sum, these findings suggest that growth failure in GSD-Ia results, at least in part, from hepatic GH resistance. In addition, gene therapy improved growth in addition to promoting long-term survival in dogs and mice with GSD-Ia. Copyright © 2013 Elsevier Inc. All rights reserved.

  1. Image Registration Using Redundant Wavelet Transforms

    National Research Council Canada - National Science Library

    Brown, Richard

    2001-01-01

    .... In our research, we present a fundamentally new wavelet-based registration algorithm utilizing redundant transforms and a masking process to suppress the adverse effects of noise and improve processing efficiency...

  2. The Effects of Race Conditions When Implementing Single-Source Redundant Clock Trees in Triple Modular Redundant Synchronous Architectures

    Science.gov (United States)

    Berg, Melanie D.; Kim, Hak S.; Phan, Anthony M.; Seidleck, Christina M.; Label, Kenneth A.; Pellish, Jonathan A.; Campola, Michael J.

    2016-01-01

    We present the challenges that arise when using redundant clock domains due to their time-skew. Radiation data show that a singular clock domain provides an improved triple modular redundant (TMR) scheme over redundant clocks.

  3. Redundancy for electric motors in spacecraft applications

    Science.gov (United States)

    Smith, Robert J.; Flew, Alastair R.

    1986-01-01

    The parts of electric motors which should be duplicated in order to provide maximum reliability in spacecraft application are identified. Various common types of redundancy are described. The advantages and disadvantages of each are noted. The principal types are illustrated by reference to specific examples. For each example, constructional details, basic performance data and failure modes are described, together with a discussion of the suitability of particular redundancy techniques to motor types.

  4. Dynamic Control of Kinematically Redundant Robotic Manipulators

    Directory of Open Access Journals (Sweden)

    Erling Lunde

    1987-07-01

    Full Text Available Several methods for task space control of kinematically redundant manipulators have been proposed in the literature. Most of these methods are based on a kinematic analysis of the manipulator. In this paper we propose a control algorithm in which we are especially concerned with the manipulator dynamics. The algorithm is particularly well suited for the class of redundant manipulators consisting of a relatively small manipulator mounted on a larger positioning part.

  5. How Redundant Are Redundant Color Adjectives? An Efficiency-Based Analysis of Color Overspecification

    OpenAIRE

    Rubio-Fern?ndez, Paula

    2016-01-01

    Color adjectives tend to be used redundantly in referential communication. I propose that redundant color adjectives are often intended to exploit a color contrast in the visual context and hence facilitate object identification, despite not being necessary to establish unique reference. Two language-production experiments investigated two types of factors that may affect the use of redundant color adjectives: factors related to the efficiency of color in the visual context and factors relate...

  6. Striking similarity in the gene expression levels of individual Myc module members among ESCs, EpiSCs, and partial iPSCs.

    Directory of Open Access Journals (Sweden)

    Masataka Hirasaki

    Full Text Available Predominant transcriptional subnetworks called Core, Myc, and PRC modules have been shown to participate in preservation of the pluripotency and self-renewality of embryonic stem cells (ESCs. Epiblast stem cells (EpiSCs are another cell type that possesses pluripotency and self-renewality. However, the roles of these modules in EpiSCs have not been systematically examined to date. Here, we compared the average expression levels of Core, Myc, and PRC module genes between ESCs and EpiSCs. EpiSCs showed substantially higher and lower expression levels of PRC and Core module genes, respectively, compared with those in ESCs, while Myc module members showed almost equivalent levels of average gene expression. Subsequent analyses revealed that the similarity in gene expression levels of the Myc module between these two cell types was not just overall, but striking similarities were evident even when comparing the expression of individual genes. We also observed equivalent levels of similarity in the expression of individual Myc module genes between induced pluripotent stem cells (iPSCs and partial iPSCs that are an unwanted byproduct generated during iPSC induction. Moreover, our data demonstrate that partial iPSCs depend on a high level of c-Myc expression for their self-renewal properties.

  7. An efficient simulated annealing algorithm for the redundancy allocation problem with a choice of redundancy strategies

    International Nuclear Information System (INIS)

    Chambari, Amirhossain; Najafi, Amir Abbas; Rahmati, Seyed Habib A.; Karimi, Aida

    2013-01-01

    The redundancy allocation problem (RAP) is an important reliability optimization problem. This paper studies a specific RAP in which redundancy strategies are chosen. To do so, the choice of the redundancy strategies among active and cold standby is considered as decision variables. The goal is to select the redundancy strategy, component, and redundancy level for each subsystem such that the system reliability is maximized. Since RAP is a NP-hard problem, we propose an efficient simulated annealing algorithm (SA) to solve it. In addition, to evaluating the performance of the proposed algorithm, it is compared with well-known algorithms in the literature for different test problems. The results of the performance analysis show a relatively satisfactory efficiency of the proposed SA algorithm

  8. Reversible effects of oxygen partial pressure on genes associated with placental angiogenesis and differentiation in primary-term cytotrophoblast cell culture.

    Science.gov (United States)

    Debiève, F; Depoix, C; Gruson, D; Hubinont, C

    2013-09-01

    Timely regulated changes in oxygen partial pressure are important for placental formation. Disturbances could be responsible for pregnancy-related diseases like preeclampsia and intrauterine growth restriction. We aimed to (i) determine the effect of oxygen partial pressure on cytotrophoblast differentiation; (ii) measure mRNA expression and protein secretion from genes associated with placental angiogenesis; and (iii) determine the reversibility of these effects at different oxygen partial pressures. Term cytotrophoblasts were incubated at 21% and 2.5% O2 for 96 hr, or were switched between the two oxygen concentrations after 48 hr. Real-time PCR and enzyme-linked immunosorbent assays (ELISAs) were used to evaluate cell fusion and differentiation, measuring transcript levels for those genes involved in cell fusion and placental angiogenesis, including VEGF, PlGF, VEGFR1, sVEGFR1, sENG, INHA, and GCM1. Cytotrophoblasts underwent fusion and differentiation in 2.5% O2 . PlGF expression was inhibited while sVEGFR1 expression increased. VEGF and sENG mRNA expressions increased in 2.5% compared to 21% O2 , but no protein was detected in the cell supernatants. Finally, GCM1 mRNA expression increased during trophoblast differentiation at 21% O2 , but was inhibited at 2.5% O2 . These mRNA expression effects were reversed by returning the cells to 21% O2 . Thus, low-oxygen partial pressure does not inhibit term-cytotrophoblast cell fusion and differentiation in vitro. Lowering the oxygen partial pressure from 21% to 2.5% caused normal-term trophoblasts to reversibly modify their expression of genes associated with placental angiogenesis. This suggests that modifications observed in pregnancy diseases such as preeclampsia or growth retardation are probably due to an extrinsic effect on trophoblasts. Copyright © 2013 Wiley Periodicals, Inc.

  9. Infective Endocarditis: Identification of Catalase-Negative, Gram-Positive Cocci from Blood Cultures by Partial 16S rRNA Gene Analysis and by Vitek 2 Examination

    DEFF Research Database (Denmark)

    Abdul-Redha, Rawaa Jalil; Kemp, Michael; Bangsborg, Jette M

    2010-01-01

    Streptococci, enterococci and Streptococcus-like bacteria are frequent etiologic agents of infective endocarditis and correct species identification can be a laboratory challenge. Viridans streptococci (VS) not seldomly cause contamination of blood cultures. Vitek 2 and partial sequencing of the 16......S rRNA gene were applied in order to compare the results of both methods. STRAINS ORIGINATED FROM TWO GROUPS OF PATIENTS: 149 strains from patients with infective endocarditis and 181 strains assessed as blood culture contaminants. Of the 330 strains, based on partial 16S rRNA gene sequencing......-agreeing identifications with the two methods with respect to allocation to the same VS group. Non-agreeing species identification mostly occurred among strains in the contaminant group, while for endocarditis strains notably fewer disagreeing results were observed.Only 67 of 150 strains in the mitis group strains...

  10. Interaction control of a redundant mobile manipulator

    International Nuclear Information System (INIS)

    Chung, J.H.; Velinsky, S.A.; Hess, R.A.

    1998-01-01

    This paper discusses the modeling and control of a spatial mobile manipulator that consists of a robotic manipulator mounted on a wheeled mobile platform. The Lagrange-d'Alembert formulation is used to obtain a concise description of the dynamics of the system, which is subject to nonholonomic constraints. The complexity of the model is increased by introducing kinematic redundancy, which is created when a multilinked manipulator is used. The kinematic redundancy is resolved by decomposing the mobile manipulator into two subsystems: the mobile platform and the manipulator. The redundancy resolution scheme employs a nonlinear interaction-control algorithm, which is developed and applied to coordinate the two subsystems' controllers. The subsystem controllers are independently designed, based on each subsystem's dynamic characteristics. Simulation results show the promise of the developed algorithm

  11. Self-Healing Networks: Redundancy and Structure

    Science.gov (United States)

    Quattrociocchi, Walter; Caldarelli, Guido; Scala, Antonio

    2014-01-01

    We introduce the concept of self-healing in the field of complex networks modelling; in particular, self-healing capabilities are implemented through distributed communication protocols that exploit redundant links to recover the connectivity of the system. We then analyze the effect of the level of redundancy on the resilience to multiple failures; in particular, we measure the fraction of nodes still served for increasing levels of network damages. Finally, we study the effects of redundancy under different connectivity patterns—from planar grids, to small-world, up to scale-free networks—on healing performances. Small-world topologies show that introducing some long-range connections in planar grids greatly enhances the resilience to multiple failures with performances comparable to the case of the most resilient (and least realistic) scale-free structures. Obvious applications of self-healing are in the important field of infrastructural networks like gas, power, water, oil distribution systems. PMID:24533065

  12. Motion compensation via redundant-wavelet multihypothesis.

    Science.gov (United States)

    Fowler, James E; Cui, Suxia; Wang, Yonghui

    2006-10-01

    Multihypothesis motion compensation has been widely used in video coding with previous attention focused on techniques employing predictions that are diverse spatially or temporally. In this paper, the multihypothesis concept is extended into the transform domain by using a redundant wavelet transform to produce multiple predictions that are diverse in transform phase. The corresponding multiple-phase inverse transform implicitly combines the phase-diverse predictions into a single spatial-domain prediction for motion compensation. The performance advantage of this redundant-wavelet-multihypothesis approach is investigated analytically, invoking the fact that the multiple-phase inverse involves a projection that significantly reduces the power of a dense-motion residual modeled as additive noise. The analysis shows that redundant-wavelet multihypothesis is capable of up to a 7-dB reduction in prediction-residual variance over an equivalent single-phase, single-hypothesis approach. Experimental results substantiate the performance advantage for a block-based implementation.

  13. A control method for manipulators with redundancy

    International Nuclear Information System (INIS)

    Furusho, Junji; Usui, Hiroyuki

    1989-01-01

    Redundant manipulators have more ability than nonredundant ones in many aspects such as avoiding obstacles, avoiding singular states, etc. In this paper, a control algorithm for redundant manipulators working under the circumstance in the presence of obstacles is presented. First, the measure of manipulability for robot manipulators under obstacle circumstances is defined. Then, the control algorithm for the obstacle avoidance is derived by using this measure of manipulability. The obstacle avoidance and the maintenance of good posture are simultaneously achieved by this algorithm. Lastly, an experiment and simulation results using an eight degree of freedom manipulator are shown. (author)

  14. Redundancy Elimination in DTN via ACK Mechanism

    Directory of Open Access Journals (Sweden)

    Xiqing Zhang

    2015-08-01

    Full Text Available The traditional routing protocols for delay tolerant networks (DTN usually take the strategy of spreading multiple copies of one message to the networks. When one copy reaches destination, the transmission of other copies not only waste the bandwidth but also deprive other messages of the opportunities for transmission. This paper brings up a mechanism to eliminate the redundant copies. By adding an acknowledge field to the packet header to delete redundant copies, it can degrade the network overhead while improve the delivery ratio. Simulation results confirm that the proposed method can improve the performance of epidemic and Spray and Wait routing protocol.

  15. Fastidious Gram-Negatives: Identification by the Vitek 2 Neisseria-Haemophilus Card and by Partial 16S rRNA Gene Sequencing Analysis.

    Science.gov (United States)

    Sönksen, Ute Wolff; Christensen, Jens Jørgen; Nielsen, Lisbeth; Hesselbjerg, Annemarie; Hansen, Dennis Schrøder; Bruun, Brita

    2010-12-31

    Taxonomy and identification of fastidious Gram negatives are evolving and challenging. We compared identifications achieved with the Vitek 2 Neisseria-Haemophilus (NH) card and partial 16S rRNA gene sequence (526 bp stretch) analysis with identifications obtained with extensive phenotypic characterization using 100 fastidious Gram negative bacteria. Seventy-five strains represented 21 of the 26 taxa included in the Vitek 2 NH database and 25 strains represented related species not included in the database. Of the 100 strains, 31 were the type strains of the species. Vitek 2 NH identification results: 48 of 75 database strains were correctly identified, 11 strains gave `low discrimination´, seven strains were unidentified, and nine strains were misidentified. Identification of 25 non-database strains resulted in 14 strains incorrectly identified as belonging to species in the database. Partial 16S rRNA gene sequence analysis results: For 76 strains phenotypic and sequencing identifications were identical, for 23 strains the sequencing identifications were either probable or possible, and for one strain only the genus was confirmed. Thus, the Vitek 2 NH system identifies most of the commonly occurring species included in the database. Some strains of rarely occurring species and strains of non-database species closely related to database species cause problems. Partial 16S rRNA gene sequence analysis performs well, but does not always suffice, additional phenotypical characterization being useful for final identification.

  16. Optimal design of a system containing mixed redundancies with respect to reliability and cost

    International Nuclear Information System (INIS)

    Misra, K.B.

    1975-01-01

    A nuclear system generally consists of subsystems that may employ any of the partial, standby, and active redundancies, and is, therefore, a system with mixed type of redundancies. Optimization of reliability or availability of such systems at the design stage is a difficult problem. There appears to be no published work on the optimal design of maintained systems consisting of mixed redundancies. An attempt is therefore made, to present the basis of design and the solution technique to achieve this. An algorithm is described which makes the solution of this mathematically difficult problem possible. Some examples are demonstrated. To achieve further efficiency a study was organized and the recommendations for obtaining a minimum solution time are provided. Although, in the illustration, only the linear constraints and reliability, as the only design parameter, have been considered, the algorithm works well with the nonlinear type of constraints and can be used with other design parameters also. (author)

  17. Analysis of singularity in redundant manipulators

    International Nuclear Information System (INIS)

    Watanabe, Koichi

    2000-03-01

    In the analysis of arm positions and configurations of redundant manipulators, the singularity avoidance problems are important themes. This report presents singularity avoidance computations of a 7 DOF manipulator by using a computer code based on human-arm models. The behavior of the arm escaping from the singular point can be identified satisfactorily through the use of 3-D plotting tools. (author)

  18. Coded aperture imaging with uniformly redundant arrays

    International Nuclear Information System (INIS)

    Fenimore, E.E.; Cannon, T.M.

    1980-01-01

    A system is described which uses uniformly redundant arrays to image non-focusable radiation. The array is used in conjunction with a balanced correlation technique to provide a system with no artifacts so that virtually limitless signal-to-noise ratio is obtained with high transmission characteristics. The array is mosaicked to reduce required detector size over conventional array detectors. 15 claims

  19. Motion control of musculoskeletal systems with redundancy.

    Science.gov (United States)

    Park, Hyunjoo; Durand, Dominique M

    2008-12-01

    Motion control of musculoskeletal systems for functional electrical stimulation (FES) is a challenging problem due to the inherent complexity of the systems. These include being highly nonlinear, strongly coupled, time-varying, time-delayed, and redundant. The redundancy in particular makes it difficult to find an inverse model of the system for control purposes. We have developed a control system for multiple input multiple output (MIMO) redundant musculoskeletal systems with little prior information. The proposed method separates the steady-state properties from the dynamic properties. The dynamic control uses a steady-state inverse model and is implemented with both a PID controller for disturbance rejection and an artificial neural network (ANN) feedforward controller for fast trajectory tracking. A mechanism to control the sum of the muscle excitation levels is also included. To test the performance of the proposed control system, a two degree of freedom ankle-subtalar joint model with eight muscles was used. The simulation results show that separation of steady-state and dynamic control allow small output tracking errors for different reference trajectories such as pseudo-step, sinusoidal and filtered random signals. The proposed control method also demonstrated robustness against system parameter and controller parameter variations. A possible application of this control algorithm is FES control using multiple contact cuff electrodes where mathematical modeling is not feasible and the redundancy makes the control of dynamic movement difficult.

  20. On Redundancy in Describing Linguistic Systems

    Directory of Open Access Journals (Sweden)

    Vladimir Borissov Pericliev

    2015-12-01

    Full Text Available On Redundancy in Describing Linguistic Systems The notion of system of linguistic elements figures prominently in most post-Saussurian linguistics up to the present. A “system” is the network of the contrastive (or, distinctive features each element in the system bears to the remaining elements. The meaning (valeur of each element in the system is the set of features that are necessary and jointly sufficient to distinguish this element from all others. The paper addresses the problems of “redundancy”, i.e. the occurrence of features that are not strictly necessary in describing an element in a system. Redundancy is shown to smuggle into the description of linguistic systems, this infelicitous practice illustrated with some examples from the literature (e.g. the classical phonemic analysis of Russian by Cherry, Halle, and Jakobson, 1953. The logic and psychology of the occurrence of redundancy are briefly sketched and it is shown that, in addition to some other problems, redundancy leads to a huge and unresolvable ambiguity of descriptions of linguistic systems (the Buridan’s ass problem.

  1. Structural redundance of NPPs and diagnostics

    International Nuclear Information System (INIS)

    Znyshev, V.V.; Sabaev, E.F.

    1988-01-01

    A new approach to functional diagnosis of NPP state based on structural redundance, owing to which in major of the facilities there are elements identical as to the structure and operational conditions, is suggested. The difference from zero by the given value for one parameter measured for various identical elements is an indicator of a failed element and a signal for diagnostic analysis

  2. Impedance Control of a Redundant Parallel Manipulator

    DEFF Research Database (Denmark)

    Méndez, Juan de Dios Flores; Schiøler, Henrik; Madsen, Ole

    2017-01-01

    This paper presents the design of Impedance Control to a redundantly actuated Parallel Kinematic Manipulator. The proposed control is based on treating each limb as a single system and their connection through the internal interaction forces. The controller introduces a stiffness and damping...

  3. REDUNDANT ARRAY CONFIGURATIONS FOR 21 cm COSMOLOGY

    Energy Technology Data Exchange (ETDEWEB)

    Dillon, Joshua S.; Parsons, Aaron R., E-mail: jsdillon@berkeley.edu [Department of Astronomy, UC Berkeley, Berkeley, CA (United States)

    2016-08-01

    Realizing the potential of 21 cm tomography to statistically probe the intergalactic medium before and during the Epoch of Reionization requires large telescopes and precise control of systematics. Next-generation telescopes are now being designed and built to meet these challenges, drawing lessons from first-generation experiments that showed the benefits of densely packed, highly redundant arrays—in which the same mode on the sky is sampled by many antenna pairs—for achieving high sensitivity, precise calibration, and robust foreground mitigation. In this work, we focus on the Hydrogen Epoch of Reionization Array (HERA) as an interferometer with a dense, redundant core designed following these lessons to be optimized for 21 cm cosmology. We show how modestly supplementing or modifying a compact design like HERA’s can still deliver high sensitivity while enhancing strategies for calibration and foreground mitigation. In particular, we compare the imaging capability of several array configurations, both instantaneously (to address instrumental and ionospheric effects) and with rotation synthesis (for foreground removal). We also examine the effects that configuration has on calibratability using instantaneous redundancy. We find that improved imaging with sub-aperture sampling via “off-grid” antennas and increased angular resolution via far-flung “outrigger” antennas is possible with a redundantly calibratable array configuration.

  4. Beyond redundancy how geographic redundancy can improve service availability and reliability of computer-based systems

    CERN Document Server

    Bauer, Eric; Eustace, Dan

    2012-01-01

    "While geographic redundancy can obviously be a huge benefit for disaster recovery, it is far less obvious what benefit is feasible and likely for more typical non-catastrophic hardware, software, and human failures. Georedundancy and Service Availability provides both a theoretical and practical treatment of the feasible and likely benefits of geographic redundancy for both service availability and service reliability. The text provides network/system planners, IS/IT operations folks, system architects, system engineers, developers, testers, and other industry practitioners with a general discussion about the capital expense/operating expense tradeoff that frames system redundancy and georedundancy"--

  5. Investigation of a Patient With a Partial Trisomy 16q Including the Fat Mass and Obesity Associated Gene (FTO): Fine Mapping and FTO Gene Expression Study

    NARCIS (Netherlands)

    van den Berg, L.; Delemarre-van d Waal, H.A.; Han, J.C.; Ylstra, B.; Eijk, P.; Nesterova, M.; Heutink, P.; Stratakis, C.A.

    2010-01-01

    A female patient with a partial trisomy 16q was described previously. Her clinical characteristics included obesity, severe anisomastia, moderate to severe mental retardation, attention deficit hyperactivity disorder, dysmorphic facies, and contractions of the small joints. In this article, we

  6. Trophic redundancy reduces vulnerability to extinction cascades.

    Science.gov (United States)

    Sanders, Dirk; Thébault, Elisa; Kehoe, Rachel; Frank van Veen, F J

    2018-03-06

    Current species extinction rates are at unprecedentedly high levels. While human activities can be the direct cause of some extinctions, it is becoming increasingly clear that species extinctions themselves can be the cause of further extinctions, since species affect each other through the network of ecological interactions among them. There is concern that the simplification of ecosystems, due to the loss of species and ecological interactions, increases their vulnerability to such secondary extinctions. It is predicted that more complex food webs will be less vulnerable to secondary extinctions due to greater trophic redundancy that can buffer against the effects of species loss. Here, we demonstrate in a field experiment with replicated plant-insect communities, that the probability of secondary extinctions is indeed smaller in food webs that include trophic redundancy. Harvesting one species of parasitoid wasp led to secondary extinctions of other, indirectly linked, species at the same trophic level. This effect was markedly stronger in simple communities than for the same species within a more complex food web. We show that this is due to functional redundancy in the more complex food webs and confirm this mechanism with a food web simulation model by highlighting the importance of the presence and strength of trophic links providing redundancy to those links that were lost. Our results demonstrate that biodiversity loss, leading to a reduction in redundant interactions, can increase the vulnerability of ecosystems to secondary extinctions, which, when they occur, can then lead to further simplification and run-away extinction cascades. Copyright © 2018 the Author(s). Published by PNAS.

  7. Handling data redundancy and update anomalies in fuzzy relational databases

    International Nuclear Information System (INIS)

    Chen, G.; Kerre, E.E.

    1996-01-01

    This paper discusses various data redundancy and update anomaly problems that may occur with fuzzy relational databases. In coping with these problems to avoid undesirable consequences when fuzzy databases are updated via data insertion, deletion and modification, a number of fuzzy normal forms (e.g., F1NF, 0-F2NF, 0-F3NF, 0-FBCNF) are used to guide the design of relation schemes such that partial and transitive fuzzy functional dependencies (FFDs) between relation attributes are restricted. Based upon FFDs and related concepts, particular attention is paid to 0-F3NF and 0-FBCNF, and to the corresponding decomposition algorithms. These algorithms not only produce relation schemes which are either in 0-F3NF or in 0-FBCNF, but also guarantee that the information (data content and FFDs) with original schemes can be recovered with those resultant schemes

  8. Partial IGF-1 deficiency is sufficient to reduce heart contractibility, angiotensin II sensibility, and alter gene expression of structural and functional cardiac proteins.

    Science.gov (United States)

    González-Guerra, José Luis; Castilla-Cortazar, Inma; Aguirre, Gabriel A; Muñoz, Úrsula; Martín-Estal, Irene; Ávila-Gallego, Elena; Granado, Miriam; Puche, Juan E; García-Villalón, Ángel Luis

    2017-01-01

    Circulating levels of IGF-1 may decrease under several circumstances like ageing, metabolic syndrome, and advanced cirrhosis. This reduction is associated with insulin resistance, dyslipidemia, progression to type 2 diabetes, and increased risk for cardiovascular diseases. However, underlying mechanisms between IGF-1 deficiency and cardiovascular disease remain elusive. The specific aim of the present work was to study whether the partial IGF-1 deficiency influences heart and/or coronary circulation, comparing vasoactive factors before and after of ischemia-reperfusion (I/R). In addition, histology of the heart was performed together with cardiac gene expression for proteins involved in structure and function (extracellular matrix, contractile proteins, active peptides); carried out using microarrays, followed by RT-qPCR confirmation of the three experimental groups. IGF-1 partial deficiency is associated to a reduction in contractility and angiotensin II sensitivity, interstitial fibrosis as well as altered expression pattern of genes involved in extracellular matrix proteins, calcium dynamics, and cardiac structure and function. Although this work is descriptive, it provides a clear insight of the impact that partial IGF-1 deficiency on the heart and establishes this experimental model as suitable for studying cardiac disease mechanisms and exploring therapeutic options for patients under IGF-1 deficiency conditions.

  9. Partial IGF-1 deficiency is sufficient to reduce heart contractibility, angiotensin II sensibility, and alter gene expression of structural and functional cardiac proteins.

    Directory of Open Access Journals (Sweden)

    José Luis González-Guerra

    Full Text Available Circulating levels of IGF-1 may decrease under several circumstances like ageing, metabolic syndrome, and advanced cirrhosis. This reduction is associated with insulin resistance, dyslipidemia, progression to type 2 diabetes, and increased risk for cardiovascular diseases. However, underlying mechanisms between IGF-1 deficiency and cardiovascular disease remain elusive. The specific aim of the present work was to study whether the partial IGF-1 deficiency influences heart and/or coronary circulation, comparing vasoactive factors before and after of ischemia-reperfusion (I/R. In addition, histology of the heart was performed together with cardiac gene expression for proteins involved in structure and function (extracellular matrix, contractile proteins, active peptides; carried out using microarrays, followed by RT-qPCR confirmation of the three experimental groups. IGF-1 partial deficiency is associated to a reduction in contractility and angiotensin II sensitivity, interstitial fibrosis as well as altered expression pattern of genes involved in extracellular matrix proteins, calcium dynamics, and cardiac structure and function. Although this work is descriptive, it provides a clear insight of the impact that partial IGF-1 deficiency on the heart and establishes this experimental model as suitable for studying cardiac disease mechanisms and exploring therapeutic options for patients under IGF-1 deficiency conditions.

  10. High-resolution mapping of genes involved in plant stage-specific partial resistance of barley to leaf rust

    NARCIS (Netherlands)

    Yeo, F.K.S.; Bouchon, R.; Kuijken, R.; Loriaux, A.; Boyd, C.; Niks, R.E.; Marcel, T.C.

    2017-01-01

    Partial resistance quantitative trait loci (QTLs) Rphq11 and rphq16 against Puccinia hordei isolate 1.2.1 were previously mapped in seedlings of the mapping populations Steptoe/Morex and Oregon Wolfe Barleys, respectively. In this study, QTL mapping was performed at adult plant stage for the two

  11. Fastidious Gram-Negatives: Identification by the Vitek 2 Neisseria-Haemophilus Card and by Partial 16S rRNA Gene Sequencing Analysis

    DEFF Research Database (Denmark)

    Wolff Sönksen, Ute; Christensen, Jens Jørgen; Nielsen, Lisbeth

    2010-01-01

    Taxonomy and identification of fastidious Gram negatives are evolving and challenging. We compared identifications achieved with the Vitek 2 Neisseria-Haemophilus (NH) card and partial 16S rRNA gene sequence (526 bp stretch) analysis with identifications obtained with extensive phenotypic...... characterization using 100 fastidious Gram negative bacteria. Seventy-five strains represented 21 of the 26 taxa included in the Vitek 2 NH database and 25 strains represented related species not included in the database. Of the 100 strains, 31 were the type strains of the species. Vitek 2 NH identification...... results: 48 of 75 database strains were correctly identified, 11 strains gave `low discrimination´, seven strains were unidentified, and nine strains were misidentified. Identification of 25 non-database strains resulted in 14 strains incorrectly identified as belonging to species in the database. Partial...

  12. Partial protoporphyrinogen oxidase (PPOX gene deletions, due to different Alu-mediated mechanisms, identified by MLPA analysis in patients with variegate porphyria

    Directory of Open Access Journals (Sweden)

    Barbaro Michela

    2013-01-01

    Full Text Available Abstract Variegate porphyria (VP is an autosomal dominantly inherited hepatic porphyria. The genetic defect in the PPOX gene leads to a partial defect of protoporphyrinogen oxidase, the penultimate enzyme of heme biosynthesis. Affected individuals can develop cutaneous symptoms in sun-exposed areas of the skin and/or neuropsychiatric acute attacks. The identification of the genetic defect in VP families is of crucial importance to detect the carrier status which allows counseling to prevent potentially life threatening neurovisceral attacks, usually triggered by factors such as certain drugs, alcohol or fasting. In a total of 31 Swedish VP families sequence analysis had identified a genetic defect in 26. In the remaining five families an extended genetic investigation was necessary. After the development of a synthetic probe set, MLPA analysis to screen for single exon deletions/duplications was performed. We describe here, for the first time, two partial deletions within the PPOX gene detected by MLPA analysis. One deletion affects exon 5 and 6 (c.339-197_616+320del1099 and has been identified in four families, most probably after a founder effect. The other extends from exon 5 to exon 9 (c.339-350_987+229del2609 and was found in one family. We show that both deletions are mediated by Alu repeats. Our findings emphasize the usefulness of MLPA analysis as a complement to PPOX gene sequencing analysis for comprehensive genetic diagnostics in patients with VP.

  13. Gene features selection for three-class disease classification via multiple orthogonal partial least square discriminant analysis and S-plot using microarray data.

    Science.gov (United States)

    Yang, Mingxing; Li, Xiumin; Li, Zhibin; Ou, Zhimin; Liu, Ming; Liu, Suhuan; Li, Xuejun; Yang, Shuyu

    2013-01-01

    DNA microarray analysis is characterized by obtaining a large number of gene variables from a small number of observations. Cluster analysis is widely used to analyze DNA microarray data to make classification and diagnosis of disease. Because there are so many irrelevant and insignificant genes in a dataset, a feature selection approach must be employed in data analysis. The performance of cluster analysis of this high-throughput data depends on whether the feature selection approach chooses the most relevant genes associated with disease classes. Here we proposed a new method using multiple Orthogonal Partial Least Squares-Discriminant Analysis (mOPLS-DA) models and S-plots to select the most relevant genes to conduct three-class disease classification and prediction. We tested our method using Golub's leukemia microarray data. For three classes with subtypes, we proposed hierarchical orthogonal partial least squares-discriminant analysis (OPLS-DA) models and S-plots to select features for two main classes and their subtypes. For three classes in parallel, we employed three OPLS-DA models and S-plots to choose marker genes for each class. The power of feature selection to classify and predict three-class disease was evaluated using cluster analysis. Further, the general performance of our method was tested using four public datasets and compared with those of four other feature selection methods. The results revealed that our method effectively selected the most relevant features for disease classification and prediction, and its performance was better than that of the other methods.

  14. Mature neurons dynamically restrict apoptosis via redundant premitochondrial brakes.

    Science.gov (United States)

    Annis, Ryan P; Swahari, Vijay; Nakamura, Ayumi; Xie, Alison X; Hammond, Scott M; Deshmukh, Mohanish

    2016-12-01

    Apoptotic cell death is critical for the early development of the nervous system, but once the nervous system is established, the apoptotic pathway becomes highly restricted in mature neurons. However, the mechanisms underlying this increased resistance to apoptosis in these mature neurons are not completely understood. We have previously found that members of the miR-29 family of microRNAs (miRNAs) are induced with neuronal maturation and that overexpression of miR-29 was sufficient to restrict apoptosis in neurons. To determine whether endogenous miR-29 alone was responsible for the inhibition of cytochrome c release in mature neurons, we examined the status of the apoptotic pathway in sympathetic neurons deficient for all three miR-29 family members. Unexpectedly, we found that the apoptotic pathway remained largely restricted in miR-29-deficient mature neurons. We therefore probed for additional mechanisms by which mature neurons resist apoptosis. We identify miR-24 as another miRNA that is upregulated in the maturing cerebellum and sympathetic neurons that can act redundantly with miR-29 by targeting a similar repertoire of prodeath BH3-only genes. Overall, our results reveal that mature neurons engage multiple redundant brakes to restrict the apoptotic pathway and ensure their long-term survival. © 2016 Federation of European Biochemical Societies.

  15. Does functional redundancy stabilize fish communities?

    DEFF Research Database (Denmark)

    Rice, Jake; Daan, Niels; Gislason, Henrik

    2012-01-01

    Functional redundancy is a community property thought to contribute to ecosystem resilience. It is argued that trophic (or other) functional groups with more species have more linkages and opportunities to buffer variation in abundance of individual species. We explored this concept with a 30‐year...... time‐series of data on 83 species sampled in the International Bottom Trawl Survey. Our results were consistent with the hypothesis that functional redundancy leads to more stable (and by inference more resilient) communities. Over the time‐series trophic groups (assigned by diet, size (Lmax) group......, or both factors) with more species had lower coefficients of variation (CVs) in abundance and biomass than did trophic groups with fewer species. These findings are also consistent with Bernoulli’s Law of Large Numbers, a rule that does not require complex ecological and evolutionary processes to produce...

  16. Haplotype divergence and multiple candidate genes at Rphq2, a partial resistance QTL of barley to Puccinia hordei

    Czech Academy of Sciences Publication Activity Database

    Yeo, F. K. S.; Wang, Y.; Vozábová, Tereza; Huneau, C.; LeRoy, P.; Chalhoub, B.; Qi, X. Q.; Niks, R. E.; Marcel, T. C.

    2016-01-01

    Roč. 129, č. 2 (2016), s. 289-304 ISSN 0040-5752 Institutional support: RVO:67985939 Keywords : cartial resistance genes * cloning * Hordeum vulgare Subject RIV: EF - Botanics Impact factor: 4.132, year: 2016

  17. Dynamically redundant particle components in mixtures

    International Nuclear Information System (INIS)

    Lukacs, B.; Martinas, K.

    1984-10-01

    Examples are shown for cases in which the number of different kinds of particles in a system is not necessarily equal to the number of particle degrees of freedom in thermodynamical sense, and at the same time, the observed dynamics of the evolution of the system does not indicate a definite number of degrees of freedeom. The possibility for introducing dynamically redundant particles is discussed. (author)

  18. Parameter identifiability and redundancy: theoretical considerations.

    Directory of Open Access Journals (Sweden)

    Mark P Little

    Full Text Available BACKGROUND: Models for complex biological systems may involve a large number of parameters. It may well be that some of these parameters cannot be derived from observed data via regression techniques. Such parameters are said to be unidentifiable, the remaining parameters being identifiable. Closely related to this idea is that of redundancy, that a set of parameters can be expressed in terms of some smaller set. Before data is analysed it is critical to determine which model parameters are identifiable or redundant to avoid ill-defined and poorly convergent regression. METHODOLOGY/PRINCIPAL FINDINGS: In this paper we outline general considerations on parameter identifiability, and introduce the notion of weak local identifiability and gradient weak local identifiability. These are based on local properties of the likelihood, in particular the rank of the Hessian matrix. We relate these to the notions of parameter identifiability and redundancy previously introduced by Rothenberg (Econometrica 39 (1971 577-591 and Catchpole and Morgan (Biometrika 84 (1997 187-196. Within the widely used exponential family, parameter irredundancy, local identifiability, gradient weak local identifiability and weak local identifiability are shown to be largely equivalent. We consider applications to a recently developed class of cancer models of Little and Wright (Math Biosciences 183 (2003 111-134 and Little et al. (J Theoret Biol 254 (2008 229-238 that generalize a large number of other recently used quasi-biological cancer models. CONCLUSIONS/SIGNIFICANCE: We have shown that the previously developed concepts of parameter local identifiability and redundancy are closely related to the apparently weaker properties of weak local identifiability and gradient weak local identifiability--within the widely used exponential family these concepts largely coincide.

  19. Redundant sensor validation by using fuzzy logic

    International Nuclear Information System (INIS)

    Holbert, K.E.; Heger, A.S.; Alang-Rashid, N.K.

    1994-01-01

    This research is motivated by the need to relax the strict boundary of numeric-based signal validation. To this end, the use of fuzzy logic for redundant sensor validation is introduced. Since signal validation employs both numbers and qualitative statements, fuzzy logic provides a pathway for transforming human abstractions into the numerical domain and thus coupling both sources of information. With this transformation, linguistically expressed analysis principles can be coded into a classification rule-base for signal failure detection and identification

  20. Redundancy Determination of HVDC MMC Modules

    Directory of Open Access Journals (Sweden)

    Chanki Kim

    2015-08-01

    Full Text Available An availability and a reliability prediction has been made for a high-voltage direct-current (HVDC module of VSC (Voltage Source Converter containing DC/DC converter, gate driver, capacitor and insulated gate bipolar transistors (IGBT. This prediction was made using published failure rates for the electronic equipment. The purpose of this prediction is to determinate the additional module redundancy of VSC and the used method is “binomial failure method”.

  1. A Robust and Versatile Method of Combinatorial Chemical Synthesis of Gene Libraries via Hierarchical Assembly of Partially Randomized Modules

    Science.gov (United States)

    Popova, Blagovesta; Schubert, Steffen; Bulla, Ingo; Buchwald, Daniela; Kramer, Wilfried

    2015-01-01

    A major challenge in gene library generation is to guarantee a large functional size and diversity that significantly increases the chances of selecting different functional protein variants. The use of trinucleotides mixtures for controlled randomization results in superior library diversity and offers the ability to specify the type and distribution of the amino acids at each position. Here we describe the generation of a high diversity gene library using tHisF of the hyperthermophile Thermotoga maritima as a scaffold. Combining various rational criteria with contingency, we targeted 26 selected codons of the thisF gene sequence for randomization at a controlled level. We have developed a novel method of creating full-length gene libraries by combinatorial assembly of smaller sub-libraries. Full-length libraries of high diversity can easily be assembled on demand from smaller and much less diverse sub-libraries, which circumvent the notoriously troublesome long-term archivation and repeated proliferation of high diversity ensembles of phages or plasmids. We developed a generally applicable software tool for sequence analysis of mutated gene sequences that provides efficient assistance for analysis of library diversity. Finally, practical utility of the library was demonstrated in principle by assessment of the conformational stability of library members and isolating protein variants with HisF activity from it. Our approach integrates a number of features of nucleic acids synthetic chemistry, biochemistry and molecular genetics to a coherent, flexible and robust method of combinatorial gene synthesis. PMID:26355961

  2. AIRE variations in Addison's disease and autoimmune polyendocrine syndromes (APS): partial gene deletions contribute to APS I.

    Science.gov (United States)

    Bøe Wolff, A S; Oftedal, B; Johansson, S; Bruland, O; Løvås, K; Meager, A; Pedersen, C; Husebye, E S; Knappskog, P M

    2008-03-01

    Autoimmune Addison's disease (AAD) is often associated with other components in autoimmune polyendocrine syndromes (APS). Whereas APS I is caused by mutations in the AIRE gene, the susceptibility genes for AAD and APS II are unclear. In the present study, we investigated whether polymorphisms or copy number variations in the AIRE gene were associated with AAD and APS II. First, nine SNPs in the AIRE gene were analyzed in 311 patients with AAD and APS II and 521 healthy controls, identifying no associated risk. Second, in a subgroup of 25 of these patients, AIRE sequencing revealed three novel polymorphisms. Finally, the AIRE copy number was determined by duplex quantitative PCR in 14 patients with APS I, 161 patients with AAD and APS II and in 39 healthy subjects. In two Scandinavian APS I patients previously reported to be homozygous for common AIRE mutations, we identified large deletions of the AIRE gene covering at least exon 2 to exon 8. We conclude that polymorphisms in the AIRE gene are not associated with AAD and APS II. We further suggest that DNA analysis of the parents of patients found to be homozygous for mutations in AIRE, always should be performed.

  3. Distributed redundancy and robustness in complex systems

    KAUST Repository

    Randles, Martin

    2011-03-01

    The uptake and increasing prevalence of Web 2.0 applications, promoting new large-scale and complex systems such as Cloud computing and the emerging Internet of Services/Things, requires tools and techniques to analyse and model methods to ensure the robustness of these new systems. This paper reports on assessing and improving complex system resilience using distributed redundancy, termed degeneracy in biological systems, to endow large-scale complicated computer systems with the same robustness that emerges in complex biological and natural systems. However, in order to promote an evolutionary approach, through emergent self-organisation, it is necessary to specify the systems in an \\'open-ended\\' manner where not all states of the system are prescribed at design-time. In particular an observer system is used to select robust topologies, within system components, based on a measurement of the first non-zero Eigen value in the Laplacian spectrum of the components\\' network graphs; also known as the algebraic connectivity. It is shown, through experimentation on a simulation, that increasing the average algebraic connectivity across the components, in a network, leads to an increase in the variety of individual components termed distributed redundancy; the capacity for structurally distinct components to perform an identical function in a particular context. The results are applied to a specific application where active clustering of like services is used to aid load balancing in a highly distributed network. Using the described procedure is shown to improve performance and distribute redundancy. © 2010 Elsevier Inc.

  4. Fastidious Gram-Negatives: Identification by the Vitek 2 Neisseria-Haemophilus Card and by Partial 16S rRNA Gene Sequencing Analysis

    DEFF Research Database (Denmark)

    Wolff Sönksen, Ute; Christensen, Jens Jørgen; Nielsen, Lisbeth

    2010-01-01

    Taxonomy and identification of fastidious Gram negatives are evolving and challenging. We compared identifications achieved with the Vitek 2 Neisseria-Haemophilus (NH) card and partial 16S rRNA gene sequence (526 bp stretch) analysis with identifications obtained with extensive phenotypic...... characterization using 100 fastidious Gram negative bacteria. Seventy-five strains represented 21 of the 26 taxa included in the Vitek 2 NH database and 25 strains represented related species not included in the database. Of the 100 strains, 31 were the type strains of the species. Vitek 2 NH identification...

  5. Nonlinear Redundancy Analysis. Research Report 88-1.

    Science.gov (United States)

    van der Burg, Eeke; de Leeuw, Jan

    A non-linear version of redundancy analysis is introduced. The technique is called REDUNDALS. It is implemented within the computer program for canonical correlation analysis called CANALS. The REDUNDALS algorithm is of an alternating least square (ALS) type. The technique is defined as minimization of a squared distance between criterion…

  6. Partial structure of the phylloxin gene from the giant monkey frog, Phyllomedusa bicolor: parallel cloning of precursor cDNA and genomic DNA from lyophilized skin secretion.

    Science.gov (United States)

    Chen, Tianbao; Gagliardo, Ron; Walker, Brian; Zhou, Mei; Shaw, Chris

    2005-12-01

    Phylloxin is a novel prototype antimicrobial peptide from the skin of Phyllomedusa bicolor. Here, we describe parallel identification and sequencing of phylloxin precursor transcript (mRNA) and partial gene structure (genomic DNA) from the same sample of lyophilized skin secretion using our recently-described cloning technique. The open-reading frame of the phylloxin precursor was identical in nucleotide sequence to that previously reported and alignment with the nucleotide sequence derived from genomic DNA indicated the presence of a 175 bp intron located in a near identical position to that found in the dermaseptins. The highly-conserved structural organization of skin secretion peptide genes in P. bicolor can thus be extended to include that encoding phylloxin (plx). These data further reinforce our assertion that application of the described methodology can provide robust genomic/transcriptomic/peptidomic data without the need for specimen sacrifice.

  7. How redundant are redundant color adjectives? An efficiency-based analysis of color overspecification

    Directory of Open Access Journals (Sweden)

    Paula eRubio-Fernández

    2016-02-01

    Full Text Available Color adjectives tend to be used redundantly in referential communication. I propose that redundant color adjectives are often intended to exploit a color contrast in the visual context and hence facilitate object identification, despite not being necessary to establish unique reference. Two language-production experiments investigated two types of factors that may affect the use of redundant color adjectives: factors related to the efficiency of color in the visual context and factors related to the semantic category of the noun. The results of Experiment 1 confirmed that people produce redundant color adjectives when color may facilitate object recognition; e.g., they do so more often in polychrome displays than in monochrome displays, and more often in English (pre-nominal position than in Spanish (post-nominal position. Redundant color adjectives are also used when color is a central property of the object category; e.g., people referred to the color of clothes more often than to the color of geometrical figures (Experiment 1, and they overspecified atypical colors more often than variable and stereotypical colors (Experiment 2. These results are relevant for pragmatic models of referential communication based on Gricean pragmatics and informativeness. An alternative analysis is proposed, which focuses on the efficiency and pertinence of color in a given referential situation.

  8. A new model for the redundancy allocation problem with component mixing and mixed redundancy strategy

    International Nuclear Information System (INIS)

    Gholinezhad, Hadi; Zeinal Hamadani, Ali

    2017-01-01

    This paper develops a new model for redundancy allocation problem. In this paper, like many recent papers, the choice of the redundancy strategy is considered as a decision variable. But, in our model each subsystem can exploit both active and cold-standby strategies simultaneously. Moreover, the model allows for component mixing such that components of different types may be used in each subsystem. The problem, therefore, boils down to determining the types of components, redundancy levels, and number of active and cold-standby units of each type for each subsystem to maximize system reliability by considering such constraints as available budget, weight, and space. Since RAP belongs to the NP-hard class of optimization problems, a genetic algorithm (GA) is developed for solving the problem. Finally, the performance of the proposed algorithm is evaluated by applying it to a well-known test problem from the literature with relatively satisfactory results. - Highlights: • A new model for the redundancy allocation problem in series–parallel systems is proposed. • The redundancy strategy of each subsystem is considered as a decision variable and can be active, cold-standby or mixed. • Component mixing is allowed, in other words components of any subsystem can be non-identical. • A genetic algorithm is developed for solving the problem. • Computational experiments demonstrate that the new model leads to interesting results.

  9. Genetic divergence of Asiatic Bdellocephala (Turbellaria, Tricladida, Paludicola) as revealed by partial 18S rRNA gene sequence comparisons.

    Science.gov (United States)

    Kuznedelov, K D; Timoshkin, O A; Goldman, E

    1997-01-01

    Polymerase chain reaction (PCR) and direct sequencing of small ribosomal RNA genes were used for analysis of genetic differences among Asiatic species of freshwater triclad genus Bdellocephala. Representatives of four species and four subspecies of this genus were used to establish homology between nucleotides in the 5'-end portion of small ribosomal RNA gene sequences. Within 552 nucleotide sites of aligned sequences compared, six variable base positions were discovered, dividing Bdellocephala into five different genotypes. Sequence data allow to distinguish two groups of these genotypes. One of them unites species from Kamchatka and Japan, another one unites Baikalian taxa. Agreement between available morphological, cytological and sequence data is discussed.

  10. Dose-dependent effects of calorie restriction on gene expression, metabolism, and tumor progression are partially mediated by insulin-like growth factor-1

    International Nuclear Information System (INIS)

    Nogueira, Leticia M; Lavigne, Jackie A; Chandramouli, Gadisetti V R; Lui, Huaitian; Barrett, J Carl; Hursting, Stephen D

    2012-01-01

    . Exogenous IGF-1 rescued the hepatic expression of several metabolic genes and pathways affected by CR. Exogenous IGF-1 also rescued the expression of several metabolism- and cancer-related genes affected by CR in the mammary gland. Furthermore, exogenous IGF-1 partially reversed the mammary tumor inhibitory effects of 30% CR. We conclude that several genes and pathways, particularly those associated with macronutrient and steroid hormone metabolism, are associated with the anticancer effects of CR, and that reduced IGF-1 levels can account, at least in part, for many of the effects of CR on gene expression and mammary tumor burden

  11. Objective past of a quantum universe: Redundant records of consistent histories

    Science.gov (United States)

    Riedel, C. Jess; Zurek, Wojciech H.; Zwolak, Michael

    2016-03-01

    Motivated by the advances of quantum Darwinism and recognizing the role played by redundancy in identifying the small subset of quantum states with resilience characteristic of objective classical reality, we explore the implications of redundant records for consistent histories. The consistent histories formalism is a tool for describing sequences of events taking place in an evolving closed quantum system. A set of histories is consistent when one can reason about them using Boolean logic, i.e., when probabilities of sequences of events that define histories are additive. However, the vast majority of the sets of histories that are merely consistent are flagrantly nonclassical in other respects. This embarras de richesses (known as the set selection problem) suggests that one must go beyond consistency to identify how the classical past arises in our quantum universe. The key intuition we follow is that the records of events that define the familiar objective past are inscribed in many distinct systems, e.g., subsystems of the environment, and are accessible locally in space and time to observers. We identify histories that are not just consistent but redundantly consistent using the partial-trace condition introduced by Finkelstein as a bridge between histories and decoherence. The existence of redundant records is a sufficient condition for redundant consistency. It selects, from the multitude of the alternative sets of consistent histories, a small subset endowed with redundant records characteristic of the objective classical past. The information about an objective history of the past is then simultaneously within reach of many, who can independently reconstruct it and arrive at compatible conclusions in the present.

  12. Identification of five partial ABC genes in the liver of the Antarctic fish Trematomus bernacchii and sensitivity of ABCB1 and ABCC2 to Cd exposure

    Energy Technology Data Exchange (ETDEWEB)

    Zucchi, Sara, E-mail: zucchi2@unisi.i [Department of Environmental Sciences ' G. Sarfatti' , University of Siena, Via Mattioli 4, 53100 Siena (Italy); Corsi, Ilaria [Department of Environmental Sciences ' G. Sarfatti' , University of Siena, Via Mattioli 4, 53100 Siena (Italy); Luckenbach, Till [UFZ - Helmholtz Centre for Environmental Research, Permoserstr. 15, D-04318 Leipzig (Germany); Bard, Shannon Mala [Environmental Programmes, Dalhousie University, 1355 Oxford Street, Life Science Centre, Room 820, Halifax, Nova Scotia, Canada B3H 4J1 (Canada); Regoli, Francesco [Department of Biochemistry, Biology and Genetics, Polytechnic University of Marches, Ancona (Italy); Focardi, Silvano [Department of Environmental Sciences ' G. Sarfatti' , University of Siena, Via Mattioli 4, 53100 Siena (Italy)

    2010-08-15

    Several ABC transporters have been characterized from many aquatic organisms, but no information is yet available for Antarctic fish. The aim of this work was to identify the expression of genes for ABC proteins in Trematomus bernacchii, a bioindicator species of the Southern Ocean. Partial cDNA sequences of ABCB1, ABCC1, ABCC2, ABCC4 and ABCC9 were cloned from liver. Using RACE technology, 3.5 and 2.2 kb contigs were obtained for ABCB1 and ABCC2. Considering the elevated natural bioavailability of cadmium at Terra Nova Bay, responsiveness of ABCB1 and ABCC2 to this element was investigated under laboratory conditions. ABCB1 and ABCC2 mRNA levels were approximately four-fold higher in Cd-exposed fish compared to the controls. Induction of ABCB1 protein was also found by western blot. This study provides the first identification of five ABC genes in the liver of an Antarctic key species, some of which may be involved in cellular detoxification. - The presence of five partial sequences showing homology with ABC transporters and the sensitivity of ABCB1 and ABCC2 toward cadmium were determined in the liver of T. bernacchii.

  13. Phylogenetic analysis of Thai oyster (Ostreidae) based on partial sequences of the mitochondrial 16S rDNA gene

    DEFF Research Database (Denmark)

    Bussarawit, Somchai; Gravlund, Peter; Glenner, Henrik

    2006-01-01

    Ten oyster species of the family Ostreidae (Subfamilies Crassostreinae and Lophinae) from Thailand were studied using morphological data and mitochondrial 16S rDNA gene sequences. Additional sequence data from five specimens of Ostreidae and one specimen of Tridacna gigas were downloaded from Gen...

  14. The retinal fascin gene 2 (FSCN2) - partial structural analysis and polymorphisms detection in dogs with progressive retinal atrophy (PRA)

    Czech Academy of Sciences Publication Activity Database

    Horák, Pavel; Knoll, Aleš; Dvořák, J.

    2006-01-01

    Roč. 47, č. 4 (2006), s. 361-364 ISSN 1234-1983 R&D Projects: GA AV ČR 1QS500450578 Institutional research plan: CEZ:AV0Z50450515 Keywords : canis familiaris * FSCN2 gene * PCR-RFLP Subject RIV: EB - Genetics ; Molecular Biology

  15. Molecular characterization and expression profile of partial TLR4 gene in association to mastitis in crossbred cattle.

    Science.gov (United States)

    Panigrahi, Manjit; Sharma, Arjava; Bhushan, Bharat

    2014-01-01

    Crossbred cattle are more prone to mastitis in comparison to indigenous cattle. Toll-like receptor 4 (TLR4) recognizes pathogen ligands, for example, lipopolysaccharide (LPS) endotoxin from Escherichia coli and mediates signaling to initiate innate and adaptive immune responses. Mutations in TLR4 can compromise the host immune response to certain pathogens, so it may be a potential candidate for marker assisted selection to enhance mastitis resistance in dairy cattle. Hence, in this study role of bovine TLR4 gene in mastitis resistance was investigated by association as well as expression profiling analysis in crossbred cattle. The animals were divided into mastitis affected and unaffected groups on the basis of history of animals and California Mastitis Test (CMT). PCR-SSCP and Sequence analysis revealed three genotypes of coreceptor binding region 1 (CRBR1) fragment of TLR4 gene namely AA, AB, and BB in both groups of cattle. The logistic regression model did not show any significant effect of these genotypes on the occurrence of clinical mastitis. Moreover, in vitro challenge of peripheral blood mononuclear cells (PBMCs) with LPS failed to show any association of the genotypes with TLR4 gene expression. In a nutshell, in the present study enough evidence was not found for association of the SNP variants of CRBR1 fragment of TLR4 gene with mastitis susceptibility in crossbred cattle.

  16. ins-7 Gene expression is partially regulated by the DAF-16/IIS signaling pathway in Caenorhabditis elegans under celecoxib intervention.

    Directory of Open Access Journals (Sweden)

    Shanqing Zheng

    Full Text Available DAF-16 target genes are employed as reporters of the insulin/IGF-1 like signal pathway (IIS, and this is notably true when Caenorhabditis elegans (C. elegans is used to study the action of anti-aging compounds on IIS activity. However, some of these genes may not be specific to DAF-16, even if their expression levels are altered when DAF-16 is activated. Celecoxib was reported to extend the lifespan of C. elegans through activation of DAF-16. Our results confirmed the function of celecoxib on aging; however, we found that the expression of ins-7, a DAF-16 target gene, was abnormally regulated by celecoxib. ins-7 plays an important role in regulating aging, and its expression is suppressed in C. elegans when DAF-16 is activated. However, we found that celecoxib upregulated the expression of ins-7 in contrast to its role in DAF-16 activation. Our subsequent analysis indicated that the expression level of ins-7 in C. elegans was negatively regulated by DAF-16 activity. Additionally, its expression was also positively regulated by DAF-16-independent mechanisms, at least following external pharmacological intervention. Our study suggests that ins-7 is not a specific target gene of DAF-16, and should not be chosen as a reporter for IIS activity. This conclusion is important in the study of INSs on aging in C. elegans, especially under the circumstance of drug intervention.

  17. ins-7 Gene expression is partially regulated by the DAF-16/IIS signaling pathway in Caenorhabditis elegans under celecoxib intervention.

    Science.gov (United States)

    Zheng, Shanqing; Liao, Sentai; Zou, Yuxiao; Qu, Zhi; Liu, Fan

    2014-01-01

    DAF-16 target genes are employed as reporters of the insulin/IGF-1 like signal pathway (IIS), and this is notably true when Caenorhabditis elegans (C. elegans) is used to study the action of anti-aging compounds on IIS activity. However, some of these genes may not be specific to DAF-16, even if their expression levels are altered when DAF-16 is activated. Celecoxib was reported to extend the lifespan of C. elegans through activation of DAF-16. Our results confirmed the function of celecoxib on aging; however, we found that the expression of ins-7, a DAF-16 target gene, was abnormally regulated by celecoxib. ins-7 plays an important role in regulating aging, and its expression is suppressed in C. elegans when DAF-16 is activated. However, we found that celecoxib upregulated the expression of ins-7 in contrast to its role in DAF-16 activation. Our subsequent analysis indicated that the expression level of ins-7 in C. elegans was negatively regulated by DAF-16 activity. Additionally, its expression was also positively regulated by DAF-16-independent mechanisms, at least following external pharmacological intervention. Our study suggests that ins-7 is not a specific target gene of DAF-16, and should not be chosen as a reporter for IIS activity. This conclusion is important in the study of INSs on aging in C. elegans, especially under the circumstance of drug intervention.

  18. Annotation of a hybrid partial genome of the Coffee Rust (Hemileia vastatrix contributes to the gene repertoire catalogue of the Pucciniales

    Directory of Open Access Journals (Sweden)

    Marco Aurelio Cristancho

    2014-10-01

    Full Text Available Coffee leaf rust caused by the fungus Hemileia vastatrix is the most damaging disease to coffee worldwide. The pathogen has recently appeared in multiple outbreaks in coffee producing countries resulting in significant yield losses and increases in costs related to its control. New races/isolates are constantly emerging as evidenced by the presence of the fungus in plants that were previously resistant. Genomic studies are opening new avenues for the study of the evolution of pathogens, the detailed description of plant-pathogen interactions and the development of molecular techniques for the identification of individual isolates. For this purpose we sequenced 8 different H. vastatrix isolates using NGS technologies and gathered partial genome assemblies due to the large repetitive content in the coffee rust hybrid genome; 74.4% of the assembled contigs harbor repetitive sequences. A hybrid assembly of 333Mb was built based on the 8 isolates; this assembly was used for subsequent analyses.Analysis of the conserved gene space showed that the hybrid H. vastatrix genome, though highly fragmented, had a satisfactory level of completion with 91.94% of core protein-coding orthologous genes present. RNA-Seq from urediniospores was used to guide the de novo annotation of the H. vastatrix gene complement. In total, 14,445 genes organized in 3,921 families were uncovered; a considerable proportion of the predicted proteins (73.8% were homologous to other Pucciniales species genomes. Several gene families related to the fungal lifestyle were identified, particularly 483 predicted secreted proteins that represent candidate effector genes and will provide interesting hints to decipher virulence in the coffee rust fungus. The genome sequence of Hva will serve as a template to understand the molecular mechanisms used by this fungus to attack the coffee plant, to study the diversity of this species and for the development of molecular markers to distinguish

  19. Redundancy of Redundancy in Justifications of Verdicts of Polish The Constitutional Tribuna

    Directory of Open Access Journals (Sweden)

    Jan Winczorek

    2016-09-01

    Full Text Available The results of an empirical study of 150 justifications of verdicts of the Polish Constitutional Tribunal (CT are discussed. CT justifies its decisions mostly on authoritative references to previous decisions and other doxa- type arguments. It thus does not convince the audience of a decision's validity, but rather documents it. Further, the methodology changes depending on features of the case. The results are analysed using a conceptual    framework    of sociological systems theory. It is shown that CT's justification methodology ignores the redundancy (excess of references and dependencies of the legal system, finding redundancy redundant. This is a risky strategy of decision- making, enabling political influence.

  20. Language as an information system: redundancy and optimization

    Directory of Open Access Journals (Sweden)

    Irina Mikhaylovna Nekipelova

    2015-11-01

    Full Text Available The paper is devoted to research of the language system as an information system. The distinguishing feature of any natural living language system is redundant of elements of its structure. Redundancy, broken terms of universality peculiar to artificial information systems, makes language mobile in time and in space. It should be marked out informational redundancy of two types: language redundancy, when information overlay of language units within the system occurs and speech redundancy when condense of information into syntagmatic level occurs. Language redundancy is potential and speech redundancy is actual. In general, it should be noted that the language redundancy is necessary for language: complicating the relationships between language units, language redundancy creates in language situation of choice, leading to a disorder of language system, increasing of entropy and, as a result, the appearing of the information that can be accepted or cannot be by language system. Language redundancy is one of the reasons for growth of information in language. In addition, the information redundancy in language is one of the factors of language system development.

  1. Metagenomic survey of methanesulfonic acid (MSA catabolic genes in an Atlantic Ocean surface water sample and in a partial enrichment

    Directory of Open Access Journals (Sweden)

    Ana C. Henriques

    2016-10-01

    Full Text Available Methanesulfonic acid (MSA is a relevant intermediate of the biogeochemical cycle of sulfur and environmental microorganisms assume an important role in the mineralization of this compound. Several methylotrophic bacterial strains able to grow on MSA have been isolated from soil or marine water and two conserved operons, msmABCD coding for MSA monooxygenase and msmEFGH coding for a transport system, have been repeatedly encountered in most of these strains. Homologous sequences have also been amplified directly from the environment or observed in marine metagenomic data, but these showed a base composition (G + C content very different from their counterparts from cultivated bacteria. The aim of this study was to understand which microorganisms within the coastal surface oceanic microflora responded to MSA as a nutrient and how the community evolved in the early phases of an enrichment by means of metagenome and gene-targeted amplicon sequencing. From the phylogenetic point of view, the community shifted significantly with the disappearance of all signals related to the Archaea, the Pelagibacteraceae and phylum SAR406, and the increase in methylotroph-harboring taxa, accompanied by other groups so far not known to comprise methylotrophs such as the Hyphomonadaceae. At the functional level, the abundance of several genes related to sulfur metabolism and methylotrophy increased during the enrichment and the allelic distribution of gene msmA diagnostic for MSA monooxygenase altered considerably. Even more dramatic was the disappearance of MSA import-related gene msmE, which suggests that alternative transporters must be present in the enriched community and illustrate the inadequacy of msmE as an ecofunctional marker for MSA degradation at sea.

  2. Tomographical properties of uniformly redundant arrays

    International Nuclear Information System (INIS)

    Cannon, T.M.; Fenimore, E.E.

    1978-01-01

    Recent work in coded aperture imaging has shown that the uniformly redundant array (URA) can image distant planar radioactive sources with no artifacts. The performance of two URA apertures when used in a close-up tomographic imaging system is investigated. It is shown that a URA based on m sequences is superior to one based on quadratic residues. The m sequence array not only produces less obnoxious artifacts in tomographic imaging, but is also more resilient to some described detrimental effects of close-up imaging. It is shown that in spite of these close-up effects, tomographic depth resolution increases as the source is moved closer to the detector

  3. Flat H Redundant Frangible Joint Development

    Science.gov (United States)

    Brown, Chris

    2016-01-01

    Orion and Commercial Crew Program (CCP) Partners have chosen to use frangible joints for certain separation events. The joints currently available are zero failure tolerant and will be used in mission safety applications. The goal is to further develop a NASA designed redundant frangible joint that will lower flight risk and increase reliability. FY16 testing revealed a successful design in subscale straight test specimens that gained efficiency and supports Orion load requirements. Approach / Innovation A design constraint is that the redundant joint must fit within the current Orion architecture, without the need for additional vehicle modification. This limitation required a design that changed the orientation of the expanding tube assemblies (XTAs), by rotating them 90deg from the standard joint configuration. The change is not trivial and affects the fracture mechanism and structural load paths. To address these changes, the design incorporates cantilevered arms on the break plate. The shock transmission and expansion of the XTA applies force to these arms and creates a prying motion to push the plate walls outward to the point of structural failure at the notched section. The 2014 test design revealed that parts could slip during functioning wasting valuable energy needed to separate the structure with only a single XTA functioning. Dual XTA functioning fully separated the assembly showing a discrepancy can be backed up with redundancy. Work on other fully redundant systems outside NASA is limited to a few patents that have not been subjected to functionality testing Design changes to prevent unwanted slippage (with ICA funding in 2015) showed success with a single XTA. The main goal for FY 2016 was to send the new Flat H RFJ to WSTF where single XTA test failures occurred back in 2014. The plan was to gain efficiency in this design by separating the Flat H RFJ with thicker ligaments with dimensions baselined in 2014. Other modifications included geometry

  4. Sharing the cost of redundant items

    DEFF Research Database (Denmark)

    Hougaard, Jens Leth; Moulin, Hervé

    2014-01-01

    We ask how to share the cost of finitely many public goods (items) among users with different needs: some smaller subsets of items are enough to serve the needs of each user, yet the cost of all items must be covered, even if this entails inefficiently paying for redundant items. Typical examples...... are network connectivity problems when an existing (possibly inefficient) network must be maintained. We axiomatize a family cost ratios based on simple liability indices, one for each agent and for each item, measuring the relative worth of this item across agents, and generating cost allocation rules...... additive in costs....

  5. Designing Broadband Access Networks with Triple Redundancy

    DEFF Research Database (Denmark)

    Pedersen, Jens Myrup; Riaz, Muhammad Tahir; Knudsen, Thomas Phillip

    2005-01-01

    An architecture is proposed for designing broadband access networks, which offer triple redundancy to the end users, resulting in networks providing connectivity even in case of any two independent node or line failures. Two physically independent connections are offered by fiber, and the last...... provided by some wireless solution. Based on experience with planning Fiber To The Home, the architecture is designed to meet a number of demands, making it practicable and useful in realworld network planning. The proposed wired topology is planar, and suitable for being fitted onto the road network...

  6. Drug resistance in colorectal cancer cell lines is partially associated with aneuploidy status in light of profiling gene expression

    DEFF Research Database (Denmark)

    Guo, Jiao; Xu, Shaohang; Huang, Xuanlin

    2016-01-01

    A priority in solving the problem of drug resistance is to understand the molecular mechanism of how a drug induces the resistance response within cells. Because many cancer cells exhibit chromosome aneuploidy, we explored whether changes of aneuploidy status result in drug resistance. Two typical...... colorectal cancer cells, HCT116 and LoVo, were cultured with the chemotherapeutic drugs irinotecan (SN38) or oxaliplatin (QxPt), and the non- and drug-resistant cell lines were selected. Whole exome sequencing (WES) was employed to evaluate the aneuploidy status of these cells, and RNAseq and LC-MS/MS were...... the aneuploidy status in cancer cells, which was partially associated with the acquired drug resistance....

  7. Redundancy and divergence in the amyloid precursor protein family.

    Science.gov (United States)

    Shariati, S Ali M; De Strooper, Bart

    2013-06-27

    Gene duplication provides genetic material required for functional diversification. An interesting example is the amyloid precursor protein (APP) protein family. The APP gene family has experienced both expansion and contraction during evolution. The three mammalian members have been studied quite extensively in combined knock out models. The underlying assumption is that APP, amyloid precursor like protein 1 and 2 (APLP1, APLP2) are functionally redundant. This assumption is primarily supported by the similarities in biochemical processing of APP and APLPs and on the fact that the different APP genes appear to genetically interact at the level of the phenotype in combined knockout mice. However, unique features in each member of the APP family possibly contribute to specification of their function. In the current review, we discuss the evolution and the biology of the APP protein family with special attention to the distinct properties of each homologue. We propose that the functions of APP, APLP1 and APLP2 have diverged after duplication to contribute distinctly to different neuronal events. Our analysis reveals that APLP2 is significantly diverged from APP and APLP1. Copyright © 2013 Federation of European Biochemical Societies. Published by Elsevier B.V. All rights reserved.

  8. The Identity of Information: How Deterministic Dependencies Constrain Information Synergy and Redundancy

    Directory of Open Access Journals (Sweden)

    Daniel Chicharro

    2018-03-01

    Full Text Available Understanding how different information sources together transmit information is crucial in many domains. For example, understanding the neural code requires characterizing how different neurons contribute unique, redundant, or synergistic pieces of information about sensory or behavioral variables. Williams and Beer (2010 proposed a partial information decomposition (PID that separates the mutual information that a set of sources contains about a set of targets into nonnegative terms interpretable as these pieces. Quantifying redundancy requires assigning an identity to different information pieces, to assess when information is common across sources. Harder et al. (2013 proposed an identity axiom that imposes necessary conditions to quantify qualitatively common information. However, Bertschinger et al. (2012 showed that, in a counterexample with deterministic target-source dependencies, the identity axiom is incompatible with ensuring PID nonnegativity. Here, we study systematically the consequences of information identity criteria that assign identity based on associations between target and source variables resulting from deterministic dependencies. We show how these criteria are related to the identity axiom and to previously proposed redundancy measures, and we characterize how they lead to negative PID terms. This constitutes a further step to more explicitly address the role of information identity in the quantification of redundancy. The implications for studying neural coding are discussed.

  9. The inactivation of the sortilin gene leads to a partial disruption of prosaposin trafficking to the lysosomes

    International Nuclear Information System (INIS)

    Zeng, Jibin; Racicott, Jesse; Morales, Carlos R.

    2009-01-01

    Lysosomes are intracellular organelles which contain enzymes and activator proteins involved in the digestion and recycling of a variety of cellular and extracellular substances. We have identified a novel sorting receptor, sortilin, which is involved in the lysosomal trafficking of the sphingolipid activator proteins, prosaposin and GM 2 AP, and the soluble hydrolases cathepsin D, cathepsin H, and acid sphingomyelinase. Sortilin belongs to a growing family of receptors with homology to the yeast Vps10 protein, which acts as a lysosomal sorting receptor for carboxypeptidase Y. In this study we examined the effects of the sortilin gene inactivation in mice. The inactivation of this gene did not yield any noticeable lysosomal pathology. To determine the existence of an alternative receptor complementing the sorting function of sortilin, we quantified the concentration of prosaposin in the lysosomes of the nonciliated epithelial cells lining the efferent ducts. These cells were chosen because they express sortilin and have a large number of lysosomes containing prosaposin. In addition, the nonciliated cells are known to endocytose luminal prosaposin that is synthesized and secreted by Sertoli cells into the seminiferous luminal fluids. Consequently, the nonciliated cells are capable of targeting both exogenous and endogenous prosaposin to the lysosomes. Using electron microscope immunogold labeling and quantitative analysis, our results demonstrate that inactivation of the sortilin gene produces a significant decrease of prosaposin in the lysosomes. When luminal prosaposin was excluded from the efferent ducts, the level of prosaposin in lysosomes was even lower in the mutant mice. Nonetheless, a significant amount of prosaposin continues to reach the lysosomal compartment. These results strongly suggest the existence of an alternative receptor that complements the function of sortilin and explains the lack of lysosomal storage disorders in the sortilin-deficient mice.

  10. In Silico Assigned Resistance Genes Confer Bifidobacterium with Partial Resistance to Aminoglycosides but Not to Β-Lactams

    Science.gov (United States)

    Fouhy, Fiona; O’Connell Motherway, Mary; Fitzgerald, Gerald F.; Ross, R. Paul; Stanton, Catherine; van Sinderen, Douwe; Cotter, Paul D.

    2013-01-01

    Bifidobacteria have received significant attention due to their contribution to human gut health and the use of specific strains as probiotics. It is thus not surprising that there has also been significant interest with respect to their antibiotic resistance profile. Numerous culture-based studies have demonstrated that bifidobacteria are resistant to the majority of aminoglycosides, but are sensitive to β-lactams. However, limited research exists with respect to the genetic basis for the resistance of bifidobacteria to aminoglycosides. Here we performed an in-depth in silico analysis of putative Bifidobacterium-encoded aminoglycoside resistance proteins and β-lactamases and assess the contribution of these proteins to antibiotic resistance. The in silico-based screen detected putative aminoglycoside and β-lactam resistance proteins across the Bifidobacterium genus. Laboratory-based investigations of a number of representative bifidobacteria strains confirmed that despite containing putative β-lactamases, these strains were sensitive to β-lactams. In contrast, all strains were resistant to the aminoglycosides tested. To assess the contribution of genes encoding putative aminoglycoside resistance proteins in Bifidobacterium sp. two genes, namely Bbr_0651 and Bbr_1586, were targeted for insertional inactivation in B. breve UCC2003. As compared to the wild-type, the UCC2003 insertion mutant strains exhibited decreased resistance to gentamycin, kanamycin and streptomycin. This study highlights the associated risks of relying on the in silico assignment of gene function. Although several putative β-lactam resistance proteins are located in bifidobacteria, their presence does not coincide with resistance to these antibiotics. In contrast however, this approach has resulted in the identification of two loci that contribute to the aminoglycoside resistance of B. breve UCC2003 and, potentially, many other bifidobacteria. PMID:24324818

  11. In silico assigned resistance genes confer Bifidobacterium with partial resistance to aminoglycosides but not to β-lactams.

    Directory of Open Access Journals (Sweden)

    Fiona Fouhy

    Full Text Available Bifidobacteria have received significant attention due to their contribution to human gut health and the use of specific strains as probiotics. It is thus not surprising that there has also been significant interest with respect to their antibiotic resistance profile. Numerous culture-based studies have demonstrated that bifidobacteria are resistant to the majority of aminoglycosides, but are sensitive to β-lactams. However, limited research exists with respect to the genetic basis for the resistance of bifidobacteria to aminoglycosides. Here we performed an in-depth in silico analysis of putative Bifidobacterium-encoded aminoglycoside resistance proteins and β-lactamases and assess the contribution of these proteins to antibiotic resistance. The in silico-based screen detected putative aminoglycoside and β-lactam resistance proteins across the Bifidobacterium genus. Laboratory-based investigations of a number of representative bifidobacteria strains confirmed that despite containing putative β-lactamases, these strains were sensitive to β-lactams. In contrast, all strains were resistant to the aminoglycosides tested. To assess the contribution of genes encoding putative aminoglycoside resistance proteins in Bifidobacterium sp. two genes, namely Bbr_0651 and Bbr_1586, were targeted for insertional inactivation in B. breve UCC2003. As compared to the wild-type, the UCC2003 insertion mutant strains exhibited decreased resistance to gentamycin, kanamycin and streptomycin. This study highlights the associated risks of relying on the in silico assignment of gene function. Although several putative β-lactam resistance proteins are located in bifidobacteria, their presence does not coincide with resistance to these antibiotics. In contrast however, this approach has resulted in the identification of two loci that contribute to the aminoglycoside resistance of B. breve UCC2003 and, potentially, many other bifidobacteria.

  12. Microdiversification of a Pelagic Polynucleobacter Species Is Mainly Driven by Acquisition of Genomic Islands from a Partially Interspecific Gene Pool

    Science.gov (United States)

    Schmidt, Johanna; Jezberová, Jitka; Koll, Ulrike; Hahn, Martin W.

    2016-01-01

    ABSTRACT Microdiversification of a planktonic freshwater bacterium was studied by comparing 37 Polynucleobacter asymbioticus strains obtained from three geographically separated sites in the Austrian Alps. Genome comparison of nine strains revealed a core genome of 1.8 Mb, representing 81% of the average genome size. Seventy-five percent of the remaining flexible genome is clustered in genomic islands (GIs). Twenty-four genomic positions could be identified where GIs are potentially located. These positions are occupied strain specifically from a set of 28 GI variants, classified according to similarities in their gene content. One variant, present in 62% of the isolates, encodes a pathway for the degradation of aromatic compounds, and another, found in 78% of the strains, contains an operon for nitrate assimilation. Both variants were shown in ecophysiological tests to be functional, thus providing the potential for microniche partitioning. In addition, detected interspecific horizontal exchange of GIs indicates a large gene pool accessible to Polynucleobacter species. In contrast to core genes, GIs are spread more successfully across spatially separated freshwater habitats. The mobility and functional diversity of GIs allow for rapid evolution, which may be a key aspect for the ubiquitous occurrence of Polynucleobacter bacteria. IMPORTANCE Assessing the ecological relevance of bacterial diversity is a key challenge for current microbial ecology. The polyphasic approach which was applied in this study, including targeted isolation of strains, genome analysis, and ecophysiological tests, is crucial for the linkage of genetic and ecological knowledge. Particularly great importance is attached to the high number of closely related strains which were investigated, represented by genome-wide average nucleotide identities (ANI) larger than 97%. The extent of functional diversification found on this narrow phylogenetic scale is compelling. Moreover, the transfer of

  13. The inactivation of the sortilin gene leads to a partial disruption of prosaposin trafficking to the lysosomes

    Energy Technology Data Exchange (ETDEWEB)

    Zeng, Jibin; Racicott, Jesse [Department of Anatomy and Cell Biology, McGill University, Montreal (Canada); Morales, Carlos R., E-mail: carlos.morales@mcgill.ca [Department of Anatomy and Cell Biology, McGill University, Montreal (Canada)

    2009-11-01

    Lysosomes are intracellular organelles which contain enzymes and activator proteins involved in the digestion and recycling of a variety of cellular and extracellular substances. We have identified a novel sorting receptor, sortilin, which is involved in the lysosomal trafficking of the sphingolipid activator proteins, prosaposin and GM{sub 2}AP, and the soluble hydrolases cathepsin D, cathepsin H, and acid sphingomyelinase. Sortilin belongs to a growing family of receptors with homology to the yeast Vps10 protein, which acts as a lysosomal sorting receptor for carboxypeptidase Y. In this study we examined the effects of the sortilin gene inactivation in mice. The inactivation of this gene did not yield any noticeable lysosomal pathology. To determine the existence of an alternative receptor complementing the sorting function of sortilin, we quantified the concentration of prosaposin in the lysosomes of the nonciliated epithelial cells lining the efferent ducts. These cells were chosen because they express sortilin and have a large number of lysosomes containing prosaposin. In addition, the nonciliated cells are known to endocytose luminal prosaposin that is synthesized and secreted by Sertoli cells into the seminiferous luminal fluids. Consequently, the nonciliated cells are capable of targeting both exogenous and endogenous prosaposin to the lysosomes. Using electron microscope immunogold labeling and quantitative analysis, our results demonstrate that inactivation of the sortilin gene produces a significant decrease of prosaposin in the lysosomes. When luminal prosaposin was excluded from the efferent ducts, the level of prosaposin in lysosomes was even lower in the mutant mice. Nonetheless, a significant amount of prosaposin continues to reach the lysosomal compartment. These results strongly suggest the existence of an alternative receptor that complements the function of sortilin and explains the lack of lysosomal storage disorders in the sortilin

  14. Sense and antisense transcripts of the developmentally regulated murine hsp70.2 gene are expressed in distinct and only partially overlapping areas in the adult brain

    Science.gov (United States)

    Murashov, A. K.; Wolgemuth, D. J.

    1996-01-01

    We have examined the spatial pattern of expression of a member of the hsp70 gene family, hsp70.2, in the mouse central nervous system. Surprisingly, RNA blot analysis and in situ hybridization revealed abundant expression of an 'antisense' hsp70.2 transcript in several areas of adult mouse brain. Two different transcripts recognized by sense and antisense riboprobes for the hsp70.2 gene were expressed in distinct and only partially overlapping neuronal populations. RNA blot analysis revealed low levels of the 2.7 kb transcript of hsp70.2 in several areas of the brain, with highest signal in the hippocampus. Abundant expression of a slightly larger (approximately 2.8 kb) 'antisense' transcript was detected in several brain regions, notably in the brainstem, cerebellum, mesencephalic tectum, thalamus, cortex, and hippocampus. In situ hybridization revealed that the sense and antisense transcripts were both predominantly neuronal and localized to the same cell types in the granular layer of the cerebellum, trapezoid nucleus of the superior olivary complex, locus coeruleus and hippocampus. The hsp70.2 antisense transcripts were particularly abundant in the frontal cortex, dentate gyrus, subthalamic nucleus, zona incerta, superior and inferior colliculi, central gray, brainstem, and cerebellar Purkinje cells. Our findings have revealed a distinct cellular and spatial localization of both sense and antisense transcripts, demonstrating a new level of complexity in the function of the heat shock genes.

  15. Immunohistochemical analyses of cell cycle progression and gene expression of biliary epithelial cells during liver regeneration after partial hepatectomy of the mouse.

    Science.gov (United States)

    Fukuda, Tatsuya; Fukuchi, Tomokazu; Yagi, Shinomi; Shiojiri, Nobuyoshi

    2016-05-20

    The liver has a remarkable regeneration capacity, and, after surgical removal of its mass, the remaining tissue undergoes rapid regeneration through compensatory growth of its constituent cells. Although hepatocytes synchronously proliferate under the control of various signaling molecules from neighboring cells, there have been few detailed analyses on how biliary cells regenerate for their cell population after liver resection. The present study was undertaken to clarify how biliary cells regenerate after partial hepatectomy of mice through extensive analyses of their cell cycle progression and gene expression using immunohistochemical and RT-PCR techniques. When expression of PCNA, Ki67 antigen, topoisomerase IIα and phosphorylated histone H3, which are cell cycle markers, was immunohistochemically examined during liver regeneration, hepatocytes had a peak of the S phase and M phase at 48-72 h after resection. By contrast, biliary epithelial cells had much lower proliferative activity than that of hepatocytes, and their peak of the S phase was delayed. Mitotic figures were rarely detectable in biliary cells. RT-PCR analyses of gene expression of biliary markers such as Spp1 (osteopontin), Epcam and Hnf1b demonstrated that they were upregulated during liver regeneration. Periportal hepatocytes expressed some of biliary markers, including Spp1 mRNA and protein. Some periportal hepatocytes had downregulated expression of HNF4α and HNF1α. Gene expression of Notch signaling molecules responsible for cell fate decision of hepatoblasts to biliary cells during development was upregulated during liver regeneration. Notch signaling may be involved in biliary regeneration.

  16. Diabetes classification using a redundancy reduction preprocessor

    Directory of Open Access Journals (Sweden)

    Áurea Celeste Ribeiro

    Full Text Available Introduction Diabetes patients can benefit significantly from early diagnosis. Thus, accurate automated screening is becoming increasingly important due to the wide spread of that disease. Previous studies in automated screening have found a maximum accuracy of 92.6%. Methods This work proposes a classification methodology based on efficient coding of the input data, which is carried out by decreasing input data redundancy using well-known ICA algorithms, such as FastICA, JADE and INFOMAX. The classifier used in the task to discriminate diabetics from non-diaibetics is the one class support vector machine. Classification tests were performed using noninvasive and invasive indicators. Results The results suggest that redundancy reduction increases one-class support vector machine performance when discriminating between diabetics and nondiabetics up to an accuracy of 98.47% while using all indicators. By using only noninvasive indicators, an accuracy of 98.28% was obtained. Conclusion The ICA feature extraction improves the performance of the classifier in the data set because it reduces the statistical dependence of the collected data, which increases the ability of the classifier to find accurate class boundaries.

  17. Kinematically Optimal Robust Control of Redundant Manipulators

    Science.gov (United States)

    Galicki, M.

    2017-12-01

    This work deals with the problem of the robust optimal task space trajectory tracking subject to finite-time convergence. Kinematic and dynamic equations of a redundant manipulator are assumed to be uncertain. Moreover, globally unbounded disturbances are allowed to act on the manipulator when tracking the trajectory by the endeffector. Furthermore, the movement is to be accomplished in such a way as to minimize both the manipulator torques and their oscillations thus eliminating the potential robot vibrations. Based on suitably defined task space non-singular terminal sliding vector variable and the Lyapunov stability theory, we derive a class of chattering-free robust kinematically optimal controllers, based on the estimation of transpose Jacobian, which seem to be effective in counteracting both uncertain kinematics and dynamics, unbounded disturbances and (possible) kinematic and/or algorithmic singularities met on the robot trajectory. The numerical simulations carried out for a redundant manipulator of a SCARA type consisting of the three revolute kinematic pairs and operating in a two-dimensional task space, illustrate performance of the proposed controllers as well as comparisons with other well known control schemes.

  18. Learners misperceive the benefits of redundant text in multimedia learning.

    Science.gov (United States)

    Fenesi, Barbara; Kim, Joseph A

    2014-01-01

    Research on metacognition has consistently demonstrated that learners fail to endorse instructional designs that produce benefits to memory, and often prefer designs that actually impair comprehension. Unlike previous studies in which learners were only exposed to a single multimedia design, the current study used a within-subjects approach to examine whether exposure to both redundant text and non-redundant text multimedia presentations improved learners' metacognitive judgments about presentation styles that promote better understanding. A redundant text multimedia presentation containing narration paired with verbatim on-screen text (Redundant) was contrasted with two non-redundant text multimedia presentations: (1) narration paired with images and minimal text (Complementary) or (2) narration paired with minimal text (Sparse). Learners watched presentation pairs of either Redundant + Complementary, or Redundant + Sparse. Results demonstrate that Complementary and Sparse presentations produced highest overall performance on the final comprehension assessment, but the Redundant presentation produced highest perceived understanding and engagement ratings. These findings suggest that learners misperceive the benefits of redundant text, even after direct exposure to a non-redundant, effective presentation.

  19. Partially Hydrolyzed Poly(n-propyl-2-oxazoline): Synthesis, Aqueous Solution Properties, and Preparation of Gene Delivery Systems.

    Science.gov (United States)

    Mees, Maarten; Haladjova, Emi; Momekova, Denitsa; Momekov, Georgi; Shestakova, Pavletta S; Tsvetanov, Christo B; Hoogenboom, Richard; Rangelov, Stanislav

    2016-11-14

    Random copolymers of n-propyl-2-oxazoline and ethylenimine (PPrOx-PEI) were prepared by partial acidic hydrolysis of poly(n-propyl-2-oxazoline) (PPrOx). Dynamic and electrophoretic light scattering and diffusion-ordered NMR spectroscopy were utilized to investigate aqueous solution properties of the copolymers. Above a specific cloud point temperature, well-defined nanoparticles were formed. The latter consisted of a core composed predominantly of PPrOx and a thin positively charged shell from PEI moieties that mediated formation of polyplexes with DNA. The polyplexes were prepared at 65 °C at varying N/P (amine-to-phosphate groups) ratios. They underwent structural changes upon temperature variations 65-25-37 °C depending on N/P. At N/P < 2, the polyplex particles underwent minor changes because of formation of a surface layer of DNA that acted as a barrier and prevented swelling and disintegration of the initial particles. Dramatic rearrangements at N/P ≥ 2 resulting in large swollen microgel particles were overcome by coating of the polyplex particles with a cross-linked polymeric shell. The shell retained the colloidal stability and preserved the physicochemical parameters of the initial polyplex particles while it reduced the high surface potential values. Progressive loss of cytotoxicity upon complexation with DNA and coating of polyplex particles was displayed.

  20. [The effect of altered oxygen partial pressure on the resisitance to hypoxia and expression of oxygen-sensitive genes in Drosophila melanogaster].

    Science.gov (United States)

    Berezovs'kyĭ, V Ia; Chaka, O H; Litovka, I H; Levashov, M I; Ianko, R V

    2014-01-01

    As a result of resistance test to hypoxia of Drosophilas melanogaster of Oregon strain, we identified a high resistance (Group II) and low resistance (Group III) subpopulations of flies. Flies from groups II and III were incubated in a constant normobaric hypoxia (Po2=62-64 mm Hg) for 10 generations. A highly resistant group (Group IV) were exposed to a shortterm anoxia (Po,=1,5 mm Hg, 5 min) every generation. Larvae from Groups II, III, and IV demonstrated significantly elevated levels of Sir and CG 14740 expression. Larvae from Group II had a significantly higher expression of CG 14740 compared to group III. The restitution time after exposure to anoxia was significantly reduced in Group II (on 31% of the control values) Our results suggest that long-term adaptation to low oxygen partial pressure of highly resistant Drosophila significantly reduces the time of restitution and increases the expression of Sir2 and CG14740 genes.

  1. Molecular analysis of 16S rRNA genes identifies potentially periodontal pathogenic bacteria and archaea in the plaque of partially erupted third molars.

    Science.gov (United States)

    Mansfield, J M; Campbell, J H; Bhandari, A R; Jesionowski, A M; Vickerman, M M

    2012-07-01

    Small subunit rRNA sequencing and phylogenetic analysis were used to identify cultivable and uncultivable microorganisms present in the dental plaque of symptomatic and asymptomatic partially erupted third molars to determine the prevalence of putative periodontal pathogens in pericoronal sites. Template DNA prepared from subgingival plaque collected from partially erupted symptomatic and asymptomatic mandibular third molars and healthy incisors was used in polymerase chain reaction with broad-range oligonucleotide primers to amplify 16S rRNA bacterial and archaeal genes. Amplicons were cloned, sequenced, and compared with known nucleotide sequences in online databases to identify the microorganisms present. Two thousand three hundred two clones from the plaque of 12 patients carried bacterial sequences from 63 genera belonging to 11 phyla, including members of the uncultivable TM7, SR1, and Chloroflexi, and difficult-to-cultivate Synergistetes and Spirochaetes. Dialister invisus, Filifactor alocis, Fusobacterium nucleatum, Porphyromonas endodontalis, Prevotella denticola, Tannerella forsythia, and Treponema denticola, which have been associated with periodontal disease, were found in significantly greater abundance in pericoronal compared with incisor sites. Dialister invisus and F nucleatum were found in greater abundance in sites exhibiting clinical symptoms. The archaeal species, Methanobrevibacter oralis, which has been associated with severe periodontitis, was found in 3 symptomatic patients. These findings have provided new insights into the complex microbiota of pericoronitis. Several bacterial and archaeal species implicated in periodontal disease were recovered in greater incidence and abundance from the plaque of partially erupted third molars compared with incisors, supporting the hypothesis that the pericoronal region may provide a favored niche for periodontal pathogens in otherwise healthy mouths. Copyright © 2012 American Association of Oral and

  2. Optimal redundant systems for works with random processing time

    International Nuclear Information System (INIS)

    Chen, M.; Nakagawa, T.

    2013-01-01

    This paper studies the optimal redundant policies for a manufacturing system processing jobs with random working times. The redundant units of the parallel systems and standby systems are subject to stochastic failures during the continuous production process. First, a job consisting of only one work is considered for both redundant systems and the expected cost functions are obtained. Next, each redundant system with a random number of units is assumed for a single work. The expected cost functions and the optimal expected numbers of units are derived for redundant systems. Subsequently, the production processes of N tandem works are introduced for parallel and standby systems, and the expected cost functions are also summarized. Finally, the number of works is estimated by a Poisson distribution for the parallel and standby systems. Numerical examples are given to demonstrate the optimization problems of redundant systems

  3. Reliability Analysis Multiple Redundancy Controller for Nuclear Safety Systems

    International Nuclear Information System (INIS)

    Son, Gwangseop; Kim, Donghoon; Son, Choulwoong

    2013-01-01

    This controller is configured for multiple modular redundancy (MMR) composed of dual modular redundancy (DMR) and triple modular redundancy (TMR). The architecture of MRC is briefly described, and the Markov model is developed. Based on the model, the reliability and Mean Time To Failure (MTTF) are analyzed. In this paper, the architecture of MRC for nuclear safety systems is described. The MRC is configured for multiple modular redundancy (MMR) composed of dual modular redundancy (DMR) and triple modular redundancy (TMR). Markov models for MRC architecture was developed, and then the reliability was analyzed by using the model. From the reliability analyses for the MRC, it is obtained that the failure rate of each module in the MRC should be less than 2 Χ 10 -4 /hour and the MTTF average increase rate depending on FCF increment, i. e. ΔMTTF/ΔFCF, is 4 months/0.1

  4. Infective Endocarditis: Identification of Catalase-Negative, Gram-Positive Cocci from Blood Cultures by Partial 16S rRNA Gene Analysis and by Vitek 2 Examination.

    Science.gov (United States)

    Abdul-Redha, Rawaa Jalil; Kemp, Michael; Bangsborg, Jette M; Arpi, Magnus; Christensen, Jens Jørgen

    2010-01-01

    Streptococci, enterococci and Streptococcus-like bacteria are frequent etiologic agents of infective endocarditis and correct species identification can be a laboratory challenge. Viridans streptococci (VS) not seldomly cause contamination of blood cultures. Vitek 2 and partial sequencing of the 16S rRNA gene were applied in order to compare the results of both methods. STRAINS ORIGINATED FROM TWO GROUPS OF PATIENTS: 149 strains from patients with infective endocarditis and 181 strains assessed as blood culture contaminants. Of the 330 strains, based on partial 16S rRNA gene sequencing results, 251 (76%) were VS strains, 10 (3%) were pyogenic streptococcal strains, 54 (16%) were E. faecalis strains and 15 (5%) strains belonged to a group of miscellaneous catalase-negative, Gram-positive cocci. Among VS strains, respectively, 220 (87,6%) and 31 (12,3%) obtained agreeing and non-agreeing identifications with the two methods with respect to allocation to the same VS group. Non-agreeing species identification mostly occurred among strains in the contaminant group, while for endocarditis strains notably fewer disagreeing results were observed.Only 67 of 150 strains in the mitis group strains obtained identical species identifications by the two methods. Most VS strains belonging to the groups of salivarius, anginosus, and mutans obtained agreeing species identifications with the two methods, while this only was the case for 13 of the 21 bovis strains. Pyogenic strains (n=10), Enterococcus faecalis strains (n=54) and a miscellaneous group of catalase-negative, Gram-positive cocci (n=15) seemed well identified by both methods, except that disagreements in identifications in the miscellaneous group of strains occurred for 6 of 15 strains.

  5. Identification of Trichoderma Species Using Partial Sequencing of nrRNA and tef1α Genes with Report of Trichoderma capillare in Iran Mycoflore

    Directory of Open Access Journals (Sweden)

    mehdi Mehrabi-Koushki

    2018-01-01

    reverse primers by Macrogen Company. The Sequences were edited and assembled using BioEdit v. 7.0.9.0 (10 and DNA Baser Sequence Assembeler v4 programs (2013, Heracle BioSoft, www.DnaBaser.com, respectively. These sequences were submit-queried against the NCBI non-redundant database and related to known DNA sequences by BLASTn algorithm to assign putative identity. They also were subjected to the TrichO Key (5 and TrichoBLAST (15 for more characterization. The phylogenetic tree was constructed through maximum likelihood analysis based on tef1α sequence under K2+G model. The tree was rooted to close species of N. macroconidialis. Result and Discussion: Approximately 550 and 850 bases of the ITS and tef1α regions were sequenced from the isolates studied and then deposited in the GenBank (Table 2. The annotation of indexed sequences showed which multiple insertion-type frame shifts have interestingly occurred into the reading frame of tef1α gene belonging to isolate of T. capillare Isf-7 (Fig. 3. To identify isolates of Trichoderma, ITS and tef1α sequences were subjected to the TrichO Key (5, TrichoBLAST (15 and BLASTn Search. The analysis of ITS and tef1α sequences (Table 2, Fig. 2, in combination with morphology (Table 1, showed which the isolates place in seven species as follow: T. harzianum Rifai, T. virens (J.H. Mill., Giddens & A.A. Foster Arx, T. pleuroticola Yu & Park, T. asperellum Samuels, Lieckf & Nirenberg, T. koningiopsis Oudem., T. brevicompactum Kraus, Kubicek & Gams and T. capillare Samuels & Kubicek. In BLASTn search, ITS and tef1α regions separately provided unambiguous identification for isolates of T. virens, T. koningiopsis and T. brevicompactum while ITS region provided ambiguous identification for Isolates of Trichoderma harzianum, T. capillare, T. pleuroticola and T. asperellum. Here, tef1α region could provide more accurate identification as good DNA barcoding (Table 2. The isolates showed the sequence identity ranging from 96 to 100% for tef

  6. Redundancy and Reliability for an HPC Data Centre

    OpenAIRE

    Erhan Yılmaz

    2012-01-01

    Defining a level of redundancy is a strategic question when planning a new data centre, as it will directly impact the entire design of the building as well as the construction and operational costs. It will also affect how to integrate future extension plans into the design. Redundancy is also a key strategic issue when upgrading or retrofitting an existing facility. Redundancy is a central strategic question to any business that relies on data centres for its operation. In th...

  7. Study of redundant Models in reliability prediction of HXMT's HES

    International Nuclear Information System (INIS)

    Wang Jinming; Liu Congzhan; Zhang Zhi; Ji Jianfeng

    2010-01-01

    Two redundant equipment structures of HXMT's HES are proposed firstly, the block backup and dual system cold-redundancy. Then prediction of the reliability is made by using parts count method. Research of comparison and analysis is also performed on the two proposals. A conclusion is drawn that a higher reliability and longer service life could be offered by taking a redundant equipment structure of block backup. (authors)

  8. Reliability of redundant structures of nuclear reactor protection systems

    International Nuclear Information System (INIS)

    Vojnovic, B.

    1983-01-01

    In this paper, reliability of various redundant structures of PWR protection systems has been analysed. Structures of reactor tip systems as well as the systems for activation of safety devices have been presented. In all those systems redundancy is achieved by means of so called majority voting logic ('r out of n' structures). Different redundant devices have been compared, concerning probability of occurrence of safe as well as unsafe failures. (author)

  9. Timing control by redundant inhibitory neuronal circuits

    Energy Technology Data Exchange (ETDEWEB)

    Tristan, I., E-mail: itristan@ucsd.edu; Rulkov, N. F.; Huerta, R.; Rabinovich, M. [BioCircuits Institute, University of California, San Diego, La Jolla, California 92093-0402 (United States)

    2014-03-15

    Rhythms and timing control of sequential activity in the brain is fundamental to cognition and behavior. Although experimental and theoretical studies support the understanding that neuronal circuits are intrinsically capable of generating different time intervals, the dynamical origin of the phenomenon of functionally dependent timing control is still unclear. Here, we consider a new mechanism that is related to the multi-neuronal cooperative dynamics in inhibitory brain motifs consisting of a few clusters. It is shown that redundancy and diversity of neurons within each cluster enhances the sensitivity of the timing control with the level of neuronal excitation of the whole network. The generality of the mechanism is shown to work on two different neuronal models: a conductance-based model and a map-based model.

  10. Does functional redundancy stabilize fish communities?

    DEFF Research Database (Denmark)

    Rice, Jake; Daan, Niels; Gislason, Henrik

    2013-01-01

    in abundance or biomass could be accounted for by the Law of Large Numbers, providing no evidence that specific ecological processes or co-adaptations are necessary to produce this effect. This implies that successful conservation policies to maintain the resilience of a marine fish community could be based......Functional redundancy of species sharing a feeding strategy and/or maximum size has been hypothesized to contribute to increased resilience of marine fish communities (the “portfolio effect”). A consistent time-series of survey data of fish in the North Sea was used to examine if trophic functional...... groups or maximum length of species (Lmax) groups with larger numbers of species had lower coefficients of variation in abundance and biomass over time than did groupings with fewer species. Results supported this hypothesis. However, the stabilizing effect of numbers of species in a group on variation...

  11. Timing control by redundant inhibitory neuronal circuits

    International Nuclear Information System (INIS)

    Tristan, I.; Rulkov, N. F.; Huerta, R.; Rabinovich, M.

    2014-01-01

    Rhythms and timing control of sequential activity in the brain is fundamental to cognition and behavior. Although experimental and theoretical studies support the understanding that neuronal circuits are intrinsically capable of generating different time intervals, the dynamical origin of the phenomenon of functionally dependent timing control is still unclear. Here, we consider a new mechanism that is related to the multi-neuronal cooperative dynamics in inhibitory brain motifs consisting of a few clusters. It is shown that redundancy and diversity of neurons within each cluster enhances the sensitivity of the timing control with the level of neuronal excitation of the whole network. The generality of the mechanism is shown to work on two different neuronal models: a conductance-based model and a map-based model

  12. Analysis and Design of Offset QPSK Using Redundant Filter Banks

    International Nuclear Information System (INIS)

    Fernandez-Vazquez, Alfonso; Jovanovic-Dolecek, Gordana

    2013-01-01

    This paper considers the analysis and design of OQPSK digital modulation. We first establish the discrete time formulation, which allows us to find the equivalent redundant filter banks. It is well known that redundant filter banks are related with redundant transformation of the Frame theory. According to the Frame theory, the redundant transformations and corresponding representations are not unique. In this way, we show that the solution to the pulse shaping problem is not unique. Then we use this property to minimize the effect of the channel noise in the reconstructed symbol stream. We evaluate the performance of the digital communication using numerical examples.

  13. Detection of sensor failures in nuclear plants using analytic redundancy

    International Nuclear Information System (INIS)

    Kitamura, M.

    1980-01-01

    A method for on-line, nonperturbative detection and identification of sensor failures in nuclear power plants was studied to determine its feasibility. This method is called analytic redundancy, or functional redundancy. Sensor failure has traditionally been detected by comparing multiple signals from redundant sensors, such as in two-out-of-three logic. In analytic redundancy, with the help of an assumed model of the physical system, the signals from a set of sensors are processed to reproduce the signals from all system sensors

  14. Pointwise Partial Information Decomposition Using the Specificity and Ambiguity Lattices

    Science.gov (United States)

    Finn, Conor; Lizier, Joseph

    2018-04-01

    What are the distinct ways in which a set of predictor variables can provide information about a target variable? When does a variable provide unique information, when do variables share redundant information, and when do variables combine synergistically to provide complementary information? The redundancy lattice from the partial information decomposition of Williams and Beer provided a promising glimpse at the answer to these questions. However, this structure was constructed using a much criticised measure of redundant information, and despite sustained research, no completely satisfactory replacement measure has been proposed. In this paper, we take a different approach, applying the axiomatic derivation of the redundancy lattice to a single realisation from a set of discrete variables. To overcome the difficulty associated with signed pointwise mutual information, we apply this decomposition separately to the unsigned entropic components of pointwise mutual information which we refer to as the specificity and ambiguity. This yields a separate redundancy lattice for each component. Then based upon an operational interpretation of redundancy, we define measures of redundant specificity and ambiguity enabling us to evaluate the partial information atoms in each lattice. These atoms can be recombined to yield the sought-after multivariate information decomposition. We apply this framework to canonical examples from the literature and discuss the results and the various properties of the decomposition. In particular, the pointwise decomposition using specificity and ambiguity satisfies a chain rule over target variables, which provides new insights into the so-called two-bit-copy example.

  15. FIZCON, ENDF/B Cross-Sections Redundancy Check

    International Nuclear Information System (INIS)

    Dunford, Charles L.

    2007-01-01

    1 - Description of program or function: FIZCON is a program for checking that an evaluated data file has valid data and conforms to recommended procedures. Version 7.01 (April 2005): set success flag after return from beginning; fixed valid level check for an isomer; fixed subsection energy range test in ckf9; changed lower limit on potential scattering test; fixed error in j-value test when l=0 and i=0; added one more significant figure to union grid check and sum up output messages; partial fission cross sections mt=19,20,21 and 38 did not require secondary energy distributions in file 5; corrected product test for elastic scattering; moved potential scattering test to psyche. Version 7.02 (May 2005): Fixed resonance parameter sum test. 2 - Method of solution: FIZCON can recognise the difference between ENDF-6 and ENDF-5 formats and performs its tests accordingly. Some of the tests performed include: data arrays are in increasing energy order; resonance parameter widths add up to the total; Q-values are reasonable and consistent; no required sections are missing and all cover the proper energy range; secondary distributions are normalized to 1.0; energy conservation in decay spectra. Optional tests can be performed to check the redundant cross sections, and algorithms can be used to check for possible incorrect entry of data values (Deviant Point test)

  16. Molecular cloning and partial characterization of a peroxidase gene expressed in the roots of Portulaca oleracea cv., one potentially useful in the remediation of phenolic pollutants.

    Science.gov (United States)

    Matsui, Takeshi; Nomura, Yuki; Takano, Mai; Imai, Sofue; Nakayama, Hideki; Miyasaka, Hitoshi; Okuhata, Hiroshi; Tanaka, Satoshi; Matsuura, Hideyuki; Harada, Kazuo; Bamba, Takeshi; Hirata, Kazumasa; Kato, Ko

    2011-01-01

    Portulaca (Portulaca oleracea cv.) efficiently removes phenolic pollutants from hydroponic solution. In plant roots, peroxidase (PRX) is thought to be involved in the removal of phenolic pollutants by the cross-linking them to cell wall polysaccharides or proteins at the expense of reduction of hydrogen peroxide (H(2)O(2)). In this study, we found that portulaca roots secreted an acidic PRX isozyme that had relatively high H(2)O(2) affinity. We isolated five PRX genes, and the recombinant PRX proteins produced in cultured tobacco cells were partially characterized. Among these genes, PoPRX2 probably encoded the acidic PRX isozyme. PoPRX2 had an extra N-terminal region which has not been reported for other PRX proteins. We found that PoPRX2 oxidized phenolic pollutants, including bisphenol A, octylphenol, nonylphenol, and 17β-estradiol. In addition, we found that the Cys261 residue of PoPRX2 played an important role in the determination of affinity for H(2)O(2) and stability toward H(2)O(2).

  17. Transgenic Expression of the piRNA-Resistant Masculinizer Gene Induces Female-Specific Lethality and Partial Female-to-Male Sex Reversal in the Silkworm, Bombyx mori.

    Science.gov (United States)

    Sakai, Hiroki; Sumitani, Megumi; Chikami, Yasuhiko; Yahata, Kensuke; Uchino, Keiro; Kiuchi, Takashi; Katsuma, Susumu; Aoki, Fugaku; Sezutsu, Hideki; Suzuki, Masataka G

    2016-08-01

    In Bombyx mori (B. mori), Fem piRNA originates from the W chromosome and is responsible for femaleness. The Fem piRNA-PIWI complex targets and cleaves mRNAs transcribed from the Masc gene. Masc encodes a novel CCCH type zinc-finger protein and is required for male-specific splicing of B. mori doublesex (Bmdsx) transcripts. In the present study, several silkworm strains carrying a transgene, which encodes a Fem piRNA-resistant Masc mRNA (Masc-R), were generated. Forced expression of the Masc-R transgene caused female-specific lethality during the larval stages. One of the Masc-R strains weakly expressed Masc-R in various tissues. Females heterozygous for the transgene expressed male-specific isoform of the Bombyx homolog of insulin-like growth factor II mRNA-binding protein (ImpM) and Bmdsx. All examined females showed a lower inducibility of vitellogenin synthesis and exhibited abnormalities in the ovaries. Testis-like tissues were observed in abnormal ovaries and, notably, the tissues contained considerable numbers of sperm bundles. Homozygous expression of the transgene resulted in formation of the male-specific abdominal segment in adult females and caused partial male differentiation in female genitalia. These results strongly suggest that Masc is an important regulatory gene of maleness in B. mori.

  18. Functional diversity and redundancy across fish gut, sediment and water bacterial communities.

    Science.gov (United States)

    Escalas, Arthur; Troussellier, Marc; Yuan, Tong; Bouvier, Thierry; Bouvier, Corinne; Mouchet, Maud A; Flores Hernandez, Domingo; Ramos Miranda, Julia; Zhou, Jizhong; Mouillot, David

    2017-08-01

    This article explores the functional diversity and redundancy in a bacterial metacommunity constituted of three habitats (sediment, water column and fish gut) in a coastal lagoon under anthropogenic pressure. Comprehensive functional gene arrays covering a wide range of ecological processes and stress resistance genes to estimate the functional potential of bacterial communities were used. Then, diversity partitioning was used to characterize functional diversity and redundancy within (α), between (β) and across (γ) habitats. It was showed that all local communities exhibit a highly diversified potential for the realization of key ecological processes and resistance to various environmental conditions, supporting the growing evidence that macro-organisms microbiomes harbour a high functional potential and are integral components of functional gene dynamics in aquatic bacterial metacommunities. Several levels of functional redundancy at different scales of the bacterial metacommunity were observed (within local communities, within habitats and at the metacommunity level). The results suggested a high potential for the realization of spatial ecological insurance within this ecosystem, that is, the functional compensation among microorganisms for the realization and maintenance of key ecological processes, within and across habitats. Finally, the role of macro-organisms as dispersal vectors of microbes and their potential influence on marine metacommunity dynamics were discussed. © 2017 Society for Applied Microbiology and John Wiley & Sons Ltd.

  19. Amplification and sequence analysis of partial bacterial 16S ribosomal RNA gene in gallbladder bile from patients with primary biliary cirrhosis.

    Science.gov (United States)

    Hiramatsu, K; Harada, K; Tsuneyama, K; Sasaki, M; Fujita, S; Hashimoto, T; Kaneko, S; Kobayashi, K; Nakanuma, Y

    2000-07-01

    The etiopathogenesis of bile duct lesion in primary biliary cirrhosis is unknown, though the participation of bacteria and/or their components and products is suspected. In this study, we tried to detect and identify bacteria in the bile of patients with primary biliary cirrhosis by polymerase chain reaction using universal bacterial primers of the 16S ribosomal RNA gene. Gallbladder bile samples from 15 patients with primary biliary cirrhosis, 5 with primary sclerosing cholangitis, 5 with hepatitis C virus-related liver cirrhosis, 11 with cholecystolithiasis, and from 12 normal adult gallbladders were used. In addition to the culture study, partial bacterial 16S ribosomal RNA gene was amplified by polymerase chain reaction (PCR) taking advantage of universal primers that can amplify the gene of almost all bacterial species, and the amplicons were cloned and sequenced. Sequence homology with specific bacterial species was analyzed by database research. Bacterial contamination at every step of the bile sampling, DNA extraction and PCR study was avoided. Furthermore, to confirm whether bacterial DNA is detectable in liver explants, the same analysis was performed using 10 liver explants of patients with primary biliary cirrhosis. In primary biliary cirrhosis, 75% (p<0.0001) of 100 clones were identified as so-called gram-positive cocci while these cocci were positive in only 5% in cholecystolithiasis (p<0.0001). In cholecystolithiasis gram-negative rods were predominant instead. One bacterial species detected in a normal adult was not related to those detected in primary biliary cirrhosis and cholecystolithiasis patients. No bacterial DNA was detected by PCR amplification in 10 liver explants of patients with primary biliary cirrhosis. The present results raise several possible roles of gram-positive bacteria in bile in the etiopathogenesis of primary biliary cirrhosis. However, these results could also reflect an epiphenomenon due to decreased bile flow in the

  20. Vaccination with Gag, Vif, and Nef gene fragments affords partial control of viral replication after mucosal challenge with SIVmac239.

    Science.gov (United States)

    Martins, Mauricio A; Wilson, Nancy A; Piaskowski, Shari M; Weisgrau, Kim L; Furlott, Jessica R; Bonaldo, Myrna C; Veloso de Santana, Marlon G; Rudersdorf, Richard A; Rakasz, Eva G; Keating, Karen D; Chiuchiolo, Maria J; Piatak, Michael; Allison, David B; Parks, Christopher L; Galler, Ricardo; Lifson, Jeffrey D; Watkins, David I

    2014-07-01

    vaccinating rhesus macaques with minigenes encoding fragments of Gag, Vif, and Nef. In contrast to previous mouse studies, this strategy appeared to minimally affect monkey CD8(+) T-cell immundominance hierarchies, as seen by the detection of only one subdominant epitope in Mamu-A*01(+) vaccinees. This finding underscores the difficulty of inducing subdominant CD8(+) T cells by vaccination and demonstrates that strategies other than gene fragmentation may be required to significantly alter immunodominance in primates. Although some of the regimens tested here were extremely immunogenic, vaccine efficacy was limited to a modest reduction in set point viremia after challenge with SIVmac239. No correlates of protection were identified. These results reinforce the notion that vaccine immunogenicity does not predict control of AIDS virus replication. Copyright © 2014, American Society for Microbiology. All Rights Reserved.

  1. Lactobacillus strain diversity based on partial hsp60 gene sequences and design of PCR-restriction fragment length polymorphism assays for species identification and differentiation.

    Science.gov (United States)

    Blaiotta, Giuseppe; Fusco, Vincenzina; Ercolini, Danilo; Aponte, Maria; Pepe, Olimpia; Villani, Francesco

    2008-01-01

    A phylogenetic tree showing diversities among 116 partial (499-bp) Lactobacillus hsp60 (groEL, encoding a 60-kDa heat shock protein) nucleotide sequences was obtained and compared to those previously described for 16S rRNA and tuf gene sequences. The topology of the tree produced in this study showed a Lactobacillus species distribution similar, but not identical, to those previously reported. However, according to the most recent systematic studies, a clear differentiation of 43 single-species clusters was detected/identified among the sequences analyzed. The slightly higher variability of the hsp60 nucleotide sequences than of the 16S rRNA sequences offers better opportunities to design or develop molecular assays allowing identification and differentiation of either distant or very closely related Lactobacillus species. Therefore, our results suggest that hsp60 can be considered an excellent molecular marker for inferring the taxonomy and phylogeny of members of the genus Lactobacillus and that the chosen primers can be used in a simple PCR procedure allowing the direct sequencing of the hsp60 fragments. Moreover, in this study we performed a computer-aided restriction endonuclease analysis of all 499-bp hsp60 partial sequences and we showed that the PCR-restriction fragment length polymorphism (RFLP) patterns obtainable by using both endonucleases AluI and TacI (in separate reactions) can allow identification and differentiation of all 43 Lactobacillus species considered, with the exception of the pair L. plantarum/L. pentosus. However, the latter species can be differentiated by further analysis with Sau3AI or MseI. The hsp60 PCR-RFLP approach was efficiently applied to identify and to differentiate a total of 110 wild Lactobacillus strains (including closely related species, such as L. casei and L. rhamnosus or L. plantarum and L. pentosus) isolated from cheese and dry-fermented sausages.

  2. Redundant interferometric calibration as a complex optimization problem

    Science.gov (United States)

    Grobler, T. L.; Bernardi, G.; Kenyon, J. S.; Parsons, A. R.; Smirnov, O. M.

    2018-05-01

    Observations of the redshifted 21 cm line from the epoch of reionization have recently motivated the construction of low-frequency radio arrays with highly redundant configurations. These configurations provide an alternative calibration strategy - `redundant calibration' - and boost sensitivity on specific spatial scales. In this paper, we formulate calibration of redundant interferometric arrays as a complex optimization problem. We solve this optimization problem via the Levenberg-Marquardt algorithm. This calibration approach is more robust to initial conditions than current algorithms and, by leveraging an approximate matrix inversion, allows for further optimization and an efficient implementation (`redundant STEFCAL'). We also investigated using the preconditioned conjugate gradient method as an alternative to the approximate matrix inverse, but found that its computational performance is not competitive with respect to `redundant STEFCAL'. The efficient implementation of this new algorithm is made publicly available.

  3. Prioritising Redundant Network Component for HOWBAN Survivability Using FMEA

    Directory of Open Access Journals (Sweden)

    Cheong Loong Chan

    2017-01-01

    Full Text Available Deploying redundant component is the ubiquitous approach to improve the reliability and survivability of a hybrid optical wireless broadband access network (HOWBAN. Much work has been done to study the cost and impact of deploying redundant component in the network but no formal tools have been used to enable the evaluation and decision to prioritise the deployment of redundant facilities in the network. In this paper we show how FMEA (Failure Mode Effect and Analysis technique can be adapted to identify the critical segment in the network and prioritise the redundant component to be deployed to ensure network survivability. Our result showed that priority must be given to redundancy to mitigate grid power outage particularly in less developed countries which is poised for rapid expansion in broadband services.

  4. N + 1 redundancy on ATCA instrumentation for Nuclear Fusion

    Energy Technology Data Exchange (ETDEWEB)

    Correia, Miguel, E-mail: miguelfc@ipfn.ist.utl.pt [Associação EURATOM/IST, Instituto de Plasmas e Fusão Nuclear, Instituto Superior Técnico – Universidade Técnica de Lisboa, Lisboa (Portugal); Sousa, Jorge; Rodrigues, António P.; Batista, António J.N.; Combo, Álvaro; Carvalho, Bernardo B.; Santos, Bruno; Carvalho, Paulo F.; Gonçalves, Bruno [Associação EURATOM/IST, Instituto de Plasmas e Fusão Nuclear, Instituto Superior Técnico – Universidade Técnica de Lisboa, Lisboa (Portugal); Correia, Carlos M.B.A. [Centro de Instrumentação, Departamento de Física, Universidade de Coimbra, Coimbra (Portugal); Varandas, Carlos A.F. [Associação EURATOM/IST, Instituto de Plasmas e Fusão Nuclear, Instituto Superior Técnico – Universidade Técnica de Lisboa, Lisboa (Portugal)

    2013-10-15

    Highlights: ► In Nuclear Fusion, demanding security and high-availability requirements call for redundancy to be available. ► ATCA standard features desirable redundancy features for Fusion instrumentation. ► The developed control and data acquisition hardware modules support additional redundancy schemes. ► Implementation of N + 1 redundancy of host processor and I/O data modules. -- Abstract: The role of redundancy on control and data acquisition systems has gained a significant importance in the case of Nuclear Fusion, as demanding security and high-availability requirements call for redundancy to be available. IPFN's control and data acquisition system hardware is based on an Advanced Telecommunications Computing Architecture (ATCA) set of I/O (DAC/ADC endpoints) and data/timing switch modules, which handle data and timing from all I/O endpoints. Modules communicate through Peripheral Component Interconnect Express (PCIe), established over the ATCA backplane and controlled by one or more external hosts. The developed hardware modules were designed to take advantage of ATCA specification's redundancy features, namely at the hardware management level, including support of: (i) multiple host operation with N + 1 redundancy – in which a designated failover host takes over data previously assigned to a suddenly malfunctioning host and (ii) N + 1 redundancy of I/O and data/timing switch modules. This paper briefly describes IPFN's control and data acquisition system, which is being developed for ITER fast plant system controller (FPSC), and analyses the hardware implementation of its supported redundancy features.

  5. Pedestrian detection based on redundant wavelet transform

    Science.gov (United States)

    Huang, Lin; Ji, Liping; Hu, Ping; Yang, Tiejun

    2016-10-01

    Intelligent video surveillance is to analysis video or image sequences captured by a fixed or mobile surveillance camera, including moving object detection, segmentation and recognition. By using it, we can be notified immediately in an abnormal situation. Pedestrian detection plays an important role in an intelligent video surveillance system, and it is also a key technology in the field of intelligent vehicle. So pedestrian detection has very vital significance in traffic management optimization, security early warn and abnormal behavior detection. Generally, pedestrian detection can be summarized as: first to estimate moving areas; then to extract features of region of interest; finally to classify using a classifier. Redundant wavelet transform (RWT) overcomes the deficiency of shift variant of discrete wavelet transform, and it has better performance in motion estimation when compared to discrete wavelet transform. Addressing the problem of the detection of multi-pedestrian with different speed, we present an algorithm of pedestrian detection based on motion estimation using RWT, combining histogram of oriented gradients (HOG) and support vector machine (SVM). Firstly, three intensities of movement (IoM) are estimated using RWT and the corresponding areas are segmented. According to the different IoM, a region proposal (RP) is generated. Then, the features of a RP is extracted using HOG. Finally, the features are fed into a SVM trained by pedestrian databases and the final detection results are gained. Experiments show that the proposed algorithm can detect pedestrians accurately and efficiently.

  6. Optimizing ISOCAM data processing using spatial redundancy

    Science.gov (United States)

    Miville-Deschênes, M.-A.; Boulanger, F.; Abergel, A.; Bernard, J.-P.

    2000-11-01

    Several instrumental effects of the Long Wavelength channel of ISOCAM, the camera on board the Infrared Space Observatory, degrade the processed images. We present new data-processing techniques that correct these defects, taking advantage of the fact that a position in the sky has been observed by several pixels at different times. We use this redundant information (1) to correct the long-term variation of the detector response, (2) to correct memory effects after glitches and point sources, and (3) to refine the deglitching process. As an example we have applied our processing to the gamma-ray burst observation GRB 970402. Our new data-processing techniques allow the detection of faint extended emission with contrast smaller than 1% of the zodiacal background. The data reduction corrects instrumental effects to the point where the noise in the final map is dominated by the readout and the photon noises. All raster ISOCAM observations can benefit from the data processing described here. This includes mapping of solar system extended objects (comet dust trails), nearby clouds and star forming regions, images from diffuse emission in the Galactic plane and external galaxies. These techniques could also be applied to other raster type observations (e.g. ISOPHOT). Based on observations with ISO, an ESA project with instruments funded by ESA Member States (especially the PI countries: France, Germany, The Netherlands and the UK) and with the participation of ISAS and NASA.

  7. Two novel partial deletions of LDL-receptor gene in Italian patients with familial hypercholesterolemia (FH Siracusa and FH Reggio Emilia).

    Science.gov (United States)

    Garuti, R; Lelli, N; Barozzini, M; Tiozzo, R; Ghisellini, M; Simone, M L; Li Volti, S; Garozzo, R; Mollica, F; Vergoni, W; Bertolini, S; Calandra, S

    1996-03-01

    In the present study we report two novel partial deletions of the LDL-R gene. The first (FH Siracusa), found in an FH-heterozygote, consists of a 20 kb deletion spanning from the 5' flanking region to the intron 2 of the LDL-receptor gene. The elimination of the promoter and the first two exons prevents the transcription of the deleted allele, as shown by Northern blot analysis of LDL-R mRNA isolated from the proband's fibroblasts. The second deletion (FH Reggio Emilia), which eliminates 11 nucleotides of exon 10, was also found in an FH heterozygote. The characterization of this deletion was made possible by a combination of techniques such as single strand conformation polymorphism (SSCP) analysis, direct sequence of exon 10 and cloning of the normal and deleted exon 10 from the proband's DNA. The 11 nt deletion occurs in a region of exon 10 which contains three triplets (CTG) and two four-nucleotides (CTGG) direct repeats. This structural feature might render this region more susceptible to a slipped mispairing during DNA duplication. Since this deletion causes a shift of the BamHI site at the 5' end of exon 10, a method has been devised for its rapid screening which is based on the PCR amplification of exon 10 followed by BamHI digestion. FH Reggio Emilia deletion produces a shift in the reading frame downstream from Lys458, leading to a sequence of 51 novel amino acids before the occurrence of a premature stop codon (truncated receptor). However, since RT-PCR failed to demonstrate the presence of the mutant LDL-R mRNA in proband fibroblasts, it is likely that the amount of truncated receptor produced in these cells is negligible.

  8. Redundancy in Kiss1 Expression Safeguards Reproduction in the Mouse

    Science.gov (United States)

    Popa, Simina M.; Moriyama, Ryutaro M.; Caligioni, Claudia S.; Yang, Jasmine J.; Cho, Caroline M.; Concepcion, Tessa L.; Oakley, Amy E.; Lee, In Hae; Sanz, Elisenda; Amieux, Paul S.; Caraty, Alain; Palmiter, Richard D.; Navarro, Victor M.; Chan, Yee-Ming; Seminara, Stephanie B.; Clifton, Donald K.

    2013-01-01

    Kisspeptin (Kiss1) signaling to GnRH neurons is widely acknowledged to be a prerequisite for puberty and reproduction. Animals lacking functional genes for either kisspeptin or its receptor exhibit low gonadotropin secretion and infertility. Paradoxically, a recent study reported that genetic ablation of nearly all Kiss1-expressing neurons (Kiss1 neurons) does not impair reproduction, arguing that neither Kiss1 neurons nor their products are essential for sexual maturation. We posited that only minute quantities of kisspeptin are sufficient to support reproduction. If this were the case, animals having dramatically reduced Kiss1 expression might retain fertility, testifying to the redundancy of Kiss1 neurons and their products. To test this hypothesis and to determine whether males and females differ in the required amount of kisspeptin needed for reproduction, we used a mouse (Kiss1-CreGFP) that has a severe reduction in Kiss1 expression. Mice that are heterozygous and homozygous for this allele (Kiss1Cre/+ and Kiss1Cre/Cre) have ∼50% and 95% reductions in Kiss1 transcript, respectively. We found that although male Kiss1Cre/Cre mice sire normal-sized litters, female Kiss1Cre/Cre mice exhibit significantly impaired fertility and ovulation. These observations suggest that males require only 5% of normal Kiss1 expression to be reproductively competent, whereas females require higher levels for reproductive success. PMID:23736293

  9. An Adaptive Technique for a Redundant-Sensor Navigation System. Ph.D. Thesis

    Science.gov (United States)

    Chien, T. T.

    1972-01-01

    An on-line adaptive technique is developed to provide a self-contained redundant-sensor navigation system with a capability to utilize its full potentiality in reliability and performance. The gyro navigation system is modeled as a Gauss-Markov process, with degradation modes defined as changes in characteristics specified by parameters associated with the model. The adaptive system is formulated as a multistage stochastic process: (1) a detection system, (2) an identification system and (3) a compensation system. It is shown that the sufficient statistics for the partially observable process in the detection and identification system is the posterior measure of the state of degradation, conditioned on the measurement history.

  10. Molecular and phylogenetic characterizations of an Eimeria krijgsmanni Yakimoff & Gouseff, 1938 (Apicomplexa: Eimeriidae) mouse intestinal protozoan parasite by partial 18S ribosomal RNA gene sequence analysis.

    Science.gov (United States)

    Takeo, Toshinori; Tanaka, Tetsuya; Matsubayashi, Makoto; Maeda, Hiroki; Kusakisako, Kodai; Matsui, Toshihiro; Mochizuki, Masami; Matsuo, Tomohide

    2014-08-01

    Previously, we characterized an undocumented strain of Eimeria krijgsmanni by morphological and biological features. Here, we present a detailed molecular phylogenetic analysis of this organism. Namely, 18S ribosomal RNA gene (rDNA) sequences of E. krijgsmanni were analyzed to incorporate this species into a comprehensive Eimeria phylogeny. As a result, partial 18S rDNA sequence from E. krijgsmanni was successfully determined, and two different types, Type A and Type B, that differed by 1 base pair were identified. E. krijgsmanni was originally isolated from a single oocyst, and thus the result show that the two types might have allelic sequence heterogeneity in the 18S rDNA. Based on phylogenetic analyses, the two types of E. krijgsmanni 18S rDNA formed one of two clades among murine Eimeria spp.; these Eimeria clades reflected morphological similarity among the Eimeria spp. This is the third molecular phylogenetic characterization of a murine Eimeria spp. in addition to E. falciformis and E. papillata. Copyright © 2014 Elsevier Ireland Ltd. All rights reserved.

  11. Hybrid online sensor error detection and functional redundancy for systems with time-varying parameters.

    Science.gov (United States)

    Feng, Jianyuan; Turksoy, Kamuran; Samadi, Sediqeh; Hajizadeh, Iman; Littlejohn, Elizabeth; Cinar, Ali

    2017-12-01

    Supervision and control systems rely on signals from sensors to receive information to monitor the operation of a system and adjust manipulated variables to achieve the control objective. However, sensor performance is often limited by their working conditions and sensors may also be subjected to interference by other devices. Many different types of sensor errors such as outliers, missing values, drifts and corruption with noise may occur during process operation. A hybrid online sensor error detection and functional redundancy system is developed to detect errors in online signals, and replace erroneous or missing values detected with model-based estimates. The proposed hybrid system relies on two techniques, an outlier-robust Kalman filter (ORKF) and a locally-weighted partial least squares (LW-PLS) regression model, which leverage the advantages of automatic measurement error elimination with ORKF and data-driven prediction with LW-PLS. The system includes a nominal angle analysis (NAA) method to distinguish between signal faults and large changes in sensor values caused by real dynamic changes in process operation. The performance of the system is illustrated with clinical data continuous glucose monitoring (CGM) sensors from people with type 1 diabetes. More than 50,000 CGM sensor errors were added to original CGM signals from 25 clinical experiments, then the performance of error detection and functional redundancy algorithms were analyzed. The results indicate that the proposed system can successfully detect most of the erroneous signals and substitute them with reasonable estimated values computed by functional redundancy system.

  12. The issue of redundant places of worship

    Directory of Open Access Journals (Sweden)

    Paolo Cavana

    2012-03-01

    Abstract: Nowadays one of the major issues concerning ecclesiastical, or religious, property in Europe, as elsewhere, consists of deciding what to do with redundant churches and places of worship of traditional Christian denominations, all of which have lost their original use, either due to a formal decision of the ecclesiastical authorities or to simple closure to the public. This might have been caused by a series of events, like a significant decrease in the church attendance, limited public resources, new urban planning projects and the fall in religious vocation. For these places there is either the prospect of a new use, or a slow process of decay which can ultimately end up in a sale, or demolition. This problem is faced today with singular urgency in Europe, where it determines an increased risk of decay of much of the historical-artistic heritage, together with the abandonment of the countryside and mountain locations and a progressive desertion of historical town centres. Consequently, the issue concerns not only the religious community but also the civil authorities and public opinion, more and more sensitive to the protection of cultural heritage and the historical memory of local communities. This paper examines many aspects of the issue in some countries (Italy, Germany, Switzerland, France, Québec, the United States, comparing the different legal frameworks and the documents of some national episcopal assemblies on the subject, especially about the change in the use of churches. Finally it concentrates on the situation in Italy, where the legal framework on this subject is strictly connected with the system of church-state relations, making some concluding remarks about future prospects and possible solutions to some of the more serious aspects of the issue.

  13. Redundancy proves its worth in FR Germany [emergency power supplies

    International Nuclear Information System (INIS)

    Simon, M.

    1987-01-01

    An analysis of loss of power events at nuclear power stations in FR Germany has confirmed the data used in the German risk study and underlined the advantages of providing a high degree of redundancy in emergency power supplies. (author)

  14. Retraction: Redundant Publication of the article Dental caries and ...

    African Journals Online (AJOL)

    Retraction: Redundant Publication of the article Dental caries and oral health practices among 12 year old children in Nairobi West and Mathira West Districts, Kenya. Gladwell Gathecha et al. The Pan African Medical Journal. 2012;12:42.

  15. Signal validation in nuclear power plants using redundant measurements

    International Nuclear Information System (INIS)

    Glockler, O.; Upadhyaya, B.R.; Morgenstern, V.M.

    1989-01-01

    This paper discusses the basic principles of a multivariable signal validation software system utilizing redundant sensor readings of process variables in nuclear power plants (NPPs). The technique has been tested in numerical experiments, and was applied to actual data from a pressurized water reactor (PWR). The simultaneous checking within one redundant measurement set, and the cross-checking among redundant measurement sets of dissimilar process variables, results in an algorithm capable of detecting and isolating bias-type errors. A case in point occurs when a majority of the direct redundant measurements of more than one process variable has failed simultaneously by a common-mode or correlated failures can be detected by the developed approach. 5 refs

  16. Selective Redundancy Removal: A Framework for Data Hiding

    Directory of Open Access Journals (Sweden)

    Ugo Fiore

    2010-02-01

    Full Text Available Data hiding techniques have so far concentrated on adding or modifying irrelevant information in order to hide a message. However, files in widespread use, such as HTML documents, usually exhibit high redundancy levels, caused by code-generation programs. Such redundancy may be removed by means of optimization software. Redundancy removal, if applied selectively, enables information hiding. This work introduces Selective Redundancy Removal (SRR as a framework for hiding data. An example application of the framework is given in terms of hiding information in HTML documents. Non-uniformity across documents may raise alarms. Nevertheless, selective application of optimization techniques might be due to the legitimate use of optimization software not supporting all the optimization methods, or configured to not use all of them.

  17. Triple3 Redundant Spacecraft Subsystems (T3RSS), Phase I

    Data.gov (United States)

    National Aeronautics and Space Administration — Redefine Technologies, along with researchers at the University of Colorado, will use three redundancy methods to decrease the susceptibility of a spacecraft, on a...

  18. Resolving Actuator Redundancy - Control Allocation vs. Linear Quadratic Control

    OpenAIRE

    Härkegård, Ola

    2004-01-01

    When designing control laws for systems with more inputs than controlled variables, one issue to consider is how to deal with actuator redundancy. Two tools for distributing the control effort among a redundant set of actuators are control allocation and linear quadratic control design. In this paper, we investigate the relationship between these two design tools when a quadratic performance index is used for control allocation. We show that for a particular class of linear systems, they give...

  19. Kinematic control of redundant robots and the motion optimizability measure.

    Science.gov (United States)

    Li, L; Gruver, W A; Zhang, Q; Yang, Z

    2001-01-01

    This paper treats the kinematic control of manipulators with redundant degrees of freedom. We derive an analytical solution for the inverse kinematics that provides a means for accommodating joint velocity constraints in real time. We define the motion optimizability measure and use it to develop an efficient method for the optimization of joint trajectories subject to multiple criteria. An implementation of the method for a 7-dof experimental redundant robot is present.

  20. Reconstructing the Evolutionary History of Paralogous APETALA1/FRUITFULL-Like Genes in Grasses (Poaceae)

    Science.gov (United States)

    Preston, Jill C.; Kellogg, Elizabeth A.

    2006-01-01

    Gene duplication is an important mechanism for the generation of evolutionary novelty. Paralogous genes that are not silenced may evolve new functions (neofunctionalization) that will alter the developmental outcome of preexisting genetic pathways, partition ancestral functions (subfunctionalization) into divergent developmental modules, or function redundantly. Functional divergence can occur by changes in the spatio-temporal patterns of gene expression and/or by changes in the activities of their protein products. We reconstructed the evolutionary history of two paralogous monocot MADS-box transcription factors, FUL1 and FUL2, and determined the evolution of sequence and gene expression in grass AP1/FUL-like genes. Monocot AP1/FUL-like genes duplicated at the base of Poaceae and codon substitutions occurred under relaxed selection mostly along the branch leading to FUL2. Following the duplication, FUL1 was apparently lost from early diverging taxa, a pattern consistent with major changes in grass floral morphology. Overlapping gene expression patterns in leaves and spikelets indicate that FUL1 and FUL2 probably share some redundant functions, but that FUL2 may have become temporally restricted under partial subfunctionalization to particular stages of floret development. These data have allowed us to reconstruct the history of AP1/FUL-like genes in Poaceae and to hypothesize a role for this gene duplication in the evolution of the grass spikelet. PMID:16816429

  1. Neural redundancy applied to the parity space for signal validation

    International Nuclear Information System (INIS)

    Mol, Antonio Carlos de Abreu; Pereira, Claudio Marcio Nascimento Abreu; Martinez, Aquilino Senra

    2005-01-01

    The objective of signal validation is to provide more reliable information from the plant sensor data The method presented in this work introduces the concept of neural redundancy and applies it to the space parity method [1] to overcome an inherent deficiency of this method - the determination of the best estimative of the redundant measures when they are inconsistent. The concept of neural redundancy consists on the calculation of a redundancy through neural networks based on the time series of the own state variable. Therefore, neural networks, dynamically trained with the time series, will estimate the current value of the own measure, which will be used as referee of the redundant measures in the parity space. For this purpose the neural network should have the capacity to supply the neural redundancy in real time and with maximum error corresponding to the group deviation. The historical series should be enough to allow the estimate of the next value, during transients and at the same time, it should be optimized to facilitate the retraining of the neural network to each acquisition. In order to have the capacity to reproduce the tendency of the time series even under accident condition, the dynamic training of the neural network privileges the recent points of the time series. The tests accomplished with simulated data of a nuclear plant, demonstrated that this method applied on the parity space method improves the signal validation process. (author)

  2. Neural redundancy applied to the parity space for signal validation

    Energy Technology Data Exchange (ETDEWEB)

    Mol, Antonio Carlos de Abreu; Pereira, Claudio Marcio Nascimento Abreu [Instituto de Engenharia Nuclear (IEN), Rio de Janeiro, RJ (Brazil)]. E-mail: cmnap@ien.gov.br; Martinez, Aquilino Senra [Universidade Federal, Rio de Janeiro, RJ (Brazil). Coordenacao dos Programas de Pos-graduacao de Engenharia]. E-mail: aquilino@lmp.br

    2005-07-01

    The objective of signal validation is to provide more reliable information from the plant sensor data The method presented in this work introduces the concept of neural redundancy and applies it to the space parity method [1] to overcome an inherent deficiency of this method - the determination of the best estimative of the redundant measures when they are inconsistent. The concept of neural redundancy consists on the calculation of a redundancy through neural networks based on the time series of the own state variable. Therefore, neural networks, dynamically trained with the time series, will estimate the current value of the own measure, which will be used as referee of the redundant measures in the parity space. For this purpose the neural network should have the capacity to supply the neural redundancy in real time and with maximum error corresponding to the group deviation. The historical series should be enough to allow the estimate of the next value, during transients and at the same time, it should be optimized to facilitate the retraining of the neural network to each acquisition. In order to have the capacity to reproduce the tendency of the time series even under accident condition, the dynamic training of the neural network privileges the recent points of the time series. The tests accomplished with simulated data of a nuclear plant, demonstrated that this method applied on the parity space method improves the signal validation process. (author)

  3. Reliability optimization of a redundant system with failure dependencies

    Energy Technology Data Exchange (ETDEWEB)

    Yu Haiyang [Institute Charles Delaunay (ICD, FRE CNRS 2848), Troyes University of Technology, Rue Marie Curie, BP 2060, 10010 Troyes (France)]. E-mail: Haiyang.YU@utt.fr; Chu Chengbin [Institute Charles Delaunay (ICD, FRE CNRS 2848), Troyes University of Technology, Rue Marie Curie, BP 2060, 10010 Troyes (France); Management School, Hefei University of Technology, 193 Tunxi Road, Hefei (China); Chatelet, Eric [Institute Charles Delaunay (ICD, FRE CNRS 2848), Troyes University of Technology, Rue Marie Curie, BP 2060, 10010 Troyes (France); Yalaoui, Farouk [Institute Charles Delaunay (ICD, FRE CNRS 2848), Troyes University of Technology, Rue Marie Curie, BP 2060, 10010 Troyes (France)

    2007-12-15

    In a multi-component system, the failure of one component can reduce the system reliability in two aspects: loss of the reliability contribution of this failed component, and the reconfiguration of the system, e.g., the redistribution of the system loading. The system reconfiguration can be triggered by the component failures as well as by adding redundancies. Hence, dependency is essential for the design of a multi-component system. In this paper, we study the design of a redundant system with the consideration of a specific kind of failure dependency, i.e., the redundant dependency. The dependence function is introduced to quantify the redundant dependency. With the dependence function, the redundant dependencies are further classified as independence, weak, linear, and strong dependencies. In addition, this classification is useful in that it facilitates the optimization resolution of the system design. Finally, an example is presented to illustrate the concept of redundant dependency and its application in system design. This paper thus conveys the significance of failure dependencies in the reliability optimization of systems.

  4. Reliability optimization of a redundant system with failure dependencies

    International Nuclear Information System (INIS)

    Yu Haiyang; Chu Chengbin; Chatelet, Eric; Yalaoui, Farouk

    2007-01-01

    In a multi-component system, the failure of one component can reduce the system reliability in two aspects: loss of the reliability contribution of this failed component, and the reconfiguration of the system, e.g., the redistribution of the system loading. The system reconfiguration can be triggered by the component failures as well as by adding redundancies. Hence, dependency is essential for the design of a multi-component system. In this paper, we study the design of a redundant system with the consideration of a specific kind of failure dependency, i.e., the redundant dependency. The dependence function is introduced to quantify the redundant dependency. With the dependence function, the redundant dependencies are further classified as independence, weak, linear, and strong dependencies. In addition, this classification is useful in that it facilitates the optimization resolution of the system design. Finally, an example is presented to illustrate the concept of redundant dependency and its application in system design. This paper thus conveys the significance of failure dependencies in the reliability optimization of systems

  5. Joint optimization of redundancy level and spare part inventories

    International Nuclear Information System (INIS)

    Sleptchenko, Andrei; Heijden, Matthieu van der

    2016-01-01

    We consider a “k-out-of-N” system with different standby modes. Each of the N components consists of multiple part types. Upon failure, a component can be repaired within a certain time by switching the failed part by a spare, if available. We develop both an exact and a fast approximate analysis to compute the system availability. Next, we jointly optimize the component redundancy level with the inventories of the various spare parts. We find that our approximations are very accurate and suitable for large systems. We apply our model to a case study at a public organization in Qatar, and find that we can improve the availability-to-cost ratio by reducing the redundancy level and increasing the spare part inventories. In general, high redundancy levels appear to be useful only when components are relatively cheap and part replacement times are high. - Highlights: • We analyze a redundant system (k-out-of-N) with multiple parts and spares. • We jointly optimize the redundancy level and the spare part inventories. • We develop an exact method and an approximation to evaluate the system availability. • Adding spare parts and reducing the redundancy level cuts cost by 50% in a case study. • The availability is not very sensitive to the shape of the failure time distribution.

  6. Genetic classification and distinguishing of Staphylococcus species based on different partial gap, 16S rRNA, hsp60, rpoB, sodA, and tuf gene sequences.

    Science.gov (United States)

    Ghebremedhin, B; Layer, F; König, W; König, B

    2008-03-01

    The analysis of 16S rRNA gene sequences has been the technique generally used to study the evolution and taxonomy of staphylococci. However, the results of this method do not correspond to the results of polyphasic taxonomy, and the related species cannot always be distinguished from each other. Thus, new phylogenetic markers for Staphylococcus spp. are needed. We partially sequenced the gap gene (approximately 931 bp), which encodes the glyceraldehyde-3-phosphate dehydrogenase, for 27 Staphylococcus species. The partial sequences had 24.3 to 96% interspecies homology and were useful in the identification of staphylococcal species (F. Layer, B. Ghebremedhin, W. König, and B. König, J. Microbiol. Methods 70:542-549, 2007). The DNA sequence similarities of the partial staphylococcal gap sequences were found to be lower than those of 16S rRNA (approximately 97%), rpoB (approximately 86%), hsp60 (approximately 82%), and sodA (approximately 78%). Phylogenetically derived trees revealed four statistically supported groups: S. hyicus/S. intermedius, S. sciuri, S. haemolyticus/S. simulans, and S. aureus/epidermidis. The branching of S. auricularis, S. cohnii subsp. cohnii, and the heterogeneous S. saprophyticus group, comprising S. saprophyticus subsp. saprophyticus and S. equorum subsp. equorum, was not reliable. Thus, the phylogenetic analysis based on the gap gene sequences revealed similarities between the dendrograms based on other gene sequences (e.g., the S. hyicus/S. intermedius and S. sciuri groups) as well as differences, e.g., the grouping of S. arlettae and S. kloosii in the gap-based tree. From our results, we propose the partial sequencing of the gap gene as an alternative molecular tool for the taxonomical analysis of Staphylococcus species and for decreasing the possibility of misidentification.

  7. Genetic Classification and Distinguishing of Staphylococcus Species Based on Different Partial gap, 16S rRNA, hsp60, rpoB, sodA, and tuf Gene Sequences▿

    Science.gov (United States)

    Ghebremedhin, B.; Layer, F.; König, W.; König, B.

    2008-01-01

    The analysis of 16S rRNA gene sequences has been the technique generally used to study the evolution and taxonomy of staphylococci. However, the results of this method do not correspond to the results of polyphasic taxonomy, and the related species cannot always be distinguished from each other. Thus, new phylogenetic markers for Staphylococcus spp. are needed. We partially sequenced the gap gene (∼931 bp), which encodes the glyceraldehyde-3-phosphate dehydrogenase, for 27 Staphylococcus species. The partial sequences had 24.3 to 96% interspecies homology and were useful in the identification of staphylococcal species (F. Layer, B. Ghebremedhin, W. König, and B. König, J. Microbiol. Methods 70:542-549, 2007). The DNA sequence similarities of the partial staphylococcal gap sequences were found to be lower than those of 16S rRNA (∼97%), rpoB (∼86%), hsp60 (∼82%), and sodA (∼78%). Phylogenetically derived trees revealed four statistically supported groups: S. hyicus/S. intermedius, S. sciuri, S. haemolyticus/S. simulans, and S. aureus/epidermidis. The branching of S. auricularis, S. cohnii subsp. cohnii, and the heterogeneous S. saprophyticus group, comprising S. saprophyticus subsp. saprophyticus and S. equorum subsp. equorum, was not reliable. Thus, the phylogenetic analysis based on the gap gene sequences revealed similarities between the dendrograms based on other gene sequences (e.g., the S. hyicus/S. intermedius and S. sciuri groups) as well as differences, e.g., the grouping of S. arlettae and S. kloosii in the gap-based tree. From our results, we propose the partial sequencing of the gap gene as an alternative molecular tool for the taxonomical analysis of Staphylococcus species and for decreasing the possibility of misidentification. PMID:18174295

  8. Computational and experimental analysis of redundancy in the central metabolism of Geobacter sulfurreducens.

    Directory of Open Access Journals (Sweden)

    Daniel Segura

    2008-02-01

    Full Text Available Previous model-based analysis of the metabolic network of Geobacter sulfurreducens suggested the existence of several redundant pathways. Here, we identified eight sets of redundant pathways that included redundancy for the assimilation of acetate, and for the conversion of pyruvate into acetyl-CoA. These equivalent pathways and two other sub-optimal pathways were studied using 5 single-gene deletion mutants in those pathways for the evaluation of the predictive capacity of the model. The growth phenotypes of these mutants were studied under 12 different conditions of electron donor and acceptor availability. The comparison of the model predictions with the resulting experimental phenotypes indicated that pyruvate ferredoxin oxidoreductase is the only activity able to convert pyruvate into acetyl-CoA. However, the results and the modeling showed that the two acetate activation pathways present are not only active, but needed due to the additional role of the acetyl-CoA transferase in the TCA cycle, probably reflecting the adaptation of these bacteria to acetate utilization. In other cases, the data reconciliation suggested additional capacity constraints that were confirmed with biochemical assays. The results demonstrate the need to experimentally verify the activity of key enzymes when developing in silico models of microbial physiology based on sequence-based reconstruction of metabolic networks.

  9. Partial Cancellation

    Indian Academy of Sciences (India)

    First page Back Continue Last page Overview Graphics. Partial Cancellation. Full Cancellation is desirable. But complexity requirements are enormous. 4000 tones, 100 Users billions of flops !!! Main Idea: Challenge: To determine which cross-talker to cancel on what “tone” for a given victim. Constraint: Total complexity is ...

  10. Analysis of transitions at two-fold redundant sites in mammalian genomes. Transition redundant approach-to-equilibrium (TREx distance metrics

    Directory of Open Access Journals (Sweden)

    Liberles David A

    2006-03-01

    Full Text Available Abstract Background The exchange of nucleotides at synonymous sites in a gene encoding a protein is believed to have little impact on the fitness of a host organism. This should be especially true for synonymous transitions, where a pyrimidine nucleotide is replaced by another pyrimidine, or a purine is replaced by another purine. This suggests that transition redundant exchange (TREx processes at the third position of conserved two-fold codon systems might offer the best approximation for a neutral molecular clock, serving to examine, within coding regions, theories that require neutrality, determine whether transition rate constants differ within genes in a single lineage, and correlate dates of events recorded in genomes with dates in the geological and paleontological records. To date, TREx analysis of the yeast genome has recognized correlated duplications that established a new metabolic strategies in fungi, and supported analyses of functional change in aromatases in pigs. TREx dating has limitations, however. Multiple transitions at synonymous sites may cause equilibration and loss of information. Further, to be useful to correlate events in the genomic record, different genes within a genome must suffer transitions at similar rates. Results A formalism to analyze divergence at two fold redundant codon systems is presented. This formalism exploits two-state approach-to-equilibrium kinetics from chemistry. This formalism captures, in a single equation, the possibility of multiple substitutions at individual sites, avoiding any need to "correct" for these. The formalism also connects specific rate constants for transitions to specific approximations in an underlying evolutionary model, including assumptions that transition rate constants are invariant at different sites, in different genes, in different lineages, and at different times. Therefore, the formalism supports analyses that evaluate these approximations. Transitions at synonymous

  11. Coherent network detection of gravitational waves: the redundancy veto

    International Nuclear Information System (INIS)

    Wen Linqing; Schutz, Bernard F

    2005-01-01

    A network of gravitational wave detectors is called redundant if, given the direction to a source, the strain induced by a gravitational wave in one or more of the detectors can be fully expressed in terms of the strain induced in others in the network. Because gravitational waves have only two polarizations, any network of three or more differently oriented interferometers with similar observing bands is redundant. The three-armed LISA space interferometer has three outputs that are redundant at low frequencies. The two aligned LIGO interferometers at Hanford WA are redundant, and the LIGO detector at Livingston LA is nearly redundant with either of the Hanford detectors. Redundant networks have a powerful veto against spurious noise, a linear combination of the detector outputs that contains no gravitational wave signal. For LISA, this 'null' output is known as the Sagnac mode, and its use in discriminating between detector noise and a cosmological gravitational wave background is well understood. But the usefulness of the null veto for ground-based detector networks has been ignored until now. We show that it should make it possible to discriminate in a model-independent way between real gravitational waves and accidentally coincident non-Gaussian noise 'events' in redundant networks of two or more broadband detectors. It has been shown that with three detectors, the null output can even be used to locate the direction to the source, and then two other linear combinations of detector outputs give the optimal 'coherent' reconstruction of the two polarization components of the signal. We discuss briefly the implementation of such a detection strategy in realistic networks, where signals are weak, detector calibration is a significant uncertainty, and the various detectors may have different (but overlapping) observing bands

  12. Optimization of robustness of interdependent network controllability by redundant design.

    Directory of Open Access Journals (Sweden)

    Zenghu Zhang

    Full Text Available Controllability of complex networks has been a hot topic in recent years. Real networks regarded as interdependent networks are always coupled together by multiple networks. The cascading process of interdependent networks including interdependent failure and overload failure will destroy the robustness of controllability for the whole network. Therefore, the optimization of the robustness of interdependent network controllability is of great importance in the research area of complex networks. In this paper, based on the model of interdependent networks constructed first, we determine the cascading process under different proportions of node attacks. Then, the structural controllability of interdependent networks is measured by the minimum driver nodes. Furthermore, we propose a parameter which can be obtained by the structure and minimum driver set of interdependent networks under different proportions of node attacks and analyze the robustness for interdependent network controllability. Finally, we optimize the robustness of interdependent network controllability by redundant design including node backup and redundancy edge backup and improve the redundant design by proposing different strategies according to their cost. Comparative strategies of redundant design are conducted to find the best strategy. Results shows that node backup and redundancy edge backup can indeed decrease those nodes suffering from failure and improve the robustness of controllability. Considering the cost of redundant design, we should choose BBS (betweenness-based strategy or DBS (degree based strategy for node backup and HDF(high degree first for redundancy edge backup. Above all, our proposed strategies are feasible and effective at improving the robustness of interdependent network controllability.

  13. The heuristic value of redundancy models of aging.

    Science.gov (United States)

    Boonekamp, Jelle J; Briga, Michael; Verhulst, Simon

    2015-11-01

    Molecular studies of aging aim to unravel the cause(s) of aging bottom-up, but linking these mechanisms to organismal level processes remains a challenge. We propose that complementary top-down data-directed modelling of organismal level empirical findings may contribute to developing these links. To this end, we explore the heuristic value of redundancy models of aging to develop a deeper insight into the mechanisms causing variation in senescence and lifespan. We start by showing (i) how different redundancy model parameters affect projected aging and mortality, and (ii) how variation in redundancy model parameters relates to variation in parameters of the Gompertz equation. Lifestyle changes or medical interventions during life can modify mortality rate, and we investigate (iii) how interventions that change specific redundancy parameters within the model affect subsequent mortality and actuarial senescence. Lastly, as an example of data-directed modelling and the insights that can be gained from this, (iv) we fit a redundancy model to mortality patterns observed by Mair et al. (2003; Science 301: 1731-1733) in Drosophila that were subjected to dietary restriction and temperature manipulations. Mair et al. found that dietary restriction instantaneously reduced mortality rate without affecting aging, while temperature manipulations had more transient effects on mortality rate and did affect aging. We show that after adjusting model parameters the redundancy model describes both effects well, and a comparison of the parameter values yields a deeper insight in the mechanisms causing these contrasting effects. We see replacement of the redundancy model parameters by more detailed sub-models of these parameters as a next step in linking demographic patterns to underlying molecular mechanisms. Copyright © 2015 Elsevier Inc. All rights reserved.

  14. Redundant nerve roots of the cauda equina : MR findings

    International Nuclear Information System (INIS)

    Oh, Kyu Hyen; Lee, Jung Man; Jung, Hak Young; Lee, Young Hwan; Sung, Nak Kwan; Chung, Duck Soo; Kim, Ok Dong; Lee, Sang Kwon; Suh, Kyung Jin

    1997-01-01

    To evaluate MR findings of redundant nerve roots (RNR) of the cauda equina. 17 patients with RNR were studied; eight were men and nine were women, and their ages ranged from 46 to 82 (mean 63) years. Diagroses were established on the basis of T2-weighted sagittal and coronal MRI, which showed a tortuous or coiled configuration of the nerve roots of the cauda equina. MR findings were reviewed for location, magnitude, and signal intensity of redundant nerve roots, and the relationship between magnitude of redundancy and severity of lumbar spinal canal stenosis (LSCS) was evaluated. In all 17 patients, MR showed moderate or severe LSCS caused by herniation or bulging of an intervertebral disc, osteophyte from the vertebral body or facet joint, thickening of the ligamentum flavum, degenerative spondylolisthesis, or a combination of these. T2-weighted sagittal and coronal MR images well clearly showed the location of RNR of the cauda equina;in 16 patients(94%), these were seen above the level of constriction of the spinal canal, and in one case, they were observed below the level of constriction. T2-weighted axial images showed the thecal sac filled with numerous nerve roots. The magnitude of RNR was mild in six cases (35%), moderate in five cases (30%), and severe in six cases (35%). Compared with normal nerve roots, the RNR signal on T2-weighted images was iso-intense. All patients with severe redundancy showed severe LSCS, but not all cases with severe LSCS showed severe redundancy. Redundant nerve roots of cauda equina were seen in relatively older patients with moderate or severe LSCS and T2-weighted MR images were accurate in identifying redundancy of nerve roots and evaluating their magnitude and location

  15. Partial processing

    International Nuclear Information System (INIS)

    1978-11-01

    This discussion paper considers the possibility of applying to the recycle of plutonium in thermal reactors a particular method of partial processing based on the PUREX process but named CIVEX to emphasise the differences. The CIVEX process is based primarily on the retention of short-lived fission products. The paper suggests: (1) the recycle of fission products with uranium and plutonium in thermal reactor fuel would be technically feasible; (2) it would, however, take ten years or more to develop the CIVEX process to the point where it could be launched on a commercial scale; (3) since the majority of spent fuel to be reprocessed this century will have been in storage for ten years or more, the recycling of short-lived fission products with the U-Pu would not provide an effective means of making refabrication fuel ''inaccessible'' because the radioactivity associated with the fission products would have decayed. There would therefore be no advantage in partial processing

  16. Partial gigantism

    Directory of Open Access Journals (Sweden)

    М.М. Karimova

    2017-05-01

    Full Text Available A girl with partial gigantism (the increased I and II fingers of the left foot is being examined. This condition is a rare and unresolved problem, as the definite reason of its development is not determined. Wait-and-see strategy is recommended, as well as correcting operations after closing of growth zones, and forming of data pool for generalization and development of schemes of drug and radial therapeutic methods.

  17. Radiation-Tolerance Assessment of a Redundant Wireless Device

    Science.gov (United States)

    Huang, Q.; Jiang, J.

    2018-01-01

    This paper presents a method to evaluate radiation-tolerance without physical tests for a commercial off-the-shelf (COTS)-based monitoring device for high level radiation fields, such as those found in post-accident conditions in a nuclear power plant (NPP). This paper specifically describes the analysis of radiation environment in a severe accident, radiation damages in electronics, and the redundant solution used to prolong the life of the system, as well as the evaluation method for radiation protection and the analysis method of system reliability. As a case study, a wireless monitoring device with redundant and diversified channels is evaluated by using the developed method. The study results and system assessment data show that, under the given radiation condition, performance of the redundant device is more reliable and more robust than those non-redundant devices. The developed redundant wireless monitoring device is therefore able to apply in those conditions (up to 10 M Rad (Si)) during a severe accident in a NPP.

  18. Working memory capacity and redundant information processing efficiency.

    Science.gov (United States)

    Endres, Michael J; Houpt, Joseph W; Donkin, Chris; Finn, Peter R

    2015-01-01

    Working memory capacity (WMC) is typically measured by the amount of task-relevant information an individual can keep in mind while resisting distraction or interference from task-irrelevant information. The current research investigated the extent to which differences in WMC were associated with performance on a novel redundant memory probes (RMP) task that systematically varied the amount of to-be-remembered (targets) and to-be-ignored (distractor) information. The RMP task was designed to both facilitate and inhibit working memory search processes, as evidenced by differences in accuracy, response time, and Linear Ballistic Accumulator (LBA) model estimates of information processing efficiency. Participants (N = 170) completed standard intelligence tests and dual-span WMC tasks, along with the RMP task. As expected, accuracy, response-time, and LBA model results indicated memory search and retrieval processes were facilitated under redundant-target conditions, but also inhibited under mixed target/distractor and redundant-distractor conditions. Repeated measures analyses also indicated that, while individuals classified as high (n = 85) and low (n = 85) WMC did not differ in the magnitude of redundancy effects, groups did differ in the efficiency of memory search and retrieval processes overall. Results suggest that redundant information reliably facilitates and inhibits the efficiency or speed of working memory search, and these effects are independent of more general limits and individual differences in the capacity or space of working memory.

  19. Mobility and Position Error Analysis of a Complex Planar Mechanism with Redundant Constraints

    Science.gov (United States)

    Sun, Qipeng; Li, Gangyan

    2018-03-01

    Nowadays mechanisms with redundant constraints have been created and attracted much attention for their merits. The mechanism of the redundant constraints in a mechanical system is analyzed in this paper. A analysis method of Planar Linkage with a repetitive structure is proposed to get the number and type of constraints. According to the difference of applications and constraint characteristics, the redundant constraints are divided into the theoretical planar redundant constraints and the space-planar redundant constraints. And the calculation formula for the number of redundant constraints and type of judging method are carried out. And a complex mechanism with redundant constraints is analyzed of the influence about redundant constraints on mechanical performance. With the combination of theoretical derivation and simulation research, a mechanism analysis method is put forward about the position error of complex mechanism with redundant constraints. It points out the direction on how to eliminate or reduce the influence of redundant constraints.

  20. Repetitive motion planning and control of redundant robot manipulators

    CERN Document Server

    Zhang, Yunong

    2013-01-01

    Repetitive Motion Planning and Control of Redundant Robot Manipulators presents four typical motion planning schemes based on optimization techniques, including the fundamental RMP scheme and its extensions. These schemes are unified as quadratic programs (QPs), which are solved by neural networks or numerical algorithms. The RMP schemes are demonstrated effectively by the simulation results based on various robotic models; the experiments applying the fundamental RMP scheme to a physical robot manipulator are also presented. As the schemes and the corresponding solvers presented in the book have solved the non-repetitive motion problems existing in redundant robot manipulators, it is of particular use in applying theoretical research based on the quadratic program for redundant robot manipulators in industrial situations. This book will be a valuable reference work for engineers, researchers, advanced undergraduate and graduate students in robotics fields. Yunong Zhang is a professor at The School of Informa...

  1. On Planning of FTTH Access Networks with and without Redundancy

    DEFF Research Database (Denmark)

    Riaz, M. Tahir; Haraldsson, Gustav; Gutierrez Lopez, Jose Manuel

    2010-01-01

    This paper presents a planning analysis of FTTH access network with and without redundancy. Traditionally, access networks are planned only without redundancy, which is mainly due to lowering the cost of deployment. As fiber optics provide a huge amount of capacity, more and more services are being...... offered on a single fiber connection. As a single point of failure in fiber connection can cause multiple service deprivation therefore redundancy is very crucial. In this work, an automated planning model was used to test different scenarios of implementation. A cost estimation is presented in terms...... of digging and amount of fiber used. Three topologies, including the traditional one “tree topology”, were test with combination of various passive optical technologies....

  2. Program management aid for redundancy selection and operational guidelines

    Science.gov (United States)

    Hodge, P. W.; Davis, W. L.; Frumkin, B.

    1972-01-01

    Although this criterion was developed specifically for use on the shuttle program, it has application to many other multi-missions programs (i.e. aircraft or mechanisms). The methodology employed is directly applicable even if the tools (nomographs and equations) are for mission peculiar cases. The redundancy selection criterion was developed to insure that both the design and operational cost impacts (life cycle costs) were considered in the selection of the quantity of operational redundancy. These tools were developed as aids in expediting the decision process and not intended as the automatic decision maker. This approach to redundancy selection is unique in that it enables a pseudo systems analysis to be performed on an equipment basis without waiting for all designs to be hardened.

  3. Comparison of growth on mannitol salt agar, matrix-assisted laser desorption/ionization time-of-flight mass spectrometry, VITEK® 2 with partial sequencing of 16S rRNA gene for identification of coagulase-negative staphylococci.

    Science.gov (United States)

    Ayeni, Funmilola A; Andersen, Camilla; Nørskov-Lauritsen, Niels

    2017-04-01

    Mannitol salt agar (MSA) is often used in resources' limited laboratories for identification of S. aureus however, coagulase-negative staphylococci (CoNS) grows and ferments mannitol on MSA. 171 strains of CoNS which have been previously misidentified as S. aureus due to growth on MSA were collected from different locations in Nigeria and two methods for identification of CoNS were compared i.e. ViTEK 2 and MALDI-TOF MS with partial 16S rRNA gene sequencing as gold standard. Partial tuf gene sequencing was used for contradicting identification. All 171 strains (13 species) grew on MSA and ferments mannitol. All tested strains of S. epidermidis, S. haemolyticus, S. nepalensis, S. pasteuri, S. sciuri,, S. warneri, S. xylosus, S. capitis were correctly identified by MALDI-TOF while variable identification were observed in S. saprophyticus and S. cohnii (90%, 81%). There was low identification of S. arlettae (14%) while all strains of S. kloosii and S. gallinarum were misidentified. There is absence of S. gallinarum in the MALDI-TOF database at the period of this study. All tested strains of S. epidermidis, S. gallinarum, S. haemolyticus, S. sciuri,, S. warneri, S. xylosus and S. capitis were correctly identified by ViTEK while variable identification were observed in S. saprophyticus, S. arlettae, S. cohnii, S. kloosii, (84%, 86%, 75%, 60%) and misidentification of S. nepalensis, S. pasteuri. Partial sequencing of 16S rRNA gene was used as gold standard for most strains except S. capitis and S. xylosus where the two species were misidentified by partial sequencing of 16S rRNA contrary to MALDI-TOF and ViTEK identification. Tuf gene sequencing was used for correct identification. Characteristic growth on MSA for CoNS is also identical to S. aureus growth on the media and therefore, MSA could not differentiate between S. aureus and CoNS. The percentage accuracy of ViTEK was better than MALDI-TOF in identification of CoNS. Although partial sequencing of

  4. Multisensory processing in the redundant-target effect

    DEFF Research Database (Denmark)

    Gondan, Matthias; Niederhaus, Birgit; Rösler, Frank

    2005-01-01

    Participants respond more quickly to two simultaneously presented target stimuli of two different modalities (redundant targets) than would be predicted from their reaction times to the unimodal targets. To examine the neural correlates of this redundant-target effect, event-related potentials...... (ERPs) were recorded to auditory, visual, and bimodal standard and target stimuli presented at two locations (left and right of central fixation). Bimodal stimuli were combinations of two standards, two targets, or a standard and a target, presented either from the same or from different locations...

  5. Information filtering based on corrected redundancy-eliminating mass diffusion.

    Science.gov (United States)

    Zhu, Xuzhen; Yang, Yujie; Chen, Guilin; Medo, Matus; Tian, Hui; Cai, Shi-Min

    2017-01-01

    Methods used in information filtering and recommendation often rely on quantifying the similarity between objects or users. The used similarity metrics often suffer from similarity redundancies arising from correlations between objects' attributes. Based on an unweighted undirected object-user bipartite network, we propose a Corrected Redundancy-Eliminating similarity index (CRE) which is based on a spreading process on the network. Extensive experiments on three benchmark data sets-Movilens, Netflix and Amazon-show that when used in recommendation, the CRE yields significant improvements in terms of recommendation accuracy and diversity. A detailed analysis is presented to unveil the origins of the observed differences between the CRE and mainstream similarity indices.

  6. Redundant information from thermal illumination: quantum Darwinism in scattered photons

    Energy Technology Data Exchange (ETDEWEB)

    Jess Riedel, C; Zurek, Wojciech H, E-mail: criedel@physics.ucsb.edu [Theory Division, LANL, Los Alamos, NM 87545 (United States)

    2011-07-15

    We study quantum Darwinism, the redundant recording of information about the preferred states of a decohering system by its environment, for an object illuminated by a blackbody. We calculate the quantum mutual information between the object and its photon environment for blackbodies that cover an arbitrary section of the sky. In particular, we demonstrate that more extended sources have a reduced ability to create redundant information about the system, in agreement with previous evidence that initial mixedness of an environment slows-but does not stop-the production of records. We also show that the qualitative results are robust for more general initial states of the system.

  7. Redundant information from thermal illumination: quantum Darwinism in scattered photons

    Science.gov (United States)

    Jess Riedel, C.; Zurek, Wojciech H.

    2011-07-01

    We study quantum Darwinism, the redundant recording of information about the preferred states of a decohering system by its environment, for an object illuminated by a blackbody. We calculate the quantum mutual information between the object and its photon environment for blackbodies that cover an arbitrary section of the sky. In particular, we demonstrate that more extended sources have a reduced ability to create redundant information about the system, in agreement with previous evidence that initial mixedness of an environment slows—but does not stop—the production of records. We also show that the qualitative results are robust for more general initial states of the system.

  8. Reliability model for common mode failures in redundant safety systems

    International Nuclear Information System (INIS)

    Fleming, K.N.

    1974-12-01

    A method is presented for computing the reliability of redundant safety systems, considering both independent and common mode type failures. The model developed for the computation is a simple extension of classical reliability theory. The feasibility of the method is demonstrated with the use of an example. The probability of failure of a typical diesel-generator emergency power system is computed based on data obtained from U. S. diesel-generator operating experience. The results are compared with reliability predictions based on the assumption that all failures are independent. The comparison shows a significant increase in the probability of redundant system failure, when common failure modes are considered. (U.S.)

  9. A Comparison of Routing Protocol for WSNs: Redundancy Based Approach A Comparison of Routing Protocol for WSNs: Redundancy Based Approach

    Directory of Open Access Journals (Sweden)

    Anand Prakash

    2014-03-01

    Full Text Available Wireless Sensor Networks (WSNs with their dynamic applications gained a tremendous attention of researchers. Constant monitoring of critical situations attracted researchers to utilize WSNs at vast platforms. The main focus in WSNs is to enhance network localization as much as one could, for efficient and optimal utilization of resources. Different approaches based upon redundancy are proposed for optimum functionality. Localization is always related with redundancy of sensor nodes deployed at remote areas for constant and fault tolerant monitoring. In this work, we propose a comparison of classic flooding and the gossip protocol for homogenous networks which enhances stability and throughput quiet significantly.  

  10. Redundant dopaminergic activity may enable compensatory axonal sprouting in Parkinson disease.

    Science.gov (United States)

    Arkadir, David; Bergman, Hagai; Fahn, Stanley

    2014-03-25

    Neurodegenerative diseases become clinically apparent only after a substantial population of neurons is lost. This raises the possibility of compensatory mechanisms in the early phase of these diseases. The importance of understanding these mechanisms cannot be underestimated because it may guide future disease-modifying strategies. Because the anatomy and physiology of the nigrostriatal dopaminergic pathways have been well described, the study of Parkinson disease can offer insight into these early compensatory mechanisms. Collateral axonal sprouting of dopaminergic terminals into the denervated striatum is the most studied compensatory mechanism in animal (almost exclusively rodent) models of Parkinson disease and is correlated with behavioral recovery after partial lesions. This sprouting, however, does not respect the normal anatomy of the original nigrostriatal pathways and leads to aberrant neuronal networks. We suggest here that the unique physiologic property of the dopaminergic innervation of the striatum, namely redundancy of information encoding, is crucial to the efficacy of compensatory axonal sprouting in the presence of aberrant anatomical connections. Redundant information encoding results from the similarity of representation of salient and rewarding events by many dopaminergic neurons, from the wide axonal field of a single dopaminergic neuron in the striatum, and from the nonspecific spatial effect of dopamine on striatal neurons (volume conductance). Finally, we discuss the relevance of these findings in animal models to human patients with Parkinson disease.

  11. Biogeographical disparity in the functional diversity and redundancy of corals.

    Science.gov (United States)

    McWilliam, Mike; Hoogenboom, Mia O; Baird, Andrew H; Kuo, Chao-Yang; Madin, Joshua S; Hughes, Terry P

    2018-03-20

    Corals are major contributors to a range of key ecosystem functions on tropical reefs, including calcification, photosynthesis, nutrient cycling, and the provision of habitat structure. The abundance of corals is declining at multiple scales, and the species composition of assemblages is responding to escalating human pressures, including anthropogenic global warming. An urgent challenge is to understand the functional consequences of these shifts in abundance and composition in different biogeographical contexts. While global patterns of coral species richness are well known, the biogeography of coral functions in provinces and domains with high and low redundancy is poorly understood. Here, we quantify the functional traits of all currently recognized zooxanthellate coral species ( n = 821) in both the Indo-Pacific and Atlantic domains to examine the relationships between species richness and the diversity and redundancy of functional trait space. We find that trait diversity is remarkably conserved (>75% of the global total) along latitudinal and longitudinal gradients in species richness, falling away only in species-poor provinces ( n < 200), such as the Persian Gulf (52% of the global total), Hawaii (37%), the Caribbean (26%), and the East-Pacific (20%), where redundancy is also diminished. In the more species-poor provinces, large and ecologically important areas of trait space are empty, or occupied by just a few, highly distinctive species. These striking biogeographical differences in redundancy could affect the resilience of critical reef functions and highlight the vulnerability of relatively depauperate, peripheral locations, which are often a low priority for targeted conservation efforts.

  12. Inhibition and Language Pragmatic View in Redundant Data Problem Solving

    Science.gov (United States)

    Setti, Annalisa; Caramelli, Nicoletta

    2007-01-01

    The present study concerns redundant data problems, defined as problems in which irrelevant data is provided. This type of problem provides a misleading context [Pascual-Leone, J. (1987). Organismic process for neo-Piagetian theories: A dialectical causal account of cognitive development. "International Journal of Psychology," 22, 531-570] similar…

  13. Redundancy scheme for multi-layered accelerator control system

    International Nuclear Information System (INIS)

    Chauhan, Amit; Fatnani, Pravin

    2009-01-01

    The control system for SRS Indus-2 has three-layered architecture. There are VMEbus based stations at the lower two layers that are controlled by their respective CPU board. The 'Profibus' fieldbus standard is used for communication between these VME stations distributed in the field. There is a Profibus controller board at each station to implement the communication protocol. The mode of communication is master-slave (command-response) type. This paper proposes a scheme to implement redundancy at the lower two layers namely Layer-2 (Supervisory Layer / Profibus-master) and Layer-3 (Equipment Unit Interface Layer / Profibus-slave). The redundancy is for both the CPU and the communication board. The scheme uses two CPU boards and two Profi controller boards at each L-3 station. This helps in decreasing any downtime resulting either from CPU faults or communication board faults that are placed in the field area. Redundancy of Profi boards provides two active communication channels between the stations that can be used in different ways thereby increasing the availability on a communication link. Redundancy of CPU boards provides certain level of auto fault-recovery as one CPU remains active and the other CPU remains in standby mode, which takes over the control of VMEbus in case of any fault in the main CPU. (author)

  14. The restricted isometry property meets nonlinear approximation with redundant frames

    DEFF Research Database (Denmark)

    Gribonval, Rémi; Nielsen, Morten

    2013-01-01

    with a redundant frame. The main ingredients of our approach are: a) Jackson and Bernstein inequalities, associated to the characterization of certain approximation spaces with interpolation spaces; b) a proof that for overcomplete frames which satisfy a Bernstein inequality, these interpolation spaces are nothing...

  15. Mutual information and redundancy in spontaneous communication between cortical neurons.

    Science.gov (United States)

    Szczepanski, J; Arnold, M; Wajnryb, E; Amigó, J M; Sanchez-Vives, M V

    2011-03-01

    An important question in neural information processing is how neurons cooperate to transmit information. To study this question, we resort to the concept of redundancy in the information transmitted by a group of neurons and, at the same time, we introduce a novel concept for measuring cooperation between pairs of neurons called relative mutual information (RMI). Specifically, we studied these two parameters for spike trains generated by neighboring neurons from the primary visual cortex in the awake, freely moving rat. The spike trains studied here were spontaneously generated in the cortical network, in the absence of visual stimulation. Under these conditions, our analysis revealed that while the value of RMI oscillated slightly around an average value, the redundancy exhibited a behavior characterized by a higher variability. We conjecture that this combination of approximately constant RMI and greater variable redundancy makes information transmission more resistant to noise disturbances. Furthermore, the redundancy values suggest that neurons can cooperate in a flexible way during information transmission. This mostly occurs via a leading neuron with higher transmission rate or, less frequently, through the information rate of the whole group being higher than the sum of the individual information rates-in other words in a synergetic manner. The proposed method applies not only to the stationary, but also to locally stationary neural signals.

  16. The bliss (not the problem) of motor abundance (not redundancy).

    Science.gov (United States)

    Latash, Mark L

    2012-03-01

    Motor control is an area of natural science exploring how the nervous system interacts with other body parts and the environment to produce purposeful, coordinated actions. A central problem of motor control-the problem of motor redundancy-was formulated by Nikolai Bernstein as the problem of elimination of redundant degrees-of-freedom. Traditionally, this problem has been addressed using optimization methods based on a variety of cost functions. This review draws attention to a body of recent findings suggesting that the problem has been formulated incorrectly. An alternative view has been suggested as the principle of abundance, which considers the apparently redundant degrees-of-freedom as useful and even vital for many aspects of motor behavior. Over the past 10 years, dozens of publications have provided support for this view based on the ideas of synergic control, computational apparatus of the uncontrolled manifold hypothesis, and the equilibrium-point (referent configuration) hypothesis. In particular, large amounts of "good variance"-variance in the space of elements that has no effect on the overall performance-have been documented across a variety of natural actions. "Good variance" helps an abundant system to deal with secondary tasks and unexpected perturbations; its amount shows adaptive modulation across a variety of conditions. These data support the view that there is no problem of motor redundancy; there is bliss of motor abundance.

  17. Virtual Modular Redundancy of Processor Module in the PLC

    International Nuclear Information System (INIS)

    Lee, Kwang-Il; Hwang, SungJae; Yoon, DongHwa

    2016-01-01

    Dual Modular Redundancy (DMR) is mainly used to implement these safety control systems. DMR is conveyed when components of a system are duplicated, providing another component in case one should fault or fail. This feature has a high availability and large fault tolerant. It provides zero downtime that is required for nuclear power plants. So nuclear power plant has been commercialized by multiple redundant systems. The following paper, we propose a Virtual Modular Redundancy (VMR) rather than physical triple of the Programmable Logic Controller (PLC) processor module to ensure the reliability of the nuclear power plant control system. VMR implementation minimizes design changes to continue to use the commercially available redundant system. Also, the purpose of the VMR is to improve the efficiency and reliability in many ways, such as fault tolerant and fail-safe and cost. VMR guarantees a wide range of reliable fault recovery, fault tolerance, etc. It is prevented before it causes great damages due to the continuous failure of the two modules. The reliable communication speed is slow and also it has a small bandwidth. It is a great loss in the safety control system. However, VMR aims to avoid nuclear power plants that were suspended due to fail-safe. It is not for the purpose of commonly used. Application of VMR is actually expected to require a lot of research and trial and error until they adapt to the nuclear regulatory and standards

  18. Testing the significance of canonical axes in redundancy analysis

    NARCIS (Netherlands)

    Legendre, P.; Oksanen, J.; Braak, ter C.J.F.

    2011-01-01

    1. Tests of significance of the individual canonical axes in redundancy analysis allow researchers to determine which of the axes represent variation that can be distinguished from random. Variation along the significant axes can be mapped, used to draw biplots or interpreted through subsequent

  19. Redundancy Optimization for Error Recovery in Digital Microfluidic Biochips

    DEFF Research Database (Denmark)

    Alistar, Mirela; Pop, Paul; Madsen, Jan

    2015-01-01

    Microfluidic-based biochips are replacing the conventional biochemical analyzers, and are able to integrate all the necessary functions for biochemical analysis. The digital microfluidic biochips are based on the manipulation of liquids not as a continuous flow, but as discrete droplets. Research......Microfluidic-based biochips are replacing the conventional biochemical analyzers, and are able to integrate all the necessary functions for biochemical analysis. The digital microfluidic biochips are based on the manipulation of liquids not as a continuous flow, but as discrete droplets....... Researchers have proposed approaches for the synthesis of digital microfluidic biochips, which, starting from a biochemical application and a given biochip architecture, determine the allocation, resource binding, scheduling, placement and routing of the operations in the application. During the execution...... propose an online recovery strategy, which decides during the execution of the biochemical application the introduction of the redundancy required for fault-tolerance. We consider both time redundancy, i.e., re-executing erroneous operations, and space redundancy, i.e., creating redundant droplets...

  20. Network Gateway Technology: The Issue of Redundancy towards ...

    African Journals Online (AJOL)

    The Internet has provided advancement in the areas of network and networking facilities. Everyone connected to the Internet is concerned about two basic things: the availability of network services and the speed of the network. Network gateway redundancy technology falls within these categories and happens to be one of ...

  1. The Evolution of Functionally Redundant Species; Evidence from Beetles

    NARCIS (Netherlands)

    Scheffer, M.; Vergnon, R.O.H.; Nes, van E.H.; Cuppen, J.G.M.; Peeters, E.T.H.M.; Leijs, R.; Nilsson, A.N.

    2015-01-01

    While species fulfill many different roles in ecosystems, it has been suggested that numerous species might actually share the same function in a near neutral way. So-far, however, it is unclear whether such functional redundancy really exists. We scrutinize this question using extensive data on the

  2. Simulator of a fail detector system for redundant sensors

    International Nuclear Information System (INIS)

    Assumpcao Filho, E.O.; Nakata, H.

    1990-01-01

    A failure detection and isolation system (FDI) simulation program has been developed for IBM-PC microcomputers. The program, based on the sequencial likelihood ratio testing method developed by A. Wald, was implemented with Monte-Carlo technique. The calculated failure detection rate was favorably compared against the wind-tunnel experimental redundant temperature sensors. (author)

  3. 75 FR 65238 - Loan Guaranty: Elimination of Redundant Regulations; Correction

    Science.gov (United States)

    2010-10-22

    ... DEPARTMENT OF VETERANS AFFAIRS 38 CFR Part 36 RIN 2900-AN71 Loan Guaranty: Elimination of... June 15, 2010 (75 FR 33704), amending its loan guaranty regulations to eliminate redundant regulations... INFORMATION CONTACT: William White, Acting Assistant Director for Loan Processing and Valuation (262...

  4. Virtual Modular Redundancy of Processor Module in the PLC

    Energy Technology Data Exchange (ETDEWEB)

    Lee, Kwang-Il; Hwang, SungJae; Yoon, DongHwa [SOOSAN ENS Co., Seoul (Korea, Republic of)

    2016-10-15

    Dual Modular Redundancy (DMR) is mainly used to implement these safety control systems. DMR is conveyed when components of a system are duplicated, providing another component in case one should fault or fail. This feature has a high availability and large fault tolerant. It provides zero downtime that is required for nuclear power plants. So nuclear power plant has been commercialized by multiple redundant systems. The following paper, we propose a Virtual Modular Redundancy (VMR) rather than physical triple of the Programmable Logic Controller (PLC) processor module to ensure the reliability of the nuclear power plant control system. VMR implementation minimizes design changes to continue to use the commercially available redundant system. Also, the purpose of the VMR is to improve the efficiency and reliability in many ways, such as fault tolerant and fail-safe and cost. VMR guarantees a wide range of reliable fault recovery, fault tolerance, etc. It is prevented before it causes great damages due to the continuous failure of the two modules. The reliable communication speed is slow and also it has a small bandwidth. It is a great loss in the safety control system. However, VMR aims to avoid nuclear power plants that were suspended due to fail-safe. It is not for the purpose of commonly used. Application of VMR is actually expected to require a lot of research and trial and error until they adapt to the nuclear regulatory and standards.

  5. The redundant target effect is affected by modality switch costs

    DEFF Research Database (Denmark)

    Gondan, Matthias; Lange, K.; Rösler, F.

    2004-01-01

    When participants have to respond to stimuli of two modalities, faster reaction times are observed for simultaneous, bimodal events than for unimodal events (the redundant target effect [RTE]). This finding has been interpreted as reflecting processing gains for bimodal relative to unimodal stimu...

  6. Mediated Instruction and Redundancy Remediation in Sciences in ...

    African Journals Online (AJOL)

    The data were analyzed using t-test statistics. Data analysis revealed that use of mediated instruction significantly removed redundancy for science students also the use of mediated instruction influenced academic achievement of science students in secondary schools. Some of the recommendations include that science ...

  7. A redundancy-removing feature selection algorithm for nominal data

    Directory of Open Access Journals (Sweden)

    Zhihua Li

    2015-10-01

    Full Text Available No order correlation or similarity metric exists in nominal data, and there will always be more redundancy in a nominal dataset, which means that an efficient mutual information-based nominal-data feature selection method is relatively difficult to find. In this paper, a nominal-data feature selection method based on mutual information without data transformation, called the redundancy-removing more relevance less redundancy algorithm, is proposed. By forming several new information-related definitions and the corresponding computational methods, the proposed method can compute the information-related amount of nominal data directly. Furthermore, by creating a new evaluation function that considers both the relevance and the redundancy globally, the new feature selection method can evaluate the importance of each nominal-data feature. Although the presented feature selection method takes commonly used MIFS-like forms, it is capable of handling high-dimensional datasets without expensive computations. We perform extensive experimental comparisons of the proposed algorithm and other methods using three benchmarking nominal datasets with two different classifiers. The experimental results demonstrate the average advantage of the presented algorithm over the well-known NMIFS algorithm in terms of the feature selection and classification accuracy, which indicates that the proposed method has a promising performance.

  8. Network Gateway Technology: The Issue of Redundancy towards ...

    African Journals Online (AJOL)

    Everyone connected to the Internet is concerned about two basic things: the availability of network services and the speed of the network. Network gateway redundancy technology falls within these categories and happens to be one of the newest technologies which only few companies, such as mobile companies and ...

  9. Redundancy Effect on Retention of Vocabulary Words Using Multimedia Presentation

    Science.gov (United States)

    Samur, Yavuz

    2012-01-01

    This study was designed to examine the effect of the redundancy principle in a multimedia presentation constructed for foreign language vocabulary learning on undergraduate students' retention. The underlying hypothesis of this study is that when the students are exposed to the material in multiple ways through animation, concurrent narration,…

  10. The conservation of redundancy in genetic systems: effects of sexual ...

    Indian Academy of Sciences (India)

    Unknown

    probability of a fatal error is reduced by a redundant sampling system, but the chance of error rises as the sys- .... Thus every function is covered three times and every component covers a ... ples reduce the variance of the distributions in figure 3a and thereby ..... cases p = 0⋅1, q = 1000 and the value of b is adjusted to.

  11. Characterization of cDNA for PMT: a Partial Nicotine Biosynthesis-Related Gene Isolated from Indonesian Local Tobacco (Nicotiana tabacum cv. Sindoro1

    Directory of Open Access Journals (Sweden)

    SESANTI BASUKI

    2013-12-01

    Full Text Available Nicotine is the major alkaloid compound in cultivated tobacco (Nicotiana tabacum that could potentially be converted into carcinogenic compound (nor-nicotine. The PMT gene encoding putrescine N-methyltransferase (PMT is one of the two key genes that play a prominent role in nicotine biosynthesis. The aimed of this study was to isolate and characterize the cDNA sequence originated from Indonesian local tobacco cv. Sindoro1 (Ntpmt_Sindoro1. The results showed that the Ntpmt_Sindoro1 was 1124 bp in length. This cDNA fragment encodes for 374 amino acid residues. The predicted polypeptide from the cDNA is a hidrophilic protein, and has a predicted molecular weight of 40.95 kDa. The predicted amino acids sequence also showed high similarity to the PMT gene product Nicotiana sp. available in the GenBank data base. The amino acid sequences also exert conserved residues specifically exhibited only by PMT gene originated from N. tabacum. Clustering analysis revealed that Ntpmt_Sindoro1 belongs to the same clade as the PMT3 gene, a member of the N. tabacum PMT gene family. The Ntpmt_Sindoro1 cDNA sequence covering exon1-exon8 of the PMT gene fragment has been registered in the GenBank data base, under the accession number JX978277.

  12. Recoded and nonrecoded trinary signed-digit adders and multipliers with redundant-bit representations

    Science.gov (United States)

    Cherri, Abdallah K.; Alam, Mohammed S.

    1998-07-01

    Highly-efficient two-step recoded and one-step nonrecoded trinary signed-digit (TSD) carry-free adders subtracters are presented on the basis of redundant-bit representation for the operands digits. It has been shown that only 24 (30) minterms are needed to implement the two-step recoded (the one-step nonrecoded) TSD addition for any operand length. Optical implementation of the proposed arithmetic can be carried out by use of correlation- or matrix-multiplication-based schemes, saving 50% of the system memory. Furthermore, we present four different multiplication designs based on our proposed recoded and nonrecoded TSD adders. Our multiplication designs require a small number of reduced minterms to generate the multiplication partial products. Finally, a recently proposed pipelined iterative-tree algorithm can be used in the TSD adders multipliers; consequently, efficient use of all available adders can be made.

  13. Establishment of a recessive mutant small-eye rat with lens involution and retinal detachment associated with partial deletion and rearrangement of the Cryba1 gene.

    Science.gov (United States)

    Yamada, Toshiyuki; Nanashima, Naoki; Shimizu, Takeshi; Nakazawa, Yosuke; Nakazawa, Mitsuru; Tsuchida, Shigeki

    2015-10-15

    From our stock of SDRs (Sprague-Dawley rats), we established a mutant strain having small opaque eyes and named it HiSER (Hirosaki small-eye rat). The HiSER phenotype is progressive and autosomal recessive. In HiSER eyes, disruption and involution of the lens, thickening of the inner nuclear layer, detachment and aggregation of the retina, rudimentary muscle in the ciliary body and cell infiltration in the vitreous humour were observed. Genetic linkage analysis using crossing with Brown Norway rat suggested that the causative gene(s) is located on chromosome 10. Microarray analysis showed that the expression level of the Cryba1 gene encoding βA3/A1-crystallin on chromosome 10 was markedly decreased in HiSER eyes. Genomic PCR revealed deletion of a 3.6-kb DNA region encompassing exons 4-6 of the gene in HiSERs. In HiSER eyes, a chimaeric transcript of the gene containing exons 1-3 and an approximately 250-bp sequence originating from the 3'-UTR of the Nufip2 gene, located downstream of the breakpoint in the opposite direction, was present. Whereas the chimaeric transcript was expressed in HiSER eyes, neither normal nor chimaeric βA3/A1-crystallin proteins were detected by Western blot analysis. Real-time RT (reverse transcription)-PCR analysis revealed that expression level of the Nufip2 gene in the HiSER eye was 40% of that in the SDR eye. These results suggest that the disappearance of the βA3/A1-crystallin protein and, in addition, down-regulation of the Nufip2 gene as a consequence of gene rearrangement causes the HiSER phenotype. © 2015 Authors; published by Portland Press Limited.

  14. Identification of clinically relevant nonhemolytic Streptococci on the basis of sequence analysis of 16S-23S intergenic spacer region and partial gdh gene

    DEFF Research Database (Denmark)

    Nielsen, Xiaohui Chen; Justesen, Ulrik Stenz; Dargis, Rimtas

    2009-01-01

    Nonhemolytic streptococci (NHS) cause serious infections, such as endocarditis and septicemia. Many conventional phenotypic methods are insufficient for the identification of bacteria in this group to the species level. Genetic analysis has revealed that single-gene analysis is insufficient...

  15. Synergistic interactions between RAD5, RAD16, and RAD54, three partially homologous yeast DNA repair genes each in a different repair pathway

    International Nuclear Information System (INIS)

    Glassner, B.J.; Mortimer, R.K.

    1994-01-01

    Considerable homology has recently been noted between the proteins encoded by the RAD5, RAD16 and RAD54 genes of Saccharomyces cerevisiae. These genes are members of the RAD6, RAD3 and RAD50 epistasis groups, respectively, which correspond to the three major DNA repair pathways in yeast. These proteins also share homology with other eucaryotic proteins, including those encoded by SNF2 and MO1 of yeast, brahma and lodestar of Drosophila and the human ERCC6 gene. The homology shares features with known helicases, suggesting a newly identified helicase subfamily. We have constructed a series of congenic single-, double- and triple-deletion mutants involving RAD5, RAD16 and RAD54 to examine the interactions between these genes. Each deletion mutation alone has only a moderate effect on survival after exposure to UV radiation. Each pairwise-double mutant exhibits marked synergism. The triple-deletion mutant displays further synergism. These results confirm the assignment of the RAD54 gene to the RAD50 epistasis group and suggest that the RAD16 gene plays a larger role in DNA repair after exposure to UV radiation than has been suggested previously. Additionally, the proteins encoded by RAD5, RAD16, and RAD54 may compete for the same substrate after damage induced by UV radiation, possibly at an early step in their respective pathways. 49 refs., 6 figs., 2 tabs

  16. Molecular analysis of partial VP-2 gene amplified from rectal swab samples of diarrheic dogs in Pakistan confirms the circulation of canine parvovirus genetic variant CPV-2a and detects sequences of feline panleukopenia virus (FPV).

    Science.gov (United States)

    Ahmed, Nisar; Riaz, Adeel; Zubair, Zahra; Saqib, Muhammad; Ijaz, Sehrish; Nawaz-Ul-Rehman, Muhammad Shah; Al-Qahtani, Ahmed; Mubin, Muhammad

    2018-03-15

    The infection in dogs due to canine parvovirus (CPV), is a highly contagious one with high mortality rate. The present study was undertaken for a detailed genetic analysis of partial VP2 gene i.e., 630 bp isolated from rectal swab samples of infected domestic and stray dogs from all areas of district Faisalabad. Monitoring of viruses is important, as continuous prevalence of viral infection might be associated with emergence of new virulent strains. In the present study, 40 rectal swab samples were collected from diarrheic dogs from different areas of district Faisalabad, Pakistan, in 2014-15 and screened for the presence of CPV by immunochromatography. Most of these dogs were stray dogs showing symptoms of diarrhea. Viral DNA was isolated and partial VP2 gene was amplified using gene specific primer pair Hfor/Hrev through PCR. Amplified fragments were cloned in pTZ57R/T (Fermentas) and completely sequenced. Sequences were analyzed and assembled by the Lasergene DNA analysis package (v8; DNAStar Inc., Madison, WI, USA). The results with immunochromatography showed that 33/40 (82%) of dogs were positive for CPV. We were able to amplify a fragment of 630 bp from 25 samples. In 25 samples the sequences of CPV-2a were detected showing the amino acid substitution Ser297Ala and presence of amino acid (426-Asn) in partial VP2 protein. Interestingly the BLAST analysis showed the of feline panleukopenia virus (FPV) sequences in 3 samples which were already positive for new CPV-2a, with 99% sequence homology to other FPV sequences present in GenBank. Phylogenetic analysis showed clustering of partial CPV-VP-2 gene with viruses from China, India, Japan and Uruguay identifying a new variant, whereas the 3 FPV sequences showed immediate ancestral relationship with viruses from Portugal, South Africa and USA. Interesting observation was that CPV are clustering away from the commercial vaccine strains. In this work we provide a better understanding of CPV prevailing in Pakistan

  17. Gene

    Data.gov (United States)

    U.S. Department of Health & Human Services — Gene integrates information from a wide range of species. A record may include nomenclature, Reference Sequences (RefSeqs), maps, pathways, variations, phenotypes,...

  18. SIMULATION MODEL FOR DESIGN SUPPORT OF INFOCOMM REDUNDANT SYSTEMS

    Directory of Open Access Journals (Sweden)

    V. A. Bogatyrev

    2016-09-01

    Full Text Available Subject of Research. The paper deals with the effectiveness of multipath transfer of request copies through the network and their redundant service without the use of laborious analytical modeling. The model and support tools for the design of highly reliable distributed systems based on simulation modeling have been created. Method. The effectiveness of many variants of service organization and delivery through the network to the query servers is formed and analyzed. Options for providing redundant service and delivery via the network to the servers of request copies are also considered. The choice of variants for the distribution and service of requests is carried out taking into account the criticality of queries to the time of their stay in the system. The request is considered successful if at least one of its copies is accurately delivered to the working server, ready to service the request received through a network, if it is fulfilled in the set time. Efficiency analysis of the redundant transmission and service of requests is based on the model built in AnyLogic 7 simulation environment. Main Results. Simulation experiments based on the proposed models have shown the effectiveness of redundant transmission of copies of queries (packets to the servers in the cluster through multiple paths with redundant service of request copies by a group of servers in the cluster. It is shown that this solution allows increasing the probability of exact execution of at least one copy of the request within the required time. We have carried out efficiency evaluation of destruction of outdated request copies in the queues of network nodes and the cluster. We have analyzed options for network implementation of multipath transfer of request copies to the servers in the cluster over disjoint paths, possibly different according to the number of their constituent nodes. Practical Relevance. The proposed simulation models can be used when selecting the optimal

  19. Gene structure, phylogeny and expression profile of the sucrose synthase gene family in cacao (Theobroma cacao L.).

    Science.gov (United States)

    Li, Fupeng; Hao, Chaoyun; Yan, Lin; Wu, Baoduo; Qin, Xiaowei; Lai, Jianxiong; Song, Yinghui

    2015-09-01

    In higher plants, sucrose synthase (Sus, EC 2.4.1.13) is widely considered as a key enzyme involved in sucrose metabolism. Although, several paralogous genes encoding different isozymes of Sus have been identified and characterized in multiple plant genomes, to date detailed information about the Sus genes is lacking for cacao. This study reports the identification of six novel Sus genes from economically important cacao tree. Analyses of the gene structure and phylogeny of the Sus genes demonstrated evolutionary conservation in the Sus family across cacao and other plant species. The expression of cacao Sus genes was investigated via real-time PCR in various tissues, different developmental phases of leaf, flower bud and pod. The Sus genes exhibited distinct but partially redundant expression profiles in cacao, with TcSus1, TcSus5 and TcSus6, being the predominant genes in the bark with phloem, TcSus2 predominantly expressing in the seed during the stereotype stage. TcSus3 and TcSus4 were significantly detected more in the pod husk and seed coat along the pod development, and showed development dependent expression profiles in the cacao pod. These results provide new insights into the evolution, and basic information that will assist in elucidating the functions of cacao Sus gene family.

  20. Susceptibility of Redundant Versus Singular Clock Domains Implemented in SRAM-Based FPGA TMR Designs

    Science.gov (United States)

    Berg, Melanie D.; LaBel, Kenneth A.; Pellish, Jonathan

    2016-01-01

    We present the challenges that arise when using redundant clock domains due to their clock-skew. Radiation data show that a singular clock domain (DTMR) provides an improved TMR methodology for SRAM-based FPGAs over redundant clocks.

  1. The Birth and Death of Redundancy in Decoherence and Quantum Darwinism

    Science.gov (United States)

    Riedel, Charles; Zurek, Wojciech; Zwolak, Michael

    2012-02-01

    Understanding the quantum-classical transition and the identification of a preferred classical domain through quantum Darwinism is based on recognizing high-redundancy states as both ubiquitous and exceptional. They are produced ubiquitously during decoherence, as has been demonstrated by the recent identification of very general conditions under which high-redundancy states develop. They are exceptional in that high-redundancy states occupy a very narrow corner of the global Hilbert space; states selected at random are overwelming likely to exhibit zero redundancy. In this letter, we examine the conditions and time scales for the transition from high-redundancy states to zero-redundancy states in many-body dynamics. We identify sufficient condition for the development of redundancy from product states and show that the destruction of redundancy can be accomplished even with highly constrained interactions.

  2. Fault tolerance in protein interaction networks: stable bipartite subgraphs and redundant pathways.

    Directory of Open Access Journals (Sweden)

    Arthur Brady

    Full Text Available As increasing amounts of high-throughput data for the yeast interactome become available, more system-wide properties are uncovered. One interesting question concerns the fault tolerance of protein interaction networks: whether there exist alternative pathways that can perform some required function if a gene essential to the main mechanism is defective, absent or suppressed. A signature pattern for redundant pathways is the BPM (between-pathway model motif, introduced by Kelley and Ideker. Past methods proposed to search the yeast interactome for BPM motifs have had several important limitations. First, they have been driven heuristically by local greedy searches, which can lead to the inclusion of extra genes that may not belong in the motif; second, they have been validated solely by functional coherence of the putative pathways using GO enrichment, making it difficult to evaluate putative BPMs in the absence of already known biological annotation. We introduce stable bipartite subgraphs, and show they form a clean and efficient way of generating meaningful BPMs which naturally discard extra genes included by local greedy methods. We show by GO enrichment measures that our BPM set outperforms previous work, covering more known complexes and functional pathways. Perhaps most importantly, since our BPMs are initially generated by examining the genetic-interaction network only, the location of edges in the protein-protein physical interaction network can then be used to statistically validate each candidate BPM, even with sparse GO annotation (or none at all. We uncover some interesting biological examples of previously unknown putative redundant pathways in such areas as vesicle-mediated transport and DNA repair.

  3. Fault tolerance in protein interaction networks: stable bipartite subgraphs and redundant pathways.

    Science.gov (United States)

    Brady, Arthur; Maxwell, Kyle; Daniels, Noah; Cowen, Lenore J

    2009-01-01

    As increasing amounts of high-throughput data for the yeast interactome become available, more system-wide properties are uncovered. One interesting question concerns the fault tolerance of protein interaction networks: whether there exist alternative pathways that can perform some required function if a gene essential to the main mechanism is defective, absent or suppressed. A signature pattern for redundant pathways is the BPM (between-pathway model) motif, introduced by Kelley and Ideker. Past methods proposed to search the yeast interactome for BPM motifs have had several important limitations. First, they have been driven heuristically by local greedy searches, which can lead to the inclusion of extra genes that may not belong in the motif; second, they have been validated solely by functional coherence of the putative pathways using GO enrichment, making it difficult to evaluate putative BPMs in the absence of already known biological annotation. We introduce stable bipartite subgraphs, and show they form a clean and efficient way of generating meaningful BPMs which naturally discard extra genes included by local greedy methods. We show by GO enrichment measures that our BPM set outperforms previous work, covering more known complexes and functional pathways. Perhaps most importantly, since our BPMs are initially generated by examining the genetic-interaction network only, the location of edges in the protein-protein physical interaction network can then be used to statistically validate each candidate BPM, even with sparse GO annotation (or none at all). We uncover some interesting biological examples of previously unknown putative redundant pathways in such areas as vesicle-mediated transport and DNA repair.

  4. In-flight performance optimization for rotorcraft with redundant controls

    Science.gov (United States)

    Ozdemir, Gurbuz Taha

    A conventional helicopter has limits on performance at high speeds because of the limitations of main rotor, such as compressibility issues on advancing side or stall issues on retreating side. Auxiliary lift and thrust components have been suggested to improve performance of the helicopter substantially by reducing the loading on the main rotor. Such a configuration is called the compound rotorcraft. Rotor speed can also be varied to improve helicopter performance. In addition to improved performance, compound rotorcraft and variable RPM can provide a much larger degree of control redundancy. This additional redundancy gives the opportunity to further enhance performance and handling qualities. A flight control system is designed to perform in-flight optimization of redundant control effectors on a compound rotorcraft in order to minimize power required and extend range. This "Fly to Optimal" (FTO) control law is tested in simulation using the GENHEL model. A model of the UH-60, a compound version of the UH-60A with lifting wing and vectored thrust ducted propeller (VTDP), and a generic compound version of the UH-60A with lifting wing and propeller were developed and tested in simulation. A model following dynamic inversion controller is implemented for inner loop control of roll, pitch, yaw, heave, and rotor RPM. An outer loop controller regulates airspeed and flight path during optimization. A Golden Section search method was used to find optimal rotor RPM on a conventional helicopter, where the single redundant control effector is rotor RPM. The FTO builds off of the Adaptive Performance Optimization (APO) method of Gilyard by performing low frequency sweeps on a redundant control for a fixed wing aircraft. A method based on the APO method was used to optimize trim on a compound rotorcraft with several redundant control effectors. The controller can be used to optimize rotor RPM and compound control effectors through flight test or simulations in order to

  5. A Cause-Consequence Chart of a Redundant Protection System

    DEFF Research Database (Denmark)

    Nielsen, Dan Sandvik; Platz, O.; Runge, B.

    1975-01-01

    A cause-consequence chart is applied in analysing failures of a redundant protection system (a core spray system in a nuclear power plant). It is shown how the diagram provides a basis for calculating two probability measures for malfunctioning of the protection system. The test policy of compone...... of components is taken into account. The possibility of using parameter variation as a basis for the choice of test policy is indicated.......A cause-consequence chart is applied in analysing failures of a redundant protection system (a core spray system in a nuclear power plant). It is shown how the diagram provides a basis for calculating two probability measures for malfunctioning of the protection system. The test policy...

  6. Case studies in configuration control for redundant robots

    Science.gov (United States)

    Seraji, H.; Lee, T.; Colbaugh, R.; Glass, K.

    1989-01-01

    A simple approach to configuration control of redundant robots is presented. The redundancy is utilized to control the robot configuration directly in task space, where the task will be performed. A number of task-related kinematic functions are defined and combined with the end-effector coordinates to form a set of configuration variables. An adaptive control scheme is then utilized to ensure that the configuration variables track the desired reference trajectories as closely as possible. Simulation results are presented to illustrate the control scheme. The scheme has also been implemented for direct online control of a PUMA industrial robot, and experimental results are presented. The simulation and experimental results validate the configuration control scheme for performing various realistic tasks.

  7. Probability Model for Data Redundancy Detection in Sensor Networks

    Directory of Open Access Journals (Sweden)

    Suman Kumar

    2009-01-01

    Full Text Available Sensor networks are made of autonomous devices that are able to collect, store, process and share data with other devices. Large sensor networks are often redundant in the sense that the measurements of some nodes can be substituted by other nodes with a certain degree of confidence. This spatial correlation results in wastage of link bandwidth and energy. In this paper, a model for two associated Poisson processes, through which sensors are distributed in a plane, is derived. A probability condition is established for data redundancy among closely located sensor nodes. The model generates a spatial bivariate Poisson process whose parameters depend on the parameters of the two individual Poisson processes and on the distance between the associated points. The proposed model helps in building efficient algorithms for data dissemination in the sensor network. A numerical example is provided investigating the advantage of this model.

  8. Information filtering based on corrected redundancy-eliminating mass diffusion.

    Directory of Open Access Journals (Sweden)

    Xuzhen Zhu

    Full Text Available Methods used in information filtering and recommendation often rely on quantifying the similarity between objects or users. The used similarity metrics often suffer from similarity redundancies arising from correlations between objects' attributes. Based on an unweighted undirected object-user bipartite network, we propose a Corrected Redundancy-Eliminating similarity index (CRE which is based on a spreading process on the network. Extensive experiments on three benchmark data sets-Movilens, Netflix and Amazon-show that when used in recommendation, the CRE yields significant improvements in terms of recommendation accuracy and diversity. A detailed analysis is presented to unveil the origins of the observed differences between the CRE and mainstream similarity indices.

  9. Low-redundancy linear arrays in mirrored interferometric aperture synthesis.

    Science.gov (United States)

    Zhu, Dong; Hu, Fei; Wu, Liang; Li, Jun; Lang, Liang

    2016-01-15

    Mirrored interferometric aperture synthesis (MIAS) is a novel interferometry that can improve spatial resolution compared with that of conventional IAS. In one-dimensional (1-D) MIAS, antenna array with low redundancy has the potential to achieve a high spatial resolution. This Letter presents a technique for the direct construction of low-redundancy linear arrays (LRLAs) in MIAS and derives two regular analytical patterns that can yield various LRLAs in short computation time. Moreover, for a better estimation of the observed scene, a bi-measurement method is proposed to handle the rank defect associated with the transmatrix of those LRLAs. The results of imaging simulation demonstrate the effectiveness of the proposed method.

  10. Information theory and artificial grammar learning: inferring grammaticality from redundancy.

    Science.gov (United States)

    Jamieson, Randall K; Nevzorova, Uliana; Lee, Graham; Mewhort, D J K

    2016-03-01

    In artificial grammar learning experiments, participants study strings of letters constructed using a grammar and then sort novel grammatical test exemplars from novel ungrammatical ones. The ability to distinguish grammatical from ungrammatical strings is often taken as evidence that the participants have induced the rules of the grammar. We show that judgements of grammaticality are predicted by the local redundancy of the test strings, not by grammaticality itself. The prediction holds in a transfer test in which test strings involve different letters than the training strings. Local redundancy is usually confounded with grammaticality in stimuli widely used in the literature. The confounding explains why the ability to distinguish grammatical from ungrammatical strings has popularized the idea that participants have induced the rules of the grammar, when they have not. We discuss the judgement of grammaticality task in terms of attribute substitution and pattern goodness. When asked to judge grammaticality (an inaccessible attribute), participants answer an easier question about pattern goodness (an accessible attribute).

  11. Ageing behaviour of [(n-1)/n] active redundancy systems

    International Nuclear Information System (INIS)

    Eid, M.Y.

    1995-01-01

    Ageing of systems becomes a real concern if intelligent maintenance is required. Determining the ageing behaviour of a system necessitate having a powerful calculating tool and knowing the ageing behaviour of the basic components of the systems. Consequently, time dependent failure rates are required for basic components and need to be determined for systems. As, this is the general problem in reliability analysis, only (n-1)/n active redundancy system will be examined in the paper. Systems with (n-1)/n active redundancy are commonly used in a wide range of engineering fields. This should permit a priori improving the system reliability. Still, a deeper analysis of the ageing behaviour of such systems may reveal some particular aspects. (authors). 2 refs., 5 figs

  12. Industrial plant electrical systems: Simplicity, reliability, cost savings, redundancies

    International Nuclear Information System (INIS)

    Silvestri, A.; Tommazzolli, F.; Pavia Univ.

    1992-01-01

    This article represents a compact but complete design and construction manual for industrial plant electrical systems. It is to be used by design engineers having prior knowledge of local power supply routes and voltages and regards principally the optimum choice of internal distribution systems which can be radial or single, double ringed or with various network configurations, and with single or multiple supplies, and many or few redundancies. After giving guidelines on the choosing of these options, the manual deals with problematics relevant to suitable cable sizing. A cost benefit benefit analysis method is suggested for the choice of the number of redundancies. Recommendations are given for the choice of transformers, motorized equipment, switch boards and circuit breakers. Reference is made to Italian electrical safety and building codes

  13. . Redundancy and blocking in the spatial domain: A connectionist model

    Directory of Open Access Journals (Sweden)

    I. P. L. Mc Laren

    2002-01-01

    Full Text Available How can the observations of spatial blocking (Rodrigo, Chamizo, McLaren & Mackintosh, 1997 and cue redundancy (O’Keefe and Conway, 1978 be reconciled within the framework provided by an error-correcting, connectionist account of spatial navigation? I show that an implementation of McLaren’s (1995 better beta model can serve this purpose, and examine some of the implications for spatial learning and memory.

  14. State-space Generalized Predicitve Control for redundant parallel robots

    Czech Academy of Sciences Publication Activity Database

    Belda, Květoslav; Böhm, Josef; Valášek, M.

    2003-01-01

    Roč. 31, č. 3 (2003), s. 413-432 ISSN 1539-7734 R&D Projects: GA ČR GA101/03/0620 Grant - others:CTU(CZ) 0204512 Institutional research plan: CEZ:AV0Z1075907 Keywords : parallel robot construction * generalized predictive control * drive redundancy Subject RIV: BC - Control Systems Theory http://library.utia.cas.cz/separaty/historie/belda-0411126.pdf

  15. Estimation of component redundancy in optimal age maintenance

    OpenAIRE

    Siopa, Jorge; Garção, José; Silva, Júlio

    2012-01-01

    The classical Optimal Age-Replacement defines the maintenance strategy based on the equipment failure consequences. For severe consequences an early equipment replacement is recommended. For minor consequences the repair after failure is proposed. One way of reducing the failure consequences is the use of redundancies, especially if the equipment failure rate is decreasing over time, since in this case the preventive replacement does not reduce the risk of failure. The estimation of an ac...

  16. Incident detection and isolation in drilling using analytical redundancy relations

    DEFF Research Database (Denmark)

    Willersrud, Anders; Blanke, Mogens; Imsland, Lars

    2015-01-01

    must be avoided. This paper employs model-based diagnosis using analytical redundancy relations to obtain residuals which are affected differently by the different incidents. Residuals are found to be non-Gaussian - they follow a multivariate t-distribution - hence, a dedicated generalized likelihood...... measurements available. In the latter case, isolation capability is shown to be reduced to group-wise isolation, but the method would still detect all serious events with the prescribed false alarm probability...

  17. Systematic Luby Transform codes as incremental redundancy scheme

    CSIR Research Space (South Africa)

    Grobler, TL

    2011-09-01

    Full Text Available Transform Codes as Incremental Redundancy Scheme T. L. Grobler y, E. R. Ackermann y, J. C. Olivier y and A. J. van Zylz Department of Electrical, Electronic and Computer Engineering University of Pretoria, Pretoria 0002, South Africa Email: trienkog...@gmail.com, etienne.ackermann@ieee.org yDefence, Peace, Safety and Security (DPSS) Council for Scientific and Industrial Research (CSIR), Pretoria 0001, South Africa zDepartment of Mathematics and Applied Mathematics University of Pretoria, Pretoria 0002, South...

  18. Toward an Integrated Design, Inspection and Redundancy Research Program.

    Science.gov (United States)

    1984-01-01

    William Creelman William H. Silcox National Marine Service Standard Oil Company of California St. Louis, Missouri San Francisco, California .-- N...develop physical models and generic tools for analyzing the effects of redundancy, reserve strength, and residual strength on the system behavior of marine...probabilistic analyses to be applicable to real-world problems, this program needs to provide - the deterministic physical models and generic tools upon

  19. Flexible Procurement of Services with Uncertain Durations using Redundancy

    OpenAIRE

    Stein, S; Gerding, E; Rogers, A; Larson, K; Jennings, NR

    2009-01-01

    Emerging service-oriented technologies allow software agents to automatically procure distributed services to complete complex tasks. However, in many application scenarios, service providers demand financial remuneration, execution times are uncertain and consumers have deadlines for their tasks. In this paper, we address these issues by developing a novel approach that dynamically procures multiple, redundant services over time, in order to ensure success by the deadline. Specifically, we f...

  20. A highly redundant BAC library of Atlantic salmon (Salmo salar: an important tool for salmon projects

    Directory of Open Access Journals (Sweden)

    Koop Ben F

    2005-04-01

    Full Text Available Abstract Background As farming of Atlantic salmon is growing as an aquaculture enterprise, the need to identify the genomic mechanisms for specific traits is becoming more important in breeding and management of the animal. Traits of importance might be related to growth, disease resistance, food conversion efficiency, color or taste. To identify genomic regions responsible for specific traits, genomic large insert libraries have previously proven to be of crucial importance. These large insert libraries can be screened using gene or genetic markers in order to identify and map regions of interest. Furthermore, large-scale mapping can utilize highly redundant libraries in genome projects, and hence provide valuable data on the genome structure. Results Here we report the construction and characterization of a highly redundant bacterial artificial chromosome (BAC library constructed from a Norwegian aquaculture strain male of Atlantic salmon (Salmo salar. The library consists of a total number of 305 557 clones, in which approximately 299 000 are recombinants. The average insert size of the library is 188 kbp, representing 18-fold genome coverage. High-density filters each consisting of 18 432 clones spotted in duplicates have been produced for hybridization screening, and are publicly available 1. To characterize the library, 15 expressed sequence tags (ESTs derived overgos and 12 oligo sequences derived from microsatellite markers were used in hybridization screening of the complete BAC library. Secondary hybridizations with individual probes were performed for the clones detected. The BACs positive for the EST probes were fingerprinted and mapped into contigs, yielding an average of 3 contigs for each probe. Clones identified using genomic probes were PCR verified using microsatellite specific primers. Conclusion Identification of genes and genomic regions of interest is greatly aided by the availability of the CHORI-214 Atlantic salmon BAC

  1. A comparison of Heuristic method and Llewellyn’s rules for identification of redundant constraints

    Science.gov (United States)

    Estiningsih, Y.; Farikhin; Tjahjana, R. H.

    2018-03-01

    Important techniques in linear programming is modelling and solving practical optimization. Redundant constraints are consider for their effects on general linear programming problems. Identification and reduce redundant constraints are for avoidance of all the calculations associated when solving an associated linear programming problems. Many researchers have been proposed for identification redundant constraints. This paper a compararison of Heuristic method and Llewellyn’s rules for identification of redundant constraints.

  2. Identification of Poxvirus Genome Uncoating and DNA Replication Factors with Mutually Redundant Roles.

    Science.gov (United States)

    Liu, Baoming; Panda, Debasis; Mendez-Rios, Jorge D; Ganesan, Sundar; Wyatt, Linda S; Moss, Bernard

    2018-04-01

    Genome uncoating is essential for replication of most viruses. For poxviruses, the process is divided into two stages: removal of the envelope, allowing early gene expression, and breaching of the core wall, allowing DNA release, replication, and late gene expression. Subsequent studies showed that the host proteasome and the viral D5 protein, which has an essential role in DNA replication, are required for vaccinia virus (VACV) genome uncoating. In a search for additional VACV uncoating proteins, we noted a report that described a defect in DNA replication and late expression when the gene encoding a 68-kDa ankyrin repeat/F-box protein (68k-ank), associated with the cellular SCF (Skp1, cullin1, F-box-containing complex) ubiquitin ligase complex, was deleted from the attenuated modified vaccinia virus Ankara (MVA). Here we showed that the 68k-ank deletion mutant exhibited diminished genome uncoating, formation of DNA prereplication sites, and degradation of viral cores as well as an additional, independent defect in DNA synthesis. Deletion of the 68k-ank homolog of VACV strain WR, however, was without effect, suggesting the existence of compensating genes. By inserting VACV genes into an MVA 68k-ank deletion mutant, we discovered that M2, a member of the poxvirus immune evasion (PIE) domain superfamily and a regulator of NF-κB, and C5, a member of the BTB/Kelch superfamily associated with cullin-3-based ligase complexes, independently rescued the 68k-ank deletion phenotype. Thus, poxvirus uncoating and DNA replication are intertwined processes involving at least three viral proteins with mutually redundant functions in addition to D5. IMPORTANCE Poxviruses comprise a family of large DNA viruses that infect vertebrates and invertebrates and cause diseases of medical and zoological importance. Poxviruses, unlike most other DNA viruses, replicate in the cytoplasm, and their large genomes usually encode 200 or more proteins with diverse functions. About 90 genes may

  3. Superlinearly scalable noise robustness of redundant coupled dynamical systems.

    Science.gov (United States)

    Kohar, Vivek; Kia, Behnam; Lindner, John F; Ditto, William L

    2016-03-01

    We illustrate through theory and numerical simulations that redundant coupled dynamical systems can be extremely robust against local noise in comparison to uncoupled dynamical systems evolving in the same noisy environment. Previous studies have shown that the noise robustness of redundant coupled dynamical systems is linearly scalable and deviations due to noise can be minimized by increasing the number of coupled units. Here, we demonstrate that the noise robustness can actually be scaled superlinearly if some conditions are met and very high noise robustness can be realized with very few coupled units. We discuss these conditions and show that this superlinear scalability depends on the nonlinearity of the individual dynamical units. The phenomenon is demonstrated in discrete as well as continuous dynamical systems. This superlinear scalability not only provides us an opportunity to exploit the nonlinearity of physical systems without being bogged down by noise but may also help us in understanding the functional role of coupled redundancy found in many biological systems. Moreover, engineers can exploit superlinear noise suppression by starting a coupled system near (not necessarily at) the appropriate initial condition.

  4. Structural Equation Models in a Redundancy Analysis Framework With Covariates.

    Science.gov (United States)

    Lovaglio, Pietro Giorgio; Vittadini, Giorgio

    2014-01-01

    A recent method to specify and fit structural equation modeling in the Redundancy Analysis framework based on so-called Extended Redundancy Analysis (ERA) has been proposed in the literature. In this approach, the relationships between the observed exogenous variables and the observed endogenous variables are moderated by the presence of unobservable composites, estimated as linear combinations of exogenous variables. However, in the presence of direct effects linking exogenous and endogenous variables, or concomitant indicators, the composite scores are estimated by ignoring the presence of the specified direct effects. To fit structural equation models, we propose a new specification and estimation method, called Generalized Redundancy Analysis (GRA), allowing us to specify and fit a variety of relationships among composites, endogenous variables, and external covariates. The proposed methodology extends the ERA method, using a more suitable specification and estimation algorithm, by allowing for covariates that affect endogenous indicators indirectly through the composites and/or directly. To illustrate the advantages of GRA over ERA we propose a simulation study of small samples. Moreover, we propose an application aimed at estimating the impact of formal human capital on the initial earnings of graduates of an Italian university, utilizing a structural model consistent with well-established economic theory.

  5. Intuitive theories of information: beliefs about the value of redundancy.

    Science.gov (United States)

    Soll, J B

    1999-03-01

    In many situations, quantity estimates from multiple experts or diagnostic instruments must be collected and combined. Normatively, and all else equal, one should value information sources that are nonredundant, in the sense that correlation in forecast errors should be minimized. Past research on the preference for redundancy has been inconclusive. While some studies have suggested that people correctly place higher value on uncorrelated inputs when collecting estimates, others have shown that people either ignore correlation or, in some cases, even prefer it. The present experiments show that the preference for redundancy depends on one's intuitive theory of information. The most common intuitive theory identified is the Error Tradeoff Model (ETM), which explicitly distinguishes between measurement error and bias. According to ETM, measurement error can only be averaged out by consulting the same source multiple times (normatively false), and bias can only be averaged out by consulting different sources (normatively true). As a result, ETM leads people to prefer redundant estimates when the ratio of measurement error to bias is relatively high. Other participants favored different theories. Some adopted the normative model, while others were reluctant to mathematically average estimates from different sources in any circumstance. In a post hoc analysis, science majors were more likely than others to subscribe to the normative model. While tentative, this result lends insight into how intuitive theories might develop and also has potential ramifications for how statistical concepts such as correlation might best be learned and internalized. Copyright 1999 Academic Press.

  6. Advantage of redundancy in the controllability of remote handling manipulator

    International Nuclear Information System (INIS)

    Muhammad, Ali; Mattila, Jouni; Vilenius, Matti; Siuko, Mikko; Semeraro, Luigi

    2011-01-01

    To carry out a variety of remote handling operations inside the ITER divertor a Water Hydraulic MANipulator (WHMAN) and its control system have been designed and developed at Tampere University of Technology. The manipulator is installed on top of Cassette Multifunctional Mover (CMM) to assist during the cassette removal and installation operations. While CMM is designed to carry heavy components such as cassettes through the service ducts relying on positioning accuracy and repeatability, WHMAN is designed to execute a mix of remote handling operations using position trajectories and master-slave telemanipulation. WHMAN is composed of eight joints: six rotational and two translational. Since a manipulator requires only six joints to acquire the desired position and orientation in operational-space, the two additional joints of WHMAN provide the redundant degrees of mobility. This paper presents how this redundancy of WHMAN can be an advantage to optimize the execution of remote handling tasks. The paper also discusses an effective way to practically exploit the redundancy. The results show that the additional degrees of freedom can be utilized to improve the dynamic behavior of the manipulator.

  7. Fuzzy modeling of analytical redundancy for sensor failure detection

    International Nuclear Information System (INIS)

    Tsai, T.M.; Chou, H.P.

    1991-01-01

    Failure detection and isolation (FDI) in dynamic systems may be accomplished by testing the consistency of the system via analytically redundant relations. The redundant relation is basically a mathematical model relating system inputs and dissimilar sensor outputs from which information is extracted and subsequently examined for the presence of failure signatures. Performance of the approach is often jeopardized by inherent modeling error and noise interference. To mitigate such effects, techniques such as Kalman filtering, auto-regression-moving-average (ARMA) modeling in conjunction with probability tests are often employed. These conventional techniques treat the stochastic nature of uncertainties in a deterministic manner to generate best-estimated model and sensor outputs by minimizing uncertainties. In this paper, the authors present a different approach by treating the effect of uncertainties with fuzzy numbers. Coefficients in redundant relations derived from first-principle physical models are considered as fuzzy parameters and on-line updated according to system behaviors. Failure detection is accomplished by examining the possibility that a sensor signal occurred in an estimated fuzzy domain. To facilitate failure isolation, individual FDI monitors are designed for each interested sensor

  8. Expression of a partially deleted gene of human type II procollagen (COL2A1) in transgenic mice produces a chondrodysplasia

    Energy Technology Data Exchange (ETDEWEB)

    Vandenberg, P.; Khillan, J.S.; Prockop, D.J.; Helminen, H.; Kontusaari, S.; Ala-Kokko, L. (Thomas Jefferson Univ., Philadelphia, PA (United States))

    1991-09-01

    A minigene version of the human gene for type II procollagen (COL2AI) was prepared that lacked a large central region containing 12 of the 52 exons and therefore 291 of the 1523 codons of the gene. The construct was modeled after sporadic in-frame deletions of collagen genes that cause synthesis of shortened pro{alpha} chains that associate with normal pro{alpha} chains and thereby cause degradation of the shortened and normal pro{alpha} chains through a process called procollagen suicide. The gene construct was used to prepare five lines of transgenic mice expressing the minigene. A large proportion of the mice expressing the minigene developed a phenotype of a chondrodysplasia with dwarfism, short and thick limbs, a short snout, a cranial bulge, a cleft palate, and delayed mineralization of bone. A number of mice died shortly after birth. Microscopic examination of cartilage revealed decreased density and organization of collagen fibrils. In cultured chondrocytes from the transgenic mice, the minigene was expressed as shortened pro{alpha}1(II) chains that were disulfide-linked to normal mouse pro{alpha}1(II) chains. Therefore, the phenotype is probably explained by depletion of the endogenous mouse type II procollagen through the phenomenon of procollagen suicide.

  9. Phylogeny of Indonesian Nostoc (Cyanobac teria Isolated from Paddy Fields as Inferred from Partial Se quence of 16S rRNA Gene

    Directory of Open Access Journals (Sweden)

    Dian Hendrayanti

    2012-12-01

    Full Text Available In order to collect Indonesian Nostoc, isolation of soil microflora from several paddy fields in West Java, Bali, andSouth Celebes was carried out. Fast-growing isolates of Nostoc were selected to describe and perform molecular identification using partial sequences of 16S rRNA. The results showed that partial sequences of 16S rRNA could not resolve the phylogeny of the isolates. However, it supported the morphological studies that recognize isolates as different species of Nostoc. Potential use of Nostoc as a nitrogen source for paddy growth was carried out using six strains as single inoculums. A total biomass of 2 g (fresh weight for each strain was inoculated, respectively, into the pot planted with three paddy plants. This experiment was conducted in the green house for 115 days. Statistical analyses (ANOVA; α = 0.05 showed that of six strains tested in this study, only strain GIA13a had influence on the augmentation of root length and the total number of filled grains.

  10. Partial deletion of eNOS gene causes hyperinsulinemic state, unbalance of cardiac insulin signaling pathways and coronary dysfunction independently of high fat diet.

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    Cecilia Vecoli

    Full Text Available Abnormalities in eNOS gene, possibly interacting with high fat diet (HFD, affect peripheral vascular function and glucose metabolism. The relative role of eNOS gene, HFD and metabolic derangement on coronary function has not been fully elucidated. We test whether eNOS gene deficiency per se or in association with HFD modulates coronary function through mechanisms involving molecular pathways related to insulin signaling. Wild type (WT, eNOS-/- and eNOS+/- mice were studied. WT and eNOS+/- mice were fed with either standard or HF diet for 16 weeks and compared with standard diet fed eNOS-/-. Glucose and insulin tolerance tests were performed during the last week of diet. Coronary resistance (CR was measured at baseline and during infusions of acetylcholine (Ach or sodium-nitroprusside (SNP to evaluate endothelium-dependent or independent vasodilation, in the Langendorff isolated hearts. Cardiac expression of Akt and ERK genes as evaluation of two major insulin-regulated signaling pathways involved in the control of vascular tone were assessed by western blot. HFD-fed mice developed an overt diabetic state. Conversely, chow-fed genetically modified mice (in particular eNOS-/- showed a metabolic pattern characterized by normoglycemia and hyperinsulinemia with a limited degree of insulin resistance. CR was significantly higher in animals with eNOS gene deletions than in WT, independently of diet. Percent decrease in CR, during Ach infusion, was significantly lower in both eNOS-/- and eNOS+/- mice than in WT, independently of diet. SNP reduced CR in all groups except eNOS-/-. The cardiac ERK1-2/Akt ratio, increased in animals with eNOS gene deletions compared with WT, independently of diet. These results suggest that the eNOS genetic deficiency, associated or not with HFD, has a relevant effect on coronary vascular function, possibly mediated by increase in blood insulin levels and unbalance in insulin-dependent signaling in coronary vessels

  11. Inactivation of promoter 1B of APC causes partial gene silencing: evidence for a significant role of the promoter in regulation and causative of familial adenomatous polyposis

    DEFF Research Database (Denmark)

    Rohlin, A; Engwall, Y; Fritzell, K

    2011-01-01

    inactivation of promoter 1B is disease causing in FAP; (ii) expression of transcripts from promoter 1B is generated at considerable higher levels compared with 1A, demonstrating a hitherto unknown importance of 1B; (iii) adenoma formation in FAP, caused by impaired function of promoter 1B, does not require......Familial adenomatous polyposis (FAP) is caused by germline mutations in the adenomatous polyposis coli (APC) gene. Two promoters, 1A and 1B, have been recognized in APC, and 1B is thought to have a minor role in the regulation of the gene. We have identified a novel deletion encompassing half...... of this promoter in the largest family (Family 1) of the Swedish Polyposis Registry. The mutation leads to an imbalance in allele-specific expression of APC, and transcription from promoter 1B was highly impaired in both normal colorectal mucosa and blood from mutation carriers. To establish the significance...

  12. Comparison of traditional phenotypic identification methods with partial 5' 16S rRNA gene sequencing for species-level identification of nonfermenting Gram-negative bacilli.

    Science.gov (United States)

    Cloud, Joann L; Harmsen, Dag; Iwen, Peter C; Dunn, James J; Hall, Gerri; Lasala, Paul Rocco; Hoggan, Karen; Wilson, Deborah; Woods, Gail L; Mellmann, Alexander

    2010-04-01

    Correct identification of nonfermenting Gram-negative bacilli (NFB) is crucial for patient management. We compared phenotypic identifications of 96 clinical NFB isolates with identifications obtained by 5' 16S rRNA gene sequencing. Sequencing identified 88 isolates (91.7%) with >99% similarity to a sequence from the assigned species; 61.5% of sequencing results were concordant with phenotypic results, indicating the usability of sequencing to identify NFB.

  13. Partial genomic structure, mutation analysis and mapping of the porcine inhibitor of DNA binding genes ID1, ID2, ID3 and ID4

    Czech Academy of Sciences Publication Activity Database

    Stratil, Antonín; Horák, Pavel; Filkuková, Jitka; Van Poucke, M.; Bartenschlager, H.; Peelman, L. J.; Geldermann, H.

    2010-01-01

    Roč. 41, - (2010), s. 558-559 ISSN 0268-9146 R&D Projects: GA ČR(CZ) GA523/06/1302; GA ČR GA523/09/0844 Institutional research plan: CEZ:AV0Z50450515 Keywords : genomic structure * muscle-specific genes * porcine Subject RIV: GI - Animal Husbandry ; Breeding Impact factor: 2.203, year: 2010

  14. Genotype analysis of partial growth hormone gene (GH891│MspI in Pesisir cattle and Simmental-Pesisir crossbred cattle

    Directory of Open Access Journals (Sweden)

    T. Hartatik

    2018-03-01

    Full Text Available Growth hormone gene that controls metabolism and body size of animals and polymorphism of the gene is known related to performance of livestock. Identification of gene polymorphisms was important to get early information to determine genetic markers associated with economically desirable traits. Genetic mapping is one of important characterizations in the selection process. Pesisir cattle is one of local cattle in Indonesia that are reared in West Sumatera and have become adaptive to local environment. The present study aimed to identify the genotype of Growth Hormone gene (GH891│MspI of the Pesisir cattle and crossbred Simmental-Pesisir cattle (designated as SimPes and relationship between growth performance (body weight and body size. The present study was conducted to 30 blood samples consisted of 15 Pesisir cattle and 15 SimPes cattle. Body weight and body size were measured at 12-18 months of age. The Polymerase Chain Reaction-Restriction Fragment Length Polymorphism (PCR-RFLP method was used in this research. The results showed that there exist three variant genotypes (MspI-/-, MspI+/-, MspI+/+ and that allele frequencies of MspI- and MspI+ were 53.3% and 46.7%, respectively. Non-significant effect has found between GH’s genotype and growth traits (Body measurement and body weight in both of breed cattle. In conclusion, three variant genotypes (GH891│MspI in Pesisir and SimPes (Simmental x Pesisir cattle population were found and no significant effect on growth trait performance.

  15. Inactivation of promoter 1B of APC causes partial gene silencing: evidence for a significant role of the promoter in regulation and causative of familial adenomatous polyposis

    DEFF Research Database (Denmark)

    Rohlin, A; Engwall, Y; Fritzell, K

    2011-01-01

    Familial adenomatous polyposis (FAP) is caused by germline mutations in the adenomatous polyposis coli (APC) gene. Two promoters, 1A and 1B, have been recognized in APC, and 1B is thought to have a minor role in the regulation of the gene. We have identified a novel deletion encompassing half of ...... homozygous inactivation of APC allowing for alternative genetic models as basis for adenoma formation.Oncogene advance online publication, 6 June 2011; doi:10.1038/onc.2011.201....... in a panel of 20 various normal tissues examined. In FAP-related tumors, the APC germline mutation is proposed to dictate the second hit. Mutations leaving two or three out of seven 20-amino-acid repeats in the central domain of APC intact seem to be required for tumorigenesis. We examined adenomas from...... mutation carriers in Family 1 for second hits in the entire gene without any findings, however, loss of the residual expression of the deleterious allele was observed. Three major conclusions of significant importance in relation to the function of APC can be drawn from this study; (i) germline...

  16. Two enzymes with redundant fructose bisphosphatase activity sustain gluconeogenesis and virulence in Mycobacterium tuberculosis.

    Science.gov (United States)

    Ganapathy, Uday; Marrero, Joeli; Calhoun, Susannah; Eoh, Hyungjin; de Carvalho, Luiz Pedro Sorio; Rhee, Kyu; Ehrt, Sabine

    2015-08-10

    The human pathogen Mycobacterium tuberculosis (Mtb) likely utilizes host fatty acids as a carbon source during infection. Gluconeogenesis is essential for the conversion of fatty acids into biomass. A rate-limiting step in gluconeogenesis is the conversion of fructose 1,6-bisphosphate to fructose 6-phosphate by a fructose bisphosphatase (FBPase). The Mtb genome contains only one annotated FBPase gene, glpX. Here we show that, unexpectedly, an Mtb mutant lacking GLPX grows on gluconeogenic carbon sources and has detectable FBPase activity. We demonstrate that the Mtb genome encodes an alternative FBPase (GPM2, Rv3214) that can maintain gluconeogenesis in the absence of GLPX. Consequently, deletion of both GLPX and GPM2 is required for disruption of gluconeogenesis and attenuation of Mtb in a mouse model of infection. Our work affirms a role for gluconeogenesis in Mtb virulence and reveals previously unidentified metabolic redundancy at the FBPase-catalysed reaction step of the pathway.

  17. Application study of EPICS-based redundant method for reactor control system

    International Nuclear Information System (INIS)

    Zhang Ning; Han Lifeng; Chen Yongzhong; Guo Bing; Yin Congcong

    2013-01-01

    In the reactor control system prototype development of TMSR (Thorium Molten Salt Reactor system, CAS) project, EPICS (Experimental Physics and Industrial Control System) is adopted as Instrument and Control software platform. For the aim of IOC (Input/Output Controller) redundancy and data synchronization of the system, the EPICS-based RMT (Redundancy Monitor Task ) software package and its data-synchronization component CCE (Continuous Control Executive) were introduced. By the development of related IOC driver, redundant switch-over control of server IOC was implemented. The method of redundancy implementation using RMT in server and redundancy performance test for power control system are discussed in this paper. (authors)

  18. Quantum Darwinism: Entanglement, branches, and the emergent classicality of redundantly stored quantum information

    International Nuclear Information System (INIS)

    Blume-Kohout, Robin; Zurek, Wojciech H.

    2006-01-01

    We lay a comprehensive foundation for the study of redundant information storage in decoherence processes. Redundancy has been proposed as a prerequisite for objectivity, the defining property of classical objects. We consider two ensembles of states for a model universe consisting of one system and many environments: the first consisting of arbitrary states, and the second consisting of 'singly branching' states consistent with a simple decoherence model. Typical states from the random ensemble do not store information about the system redundantly, but information stored in branching states has a redundancy proportional to the environment's size. We compute the specific redundancy for a wide range of model universes, and fit the results to a simple first-principles theory. Our results show that the presence of redundancy divides information about the system into three parts: classical (redundant); purely quantum; and the borderline, undifferentiated or 'nonredundant', information

  19. Quantum Darwinism: Entanglement, branches, and the emergent classicality of redundantly stored quantum information

    Science.gov (United States)

    Blume-Kohout, Robin; Zurek, Wojciech H.

    2006-06-01

    We lay a comprehensive foundation for the study of redundant information storage in decoherence processes. Redundancy has been proposed as a prerequisite for objectivity, the defining property of classical objects. We consider two ensembles of states for a model universe consisting of one system and many environments: the first consisting of arbitrary states, and the second consisting of “singly branching” states consistent with a simple decoherence model. Typical states from the random ensemble do not store information about the system redundantly, but information stored in branching states has a redundancy proportional to the environment’s size. We compute the specific redundancy for a wide range of model universes, and fit the results to a simple first-principles theory. Our results show that the presence of redundancy divides information about the system into three parts: classical (redundant); purely quantum; and the borderline, undifferentiated or “nonredundant,” information.

  20. Exploration of joint redundancy but not task space variability facilitates supervised motor learning.

    Science.gov (United States)

    Singh, Puneet; Jana, Sumitash; Ghosal, Ashitava; Murthy, Aditya

    2016-12-13

    The number of joints and muscles in a human arm is more than what is required for reaching to a desired point in 3D space. Although previous studies have emphasized how such redundancy and the associated flexibility may play an important role in path planning, control of noise, and optimization of motion, whether and how redundancy might promote motor learning has not been investigated. In this work, we quantify redundancy space and investigate its significance and effect on motor learning. We propose that a larger redundancy space leads to faster learning across subjects. We observed this pattern in subjects learning novel kinematics (visuomotor adaptation) and dynamics (force-field adaptation). Interestingly, we also observed differences in the redundancy space between the dominant hand and nondominant hand that explained differences in the learning of dynamics. Taken together, these results provide support for the hypothesis that redundancy aids in motor learning and that the redundant component of motor variability is not noise.

  1. Utilizing Nested Normal Form to Design Redundancy Free JSON Schemas

    Directory of Open Access Journals (Sweden)

    Wai Yin Mok

    2016-12-01

    Full Text Available JSON (JavaScript Object Notation is a lightweight data-interchange format for the Internet. JSON is built on two structures: (1 a collection of name/value pairs and (2 an ordered list of values (http://www.json.org/. Because of this simple approach, JSON is easy to use and it has the potential to be the data interchange format of choice for the Internet. Similar to XML, JSON schemas allow nested structures to model hierarchical data. As data interchange over the Internet increases exponentially due to cloud computing or otherwise, redundancy free JSON data are an attractive form of communication because they improve the quality of data communication through eliminating update anomaly. Nested Normal Form, a normal form for hierarchical data, is a precise characterization of redundancy. A nested table, or a hierarchical schema, is in Nested Normal Form if and only if it is free of redundancy caused by multivalued and functional dependencies. Using Nested Normal Form as a guide, this paper introduces a JSON schema design methodology that begins with UML use case diagrams, communication diagrams and class diagrams that model a system under study. Based on the use cases’ execution frequencies and the data passed between involved parties in the communication diagrams, the proposed methodology selects classes from the class diagrams to be the roots of JSON scheme trees and repeatedly adds classes from the class diagram to the scheme trees as long as the schemas satisfy Nested Normal Form. This process continues until all of the classes in the class diagram have been added to some JSON scheme trees.

  2. Time efficient signed Vedic multiplier using redundant binary representation

    Directory of Open Access Journals (Sweden)

    Ranjan Kumar Barik

    2017-03-01

    Full Text Available This study presents a high-speed signed Vedic multiplier (SVM architecture using redundant binary (RB representation in Urdhva Tiryagbhyam (UT sutra. This is the first ever effort towards extension of Vedic algorithms to the signed numbers. The proposed multiplier architecture solves the carry propagation issue in UT sutra, as carry free addition is possible in RB representation. The proposed design is coded in VHDL and synthesised in Xilinx ISE 14.4 of various FPGA devices. The proposed SVM architecture has better speed performances as compared with various state-of-the-art conventional as well as Vedic architectures.

  3. A case for Redundant Arrays of Inexpensive Disks (RAID)

    Science.gov (United States)

    Patterson, David A.; Gibson, Garth; Katz, Randy H.

    1988-01-01

    Increasing performance of CPUs and memories will be squandered if not matched by a similar performance increase in I/O. While the capacity of Single Large Expensive Disks (SLED) has grown rapidly, the performance improvement of SLED has been modest. Redundant Arrays of Inexpensive Disks (RAID), based on the magnetic disk technology developed for personal computers, offers an attractive alternative to SLED, promising improvements of an order of magnitude in performance, reliability, power consumption, and scalability. This paper introduces five levels of RAIDs, giving their relative cost/performance, and compares RAID to an IBM 3380 and a Fujitsu Super Eagle.

  4. Redundant mechanisms are involved in suppression of default cell fates during embryonic mesenchyme and notochord induction in ascidians.

    Science.gov (United States)

    Kodama, Hitoshi; Miyata, Yoshimasa; Kuwajima, Mami; Izuchi, Ryoichi; Kobayashi, Ayumi; Gyoja, Fuki; Onuma, Takeshi A; Kumano, Gaku; Nishida, Hiroki

    2016-08-01

    During embryonic induction, the responding cells invoke an induced developmental program, whereas in the absence of an inducing signal, they assume a default uninduced cell fate. Suppression of the default fate during the inductive event is crucial for choice of the binary cell fate. In contrast to the mechanisms that promote an induced cell fate, those that suppress the default fate have been overlooked. Upon induction, intracellular signal transduction results in activation of genes encoding key transcription factors for induced tissue differentiation. It is elusive whether an induced key transcription factor has dual functions involving suppression of the default fates and promotion of the induced fate, or whether suppression of the default fate is independently regulated by other factors that are also downstream of the signaling cascade. We show that during ascidian embryonic induction, default fates were suppressed by multifold redundant mechanisms. The key transcription factor, Twist-related.a, which is required for mesenchyme differentiation, and another independent transcription factor, Lhx3, which is dispensable for mesenchyme differentiation, sequentially and redundantly suppress the default muscle fate in induced mesenchyme cells. Similarly in notochord induction, Brachyury, which is required for notochord differentiation, and other factors, Lhx3 and Mnx, are likely to suppress the default nerve cord fate redundantly. Lhx3 commonly suppresses the default fates in two kinds of induction. Mis-activation of the autonomously executed default program in induced cells is detrimental to choice of the binary cell fate. Multifold redundant mechanisms would be required for suppression of the default fate to be secure. Copyright © 2016 Elsevier Inc. All rights reserved.

  5. Cloning and nucleotide sequence analysis of pepV, a carnosinase gene from Lactobacillus delbrueckii subsp. lactis DSM 7290, and partial characterization of the enzyme.

    Science.gov (United States)

    Vongerichten, K F; Klein, J R; Matern, H; Plapp, R

    1994-10-01

    Cell extracts of Lactobacillus delbrueckii subsp. lactis DSM 7290 were found to exhibit unique peptolytic ability against unusual beta-alanyl-dipeptides. In order to clone the gene encoding this activity, designated pepV, a gene library of strain DSM 7290 genomic DNA, prepared in the low-copy-number plasmid pLG339, was screened for heterologous expression in Escherichia coli. Recombinant clones harbouring pepV were identified by their ability to allow the utilization of carnosine (beta-alanyl-histidine) as a source of histidine by the E. coli mutant strain UK197 (pepD, hisG). Complementation was observed in a colony harbouring a recombinant plasmid (pKV101), carrying pepV. A 2.4 kb fragment containing pepV was subcloned and its nucleotide sequence revealed an open reading frame (ORF) of 1413 nucleotides, corresponding to a protein with predicted molecular mass of 51998 Da. A single transcription initiation site 71 bp upstream of the ATG translational start codon was identified by primer extension. No significant homology was detected between pepV or its deduced amino acid sequence with any entry in the databases. The only similarity was found in a region conserved in the ArgE/DapE/CPG2/YscS family of proteins. This observation, and protease inhibitor studies, indicated that pepV is of the metalloprotease type. A second ORF present in the sequenced fragment showed extensive homology to a variety of amino acid permeases from E. coli and Saccharomyces cerevisiae.

  6. Partial correction of the dwarf phenotype by non-viral transfer of the growth hormone gene in mice: Treatment age is critical.

    Science.gov (United States)

    Higuti, Eliza; Cecchi, Cláudia R; Oliveira, Nélio A J; Lima, Eliana R; Vieira, Daniel P; Aagaard, Lars; Jensen, Thomas G; Jorge, Alexander A L; Bartolini, Paolo; Peroni, Cibele N

    2016-02-01

    Non-viral transfer of the growth hormone gene to different muscles of immunodeficient dwarf (lit/scid) mice is under study with the objective of improving phenotypic correction via this particular gene therapy approach. Plasmid DNA was administered into the exposed quadriceps or non-exposed tibialis cranialis muscle of lit/scid mice followed by electroporation, monitoring several growth parameters. In a 6-month bioassay, 50μg DNA were injected three times into the quadriceps muscle of 80-day old mice. A 50% weight increase, with a catch-up growth of 21%, together with a 16% increase for nose-to-tail and tail lengths (catch-up=19-21%) and a 24-28% increase for femur length (catch-up=53-60%), were obtained. mIGF1 serum levels were ~7-fold higher than the basal levels for untreated mice, but still ~2-fold lower than in non-dwarf scid mice. Since treatment age was found to be particularly important in a second bioassay utilizing 40-day old mice, these pubertal mice were compared in a third bioassay with adult (80-day old) mice, all treated twice with 50μg DNA injected into each tibialis cranialis muscle, via a less invasive approach. mIGF1 concentrations at the same level as co-aged scid mice were obtained 15days after administration in pubertal mice. Catch-up growth, based on femur length (77%), nose-to-tail (36%) and tail length (39%) increases was 40 to 95% higher than those obtained upon treating adult mice. These data pave the way for the development of more effective pre-clinical assays in pubertal dwarf mice for the treatment of GH deficiency via plasmid-DNA muscular administration. Copyright © 2015 Elsevier Ltd. All rights reserved.

  7. The human brain maintains contradictory and redundant auditory sensory predictions.

    Directory of Open Access Journals (Sweden)

    Marika Pieszek

    Full Text Available Computational and experimental research has revealed that auditory sensory predictions are derived from regularities of the current environment by using internal generative models. However, so far, what has not been addressed is how the auditory system handles situations giving rise to redundant or even contradictory predictions derived from different sources of information. To this end, we measured error signals in the event-related brain potentials (ERPs in response to violations of auditory predictions. Sounds could be predicted on the basis of overall probability, i.e., one sound was presented frequently and another sound rarely. Furthermore, each sound was predicted by an informative visual cue. Participants' task was to use the cue and to discriminate the two sounds as fast as possible. Violations of the probability based prediction (i.e., a rare sound as well as violations of the visual-auditory prediction (i.e., an incongruent sound elicited error signals in the ERPs (Mismatch Negativity [MMN] and Incongruency Response [IR]. Particular error signals were observed even in case the overall probability and the visual symbol predicted different sounds. That is, the auditory system concurrently maintains and tests contradictory predictions. Moreover, if the same sound was predicted, we observed an additive error signal (scalp potential and primary current density equaling the sum of the specific error signals. Thus, the auditory system maintains and tolerates functionally independently represented redundant and contradictory predictions. We argue that the auditory system exploits all currently active regularities in order to optimally prepare for future events.

  8. The Evolution of Functionally Redundant Species; Evidence from Beetles.

    Directory of Open Access Journals (Sweden)

    Marten Scheffer

    Full Text Available While species fulfill many different roles in ecosystems, it has been suggested that numerous species might actually share the same function in a near neutral way. So-far, however, it is unclear whether such functional redundancy really exists. We scrutinize this question using extensive data on the world's 4168 species of diving beetles. We show that across the globe these animals have evolved towards a small number of regularly-spaced body sizes, and that locally co-existing species are either very similar in size or differ by at least 35%. Surprisingly, intermediate size differences (10-20% are rare. As body-size strongly reflects functional aspects such as the food that these generalist predators can eat, these beetles thus form relatively distinct groups of functional look-a-likes. The striking global regularity of these patterns support the idea that a self-organizing process drives such species-rich groups to self-organize evolutionary into clusters where functional redundancy ensures resilience through an insurance effect.

  9. Dietary salecan reverts partially the metabolic gene expressions and NMR-based metabolomic profiles from high-fat-diet-induced obese rats.

    Science.gov (United States)

    Sun, Qi; Li, Minghui; Yang, Xiao; Xu, Xi; Wang, Junsong; Zhang, Jianfa

    2017-09-01

    Previous studies suggest that dietary salecan (a water-soluble β-glucan) effectively reduces high-fat-diet-induced adiposity through disturbing bile-acid-promoted emulsification in mice. However, the effects of salecan on metabolic genes and metabolites involved in lipid accumulation are mostly unknown. Here, we confirmed that dietary 3% and 6% salecan for 4 weeks markedly decreased fat accumulation in liver and adipose tissue in high-fat-diet rats, displaying a decrease in mRNA levels of SREBP1-C, FAS, SCD1 and ACC1 involved in de novo lipogenesis and a reduction of levels of GPAT1, DGAT1 and DGAT2 related to triglyceride synthesis. Dietary salecan also increased the mRNA levels of PPARα and CYP7A1, which are related to fatty acid oxidation and cholesterol decomposition, respectively. In the 1 H nuclear magnetic resonance metabolomic analysis, both the serum and liver metabolite profiles differed among the control groups, and the metabolic profiles of the salecan groups were shifted toward that of the low-fat-diet group. Metabolites analysis showed that salecan significantly increased hepatic glutathione and betaine levels which are related to regulation of cellular reactive oxygen species. These data demonstrate that dietary salecan not only disturbed fat digestion and absorption but also influenced lipid accumulation and metabolism in diet-induced obesity. Copyright © 2017 Elsevier Inc. All rights reserved.

  10. Misexpression of AtTX12 encoding a Toll/interleukin-1 receptor domain induces growth defects and expression of defense-related genes partially independently of EDS1 in Arabidopsis.

    Science.gov (United States)

    Song, Sang-Kee

    2016-12-01

    In this study, a tissue-specific GAL4/UAS activation tagging system was used for the characterization of genes which could induce lethality when ubiquitously expressed. A dominant mutant exhibiting stunted growth was isolated and named defective root development 1-D (drd1-D). The T-DNA tag was located within the promoter region of AtTX12, which is predicted to encode a truncated nucleotide-binding leucinerich repeat (NLR) protein, containing a Toll/interleukin-1 receptor (TIR) domain. The transcript levels of AtTX12 and defense-related genes were elevated in drd1-D, and the misexpression of AtTX12 recapitulated the drd1-D phenotypes. In the presence of ENHANCED DISEASE SUSCEPTIBILITY 1 (EDS1), a key transducer of signals triggered by TIR-type NLRs, a low-level of AtTX12 misexpression induced strong defective phenotypes including seedling lethality whereas, in the absence of EDS1, a high-level of AtTX12 misexpression induced weak growth defects like dwarfism, suggesting that AtTX12 might function mainly in an EDS1-dependent and partially in an EDS1-independent manner. [BMB Reports 2016; 49(12): 693-698].

  11. In Situ Dark Adaptation Enhances the Efficiency of DNA Extraction from Mature Pin Oak (Quercus palustris Leaves, Facilitating the Identification of Partial Sequences of the 18S rRNA and Isoprene Synthase (IspS Genes

    Directory of Open Access Journals (Sweden)

    Csengele E. Barta

    2017-10-01

    Full Text Available Mature oak (Quercus spp. leaves, although abundantly available during the plants’ developmental cycle, are rarely exploited as viable sources of genomic DNA. These leaves are rich in metabolites difficult to remove during standard DNA purification, interfering with downstream molecular genetics applications. The current work assessed whether in situ dark adaptation, to deplete sugar reserves and inhibit secondary metabolite synthesis could compensate for the difficulties encountered when isolating DNA from mature leaves rich in secondary metabolites. We optimized a rapid, commercial kit based method to extract genomic DNA from dark- and light-adapted leaves. We demonstrated that in situ dark adaptation increases the yield and quality of genomic DNA obtained from mature oak leaves, yielding templates of sufficiently high quality for direct downstream applications, such as PCR amplification and gene identification. The quality of templates isolated from dark-adapted pin oak leaves particularly improved the amplification of larger fragments in our experiments. From DNA extracts prepared with our optimized method, we identified for the first time partial segments of the genes encoding 18S rRNA and isoprene synthase (IspS from pin oak (Quercus palustris, whose full genome has not yet been sequenced.

  12. Partial characterization of the lettuce infectious yellows virus genomic RNAs, identification of the coat protein gene and comparison of its amino acid sequence with those of other filamentous RNA plant viruses.

    Science.gov (United States)

    Klaassen, V A; Boeshore, M; Dolja, V V; Falk, B W

    1994-07-01

    Purified virions of lettuce infectious yellows virus (LIYV), a tentative member of the closterovirus group, contained two RNAs of approximately 8500 and 7300 nucleotides (RNAs 1 and 2 respectively) and a single coat protein species with M(r) of approximately 28,000. LIYV-infected plants contained multiple dsRNAs. The two largest were the correct size for the replicative forms of LIYV virion RNAs 1 and 2. To assess the relationships between LIYV RNAs 1 and 2, cDNAs corresponding to the virion RNAs were cloned. Northern blot hybridization analysis showed no detectable sequence homology between these RNAs. A partial amino acid sequence obtained from purified LIYV coat protein was found to align in the most upstream of four complete open reading frames (ORFs) identified in a LIYV RNA 2 cDNA clone. The identity of this ORF was confirmed as the LIYV coat protein gene by immunological analysis of the gene product expressed in vitro and in Escherichia coli. Computer analysis of the LIYV coat protein amino acid sequence indicated that it belongs to a large family of proteins forming filamentous capsids of RNA plant viruses. The LIYV coat protein appears to be most closely related to the coat proteins of two closteroviruses, beet yellows virus and citrus tristeza virus.

  13. Method and system for redundancy management of distributed and recoverable digital control system

    Science.gov (United States)

    Stange, Kent (Inventor); Hess, Richard (Inventor); Kelley, Gerald B (Inventor); Rogers, Randy (Inventor)

    2012-01-01

    A method and system for redundancy management is provided for a distributed and recoverable digital control system. The method uses unique redundancy management techniques to achieve recovery and restoration of redundant elements to full operation in an asynchronous environment. The system includes a first computing unit comprising a pair of redundant computational lanes for generating redundant control commands. One or more internal monitors detect data errors in the control commands, and provide a recovery trigger to the first computing unit. A second redundant computing unit provides the same features as the first computing unit. A first actuator control unit is configured to provide blending and monitoring of the control commands from the first and second computing units, and to provide a recovery trigger to each of the first and second computing units. A second actuator control unit provides the same features as the first actuator control unit.

  14. A succession of theories: purging redundancy from disturbance theory.

    Science.gov (United States)

    Pulsford, Stephanie A; Lindenmayer, David B; Driscoll, Don A

    2016-02-01

    The topics of succession and post-disturbance ecosystem recovery have a long and convoluted history. There is extensive redundancy within this body of theory, which has resulted in confusion, and the links among theories have not been adequately drawn. This review aims to distil the unique ideas from the array of theory related to ecosystem change in response to disturbance. This will help to reduce redundancy, and improve communication and understanding between researchers. We first outline the broad range of concepts that have developed over the past century to describe community change in response to disturbance. The body of work spans overlapping succession concepts presented by Clements in 1916, Egler in 1954, and Connell and Slatyer in 1977. Other theories describing community change include state and transition models, biological legacy theory, and the application of functional traits to predict responses to disturbance. Second, we identify areas of overlap of these theories, in addition to highlighting the conceptual and taxonomic limitations of each. In aligning each of these theories with one another, the limited scope and relative inflexibility of some theories becomes apparent, and redundancy becomes explicit. We identify a set of unique concepts to describe the range of mechanisms driving ecosystem responses to disturbance. We present a schematic model of our proposed synthesis which brings together the range of unique mechanisms that were identified in our review. The model describes five main mechanisms of transition away from a post-disturbance community: (i) pulse events with rapid state shifts; (ii) stochastic community drift; (iii) facilitation; (iv) competition; and (v) the influence of the initial composition of a post-disturbance community. In addition, stabilising processes such as biological legacies, inhibition or continuing disturbance may prevent a transition between community types. Integrating these six mechanisms with the functional

  15. One size does not fit all: older adults benefit from redundant text in multimedia instruction

    OpenAIRE

    Fenesi, Barbara; Vandermorris, Susan; Kim, Joseph A.; Shore, David I.; Heisz, Jennifer J.

    2015-01-01

    The multimedia design of presentations typically ignores that younger and older adults have varying cognitive strengths and weaknesses. We examined whether differential instructional design may enhance learning in these populations. Younger and older participants viewed one of three computer-based presentations: Audio only (narration), Redundant (audio narration with redundant text), or Complementary (audio narration with non–redundant text and images). Younger participants learned better ...

  16. Coordination of dual robot arms using kinematic redundancy

    Science.gov (United States)

    Suh, Il Hong; Shin, Kang G.

    1988-01-01

    A method is developed to coordinate the motion of dual robot arms carrying a solid object, where the first robot (leader) grasps one end of the object rigidly and the second robot (follower) is allowed to change its grasping position at the other end of the object along the object surface while supporting the object. It is shown that this flexible grasping is equivalent to the addition of one more degree of freedom (dof), giving the follower more maneuvering capabilities. In particular, motion commands for the follower are generated by using kinematic redundancy. To show the utility and power of the method, an example system with two PUMA 560 robots carrying a beam is analyzed.

  17. Basic aspects of stochastic reliability analysis for redundancy systems

    International Nuclear Information System (INIS)

    Doerre, P.

    1989-01-01

    Much confusion has been created by trying to establish common cause failure (CCF) as an extra phenomenon which has to be treated with extra methods in reliability and data analysis. This paper takes another approach which can be roughly described by the statement that dependent failure is the basic phenomenon, while 'independent failure' refers to a special limiting case, namely the perfectly homogeneous population. This approach is motivated by examples demonstrating that common causes do not lead to dependent failure, so far as physical dependencies like shared components are excluded, and that stochastic dependencies are not related to common causes. The possibility to select more than one failure behaviour from an inhomogeneous population is identified as an additional random process which creates stochastic dependence. However, this source of randomness is usually treated in the deterministic limit, which destroys dependence and hence yields incorrect multiple failure frequencies for redundancy structures, thus creating the need for applying corrective CCF models. (author)

  18. Energy distribution for Coefficients of Redundant Signal Representations of Music

    DEFF Research Database (Denmark)

    Endelt, Line Ørtoft; la Cour-Harbo, Anders

    2005-01-01

    different time-frequency dictionaries. We have applied these methods to music to examine their ability to express music signals in a sparse manner for a number of dictionaries and window lengths. The evaluation is based on the m-term approximation needed to represent 90 %, 95 %, 99 % and 99......In this paper we investigate how the energy is distributed in the coefficients vector of various redundant signal representations of music signals. The representations are found using Basis Pursuit, Matching Pursuit, Alternating Projections, Best Orthogonal Basis and Method of Frames, with five.......9 % of the energy in the coefficients, also the time consummation for finding the representations are considered. The distribution of energy in the coefficients of the representations found using Basis Pursuit, Matching Pursuit, Alternating Projections and Best Orthogonal Basis depends mainly on the signal...

  19. About the complete loss of functions assumed by redundant systems

    International Nuclear Information System (INIS)

    Boaretto, Y.; Cayol, A.; Fourest, M.; Guimbail, H.

    1980-04-01

    Are to be taken into account situations resulting from loss of redundant safety systems. Two ways of approach were to be probed: evaluation of the failure probability and analysis of the consequences of those situations. The first way leads to improve reliability of concerned systems, the second way to set up mitigating means. Before TMI-2 occured, safety advices had already been issued about three kinds of situations: anticipated transients without scram, loss of ultimate heat sink, simultaneous loss of out-and inside power supplies. That, in some cases, something had to be done to improve safety showed the rightness of the concern. Next step is the study of the loss of both normal and emergency feedwater: The regulatory request has been issued on September 1979

  20. A fully redundant power hinge for LANDSAT-D appendages

    Science.gov (United States)

    Mamrol, F. E.; Matteo, D. N.

    1981-01-01

    The configuration and testing of a power driven hinge for deployment of the solar array and antenna boom for the LANDSAT-D spacecraft is discussed. The hinge is fully mechanically and electrically redundant and, thereby, can sustain a single point failure of any one motor (or its power supply), speed reducer, or bearing set without loss of its ability to function. This design utilizes the capability of the stepper motor drive to remove the flexibility of the drive train from the joint stiffness equation when the hinge is loaded against its stop. This feature precludes gapping of the joint under spacecraft maneuver loads even in the absence of a latching feature. Thus, retraction is easily accomplished by motor reversal without the need for a solenoid function to remove the latch.

  1. Redundancies in Data and their Effect on the Evaluation of Recommendation Systems

    DEFF Research Database (Denmark)

    Basaran, Daniel; Ntoutsi, Eirini; Zimek, Arthur

    2017-01-01

    A collection of datasets crawled from Amazon, “Amazon reviews”, is popular in the evaluation of recommendation systems. These datasets, however, contain redundancies (duplicated recommendations for variants of certain items). These redundancies went unnoticed in earlier use of these datasets...... and thus incurred to a certain extent wrong conclusions in the evaluation of algorithms tested on these datasets. We analyze the nature and amount of these redundancies and their impact on the evaluation of recommendation methods. While the general and obvious conclusion is that redundancies should...

  2. The Development of Synchronization Function for Triple Redundancy System Based on SCADE

    Directory of Open Access Journals (Sweden)

    Moupeng

    2015-07-01

    Full Text Available Redundancy technique is an effective approach to improve the reliability and security of flight control system, synchronization function of redundancy system is the key technology of redundancy management. The flight control computer synchronization model is developed by graphical modeling method in the SCADE development environment, the automatic code generation technology is used to generate high level reliable embedded real-time code for synchronization function, omitting the code test process, shorten the development cycle. In the practical application, the program can accomplish the functional synchronization, and lay a well foundation for the redundancy system.

  3. Multi-finger prehension: control of a redundant mechanical system.

    Science.gov (United States)

    Latash, Mark L; Zatsiorsky, Vladimir M

    2009-01-01

    The human hand has been a fascinating object of study for researchers in both biomechanics and motor control. Studies of human prehension have contributed significantly to the progress in addressing the famous problem of motor redundancy. After a brief review of the hand mechanics, we present results of recent studies that support a general view that the apparently redundant design of the hand is not a source of computational problems but a rich apparatus that allows performing a variety of tasks in a reliable and flexible way (the principle of abundance). Multi-digit synergies have been analyzed at two levels of a hypothetical hierarchy involved in the control of prehensile actions. At the upper level, forces and moments produced by the thumb and virtual finger (an imagined finger with a mechanical action equal to the combined mechanical action of all four fingers of the hand) co-vary to stabilize the gripping action and the orientation of the hand-held object. These results support the principle of superposition suggested earlier in robotics with respect to the control of artificial grippers. At the lower level of the hierarchy, forces and moments produced by individual fingers co-vary to stabilize the magnitude and direction of the force vector and the moment of force produced by the virtual finger. Adjustments to changes in task constraints (such as, for example, friction under individual digits) may be local and synergic. The latter reflect multi-digit prehension synergies and may be analyzed with the so-called chain effects: Sequences of relatively straightforward cause-effect links directly related to mechanical constraints leading to non-trivial strong co-variation between pairs of elemental variables. Analysis of grip force adjustments during motion of hand-held objects suggests that the central nervous system adjusts to gravitational and inertial loads differently. The human hand is a gold mine for researchers interested in the control of natural human

  4. False targets vs. redundancy in homogeneous parallel systems

    International Nuclear Information System (INIS)

    Levitin, Gregory; Hausken, Kjell

    2009-01-01

    System defense against natural threats and disasters that have a stochastic nature includes providing redundancy and protecting system elements. The defense against strategic intentional attacks can also include deploying false targets aimed at misleading the attacker. Distribution of the available resources among different defensive means is an important problem that arises in organizing the defense of complex civil infrastructures, industrial systems or military objects. The article considers defense resource allocation in a system exposed to external intentional attack. The expected damage caused by the attack is evaluated as system unsupplied demand. The defender distributes its limited resource between deploying redundant genuine elements and false elements, both of which are targets of attack. The attacker attacks a subset of the elements and distributes its limited resource evenly among the attacked elements. Two cases are considered: in the first one the number of attacked elements and the vulnerability of each genuine element are fixed and the defense resource distribution is determined as a solution of an optimization problem; in the second one the number of attacked elements is the attacker's free choice variable and the element's vulnerability depends on a contest determined by the defender's and attacker's resources allocated to each element. The defender's optimal resource distribution strategy is determined as a solution of a two-period minmax game. It is shown that the optimal number of genuine elements decreases monotonically with the growth of the element cost and vulnerability, whereas the optimal number of false elements demonstrates non-monotonic behavior. The contest intensity is an important factor influencing the optimal defense resource distribution. It cannot be ignored when the defense strategy is determined, and it thus also impacts the attack strategy

  5. The Msi Family of RNA-Binding Proteins Function Redundantly as Intestinal Oncoproteins

    Directory of Open Access Journals (Sweden)

    Ning Li

    2015-12-01

    Full Text Available Members of the Msi family of RNA-binding proteins have recently emerged as potent oncoproteins in a range of malignancies. MSI2 is highly expressed in hematopoietic cancers, where it is required for disease maintenance. In contrast to the hematopoietic system, colorectal cancers can express both Msi family members, MSI1 and MSI2. Here, we demonstrate that, in the intestinal epithelium, Msi1 and Msi2 have analogous oncogenic effects. Further, comparison of Msi1/2-induced gene expression programs and transcriptome-wide analyses of Msi1/2-RNA-binding targets reveal significant functional overlap, including induction of the PDK-Akt-mTORC1 axis. Ultimately, we demonstrate that concomitant loss of function of both MSI family members is sufficient to abrogate the growth of human colorectal cancer cells, and Msi gene deletion inhibits tumorigenesis in several mouse models of intestinal cancer. Our findings demonstrate that MSI1 and MSI2 act as functionally redundant oncoproteins required for the ontogeny of intestinal cancers.

  6. Nppa and Nppb act redundantly during zebrafish cardiac development to confine AVC marker expression and reduce cardiac jelly volume.

    Science.gov (United States)

    Grassini, Daniela R; Lagendijk, Anne K; De Angelis, Jessica E; Da Silva, Jason; Jeanes, Angela; Zettler, Nicole; Bower, Neil I; Hogan, Benjamin M; Smith, Kelly A

    2018-05-11

    Atrial natriuretic peptide ( nppa/anf ) and brain natriuretic peptide ( nppb/bnp ) form a gene cluster with expression in the chambers of the developing heart. Despite restricted expression, a function in cardiac development has not been demonstrated by mutant analysis. This is attributed to functional redundancy however their genomic location in cis has impeded formal analysis. Using genome-editing, we generated mutants for nppa and nppb and found single mutants indistinguishable from wildtype whereas nppa / nppb double mutants display heart morphogenesis defects and pericardial oedema. Analysis of atrioventricular canal (AVC) markers show expansion of bmp4 , tbx2b, has2 and versican expression into the atrium of double mutants. This expanded expression correlates with increased extracellular matrix in the atrium. Using a biosensor for Hyaluronic acid to measure the cardiac jelly (cardiac extracellular matrix), we confirm cardiac jelly expansion in nppa / nppb double mutants. Finally, bmp4 knockdown rescues the expansion of has2 expression and cardiac jelly in double mutants. This definitively shows that nppa and nppb function redundantly during cardiac development to restrict gene expression to the AVC, preventing excessive cardiac jelly synthesis in the atrial chamber. © 2018. Published by The Company of Biologists Ltd.

  7. A large scale analysis of cDNA in Arabidopsis thaliana: generation of 12,028 non-redundant expressed sequence tags from normalized and size-selected cDNA libraries.

    Science.gov (United States)

    Asamizu, E; Nakamura, Y; Sato, S; Tabata, S

    2000-06-30

    For comprehensive analysis of genes expressed in the model dicotyledonous plant, Arabidopsis thaliana, expressed sequence tags (ESTs) were accumulated. Normalized and size-selected cDNA libraries were constructed from aboveground organs, flower buds, roots, green siliques and liquid-cultured seedlings, respectively, and a total of 14,026 5'-end ESTs and 39,207 3'-end ESTs were obtained. The 3'-end ESTs could be clustered into 12,028 non-redundant groups. Similarity search of the non-redundant ESTs against the public non-redundant protein database indicated that 4816 groups show similarity to genes of known function, 1864 to hypothetical genes, and the remaining 5348 are novel sequences. Gene coverage by the non-redundant ESTs was analyzed using the annotated genomic sequences of approximately 10 Mb on chromosomes 3 and 5. A total of 923 regions were hit by at least one EST, among which only 499 regions were hit by the ESTs deposited in the public database. The result indicates that the EST source generated in this project complements the EST data in the public database and facilitates new gene discovery.

  8. Functional analysis of the cellulose synthase-like genes CSLD1, CSLD2 and CSLD4 in tip-growing arabidopsis cells

    DEFF Research Database (Denmark)

    Bernal Giraldo, Adriana Jimena; Yoo, Cheol-Min; Mutwil, Marek

    2008-01-01

    A reverse genetic approach was used to investigate the functions of three members of the cellulose synthase superfamily in Arabidopsis (Arabidopsis thaliana), CELLULOSE SYNTHASE-LIKE D1 (CSLD1), CSLD2, and CSLD4. CSLD2 is required for normal root hair growth but has a different role from that pre......A reverse genetic approach was used to investigate the functions of three members of the cellulose synthase superfamily in Arabidopsis (Arabidopsis thaliana), CELLULOSE SYNTHASE-LIKE D1 (CSLD1), CSLD2, and CSLD4. CSLD2 is required for normal root hair growth but has a different role from...... for insertions in these genes were partially rescued by reduced temperature growth. However, this was not the case for a double mutant homozygous for insertions in both CSLD2 and CSLD3, suggesting that there may be partial redundancy in the functions of these genes. Mutants in CSLD1 and CSLD4 had a defect...

  9. Redundancy in electronic health record corpora: analysis, impact on text mining performance and mitigation strategies.

    Science.gov (United States)

    Cohen, Raphael; Elhadad, Michael; Elhadad, Noémie

    2013-01-16

    The increasing availability of Electronic Health Record (EHR) data and specifically free-text patient notes presents opportunities for phenotype extraction. Text-mining methods in particular can help disease modeling by mapping named-entities mentions to terminologies and clustering semantically related terms. EHR corpora, however, exhibit specific statistical and linguistic characteristics when compared with corpora in the biomedical literature domain. We focus on copy-and-paste redundancy: clinicians typically copy and paste information from previous notes when documenting a current patient encounter. Thus, within a longitudinal patient record, one expects to observe heavy redundancy. In this paper, we ask three research questions: (i) How can redundancy be quantified in large-scale text corpora? (ii) Conventional wisdom is that larger corpora yield better results in text mining. But how does the observed EHR redundancy affect text mining? Does such redundancy introduce a bias that distorts learned models? Or does the redundancy introduce benefits by highlighting stable and important subsets of the corpus? (iii) How can one mitigate the impact of redundancy on text mining? We analyze a large-scale EHR corpus and quantify redundancy both in terms of word and semantic concept repetition. We observe redundancy levels of about 30% and non-standard distribution of both words and concepts. We measure the impact of redundancy on two standard text-mining applications: collocation identification and topic modeling. We compare the results of these methods on synthetic data with controlled levels of redundancy and observe significant performance variation. Finally, we compare two mitigation strategies to avoid redundancy-induced bias: (i) a baseline strategy, keeping only the last note for each patient in the corpus; (ii) removing redundant notes with an efficient fingerprinting-based algorithm. (a)For text mining, preprocessing the EHR corpus with fingerprinting yields

  10. Partial tooth gear bearings

    Science.gov (United States)

    Vranish, John M. (Inventor)

    2010-01-01

    A partial gear bearing including an upper half, comprising peak partial teeth, and a lower, or bottom, half, comprising valley partial teeth. The upper half also has an integrated roller section between each of the peak partial teeth with a radius equal to the gear pitch radius of the radially outwardly extending peak partial teeth. Conversely, the lower half has an integrated roller section between each of the valley half teeth with a radius also equal to the gear pitch radius of the peak partial teeth. The valley partial teeth extend radially inwardly from its roller section. The peak and valley partial teeth are exactly out of phase with each other, as are the roller sections of the upper and lower halves. Essentially, the end roller bearing of the typical gear bearing has been integrated into the normal gear tooth pattern.

  11. Equivalence of velocity-level and acceleration-level redundancy-resolution of manipulators

    International Nuclear Information System (INIS)

    Cai Binghuang; Zhang Yunong

    2009-01-01

    The equivalence of velocity-level and acceleration-level redundancy resolution of robot manipulators is investigated in this Letter. Theoretical analysis based on gradient-descent method and computer simulations based on PUMA560 robot manipulator both demonstrate the equivalence of redundancy-resolution schemes at different levels.

  12. Maximization of learning speed in the motor cortex due to neuronal redundancy.

    Directory of Open Access Journals (Sweden)

    Ken Takiyama

    2012-01-01

    Full Text Available Many redundancies play functional roles in motor control and motor learning. For example, kinematic and muscle redundancies contribute to stabilizing posture and impedance control, respectively. Another redundancy is the number of neurons themselves; there are overwhelmingly more neurons than muscles, and many combinations of neural activation can generate identical muscle activity. The functional roles of this neuronal redundancy remains unknown. Analysis of a redundant neural network model makes it possible to investigate these functional roles while varying the number of model neurons and holding constant the number of output units. Our analysis reveals that learning speed reaches its maximum value if and only if the model includes sufficient neuronal redundancy. This analytical result does not depend on whether the distribution of the preferred direction is uniform or a skewed bimodal, both of which have been reported in neurophysiological studies. Neuronal redundancy maximizes learning speed, even if the neural network model includes recurrent connections, a nonlinear activation function, or nonlinear muscle units. Furthermore, our results do not rely on the shape of the generalization function. The results of this study suggest that one of the functional roles of neuronal redundancy is to maximize learning speed.

  13. Minister wants age balance to play greater role in redundancy selection

    NARCIS (Netherlands)

    Grünell, M.

    2004-01-01

    In May 2004, the Dutch Minister of Social Affairs proposed changes to the statutory rules on selection for redundancy, with less emphasis on the last in, first out seniority-based principle and a greater focus on distributing the redundancies between employees of different ages. The social partners

  14. Solving the redundancy allocation problem with multiple strategy choices using a new simplified particle swarm optimization

    International Nuclear Information System (INIS)

    Kong, Xiangyong; Gao, Liqun; Ouyang, Haibin; Li, Steven

    2015-01-01

    In most research on redundancy allocation problem (RAP), the redundancy strategy for each subsystem is assumed to be predetermined and fixed. This paper focuses on a specific RAP with multiple strategy choices (RAP-MSC), in which both active redundancy and cold standby redundancy can be selected as an additional decision variable for individual subsystems. To do so, the component type, redundancy strategy and redundancy level for each subsystem should be chosen subject to the system constraints appropriately such that the system reliability is maximized. Meanwhile, imperfect switching for cold standby redundancy is considered and a k-Erlang distribution is introduced to model the time-to-failure component as well. Given the importance and complexity of RAP-MSC, we propose a new efficient simplified version of particle swarm optimization (SPSO) to solve such NP-hard problems. In this method, a new position updating scheme without velocity is presented with stochastic disturbance and a low probability. Moreover, it is compared with several well-known PSO variants and other state-of-the-art approaches in the literature to evaluate its performance. The experiment results demonstrate the superiority of SPSO as an alternative for solving the RAP-MSC. - Highlights: • A more realistic RAP form with multiple strategy choices is focused. • Redundancy strategies are to be selected rather than fixed in general RAP. • A new simplified particle swarm optimization is proposed. • Higher reliabilities are achieved than the state-of-the-art approaches.

  15. Essays on partial retirement

    NARCIS (Netherlands)

    Kantarci, T.

    2012-01-01

    The five essays in this dissertation address a range of topics in the micro-economic literature on partial retirement. The focus is on the labor market behavior of older age groups. The essays examine the economic and non-economic determinants of partial retirement behavior, the effect of partial

  16. Management of redundancy in flight control systems using optimal decision theory

    Science.gov (United States)

    1981-01-01

    The problem of using redundancy that exists between dissimilar systems in aircraft flight control is addressed. That is, using the redundancy that exists between a rate gyro and an accelerometer--devices that have dissimilar outputs which are related only through the dynamics of the aircraft motion. Management of this type of redundancy requires advanced logic so that the system can monitor failure status and can reconfigure itself in the event of one or more failures. An optimal decision theory was tutorially developed for the management of sensor redundancy and the theory is applied to two aircraft examples. The first example is the space shuttle and the second is a highly maneuvering high performance aircraft--the F8-C. The examples illustrate the redundancy management design process and the performance of the algorithms presented in failure detection and control law reconfiguration.

  17. Detection of Multiple Budding Yeast Cells and a Partial Sequence of 43-kDa Glycoprotein Coding Gene of Paracoccidioides brasiliensis from a Case of Lacaziosis in a Female Pacific White-Sided Dolphin (Lagenorhynchus obliquidens).

    Science.gov (United States)

    Minakawa, Tomoko; Ueda, Keiichi; Tanaka, Miyuu; Tanaka, Natsuki; Kuwamura, Mitsuru; Izawa, Takeshi; Konno, Toshihiro; Yamate, Jyoji; Itano, Eiko Nakagawa; Sano, Ayako; Wada, Shinpei

    2016-08-01

    Lacaziosis, formerly called as lobomycosis, is a zoonotic mycosis, caused by Lacazia loboi, found in humans and dolphins, and is endemic in the countries on the Atlantic Ocean, Indian Ocean and Pacific Ocean of Japanese coast. Susceptible Cetacean species include the bottlenose dolphin (Tursiops truncatus), the Indian Ocean bottlenose dolphin (T. aduncus), and the estuarine dolphin (Sotalia guianensis); however, no cases have been recorded in other Cetacean species. We diagnosed a case of Lacaziosis in a Pacific white-sided dolphin (Lagenorhynchus obliquidens) nursing in an aquarium in Japan. The dolphin was a female estimated to be more than 14 years old at the end of June 2015 and was captured in a coast of Japan Sea in 2001. Multiple, lobose, and solid granulomatous lesions with or without ulcers appeared on her jaw, back, flipper and fluke skin, in July 2014. The granulomatous skin lesions from the present case were similar to those of our previous cases. Multiple budding and chains of round yeast cells were detected in the biopsied samples. The partial sequence of 43-kDa glycoprotein coding gene confirmed by a nested PCR and sequencing, which revealed a different genotype from both Amazonian and Japanese lacaziosis in bottlenose dolphins, and was 99 % identical to those derived from Paracoccidioides brasiliensis; a sister fungal species to L. loboi. This is the first case of lacaziosis in Pacific white-sided dolphin.

  18. Does plant species richness guarantee the resilience of local medical systems? A perspective from utilitarian redundancy.

    Directory of Open Access Journals (Sweden)

    Flávia Rosa Santoro

    Full Text Available Resilience is related to the ability of a system to adjust to disturbances. The Utilitarian Redundancy Model has emerged as a tool for investigating the resilience of local medical systems. The model determines the use of species richness for the same therapeutic function as a facilitator of the maintenance of these systems. However, predictions generated from this model have not yet been tested, and a lack of variables exists for deeper analyses of resilience. This study aims to address gaps in the Utilitarian Redundancy Model and to investigate the resilience of two medical systems in the Brazilian semi-arid zone. As a local illness is not always perceived in the same way that biomedicine recognizes, the term "therapeutic targets" is used for perceived illnesses. Semi-structured interviews with local experts were conducted using the free-listing technique to collect data on known medicinal plants, usage preferences, use of redundant species, characteristics of therapeutic targets, and the perceived severity for each target. Additionally, participatory workshops were conducted to determine the frequency of targets. The medical systems showed high species richness but low levels of species redundancy. However, if redundancy was present, it was the primary factor responsible for the maintenance of system functions. Species richness was positively associated with therapeutic target frequencies and negatively related to target severity. Moreover, information about redundant species seems to be largely idiosyncratic; this finding raises questions about the importance of redundancy for resilience. We stress the Utilitarian Redundancy Model as an interesting tool to be used in studies of resilience, but we emphasize that it must consider the distribution of redundancy in terms of the treatment of important illnesses and the sharing of information. This study has identified aspects of the higher and lower vulnerabilities of medical systems, adding

  19. Past and Present Biophysical Redundancy of Countries as a Buffer to Changes in Food Supply

    Science.gov (United States)

    Fader, Marianela; Rulli, Maria Cristina; Carr, Joel; Dell' Angelo, Jampel; D' Odorico, Paolo; Gephart, Jessica A.; Kummu, Matti; Magliocca, Nicholas; Porkka, Miina; Prell, Christina; hide

    2016-01-01

    Spatially diverse trends in population growth, climate change, industrialization, urbanization and economic development are expected to change future food supply and demand. These changes may affect the suitability of land for food production, implying elevated risks especially for resource constrained, food-importing countries. We present the evolution of biophysical redundancy for agricultural production at country level, from 1992 to 2012. Biophysical redundancy, defined as unused biotic and abiotic environmental resources, is represented by the potential food production of 'spare land', available water resources (i.e., not already used for human activities), as well as production increases through yield gap closure on cultivated areas and potential agricultural areas. In 2012, the biophysical redundancy of 75 (48) countries, mainly in North Africa, Western Europe, the Middle East and Asia, was insufficient to produce the caloric nutritional needs for at least 50% (25%) of their population during a year. Biophysical redundancy has decreased in the last two decades in 102 out of 155 countries, 11 of these went from high to limited redundancy, and nine of these from limited to very low redundancy. Although the variability of the drivers of change across different countries is high, improvements in yield and population growth have a clear impact on the decreases of redundancy towards the very low redundancy category. We took a more detailed look at countries classified as 'Low Income Economies (LIEs)' since they are particularly vulnerable to domestic or external food supply changes, due to their limited capacity to offset for food supply decreases with higher purchasing power on the international market. Currently, nine LIEs have limited or very low biophysical redundancy. Many of these showed a decrease in redundancy over the last two decades, which is not always linked with improvements in per capita food availability.

  20. Past and present biophysical redundancy of countries as a buffer to changes in food supply

    Science.gov (United States)

    Fader, Marianela; Rulli, Maria Cristina; Carr, Joel; Dell'Angelo, Jampel; D'Odorico, Paolo; Gephart, Jessica A.; Kummu, Matti; Magliocca, Nicholas; Porkka, Miina; Prell, Christina; Puma, Michael J.; Ratajczak, Zak; Seekell, David A.; Suweis, Samir; Tavoni, Alessandro

    2016-05-01

    Spatially diverse trends in population growth, climate change, industrialization, urbanization and economic development are expected to change future food supply and demand. These changes may affect the suitability of land for food production, implying elevated risks especially for resource-constrained, food-importing countries. We present the evolution of biophysical redundancy for agricultural production at country level, from 1992 to 2012. Biophysical redundancy, defined as unused biotic and abiotic environmental resources, is represented by the potential food production of ‘spare land’, available water resources (i.e., not already used for human activities), as well as production increases through yield gap closure on cultivated areas and potential agricultural areas. In 2012, the biophysical redundancy of 75 (48) countries, mainly in North Africa, Western Europe, the Middle East and Asia, was insufficient to produce the caloric nutritional needs for at least 50% (25%) of their population during a year. Biophysical redundancy has decreased in the last two decades in 102 out of 155 countries, 11 of these went from high to limited redundancy, and nine of these from limited to very low redundancy. Although the variability of the drivers of change across different countries is high, improvements in yield and population growth have a clear impact on the decreases of redundancy towards the very low redundancy category. We took a more detailed look at countries classified as ‘Low Income Economies (LIEs)’ since they are particularly vulnerable to domestic or external food supply changes, due to their limited capacity to offset for food supply decreases with higher purchasing power on the international market. Currently, nine LIEs have limited or very low biophysical redundancy. Many of these showed a decrease in redundancy over the last two decades, which is not always linked with improvements in per capita food availability.

  1. Memoization in Type-Directed Partial Evaluation

    DEFF Research Database (Denmark)

    Balat, Vincent; Danvy, Olivier

    2002-01-01

    We use a code generator—type-directed partial evaluation— to verify conversions between isomorphic types, or more precisely to verify that a composite function is the identity function at some complicated type. A typed functional language such as ML provides a natural support to express the funct......We use a code generator—type-directed partial evaluation— to verify conversions between isomorphic types, or more precisely to verify that a composite function is the identity function at some complicated type. A typed functional language such as ML provides a natural support to express...... originate in the handling of sums, which uses delimited continuations. We successfully eliminate these redundancies by extending type-directed partial evaluation with memoization capabilities. The result only works for pure functional programs, but it provides an unexpected use of code generation...... and it yields orders-of-magnitude improvements both in time and in space for type isomorphisms. Basic Research in Computer Science (www. brics. dk), funded by the Danish National Research Foundation....

  2. A hybrid Jaya algorithm for reliability-redundancy allocation problems

    Science.gov (United States)

    Ghavidel, Sahand; Azizivahed, Ali; Li, Li

    2018-04-01

    This article proposes an efficient improved hybrid Jaya algorithm based on time-varying acceleration coefficients (TVACs) and the learning phase introduced in teaching-learning-based optimization (TLBO), named the LJaya-TVAC algorithm, for solving various types of nonlinear mixed-integer reliability-redundancy allocation problems (RRAPs) and standard real-parameter test functions. RRAPs include series, series-parallel, complex (bridge) and overspeed protection systems. The search power of the proposed LJaya-TVAC algorithm for finding the optimal solutions is first tested on the standard real-parameter unimodal and multi-modal functions with dimensions of 30-100, and then tested on various types of nonlinear mixed-integer RRAPs. The results are compared with the original Jaya algorithm and the best results reported in the recent literature. The optimal results obtained with the proposed LJaya-TVAC algorithm provide evidence for its better and acceptable optimization performance compared to the original Jaya algorithm and other reported optimal results.

  3. Video rate morphological processor based on a redundant number representation

    Science.gov (United States)

    Kuczborski, Wojciech; Attikiouzel, Yianni; Crebbin, Gregory A.

    1992-03-01

    This paper presents a video rate morphological processor for automated visual inspection of printed circuit boards, integrated circuit masks, and other complex objects. Inspection algorithms are based on gray-scale mathematical morphology. Hardware complexity of the known methods of real-time implementation of gray-scale morphology--the umbra transform and the threshold decomposition--has prompted us to propose a novel technique which applied an arithmetic system without carrying propagation. After considering several arithmetic systems, a redundant number representation has been selected for implementation. Two options are analyzed here. The first is a pure signed digit number representation (SDNR) with the base of 4. The second option is a combination of the base-2 SDNR (to represent gray levels of images) and the conventional twos complement code (to represent gray levels of structuring elements). Operation principle of the morphological processor is based on the concept of the digit level systolic array. Individual processing units and small memory elements create a pipeline. The memory elements store current image windows (kernels). All operation primitives of processing units apply a unified direction of digit processing: most significant digit first (MSDF). The implementation technology is based on the field programmable gate arrays by Xilinx. This paper justified the rationality of a new approach to logic design, which is the decomposition of Boolean functions instead of Boolean minimization.

  4. Accurate and diverse recommendations via eliminating redundant correlations

    Energy Technology Data Exchange (ETDEWEB)

    Zhou Tao; Su Riqi; Liu Runran; Jiang Luoluo; Wang Binghong [Department of Modern Physics and Nonlinear Science Center, University of Science and Technology of China, Hefei Anhui 230026 (China); Zhang Yicheng [Department of Physics, University of Fribourg, Chemin du Musee 3, CH-1700 Fribourg (Switzerland)], E-mail: bhwang@ustc.edu.cn

    2009-12-15

    In this paper, based on a weighted projection of a bipartite user-object network, we introduce a personalized recommendation algorithm, called network-based inference (NBI), which has higher accuracy than the classical algorithm, namely collaborative filtering. In NBI, the correlation resulting from a specific attribute may be repeatedly counted in the cumulative recommendations from different objects. By considering the higher order correlations, we design an improved algorithm that can, to some extent, eliminate the redundant correlations. We test our algorithm on two benchmark data sets, MovieLens and Netflix. Compared with NBI, the algorithmic accuracy, measured by the ranking score, can be further improved by 23 per cent for MovieLens and 22 per cent for Netflix. The present algorithm can even outperform the Latent Dirichlet Allocation algorithm, which requires much longer computational time. Furthermore, most previous studies considered the algorithmic accuracy only; in this paper, we argue that the diversity and popularity, as two significant criteria of algorithmic performance, should also be taken into account. With more or less the same accuracy, an algorithm giving higher diversity and lower popularity is more favorable. Numerical results show that the present algorithm can outperform the standard one simultaneously in all five adopted metrics: lower ranking score and higher precision for accuracy, larger Hamming distance and lower intra-similarity for diversity, as well as smaller average degree for popularity.

  5. Accurate and diverse recommendations via eliminating redundant correlations

    Science.gov (United States)

    Zhou, Tao; Su, Ri-Qi; Liu, Run-Ran; Jiang, Luo-Luo; Wang, Bing-Hong; Zhang, Yi-Cheng

    2009-12-01

    In this paper, based on a weighted projection of a bipartite user-object network, we introduce a personalized recommendation algorithm, called network-based inference (NBI), which has higher accuracy than the classical algorithm, namely collaborative filtering. In NBI, the correlation resulting from a specific attribute may be repeatedly counted in the cumulative recommendations from different objects. By considering the higher order correlations, we design an improved algorithm that can, to some extent, eliminate the redundant correlations. We test our algorithm on two benchmark data sets, MovieLens and Netflix. Compared with NBI, the algorithmic accuracy, measured by the ranking score, can be further improved by 23 per cent for MovieLens and 22 per cent for Netflix. The present algorithm can even outperform the Latent Dirichlet Allocation algorithm, which requires much longer computational time. Furthermore, most previous studies considered the algorithmic accuracy only; in this paper, we argue that the diversity and popularity, as two significant criteria of algorithmic performance, should also be taken into account. With more or less the same accuracy, an algorithm giving higher diversity and lower popularity is more favorable. Numerical results show that the present algorithm can outperform the standard one simultaneously in all five adopted metrics: lower ranking score and higher precision for accuracy, larger Hamming distance and lower intra-similarity for diversity, as well as smaller average degree for popularity.

  6. Accurate and diverse recommendations via eliminating redundant correlations

    International Nuclear Information System (INIS)

    Zhou Tao; Su Riqi; Liu Runran; Jiang Luoluo; Wang Binghong; Zhang Yicheng

    2009-01-01

    In this paper, based on a weighted projection of a bipartite user-object network, we introduce a personalized recommendation algorithm, called network-based inference (NBI), which has higher accuracy than the classical algorithm, namely collaborative filtering. In NBI, the correlation resulting from a specific attribute may be repeatedly counted in the cumulative recommendations from different objects. By considering the higher order correlations, we design an improved algorithm that can, to some extent, eliminate the redundant correlations. We test our algorithm on two benchmark data sets, MovieLens and Netflix. Compared with NBI, the algorithmic accuracy, measured by the ranking score, can be further improved by 23 per cent for MovieLens and 22 per cent for Netflix. The present algorithm can even outperform the Latent Dirichlet Allocation algorithm, which requires much longer computational time. Furthermore, most previous studies considered the algorithmic accuracy only; in this paper, we argue that the diversity and popularity, as two significant criteria of algorithmic performance, should also be taken into account. With more or less the same accuracy, an algorithm giving higher diversity and lower popularity is more favorable. Numerical results show that the present algorithm can outperform the standard one simultaneously in all five adopted metrics: lower ranking score and higher precision for accuracy, larger Hamming distance and lower intra-similarity for diversity, as well as smaller average degree for popularity.

  7. Redundant unbalance compensation of an active magnetic bearing system

    Science.gov (United States)

    Hutterer, Markus; Kalteis, Gerald; Schrödl, Manfred

    2017-09-01

    To achieve a good running behavior of a magnetic levitated rotor, a well-developed position controller and different compensation methods are required. Two very important structures in this context are the reduction of the gyroscopic effect and the unbalance vibration. Both structures have in common that they need the angular velocity information for calculation. For industrial applications this information is normally provided by an angle sensor which is fixed on the rotor. The angle information is also necessary for the field oriented control of the electrical drive. The main drawback of external position sensors are the case of a breakdown or an error of the motor controller. Therefore, the magnetic bearing can get unstable, because no angular velocity information is provided. To overcome this problem the presented paper describes the development of a selfsensing unbalance rejection in combination with a selfsensing speed control of the motor controller. Selfsensing means in this context that no angle sensor is required for the unbalance or torque control. With such structures two redundant speed and angle information sources are available and can be used for the magnetic bearing and the motor controller without the usage of an angle sensor.

  8. High performance 14-bit pipelined redundant signed digit ADC

    International Nuclear Information System (INIS)

    Narula, Swina; Pandey, Sujata

    2016-01-01

    A novel architecture of a pipelined redundant-signed-digit analog to digital converter (RSD-ADC) is presented featuring a high signal to noise ratio (SNR), spurious free dynamic range (SFDR) and signal to noise plus distortion (SNDR) with efficient background correction logic. The proposed ADC architecture shows high accuracy with a high speed circuit and efficient utilization of the hardware. This paper demonstrates the functionality of the digital correction logic of 14-bit pipelined ADC at each 1.5 bit/stage. This prototype of ADC architecture accounts for capacitor mismatch, comparator offset and finite Op-Amp gain error in the MDAC (residue amplification circuit) stages. With the proposed architecture of ADC, SNDR obtained is 85.89 dB, SNR is 85.9 dB and SFDR obtained is 102.8 dB at the sample rate of 100 MHz. This novel architecture of digital correction logic is transparent to the overall system, which is demonstrated by using 14-bit pipelined ADC. After a latency of 14 clocks, digital output will be available at every clock pulse. To describe the circuit behavior of the ADC, VHDL and MATLAB programs are used. The proposed architecture is also capable of reducing the digital hardware. Silicon area is also the complexity of the design. (paper)

  9. Skew redundant MEMS IMU calibration using a Kalman filter

    International Nuclear Information System (INIS)

    Jafari, M; Sahebjameyan, M; Moshiri, B; Najafabadi, T A

    2015-01-01

    In this paper, a novel calibration procedure for skew redundant inertial measurement units (SRIMUs) based on micro-electro mechanical systems (MEMS) is proposed. A general model of the SRIMU measurements is derived which contains the effects of bias, scale factor error and misalignments. For more accuracy, the effect of lever arms of the accelerometers to the center of the table are modeled and compensated in the calibration procedure. Two separate Kalman filters (KFs) are proposed to perform the estimation of error parameters for gyroscopes and accelerometers. The predictive error minimization (PEM) stochastic modeling method is used to simultaneously model the effect of bias instability and random walk noise on the calibration Kalman filters to diminish the biased estimations. The proposed procedure is simulated numerically and has expected experimental results. The calibration maneuvers are applied using a two-axis angle turntable in a way that the persistency of excitation (PE) condition for parameter estimation is met. For this purpose, a trapezoidal calibration profile is utilized to excite different deterministic error parameters of the accelerometers and a pulse profile is used for the gyroscopes. Furthermore, to evaluate the performance of the proposed KF calibration method, a conventional least squares (LS) calibration procedure is derived for the SRIMUs and the simulation and experimental results compare the functionality of the two proposed methods with each other. (paper)

  10. The disposal of redundant teletherapy units from NHS hospitals

    International Nuclear Information System (INIS)

    Gaffka, A.P.; Ord, M.A.

    1994-01-01

    The removal/disposal of redundant teletherapy units from NHS hospitals is described, detailing the operational procedures and the transport package background. The Harwell section of the Transport Technology Department has been carrying out these operations since 1991, where initially the service was just offered to the NHS; however, today their specialist transport service has significantly widened and is now offered to other business sectors. Due to the level of radioactivity found in each teletherapy unit, it was necessary to design a special transport packaging to meet the requirements for shipment of these units. Approval was sought from the Department of Transport to adapt a standard Type B package as no other packaging could be found to comply with the necessary requirements. All work undertaken on the removal and disposal of these units complied with an approved scheme of work and was carried out in accordance with a Quality Assurance workplan. However, to keep abreast of modern standards in a manner which is cost effective to customers and acceptable to the general public, the full development of a new Type B packaging is taking place, which is specifically designed to undertake these removal/disposal duties. (author)

  11. Reliability analysis of a complex standby redundant systems

    International Nuclear Information System (INIS)

    Subramanian, R.; Anantharaman, V.

    1995-01-01

    In any redundant system, the state of the standby unit is usually taken to be hot, warm or cold. In this paper, we present a new model of a two unit standby system wherein the standby unit is put in cold state for a certain amount of time before it is allowed to become warm. Upon failure of the online unit, the standby unit, if in warm state, instantaneously starts operating online; if it is in cold state, an emergency switching is made which takes it to warm state (and hence online) either instantaneously or non-instantaneously--each with some probability; if it is under repair, the system breaks down. Assuming all the associated distributions to be general except that of the life time of the standby unit in the warm state, various reliability characteristics that are of interest to reliability engineers and system designers are derived. A comprehensive cost function is also constructed and is then optimized with respect to three different control parameters numerically. In addition numerical results are presented to illustrate the behaviour of the various reliability characteristics derived

  12. Triple Modular Redundancy verification via heuristic netlist analysis

    Directory of Open Access Journals (Sweden)

    Giovanni Beltrame

    2015-08-01

    Full Text Available Triple Modular Redundancy (TMR is a common technique to protect memory elements for digital processing systems subject to radiation effects (such as in space, high-altitude, or near nuclear sources. This paper presents an approach to verify the correct implementation of TMR for the memory elements of a given netlist (i.e., a digital circuit specification using heuristic analysis. The purpose is detecting any issues that might incur during the use of automatic tools for TMR insertion, optimization, place and route, etc. Our analysis does not require a testbench and can perform full, exhaustive coverage within less than an hour even for large designs. This is achieved by applying a divide et impera approach, splitting the circuit into smaller submodules without loss of generality, instead of applying formal verification to the whole netlist at once. The methodology has been applied to a production netlist of the LEON2-FT processor that had reported errors during radiation testing, successfully showing a number of unprotected memory elements, namely 351 flip-flops.

  13. The error performance analysis over cyclic redundancy check codes

    Science.gov (United States)

    Yoon, Hee B.

    1991-06-01

    The burst error is generated in digital communication networks by various unpredictable conditions, which occur at high error rates, for short durations, and can impact services. To completely describe a burst error one has to know the bit pattern. This is impossible in practice on working systems. Therefore, under the memoryless binary symmetric channel (MBSC) assumptions, the performance evaluation or estimation schemes for digital signal 1 (DS1) transmission systems carrying live traffic is an interesting and important problem. This study will present some analytical methods, leading to efficient detecting algorithms of burst error using cyclic redundancy check (CRC) code. The definition of burst error is introduced using three different models. Among the three burst error models, the mathematical model is used in this study. The probability density function, function(b) of burst error of length b is proposed. The performance of CRC-n codes is evaluated and analyzed using function(b) through the use of a computer simulation model within CRC block burst error. The simulation result shows that the mean block burst error tends to approach the pattern of the burst error which random bit errors generate.

  14. Qualitative processing of uncertainty, conflicts and redundancy in knowledge bases

    International Nuclear Information System (INIS)

    Zbytovsky, V.

    1994-01-01

    This paper describes two techniques, created and implemented in the course of development of the real-time on-line expert system Recon at the Nuclear Research Institute at Rez, Czech Republic. The first of them is the qualitative processing of uncertainty, which is based on the introduction of the third logic value to logic data objects, and the credibility flag to arithmetic data objects. The treatment of the third value and credibility flags during the inference, the explanation method based on the graphic representation and the uncertainty processing during the explanation are also mentioned. The second technique, is a semantic checking of knowledge bases, which enables us to recover parts of the bases, that are meaningless, either because of an error during their implementation into a base, or because they are redundant. The paper includes the explanation of basic terms of this method, such as so called conflicts, K-group and K-situation. The two types of the conflict (dead-end and bubble) are also discussed. The paper also offers the complete mathematical apparatus, which the checking method is based on. (author). 4 refs, tabs

  15. Design of a redundant meteorological station for a BWR reactor

    International Nuclear Information System (INIS)

    Ramirez S, R.; Celis del Angel, L.; Bucio, F.; Rivero, T.; Palacios, J.

    2008-01-01

    In this work the design of a meteorological station for a reactor type BWR is proposed. Two independent channels of data acquisition that allow him to have a bigger readiness is exposed. It is incorporate sensors without mobile parts to measure speed, wind direction and pluvial precipitation. It also counts, with sensors of global solar radiation, net radiation, barometric pressure, relative humidity and ambient temperature; with them they are possible to be calculated, moreover, other variables as temperature differential, dew point and atmospheric stability. The sensors are placed on a tower to different heights and send their information (each second) to a local registration system, the one which in turn, it remits the data to the monitoring office so that a computer is linked with the system, display and management the information in real time and automatic way. The redundant structure allows that in the event of maintenance the data acquisition is not interrupted, even if the information is transferred to another place. In all the station sections it is used protocols of standard communication to allow that a great quantity of devices can be connected without major problem. The above-mentioned would allow to the operators in the control room to have reliable information during the whole time of the reactor operation. (Author)

  16. A Reliable Bistable Board Implementation through I/O Redundancy

    International Nuclear Information System (INIS)

    Kim, Min Gyu; Chung, Tae Hyok; Lee, Youn Sang; Kim, Tae Hee; Song, Seung Hwan

    2010-01-01

    Nuclear power plant safety systems and related equipment used in the design, including an accident in all driving conditions that must be proven In addition, the safety-related equipment that is derived according to the digitization of the safety equipment is the most important factors. Therefore, it is necessary to prove that the device was satisfied the requirements for a given performance for safety-related digital equipment for the life of the installation. These proven is done through the process, design verification of the equipment, production management, such as installation and maintenance. Among other things, it is most important to implement of the performance and reliability features the safety-related equipment in the design phase. In this paper, Bistable Board implemented to generate a ESF sign-on signal throughout the signal processing of input signal from sensors. Also, for the reliable signal input and output, I/O Module that implements the redundancy increases the reliability of the Bistable Board , to verify the performance of safety-related equipment

  17. State Estimation for Robots with Complementary Redundant Sensors

    Directory of Open Access Journals (Sweden)

    Daniele Carnevale

    2015-10-01

    Full Text Available In this paper, robots equipped with two complementary typologies of redundant sensors are considered: one typology provides sharp measures of some geometrical entity related to the robot pose (e.g., distance or angle but is not univocally associated with this quantity; the other typology is univocal but is characterized by a low level of precision. A technique is proposed to properly combine these two kinds of measurement both in a stochastic and in a deterministic context. This framework may occur in robotics, for example, when the distance from a known landmark is detected by two different sensors, one based on the signal strength or time of flight of the signal, while the other one measures the phase-shift of the signal, which has a sharp but periodical dependence on the robot-landmark distance. In the stochastic case, an effective solution is a two-stage extended Kalman filter (EKF which exploits the precise periodic signal only when the estimate of the robot position is sufficiently precise. In the deterministic setting, an approach based on a switching hybrid observer is proposed, and results are analyzed via simulation examples.

  18. DID RAMSEY EVER ENDORSE A REDUNDANCY THEORY OF TRUTH?

    Directory of Open Access Journals (Sweden)

    María J. Frápolli

    2013-11-01

    Full Text Available This paper deals with Ramsey´s theory of truth and its aim is twofold: on the one hand, it will explain what position about truth Ramsey actually defended, and, on the other hand, we will pursue Ramsey’s insight in the XXth century. When the name of Frank Ramsey is mentioned, one of the things that comes to mind is the theory of truth as redundancy. In the following pages we will argue that Ramsey never supported such a theory, but rather an analysis of truth noticeably similar to the prosentential account. In fact, the very word “pro-sentence” appears for the first time in the XXth Century in Ramsey´s unfinished work “The nature of truth”, written around 1929. Besides, we will show that the prosentential account of truth is a neglected trend throughout the history of analytic philosophy, even though relevant analytic philosophers, such as Prior, Strawson, Williams, Grover and Brandom, have endorsed it.

  19. Recurrent Partial Words

    Directory of Open Access Journals (Sweden)

    Francine Blanchet-Sadri

    2011-08-01

    Full Text Available Partial words are sequences over a finite alphabet that may contain wildcard symbols, called holes, which match or are compatible with all letters; partial words without holes are said to be full words (or simply words. Given an infinite partial word w, the number of distinct full words over the alphabet that are compatible with factors of w of length n, called subwords of w, refers to a measure of complexity of infinite partial words so-called subword complexity. This measure is of particular interest because we can construct partial words with subword complexities not achievable by full words. In this paper, we consider the notion of recurrence over infinite partial words, that is, we study whether all of the finite subwords of a given infinite partial word appear infinitely often, and we establish connections between subword complexity and recurrence in this more general framework.

  20. Maxwell Equations and the Redundant Gauge Degree of Freedom

    Science.gov (United States)

    Wong, Chun Wa

    2009-01-01

    On transformation to the Fourier space (k,[omega]), the partial differential Maxwell equations simplify to algebraic equations, and the Helmholtz theorem of vector calculus reduces to vector algebraic projections. Maxwell equations and their solutions can then be separated readily into longitudinal and transverse components relative to the…

  1. The conserved WW-domain binding sites in Dystroglycan C-terminus are essential but partially redundant for Dystroglycan function

    DEFF Research Database (Denmark)

    Yatsenko, A S; Kucherenko, M M; Pantoja, M

    2009-01-01

    BACKGROUND: Dystroglycan (Dg) is a transmembrane protein that is a part of the Dystrophin Glycoprotein Complex (DGC) which connects the extracellular matrix to the actin cytoskeleton. The C-terminal end of Dg contains a number of putative SH3, SH2 and WW domain binding sites. The most C...

  2. The conserved WW-domain binding sites in Dystroglycan C-terminus are essential but partially redundant for Dystroglycan function

    Directory of Open Access Journals (Sweden)

    Deng W-M

    2009-02-01

    Full Text Available Abstract Background Dystroglycan (Dg is a transmembrane protein that is a part of the Dystrophin Glycoprotein Complex (DGC which connects the extracellular matrix to the actin cytoskeleton. The C-terminal end of Dg contains a number of putative SH3, SH2 and WW domain binding sites. The most C-terminal PPXY motif has been established as a binding site for Dystrophin (Dys WW-domain. However, our previous studies indicate that both Dystroglycan PPXY motives, WWbsI and WWbsII can bind Dystrophin protein in vitro. Results We now find that both WW binding sites are important for maintaining full Dg function in the establishment of oocyte polarity in Drosophila. If either WW binding site is mutated, the Dg protein can still be active. However, simultaneous mutations in both WW binding sites abolish the Dg activities in both overexpression and loss-of-function oocyte polarity assays in vivo. Additionally, sequence comparisons of WW binding sites in 12 species of Drosophila, as well as in humans, reveal a high level of conservation. This preservation throughout evolution supports the idea that both WW binding sites are functionally required. Conclusion Based on the obtained results we propose that the presence of the two WW binding sites in Dystroglycan secures the essential interaction between Dg and Dys and might further provide additional regulation for the cytoskeletal interactions of this complex.

  3. Nuclear import of human MLH1, PMS2, and MutLalpha: redundancy is the key.

    Science.gov (United States)

    Leong, Vivian; Lorenowicz, Jessica; Kozij, Natalie; Guarné, Alba

    2009-08-01

    DNA mismatch repair maintains genomic stability by correcting errors that have escaped polymerase proofreading. Defects on mismatch repair genes lead to an increased mutation rate, microsatellite instability and predisposition to human non-polyposis colorectal cancer (HNPCC). Human MutLalpha is a heterodimer formed by the interaction of MLH1 and PMS2 that coordinates a series of key events in mismatch repair. It has been proposed that nuclear import of MutLalpha may be the first regulatory step on the activation of the mismatch repair pathway. Using confocal microscopy and mismatch repair deficient cells, we have identified the sequence determinants that drive nuclear import of human MLH1, PMS2, and MutLalpha. Transient transfection of the individual proteins reveals that MLH1 has a bipartite and PMS2 has a single monopartite nuclear localization signal. Although dimerization is not required for nuclear localization, the MutLalpha heterodimer is imported more efficiently than the MLH1 or PMS2 monomers. Interestingly, the bipartite localization signal of MLH1 can direct import of MutLalpha even when PMS2 encompasses a mutated localization signal. Hence we conclude that the presence of redundant nuclear localization signals guarantees nuclear transport of MutLalpha and, consequently, efficient mismatch repair.

  4. Redundant roles of Sox17 and Sox18 in early cardiovascular development of mouse embryos

    International Nuclear Information System (INIS)

    Sakamoto, Youhei; Hara, Kenshiro; Kanai-Azuma, Masami; Matsui, Toshiyasu; Miura, Yutaroh; Tsunekawa, Naoki; Kurohmaru, Masamichi; Saijoh, Yukio; Koopman, Peter; Kanai, Yoshiakira

    2007-01-01

    Sox7, -17 and -18 constitute the Sox subgroup F (SoxF) of HMG box transcription factor genes, which all are co-expressed in developing vascular endothelial cells in mice. Here we characterized cardiovascular phenotypes of Sox17/Sox18-double and Sox17-single null embryos during early-somite stages. Whole-mount PECAM staining demonstrated the aberrant heart looping, enlarged cardinal vein and mild defects in anterior dorsal aorta formation in Sox17 single-null embryos. The Sox17/Sox18 double-null embryos showed more severe defects in formation of anterior dorsal aorta and head/cervical microvasculature, and in some cases, aberrant differentiation of endocardial cells and defective fusion of the endocardial tube. However, the posterior dorsal aorta and allantoic microvasculature was properly formed in all of the Sox17/Sox18 double-null embryos. The anomalies in both anterior dorsal aorta and head/cervical vasculature corresponded with the weak Sox7 expression sites. This suggests the region-specific redundant activities of three SoxF members along the anteroposterior axis of embryonic vascular network

  5. Genome-wide CRISPR-Cas9 Screens Reveal Loss of Redundancy between PKMYT1 and WEE1 in Glioblastoma Stem-like Cells

    Directory of Open Access Journals (Sweden)

    Chad M. Toledo

    2015-12-01

    Full Text Available To identify therapeutic targets for glioblastoma (GBM, we performed genome-wide CRISPR-Cas9 knockout (KO screens in patient-derived GBM stem-like cells (GSCs and human neural stem/progenitors (NSCs, non-neoplastic stem cell controls, for genes required for their in vitro growth. Surprisingly, the vast majority GSC-lethal hits were found outside of molecular networks commonly altered in GBM and GSCs (e.g., oncogenic drivers. In vitro and in vivo validation of GSC-specific targets revealed several strong hits, including the wee1-like kinase, PKMYT1/Myt1. Mechanistic studies demonstrated that PKMYT1 acts redundantly with WEE1 to inhibit cyclin B-CDK1 activity via CDK1-Y15 phosphorylation and to promote timely completion of mitosis in NSCs. However, in GSCs, this redundancy is lost, most likely as a result of oncogenic signaling, causing GBM-specific lethality.

  6. 3D seismic denoising based on a low-redundancy curvelet transform

    International Nuclear Information System (INIS)

    Cao, Jingjie; Zhao, Jingtao; Hu, Zhiying

    2015-01-01

    Contamination of seismic signal with noise is one of the main challenges during seismic data processing. Several methods exist for eliminating different types of noises, but optimal random noise attenuation remains difficult. Based on multi-scale, multi-directional locality of curvelet transform, the curvelet thresholding method is a relatively new method for random noise elimination. However, the high redundancy of a 3D curvelet transform makes its computational time and memory for massive data processing costly. To improve the efficiency of the curvelet thresholding denoising, a low-redundancy curvelet transform was introduced. The redundancy of the low-redundancy curvelet transform is approximately one-quarter of the original transform and the tightness of the original transform is also kept, thus the low-redundancy curvelet transform calls for less memory and computational resource compared with the original one. Numerical results on 3D synthetic and field data demonstrate that the low-redundancy curvelet denoising consumes one-quarter of the CPU time compared with the original curvelet transform using iterative thresholding denoising when comparable results are obtained. Thus, the low-redundancy curvelet transform is a good candidate for massive seismic denoising. (paper)

  7. Comparison of Fresnel zone plates and uniformly redundant arrays

    International Nuclear Information System (INIS)

    Fenimore, E.E.; Cannon, T.M.; Miller, E.L.

    1978-01-01

    Several imaging systems in laser fusion, e-beam fusion, and astronomy employ a Fresnel zone plate (FZP) as a coded aperture. The recent development of uniformly redundant arrays (URAs) promises several improvements in these systems. The first advantage of the URA is the fact that its modulation transfer function (MTF) is the same as the MTF of a single pinhole, whereas the MTF of an FZP is an erratic function including some small values. This means that if inverse filtering is used, the URA will be less susceptible to noise. If a correlation analysis is used, the FZP will produce artifacts whereas the URA has no artifacts (assuming planar sources). Both the FZP and URA originated from functions which had flat MTFs. However, practical considerations in the implementation of the FZP detracted from its good characteristics whereas the URA was only mildly affected. The second advantage of the URA is that it better utilizes the available detector area. With the FZP, the aperture should be smaller than the detector in order to maintain the full angular resolution corresponding to the thinnest zone. The cyclic nature of the URA allows one to mosaic it in such a way that the entire detector area collects photons from all of the sources within the field of view while maintaining the full angular resolution. If the FZP is as large (or larger) than the detector, all parts of the source will not be resolved with the same resolution. The FZP does have some advantages, in particular its radial symmetry eases the alignment problem; it has a convenient optical decoding method; and higher diffraction order reconstruction might provide better spatial resolution

  8. FIXUP2007, ENDF Format Redundant Cross-Sections Check

    International Nuclear Information System (INIS)

    2007-01-01

    1 - Description of program or function: FIXUP is designed to read evaluated data in the ENDF/B format, perform corrections and output the results in the ENDF/B format. One of the most important functions of this code is to redefine all redundant cross sections to be exactly equal to the sum of its parts. IAEA1309/11: This version includes the updates up to January 30, 2007. Changes in ENDF/B-VII Format and procedures, as well as the evaluations themselves, make it impossible for versions of the ENDF/B pre-processing codes earlier than PREPRO 2007 (2007 Version) to accurately process current ENDF/B-VII evaluations. The present code can handle all existing ENDF/B-VI evaluations through release 8, which will be the last release of ENDF/B-VI. Modifications from previous versions: - Fixup VERS. 2007-1 (Jan. 2007): checked against all ENDF/B-VII; increased page size from 60,000 to 600,000 data points 2 - Method of solution: FIXUP: All MAT numbers on an ENDF/B tape are processed; each MAT is treated separately. Within each MAT, each section before and after MF=3 is read, checked/corrected and output. When MF=3 is located, all cross sections are read, sections deleted, created, checked/corrected (based on user input) and after several intermediate stages written to output. 3 - Restrictions on the complexity of the problem: The program uses only the ENDF/B BCD format tape and copy all sections except File 3 as read. It is assumed that the data is correctly coded. No error checking is performed. Since File 3 data are in identical format for ENDF/B versions I through VI, the program can be used with all these versions. - All data in file 3 and 23 must be linearly interpolable

  9. Roles of HMGA proteins in cancer: Expression, pathways, and redundancies

    Directory of Open Access Journals (Sweden)

    Giancotti V

    2016-10-01

    Full Text Available The expression of the High Mobility Group A (HMGA proteins, their participation in cancer signalling pathways, and their redundant functions have been reviewed in seven types of cancer: breast, colorectal, prostate, lung, ovarian, thyroid, and brain. The analysis of cell lines and tumours revealed an elevated level of their expression in all fully transformed cancer systems, which represents a step of the main cancer signalling pathways. In breast, colorectal, prostate, and lung cancers Wnt/β-catenin pathway is a master inducer of cell transformation in which are deeply involved HMG A1 and A2 proteins. On the other hand, IL-6/Stat3 pathway is responsible for cancer transformation in breast, lung, and prostate. The expression of HMGA1 in lung and ovarian cancers is due to an active PI3K/Akt pathway. The let-7 family of microRNA represses the expression of HMGA showing specificity by its different forms: the let-7b form is able to inhibit both proteins A1 and A2, the last also inhibited by a, c, d, and g forms. Moreover, both proteins are down-regulated by the repressor couple p53/microRNA-34a. The protein A1 and A2 participate to the Epithelial-Mesenchymal Transition cooperating with the three couples of factors Twist1/2, Snai1/2, and Zeb1/2. Through a combination of pathways, there is the simultaneous presence of high levels of both A1 and A2 together with the expression of other factors: a high co-operating efficiency is reached that supplies the tumour cells with properties of self-renewal, resistance, and invasiveness.

  10. Reliability optimization of series–parallel systems with mixed redundancy strategy in subsystems

    International Nuclear Information System (INIS)

    Abouei Ardakan, Mostafa; Zeinal Hamadani, Ali

    2014-01-01

    Traditionally in redundancy allocation problem (RAP), it is assumed that the redundant components are used based on a predefined active or standby strategies. Recently, some studies consider the situation that both active and standby strategies can be used in a specific system. However, these researches assume that the redundancy strategy for each subsystem can be either active or standby and determine the best strategy for these subsystems by using a proper mathematical model. As an extension to this assumption, a novel strategy, that is a combination of traditional active and standby strategies, is introduced. The new strategy is called mixed strategy which uses both active and cold-standby strategies in one subsystem simultaneously. Therefore, the problem is to determine the component type, redundancy level, number of active and cold-standby units for each subsystem in order to maximize the system reliability. To have a more practical model, the problem is formulated with imperfect switching of cold-standby redundant components and k-Erlang time-to-failure (TTF) distribution. As the optimization of RAP belongs to NP-hard class of problems, a genetic algorithm (GA) is developed. The new strategy and proposed GA are implemented on a well-known test problem in the literature which leads to interesting results. - Highlights: • In this paper the redundancy allocation problem (RAP) for a series–parallel system is considered. • Traditionally there are two main strategies for redundant component namely active and standby. • In this paper a new redundancy strategy which is called “Mixed” redundancy strategy is introduced. • Computational experiments demonstrate that implementing the new strategy lead to interesting results

  11. On the value of redundancy subject to common-cause failures: Toward the resolution of an on-going debate

    International Nuclear Information System (INIS)

    Hoepfer, V.M.; Saleh, J.H.; Marais, K.B.

    2009-01-01

    Common-cause failures (CCF) are one of the more critical and challenging issues for system reliability and risk analyses. Academic interest in modeling CCF, and more broadly in modeling dependent failures, has steadily grown over the years in the number of publications as well as in the sophistication of the analytical tools used. In the past few years, several influential articles have shed doubts on the relevance of redundancy arguing that 'redundancy backfires' through common-cause failures, and that the latter dominate unreliability, thus defeating the purpose of redundancy. In this work, we take issue with some of the results of these publications. In their stead, we provide a nuanced perspective on the (contingent) value of redundancy subject to common-cause failures. First, we review the incremental reliability and MTTF provided by redundancy subject to common-cause failures. Second, we introduce the concept and develop the analytics of the 'redundancy-relevance boundary': we propose this redundancy-relevance boundary as a design-aid tool that provides an answer to the following question: what level of redundancy is relevant or advantageous given a varying prevalence of common-cause failures? We investigate the conditions under which different levels of redundancy provide an incremental MTTF over that of the single component in the face of common-cause failures. Recognizing that redundancy comes at a cost, we also conduct a cost-benefit analysis of redundancy subject to common-cause failures, and demonstrate how this analysis modifies the redundancy-relevance boundary. We show how the value of redundancy is contingent on the prevalence of common-cause failures, the redundancy level considered, and the monadic cost-benefit ratio. Finally we argue that general unqualified criticism of redundancy is misguided, and efforts are better spent for example on understanding and mitigating the potential sources of common-cause failures rather than deriding the concept

  12. Transcription factors, coregulators, and epigenetic marks are linearly correlated and highly redundant.

    Directory of Open Access Journals (Sweden)

    Tobias Ahsendorf

    Full Text Available The DNA microstates that regulate transcription include sequence-specific transcription factors (TFs, coregulatory complexes, nucleosomes, histone modifications, DNA methylation, and parts of the three-dimensional architecture of genomes, which could create an enormous combinatorial complexity across the genome. However, many proteins and epigenetic marks are known to colocalize, suggesting that the information content encoded in these marks can be compressed. It has so far proved difficult to understand this compression in a systematic and quantitative manner. Here, we show that simple linear models can reliably predict the data generated by the ENCODE and Roadmap Epigenomics consortia. Further, we demonstrate that a small number of marks can predict all other marks with high average correlation across the genome, systematically revealing the substantial information compression that is present in different cell lines. We find that the linear models for activating marks are typically cell line-independent, while those for silencing marks are predominantly cell line-specific. Of particular note, a nuclear receptor corepressor, transducin beta-like 1 X-linked receptor 1 (TBLR1, was highly predictive of other marks in two hematopoietic cell lines. The methodology presented here shows how the potentially vast complexity of TFs, coregulators, and epigenetic marks at eukaryotic genes is highly redundant and that the information present can be compressed onto a much smaller subset of marks. These findings could be used to efficiently characterize cell lines and tissues based on a small number of diagnostic marks and suggest how the DNA microstates, which regulate the expression of individual genes, can be specified.

  13. Kinematics analysis of a novel planar parallel manipulator with kinematic redundancy

    Energy Technology Data Exchange (ETDEWEB)

    Qu, Haibo; Guo, Sheng [Beijing Jiaotong University, Beijing (China)

    2017-04-15

    In this paper, a novel planar parallel manipulator with kinematic redundancy is proposed. First, the Degrees of freedom (DOF) of the whole parallel manipulator and the Relative DOF (RDOF) between the moving platform and fixed base are studied. The results indicate that the proposed mechanism is kinematically redundant. Then, the kinematics, Jacobian matrices and workspace of this proposed parallel manipulator with kinematic redundancy are analyzed. Finally, the statics simulation of the proposed parallel manipulator is performed. The obtained stress and displacement distribution can be used to determine the easily destroyed place in the mechanism configurations.

  14. Multisensory processing of redundant information in go/no-go and choice responses

    DEFF Research Database (Denmark)

    Blurton, Steven Paul; Greenlee, Mark W.; Gondan, Matthias

    2014-01-01

    In multisensory research, faster responses are commonly observed when multimodal stimuli are presented as compared to unimodal target presentations. This so-called redundant signals effect can be explained by several frameworks including separate activation and coactivation models. The redundant ...... of redundant information provided by different sensory channels and is not restricted to simple responses. The results connect existing theories on multisensory integration with theories on choice behavior....... processes (Schwarz, 1994) within two absorbing barriers. The diffusion superposition model accurately describes mean and variance of response times as well as the proportion of correct responses observed in the two tasks. Linear superposition seems, thus, to be a general principle in integration...

  15. Quantum Darwinism Requires an Extra-Theoretical Assumption of Encoding Redundancy

    Science.gov (United States)

    Fields, Chris

    2010-10-01

    Observers restricted to the observation of pointer states of apparatus cannot conclusively demonstrate that the pointer of an apparatus mathcal{A} registers the state of a system of interest S without perturbing S. Observers cannot, therefore, conclusively demonstrate that the states of a system S are redundantly encoded by pointer states of multiple independent apparatus without destroying the redundancy of encoding. The redundancy of encoding required by quantum Darwinism must, therefore, be assumed from outside the quantum-mechanical formalism and without the possibility of experimental demonstration.

  16. The Interface Between Redundant Processor Modules Of Safety Grade PLC Using Mass Storage DPRAM

    International Nuclear Information System (INIS)

    Hwang, Sung Jae; Song, Seong Hwan; No, Young Hun; Yun, Dong Hwa; Park, Gang Min; Kim, Min Gyu; Choi, Kyung Chul; Lee, Ui Taek

    2010-01-01

    Processor module of safety grade PLC (hereinafter called as POSAFE-Q) developed by POSCO ICT provides high reliability and safety. However, POSAFEQ would have suffered a malfunction when we think taking place of abnormal operation by exceptional environmental. POSAFE-Q would not able to conduct its function normally in such case. To prevent these situations, the necessity of redundant processor module has been raised. Therefore, redundant processor module, NCPU-2Q, has been developed which has not only functions of single processor module with high reliability and safety but also functions of redundant processor

  17. Redundant actuator development study. [flight control systems for supersonic transport aircraft

    Science.gov (United States)

    Ryder, D. R.

    1973-01-01

    Current and past supersonic transport configurations are reviewed to assess redundancy requirements for future airplane control systems. Secondary actuators used in stability augmentation systems will probably be the most critical actuator application and require the highest level of redundancy. Two methods of actuator redundancy mechanization have been recommended for further study. Math models of the recommended systems have been developed for use in future computer simulations. A long range plan has been formulated for actuator hardware development and testing in conjunction with the NASA Flight Simulator for Advanced Aircraft.

  18. Kinematics analysis of a novel planar parallel manipulator with kinematic redundancy

    International Nuclear Information System (INIS)

    Qu, Haibo; Guo, Sheng

    2017-01-01

    In this paper, a novel planar parallel manipulator with kinematic redundancy is proposed. First, the Degrees of freedom (DOF) of the whole parallel manipulator and the Relative DOF (RDOF) between the moving platform and fixed base are studied. The results indicate that the proposed mechanism is kinematically redundant. Then, the kinematics, Jacobian matrices and workspace of this proposed parallel manipulator with kinematic redundancy are analyzed. Finally, the statics simulation of the proposed parallel manipulator is performed. The obtained stress and displacement distribution can be used to determine the easily destroyed place in the mechanism configurations

  19. The Drosophila melanogaster DmCK2beta transcription unit encodes for functionally non-redundant protein isoforms.

    Science.gov (United States)

    Jauch, Eike; Wecklein, Heike; Stark, Felix; Jauch, Mandy; Raabe, Thomas

    2006-06-07

    Genes encoding for the two evolutionary highly conserved subunits of a heterotetrameric protein kinase CK2 holoenzyme are present in all examined eukaryotic genomes. Depending on the organism, multiple transcription units encoding for a catalytically active CK2alpha subunit and/or a regulatory CK2beta subunit may exist. The phosphotransferase activity of members of the protein kinase CK2alpha family is thought to be independent of second messengers but is modulated by interaction with CK2beta-like proteins. In the genome of Drosophila melanogaster, one gene encoding for a CK2alpha subunit and three genes encoding for CK2beta-like proteins are present. The X-linked DmCK2beta transcription unit encodes for several CK2beta protein isoforms due to alternative splicing of its primary transcript. We addressed the question whether CK2beta-like proteins are redundant in function. Our in vivo experiments show that variations of the very C-terminal tail of CK2beta isoforms encoded by the X-linked DmCK2beta transcription unit influence their functional properties. In addition, we find that CK2beta-like proteins encoded by the autosomal D. melanogaster genes CK2betates and CK2beta' cannot fully substitute for a loss of CK2beta isoforms encoded by DmCK2beta.

  20. Performance and delay analysis of hybrid ARQ with incremental redundancy over double rayleigh fading channels

    KAUST Repository

    Chelli, Ali; Zedini, Emna; Alouini, Mohamed-Slim; Barry, John R.; Pä tzold, Matthias

    2014-01-01

    the performance of HARQ from an information theoretic perspective. Analytical expressions are derived for the \\epsilon-outage capacity, the average number of transmissions, and the average transmission rate of HARQ with incremental redundancy assuming a maximum

  1. Intraguild predation reduces redundancy of predator species in multiple predator assemblage.

    Science.gov (United States)

    Griffen, Blaine D; Byers, James E

    2006-07-01

    1. Interference between predator species frequently decreases predation rates, lowering the risk of predation for shared prey. However, such interference can also occur between conspecific predators. 2. Therefore, to understand the importance of predator biodiversity and the degree that predator species can be considered functionally interchangeable, we determined the degree of additivity and redundancy of predators in multiple- and single-species combinations. 3. We show that interference between two invasive species of predatory crabs, Carcinus maenas and Hemigrapsus sanguineus, reduced the risk of predation for shared amphipod prey, and had redundant per capita effects in most multiple- and single-species predator combinations. 4. However, when predator combinations with the potential for intraguild predation were examined, predator interference increased and predator redundancy decreased. 5. Our study indicates that trophic structure is important in determining how the effects of predator species combine and demonstrates the utility of determining the redundancy, as well as the additivity, of multiple predator species.

  2. Practical, redundant, failure-tolerant, self-reconfiguring embedded system architecture

    Science.gov (United States)

    Klarer, Paul R.; Hayward, David R.; Amai, Wendy A.

    2006-10-03

    This invention relates to system architectures, specifically failure-tolerant and self-reconfiguring embedded system architectures. The invention provides both a method and architecture for redundancy. There can be redundancy in both software and hardware for multiple levels of redundancy. The invention provides a self-reconfiguring architecture for activating redundant modules whenever other modules fail. The architecture comprises: a communication backbone connected to two or more processors and software modules running on each of the processors. Each software module runs on one processor and resides on one or more of the other processors to be available as a backup module in the event of failure. Each module and backup module reports its status over the communication backbone. If a primary module does not report, its backup module takes over its function. If the primary module becomes available again, the backup module returns to its backup status.

  3. Quantifying Net Synergy/Redundancy of Spontaneous Variability Regulation via Predictability and Transfer Entropy Decomposition Frameworks.

    Science.gov (United States)

    Porta, Alberto; Bari, Vlasta; De Maria, Beatrice; Takahashi, Anielle C M; Guzzetti, Stefano; Colombo, Riccardo; Catai, Aparecida M; Raimondi, Ferdinando; Faes, Luca

    2017-11-01

    Objective: Indexes assessing the balance between redundancy and synergy were hypothesized to be helpful in characterizing cardiovascular control from spontaneous beat-to-beat variations of heart period (HP), systolic arterial pressure (SAP), and respiration (R). Methods: Net redundancy/synergy indexes were derived according to predictability and transfer entropy decomposition strategies via a multivariate linear regression approach. Indexes were tested in two protocols inducing modifications of the cardiovascular regulation via baroreflex loading/unloading (i.e., head-down tilt at -25° and graded head-up tilt at 15°, 30°, 45°, 60°, 75°, and 90°, respectively). The net redundancy/synergy of SAP and R to HP and of HP and R to SAP were estimated over stationary sequences of 256 successive values. Results: We found that: 1) regardless of the target (i.e., HP or SAP) redundancy was prevalent over synergy and this prevalence was independent of type and magnitude of the baroreflex challenge; 2) the prevalence of redundancy disappeared when decoupling inputs from output via a surrogate approach; 3) net redundancy was under autonomic control given that it varied in proportion to the vagal withdrawal during graded head-up tilt; and 4) conclusions held regardless of the decomposition strategy. Conclusion: Net redundancy indexes can monitor changes of cardiovascular control from a perspective completely different from that provided by more traditional univariate and multivariate methods. Significance: Net redundancy measures might provide a practical tool to quantify the reservoir of effective cardiovascular regulatory mechanisms sharing causal influences over a target variable. Objective: Indexes assessing the balance between redundancy and synergy were hypothesized to be helpful in characterizing cardiovascular control from spontaneous beat-to-beat variations of heart period (HP), systolic arterial pressure (SAP), and respiration (R). Methods: Net redundancy

  4. Performance of hybrid-ARQ with incremental redundancy over relay channels

    KAUST Repository

    Chelli, Ali; Alouini, Mohamed-Slim

    2012-01-01

    In this paper, we consider a relay network consisting of a source, a relay, and a destination. The source transmits a message to the destination using hybrid automatic repeat request (HARQ) with incremental redundancy (IR). The relay overhears

  5. An analytical and experimental study of the behaviour of redundant controllers applied to a nuclear plant

    International Nuclear Information System (INIS)

    Lawrence, L.A.J.

    1964-02-01

    The behaviour of a number of configurations of redundant controllers is examined and the design problems discussed in relation to the engineering of reliable control rod drive systems for nuclear plant. (author)

  6. Unified performance analysis of hybrid-ARQ with incremental redundancy over free-space optical channels

    KAUST Repository

    Zedini, Emna; Chelli, Ali; Alouini, Mohamed-Slim

    2014-01-01

    In this paper, we carry out a unified performance analysis of hybrid automatic repeat request (HARQ) with incremental redundancy (IR) from an information theoretic perspective over a point-to-point free-space optical (FSO) system. First, we

  7. Revisions to Conventional Clock Domain Crossing Methodologies in Triple Modular Redundant Circuits

    Science.gov (United States)

    Berg, Melanie D.; LaBel, Kenneth A.

    2018-01-01

    We present updates to the conventional methodology of triple modular redundancy (TMR) insertion as it pertains to clock domain crossings (CDCs). Three types of TMR schemes and their suggested corresponding CDC revisions are discussed.

  8. Multi-objective reliability optimization of series-parallel systems with a choice of redundancy strategies

    International Nuclear Information System (INIS)

    Safari, Jalal

    2012-01-01

    This paper proposes a variant of the Non-dominated Sorting Genetic Algorithm (NSGA-II) to solve a novel mathematical model for multi-objective redundancy allocation problems (MORAP). Most researchers about redundancy allocation problem (RAP) have focused on single objective optimization, while there has been some limited research which addresses multi-objective optimization. Also all mathematical multi-objective models of general RAP assume that the type of redundancy strategy for each subsystem is predetermined and known a priori. In general, active redundancy has traditionally received greater attention; however, in practice both active and cold-standby redundancies may be used within a particular system design. The choice of redundancy strategy then becomes an additional decision variable. Thus, the proposed model and solution method are to select the best redundancy strategy, type of components, and levels of redundancy for each subsystem that maximizes the system reliability and minimize total system cost under system-level constraints. This problem belongs to the NP-hard class. This paper presents a second-generation Multiple-Objective Evolutionary Algorithm (MOEA), named NSGA-II to find the best solution for the given problem. The proposed algorithm demonstrates the ability to identify a set of optimal solutions (Pareto front), which provides the Decision Maker (DM) with a complete picture of the optimal solution space. After finding the Pareto front, a procedure is used to select the best solution from the Pareto front. Finally, the advantages of the presented multi-objective model and of the proposed algorithm are illustrated by solving test problems taken from the literature and the robustness of the proposed NSGA-II is discussed.

  9. Functional redundancy patterns reveal non-random assembly rules in a species-rich marine assemblage.

    Directory of Open Access Journals (Sweden)

    Nicolas Guillemot

    Full Text Available The relationship between species and the functional diversity of assemblages is fundamental in ecology because it contains key information on functional redundancy, and functionally redundant ecosystems are thought to be more resilient, resistant and stable. However, this relationship is poorly understood and undocumented for species-rich coastal marine ecosystems. Here, we used underwater visual censuses to examine the patterns of functional redundancy for one of the most diverse vertebrate assemblages, the coral reef fishes of New Caledonia, South Pacific. First, we found that the relationship between functional and species diversity displayed a non-asymptotic power-shaped curve, implying that rare functions and species mainly occur in highly diverse assemblages. Second, we showed that the distribution of species amongst possible functions was significantly different from a random distribution up to a threshold of ∼90 species/transect. Redundancy patterns for each function further revealed that some functions displayed fast rates of increase in redundancy at low species diversity, whereas others were only becoming redundant past a certain threshold. This suggested non-random assembly rules and the existence of some primordial functions that would need to be fulfilled in priority so that coral reef fish assemblages can gain a basic ecological structure. Last, we found little effect of habitat on the shape of the functional-species diversity relationship and on the redundancy of functions, although habitat is known to largely determine assemblage characteristics such as species composition, biomass, and abundance. Our study shows that low functional redundancy is characteristic of this highly diverse fish assemblage, and, therefore, that even species-rich ecosystems such as coral reefs may be vulnerable to the removal of a few keystone species.

  10. An efficient particle swarm approach for mixed-integer programming in reliability-redundancy optimization applications

    International Nuclear Information System (INIS)

    Santos Coelho, Leandro dos

    2009-01-01

    The reliability-redundancy optimization problems can involve the selection of components with multiple choices and redundancy levels that produce maximum benefits, and are subject to the cost, weight, and volume constraints. Many classical mathematical methods have failed in handling nonconvexities and nonsmoothness in reliability-redundancy optimization problems. As an alternative to the classical optimization approaches, the meta-heuristics have been given much attention by many researchers due to their ability to find an almost global optimal solutions. One of these meta-heuristics is the particle swarm optimization (PSO). PSO is a population-based heuristic optimization technique inspired by social behavior of bird flocking and fish schooling. This paper presents an efficient PSO algorithm based on Gaussian distribution and chaotic sequence (PSO-GC) to solve the reliability-redundancy optimization problems. In this context, two examples in reliability-redundancy design problems are evaluated. Simulation results demonstrate that the proposed PSO-GC is a promising optimization technique. PSO-GC performs well for the two examples of mixed-integer programming in reliability-redundancy applications considered in this paper. The solutions obtained by the PSO-GC are better than the previously best-known solutions available in the recent literature

  11. Reliability-redundancy optimization by means of a chaotic differential evolution approach

    International Nuclear Information System (INIS)

    Coelho, Leandro dos Santos

    2009-01-01

    The reliability design is related to the performance analysis of many engineering systems. The reliability-redundancy optimization problems involve selection of components with multiple choices and redundancy levels that produce maximum benefits, can be subject to the cost, weight, and volume constraints. Classical mathematical methods have failed in handling nonconvexities and nonsmoothness in optimization problems. As an alternative to the classical optimization approaches, the meta-heuristics have been given much attention by many researchers due to their ability to find an almost global optimal solution in reliability-redundancy optimization problems. Evolutionary algorithms (EAs) - paradigms of evolutionary computation field - are stochastic and robust meta-heuristics useful to solve reliability-redundancy optimization problems. EAs such as genetic algorithm, evolutionary programming, evolution strategies and differential evolution are being used to find global or near global optimal solution. A differential evolution approach based on chaotic sequences using Lozi's map for reliability-redundancy optimization problems is proposed in this paper. The proposed method has a fast convergence rate but also maintains the diversity of the population so as to escape from local optima. An application example in reliability-redundancy optimization based on the overspeed protection system of a gas turbine is given to show its usefulness and efficiency. Simulation results show that the application of deterministic chaotic sequences instead of random sequences is a possible strategy to improve the performance of differential evolution.

  12. Input relegation control for gross motion of a kinematically redundant manipulator

    Energy Technology Data Exchange (ETDEWEB)

    Unseren, M.A.

    1992-10-01

    This report proposes a method for resolving the kinematic redundancy of a serial link manipulator moving in a three-dimensional workspace. The underspecified problem of solving for the joint velocities based on the classical kinematic velocity model is transformed into a well-specified problem. This is accomplished by augmenting the original model with additional equations which relate a new vector variable quantifying the redundant degrees of freedom (DOF) to the joint velocities. The resulting augmented system yields a well specified solution for the joint velocities. Methods for selecting the redundant DOF quantifying variable and the transformation matrix relating it to the joint velocities are presented so as to obtain a minimum Euclidean norm solution for the joint velocities. The approach is also applied to the problem of resolving the kinematic redundancy at the acceleration level. Upon resolving the kinematic redundancy, a rigid body dynamical model governing the gross motion of the manipulator is derived. A control architecture is suggested which according to the model, decouples the Cartesian space DOF and the redundant DOF.

  13. One Size Does Not Fit All: Older Adults Benefit From Redundant Text in Multimedia Instruction

    Directory of Open Access Journals (Sweden)

    Barbara eFenesi

    2015-07-01

    Full Text Available The multimedia design of presentations typically ignores that younger and older adults have varying cognitive strengths and weaknesses. We examined whether differential instructional design may enhance learning in these populations. Younger and older participants viewed one of three computer-based presentations: Audio only (narration, Redundant (audio narration with redundant text, or Complementary (audio narration with non–redundant text and images. Younger participants learned better when audio narration was paired with relevant images compared to when audio narration was paired with redundant text. However, older participants learned best when audio narration was paired with redundant text. Younger adults, who presumably have a higher working memory capacity, appear to benefit more from complementary information that may drive deeper conceptual processing. In contrast, older adults learn better from presentations that support redundant coding across modalities, which may help mitigate the effects of age-related decline in working memory capacity. Additionally, several misconceptions of design quality appeared across age groups: both younger and older participants positively rated less effective designs. Findings suggest that one-size does not fit all, with older adults requiring unique multimedia design tailored to their cognitive abilities for effective learning.

  14. One size does not fit all: older adults benefit from redundant text in multimedia instruction.

    Science.gov (United States)

    Fenesi, Barbara; Vandermorris, Susan; Kim, Joseph A; Shore, David I; Heisz, Jennifer J

    2015-01-01

    The multimedia design of presentations typically ignores that younger and older adults have varying cognitive strengths and weaknesses. We examined whether differential instructional design may enhance learning in these populations. Younger and older participants viewed one of three computer-based presentations: Audio only (narration), Redundant (audio narration with redundant text), or Complementary (audio narration with non-redundant text and images). Younger participants learned better when audio narration was paired with relevant images compared to when audio narration was paired with redundant text. However, older participants learned best when audio narration was paired with redundant text. Younger adults, who presumably have a higher working memory capacity (WMC), appear to benefit more from complementary information that may drive deeper conceptual processing. In contrast, older adults learn better from presentations that support redundant coding across modalities, which may help mitigate the effects of age-related decline in WMC. Additionally, several misconceptions of design quality appeared across age groups: both younger and older participants positively rated less effective designs. Findings suggest that one-size does not fit all, with older adults requiring unique multimedia design tailored to their cognitive abilities for effective learning.

  15. Efficient exact optimization of multi-objective redundancy allocation problems in series-parallel systems

    International Nuclear Information System (INIS)

    Cao, Dingzhou; Murat, Alper; Chinnam, Ratna Babu

    2013-01-01

    This paper proposes a decomposition-based approach to exactly solve the multi-objective Redundancy Allocation Problem for series-parallel systems. Redundancy allocation problem is a form of reliability optimization and has been the subject of many prior studies. The majority of these earlier studies treat redundancy allocation problem as a single objective problem maximizing the system reliability or minimizing the cost given certain constraints. The few studies that treated redundancy allocation problem as a multi-objective optimization problem relied on meta-heuristic solution approaches. However, meta-heuristic approaches have significant limitations: they do not guarantee that Pareto points are optimal and, more importantly, they may not identify all the Pareto-optimal points. In this paper, we treat redundancy allocation problem as a multi-objective problem, as is typical in practice. We decompose the original problem into several multi-objective sub-problems, efficiently and exactly solve sub-problems, and then systematically combine the solutions. The decomposition-based approach can efficiently generate all the Pareto-optimal solutions for redundancy allocation problems. Experimental results demonstrate the effectiveness and efficiency of the proposed method over meta-heuristic methods on a numerical example taken from the literature.

  16. Developmental changes in children’s processing of redundant modifiers in definite object descriptions

    Directory of Open Access Journals (Sweden)

    Ruud Koolen

    2016-12-01

    Full Text Available This paper investigates developmental changes in children’s processing of redundant information in definite object descriptions. In two experiments, children of two age groups (six or seven, and nine or ten years old were presented with pictures of sweets. In the first experiment (pairwise comparison, two identical sweets were shown, and one of these was described with a redundant modifier. After the description, the children had to indicate the sweet they preferred most in a forced-choice task. In the second experiment (graded rating, only one sweet was shown, which was described with a redundant color modifier in half of the cases (e.g., the blue sweet and in the other half of the cases simply as the sweet. This time, the children were asked to indicate on a 5-point rating scale to what extent they liked the sweets. In both experiments, the results showed that the younger children had a preference for the sweets described with redundant information, while redundant information did not have an effect on the preferences for the older children. These results imply that children are learning to distinguish between situations in which redundant information carries an implicature and situations in which this is not the case.

  17. Comparing surgical trays with redundant instruments with trays with reduced instruments: a cost analysis.

    Science.gov (United States)

    John-Baptiste, A; Sowerby, L J; Chin, C J; Martin, J; Rotenberg, B W

    2016-01-01

    When prearranged standard surgical trays contain instruments that are repeatedly unused, the redundancy can result in unnecessary health care costs. Our objective was to estimate potential savings by performing an economic evaluation comparing the cost of surgical trays with redundant instruments with surgical trays with reduced instruments ("reduced trays"). We performed a cost-analysis from the hospital perspective over a 1-year period. Using a mathematical model, we compared the direct costs of trays containing redundant instruments to reduced trays for 5 otolaryngology procedures. We incorporated data from several sources including local hospital data on surgical volume, the number of instruments on redundant and reduced trays, wages of personnel and time required to pack instruments. From the literature, we incorporated instrument depreciation costs and the time required to decontaminate an instrument. We performed 1-way sensitivity analyses on all variables, including surgical volume. Costs were estimated in 2013 Canadian dollars. The cost of redundant trays was $21 806 and the cost of reduced trays was $8803, for a 1-year cost saving of $13 003. In sensitivity analyses, cost savings ranged from $3262 to $21 395, based on the surgical volume at the institution. Variation in surgical volume resulted in a wider range of estimates, with a minimum of $3253 for low-volume to a maximum of $52 012 for high-volume institutions. Our study suggests moderate savings may be achieved by reducing surgical tray redundancy and, if applied to other surgical specialties, may result in savings to Canadian health care systems.

  18. An efficient particle swarm approach for mixed-integer programming in reliability-redundancy optimization applications

    Energy Technology Data Exchange (ETDEWEB)

    Santos Coelho, Leandro dos [Industrial and Systems Engineering Graduate Program, LAS/PPGEPS, Pontifical Catholic University of Parana, PUCPR, Imaculada Conceicao, 1155, 80215-901 Curitiba, Parana (Brazil)], E-mail: leandro.coelho@pucpr.br

    2009-04-15

    The reliability-redundancy optimization problems can involve the selection of components with multiple choices and redundancy levels that produce maximum benefits, and are subject to the cost, weight, and volume constraints. Many classical mathematical methods have failed in handling nonconvexities and nonsmoothness in reliability-redundancy optimization problems. As an alternative to the classical optimization approaches, the meta-heuristics have been given much attention by many researchers due to their ability to find an almost global optimal solutions. One of these meta-heuristics is the particle swarm optimization (PSO). PSO is a population-based heuristic optimization technique inspired by social behavior of bird flocking and fish schooling. This paper presents an efficient PSO algorithm based on Gaussian distribution and chaotic sequence (PSO-GC) to solve the reliability-redundancy optimization problems. In this context, two examples in reliability-redundancy design problems are evaluated. Simulation results demonstrate that the proposed PSO-GC is a promising optimization technique. PSO-GC performs well for the two examples of mixed-integer programming in reliability-redundancy applications considered in this paper. The solutions obtained by the PSO-GC are better than the previously best-known solutions available in the recent literature.

  19. Multiple signalling pathways redundantly control glucose transporter GLUT4 gene transcription in skeletal muscle

    DEFF Research Database (Denmark)

    Murgia, Marta; Elbenhardt Jensen, Thomas; Cusinato, Marzia

    2009-01-01

    on pharmacological evidence. Here, we have used a more specific genetic approach to establish the relative role of the three pathways in fast and slow muscles. Plasmids coding for protein inhibitors of CaMKII or calcineurin were co-transfected in vivo with a GLUT4 enhancer-reporter construct either in normal mice...... or in mice expressing a dominant negative AMPK mutant. GLUT4 reporter activity was not inhibited in the slow soleus muscle by blocking either CaMKII or calcineurin alone, but was inhibited by blocking both pathways. GLUT4 reporter activity was likewise unchanged in the soleus of dnAMPK mice......, but was significantly reduce by incapacitation of either CaMKII or calcineurin in these mice. On the other hand, in the fast tibialis anterior muscle, calcineurin appears to exert a prominent role in the control of GLUT4 reporter activity, independent of CaMKII and AMPK. The results point to a muscle type...

  20. IPD3 and IPD3L Function Redundantly in Rhizobial and Mycorrhizal Symbioses

    Directory of Open Access Journals (Sweden)

    Yue Jin

    2018-03-01

    Full Text Available Legume plants form symbiotic associations with either nitrogen-fixing bacteria or arbuscular mycorrhizal (AM fungi, which are regulated by a set of common symbiotic signaling pathway genes. Central to the signaling pathway is the activation of the DMI3/IPD3 protein complex by Ca2+ oscillations, and the initiation of nodule organogenesis and mycorrhizal symbiosis. DMI3 is essential for rhizobial infection and nodule organogenesis; however, ipd3 mutants have been shown to be impaired only in infection thread formation but not in root nodule organogenesis in Medicago truncatula. We identified an IPD3-like (IPD3L gene in the M. truncatula genome. A single ipd3l mutant exhibits a normal root nodule phenotype. The ipd3l/ipd3-2 double mutant is completely unable to initiate infection threads and nodule primordia. IPD3L can functionally replace IPD3 when expressed under the control of the IPD3 promoter, indicating functional redundancy between these two transcriptional regulators. We constructed a version of IPD3 that was phosphomimetic with respect to two conserved serine residues (IPD3-2D. This was sufficient to trigger root nodule organogenesis, but the increased multisite phosphorylation of IPD3 (IPD3-8D led to low transcriptional activity, suggesting that the phosphorylation levels of IPD3 fine-tune its transcriptional activity in the root nodule symbiosis. Intriguingly, the phosphomimetic version of IPD3 triggers spontaneous root-like nodules on the roots of dmi3-1 and dmi2-1 (DMI2 is an LRR-containing receptor-like kinase gene which is required for Ca2+ spiking, but not on the roots of wild-type or ipd3l ipd3-2 plants. In addition, fully developed arbuscules were formed in the ipd3l ipd3-2 mutants but not the ccamk/dmi3-1 mutants. Collectively, our data indicate that, in addition to IPD3 and IPD3L, another new genetic component or other new phosphorylation sites of IPD3 function downstream of DMI3 in rhizobial and mycorrhizal symbioses.

  1. Hyperbolic partial differential equations

    CERN Document Server

    Witten, Matthew

    1986-01-01

    Hyperbolic Partial Differential Equations III is a refereed journal issue that explores the applications, theory, and/or applied methods related to hyperbolic partial differential equations, or problems arising out of hyperbolic partial differential equations, in any area of research. This journal issue is interested in all types of articles in terms of review, mini-monograph, standard study, or short communication. Some studies presented in this journal include discretization of ideal fluid dynamics in the Eulerian representation; a Riemann problem in gas dynamics with bifurcation; periodic M

  2. Successful removable partial dentures.

    Science.gov (United States)

    Lynch, Christopher D

    2012-03-01

    Removable partial dentures (RPDs) remain a mainstay of prosthodontic care for partially dentate patients. Appropriately designed, they can restore masticatory efficiency, improve aesthetics and speech, and help secure overall oral health. However, challenges remain in providing such treatments, including maintaining adequate plaque control, achieving adequate retention, and facilitating patient tolerance. The aim of this paper is to review the successful provision of RPDs. Removable partial dentures are a successful form of treatment for replacing missing teeth, and can be successfully provided with appropriate design and fabrication concepts in mind.

  3. Beginning partial differential equations

    CERN Document Server

    O'Neil, Peter V

    2011-01-01

    A rigorous, yet accessible, introduction to partial differential equations-updated in a valuable new edition Beginning Partial Differential Equations, Second Edition provides a comprehensive introduction to partial differential equations (PDEs) with a special focus on the significance of characteristics, solutions by Fourier series, integrals and transforms, properties and physical interpretations of solutions, and a transition to the modern function space approach to PDEs. With its breadth of coverage, this new edition continues to present a broad introduction to the field, while also addres

  4. How do we manage post-OLT redundant bile duct?

    Science.gov (United States)

    Torres, Victor; Martinez, Nicholas; Lee, Gabriel; Almeda, Jose; Gross, Glenn; Patel, Sandeep; Rosenkranz, Laura

    2013-04-28

    To address endoscopic outcomes of post-Orthotopic liver transplantation (OLT) patients diagnosed with a "redundant bile duct" (RBD). Medical records of patients who underwent OLT at the Liver Transplant Center, University Texas Health Science Center at San Antonio Texas were retrospectively analyzed. Patients with suspected biliary tract complications (BTC) underwent endoscopic retrograde cholangiopancreatography (ERCP). All ERCP were performed by experienced biliary endoscopist. RBD was defined as a looped, sigmoid-shaped bile duct on cholangiogram with associated cholestatic liver biomarkers. Patients with biliary T-tube placement, biliary anastomotic strictures, bile leaks, bile-duct stones-sludge and suspected sphincter of oddi dysfunction were excluded. Therapy included single or multiple biliary stents with or without sphincterotomy. The incidence of RBD, the number of ERCP corrective sessions, and the type of endoscopic interventions were recorded. Successful response to endoscopic therapy was defined as resolution of RBD with normalization of associated cholestasis. Laboratory data and pertinent radiographic imaging noted included the pre-ERCP period and a follow up period of 6-12 mo after the last ERCP intervention. One thousand two hundred and eighty-two patient records who received OLT from 1992 through 2011 were reviewed. Two hundred and twenty-four patients underwent ERCP for suspected BTC. RBD was reported in each of the initial cholangiograms. Twenty-one out of 1282 (1.6%) were identified as having RBD. There were 12 men and 9 women, average age of 59.6 years. Primary indication for ERCP was cholestatic pattern of liver associated biomarkers. Nineteen out of 21 patients underwent endoscopic therapy and 2/21 required immediate surgical intervention. In the endoscopically managed group: 65 ERCP procedures were performed with an average of 3.4 per patient and 1.1 stent per session. Fifteen out of 19 (78.9%) patients were successfully managed with

  5. EFFICIENCY OF REDUNDANT QUERY EXECUTION IN MULTI-CHANNEL SERVICE SYSTEMS

    Directory of Open Access Journals (Sweden)

    V. A. Bogatyrev

    2016-03-01

    Full Text Available Subject of Research.The paper deals with analysis of the effectiveness of redundant queries based on untrusted computing in computer systems, represented by multi-channel queuing systems with a common queue. The objective of research is the possibility of increasing the efficiency of service requests while performing redundant copies of requests in different devices of a multi-channel system under conditions of calculations unreliability. The redundant service of requests requires the infallibility of its implementation at least in one of the devices.Method. We have considered estimation of the average time spent in the system with and without the use of redundant requests at the presentation of a simple queuing model of the M / M / n type to analyze the effectiveness of redundant service of requests. Presented evaluation of the average waiting time in the redundant queries is the upper one, since it ignores the possibility of reducing the average waiting time as a result of the spread of the probability of time querying at different devices. The integrated efficiency of redundant service of requests is defined based on the multiplicative index that takes into account the infallibility of calculations and the average time allowance with respect to the maximum tolerated delay of service. Evaluation of error-free computing at reserved queries is received at the requirement of faultless execution of at least one copy of the request. Main Results. We have shown that the reservation of requests gives the gain in efficiency of the system at low demand rate (load. We have defined the boundaries of expediency (efficiency for redundant service of requests. We have shown the possibility of the effectiveness increasing of the adaptive changes in the multiplicity of the reservation of requests, depending on the intensity of the flow of requests. We have found out that the choice of service discipline in information service systems is largely determined by

  6. Redundant Control of Adipogenesis by Histone Deacetylases 1 and 2*

    OpenAIRE

    Haberland, Michael; Carrer, Michele; Mokalled, Mayssa H.; Montgomery, Rusty L.; Olson, Eric N.

    2010-01-01

    Adipocyte differentiation is a well defined process that is under the control of transcriptional activators and repressors. We show that histone deacetylase (HDAC) inhibitors efficiently block adipocyte differentiation in vitro. This effect is specific to adipogenesis, as another mesenchymal differentiation process, osteoblastogenesis, is enhanced upon HDAC inhibition. Through the systematic genetic deletion of HDAC genes in cultured mesenchymal precursor cells, we show that deletion of HDAC1...

  7. CISH has no non-redundant functions in glucose homeostasis or beta cell proliferation during pregnancy in mice.

    Science.gov (United States)

    Jiao, Yang; Rieck, Sebastian; Le Lay, John; Kaestner, Klaus H

    2013-11-01

    Increased beta cell proliferation during pregnancy is mediated by the Janus kinase 2/signal transducer and activator of transcription 5 (JAK2/STAT5) signalling pathway in response to increased lactogen levels. Activation of the pathway leads to transcriptional upregulation of Cish (encoding cytokine-inducible SH2 domain-containing protein), a member of the suppressor of cytokine signalling (SOCS) family of genes, forming a negative-feedback loop. Here, we examined whether conditional gene ablation of Cish in the pancreas improves beta cell proliferation and beta cell function during pregnancy in mice. We derived mice with a novel, conditional loxP allele for Cish. Pancreas-specific ablation of Cish was achieved by crossing Cish (loxP/loxP) mice with Pdx1-Cre (Early) mice. Beta cell proliferation was quantified by BrdU labelling. Glucose homeostasis was examined with glucose tolerance tests and determination of plasma insulin levels. The expression of other Socs genes and target genes of p-STAT5 related to beta cell function and beta cell proliferation was determined by quantitative PCR. There was no difference in beta cell proliferation or glucose homeostasis between the Cish mutant group and the control group. The p-STAT5 protein level was the same in Cish mutant and control mice. Socs2 gene expression was higher in Cish mutant than control mice at pregnancy day 9.5. The expression of other Socs genes was the same between control and mutant mice. Our results show that CISH has no non-redundant functions in beta cell proliferation or glucose homeostasis during pregnancy in mice. Socs2 might compensate for the loss of Cish during pregnancy.

  8. Overexpressed HDAC8 in cervical cancer cells shows functional redundancy of tubulin deacetylation with HDAC6.

    Science.gov (United States)

    Vanaja, G R; Ramulu, Hemalatha Golaconda; Kalle, Arunasree M

    2018-05-02

    Histone deacetylases (HDACs) are involved in epigenetic gene regulation via deacetylation of acetylated lysine residues of both histone and non-histone proteins. Among the 18 HDACs identified in humans, HDAC8, a class I HDAC, is best understood structurally and enzymatically. However, its precise subcellular location, function in normal cellular physiology, its protein partners and substrates still remain elusive. The subcellular localization of HDAC8 was studied using immunofluorescence and confocal imaging. The binding parterns were identified employing immunoprecipitation (IP) followed by MALDI-TOF analysis and confirmed using in-silico protein-protein interaction studies, HPLC-based in vitro deacetylation assay, intrinsic fluorescence spectrophotometric analysis, Circular dichroism (CD) and Surface Plasmon Resonance (SPR). Functional characterization of the binding was carried out using immunoblot and knockdown by siRNA. Using one way ANOVA statistical significance (n = 3) was determined. Here, we show that HDAC8 and its phosphorylated form (pHDAC8) localized predominantly in the cytoplasm in cancerous, HeLa, and non-cancerous (normal), HEK293T, cells, although nucleolar localization was observed in HeLa cells. The study identified Alpha tubulin as a novel interacting partner of HDAC8. Further, the results indicated binding and deacetylation of tubulin at ac-lys40 by HDAC8. Knockdown of HDAC8 by siRNA, inhibition of HDAC8 and/or HDAC6 by PCI-34051 and tubastatin respectively, cell-migration, cell morphology and cell cycle analysis clearly explained HDAC8 as tubulin deacetylase in HeLa cells and HDAC6 in HEK 293 T cells. HDAC8 shows functional redundancy with HDAC6 when overexpressed in cervical cancer cells, HeLa, and deacetylaes ac-lys40 of alpha tubulin leading to cervical cancer proliferation and progression.

  9. FON2 SPARE1 redundantly regulates floral meristem maintenance with FLORAL ORGAN NUMBER2 in rice.

    Directory of Open Access Journals (Sweden)

    Takuya Suzaki

    2009-10-01

    Full Text Available CLAVATA signaling restricts stem cell identity in the shoot apical meristem (SAM in Arabidopsis thaliana. In rice (Oryza sativa, FLORAL ORGAN NUMBER2 (FON2, closely related to CLV3, is involved as a signaling molecule in a similar pathway to negatively regulate stem cell proliferation in the floral meristem (FM. Here we show that the FON2 SPARE1 (FOS1 gene encoding a CLE protein functions along with FON2 in maintenance of the FM. In addition, FOS1 appears to be involved in maintenance of the SAM in the vegetative phase, because constitutive expression of FOS1 caused termination of the vegetative SAM. Genetic analysis revealed that FOS1 does not need FON1, the putative receptor of FON2, for its action, suggesting that FOS1 and FON2 may function in meristem maintenance as signaling molecules in independent pathways. Initially, we identified FOS1 as a suppressor that originates from O. sativa indica and suppresses the fon2 mutation in O. sativa japonica. FOS1 function in japonica appears to be compromised by a functional nucleotide polymorphism (FNP at the putative processing site of the signal peptide. Sequence comparison of FOS1 in about 150 domesticated rice and wild rice species indicates that this FNP is present only in japonica, suggesting that redundant regulation by FOS1 and FON2 is commonplace in species in the Oryza genus. Distribution of the FNP also suggests that this mutation may have occurred during the divergence of japonica from its wild ancestor. Stem cell maintenance may be regulated by at least three negative pathways in rice, and each pathway may contribute differently to this regulation depending on the type of the meristem. This situation contrasts with that in Arabidopsis, where CLV signaling is the major single pathway in all meristems.

  10. LytB1 and LytB2 of Mycobacterium tuberculosis Are Not Genetically Redundant.

    Directory of Open Access Journals (Sweden)

    Amanda Claire Brown

    Full Text Available Mycobacterium tuberculosis synthesises isoprenoid precursors via the MEP/DOXP pathway and at least five enzymes in the pathway (Dxs1, Dxr/IspC, IspD, IspF, and GcpE/IspG are required for growth in vitro. We investigated the role of LytB (IspH in M. tuberculosis; M. tuberculosis is unusual in that it has two homologs-LytB1 and LytB2. We were unable to delete the lytB2 gene unless we provided an additional copy elsewhere, demonstrating that this is the essential homolog. We expressed lytB1 from the lytB2 promoter and confirmed that this could not complement for loss of function of lytB2, despite LytB1 possessing all the previously described conserved critical residues. Interestingly the sole LytB homolog of Mycobacterium smegmatis was able to compensate for loss of LytB2 in M. tuberculosis. We tested translational fusions of LytB1 and LytB2 for functionality in M. tuberculosis, but only a fusion with 90% N-terminal LytB2 and 10% C-terminal LytB1 was functional. In order to identify the key difference between the two proteins, site directed mutagenesis was used to change LytB2 residues into their counterparts in LytB1. None of these amino acid substitutions was essential for function and all lytB2 mutant alleles were functional. In contrast, mutation of the key residues for [Fe4S4] cluster formation, as well as a catalytic residue in LytB1 did not result in functional complementation. Thus, although LytB1 and LytB2 are not genetically redundant, this is not dependent on small amino acid changes, but is likely to be a result of major overall structural differences.

  11. Phyllosphere Metaproteomes of Trees from the Brazilian Atlantic Forest Show High Levels of Functional Redundancy.

    Science.gov (United States)

    Lambais, M R; Barrera, S E; Santos, E C; Crowley, D E; Jumpponen, A

    2017-01-01

    The phyllosphere of the Brazilian Atlantic Forest has been estimated to contain several million bacterial species that are associated with approximately 20000 plant species. Despite the high bacterial diversity in the phyllosphere, the function of these microorganisms and the mechanisms driving their community assembly are largely unknown. In this study, we characterized the bacterial communities in the phyllospheres of four tree species of the Atlantic Forest (Mollinedia schottiana, Ocotea dispersa, Ocotea teleiandra, and Tabebuia serratifolia) and their metaproteomes to examine the basic protein functional groups expressed in the phyllosphere. Bacterial community analyses using 16S rRNA gene sequencing confirmed prior observations that plant species harbor distinct bacterial communities and that plants of the same taxon have more similar communities than more distantly related taxa. Using LC-ESI-Q-TOF, we identified 216 nonredundant proteins, based on 3503 peptide mass spectra. Most protein families were shared among the phyllosphere communities, suggesting functional redundancy despite differences in the species compositions of the bacterial communities. Proteins involved in glycolysis and anaerobic carbohydrate metabolism, solute transport, protein metabolism, cell motility, stress and antioxidant responses, nitrogen metabolism, and iron homeostasis were among the most frequently detected. In contrast to prior studies on crop plants and Arabidopsis, a low abundance of OTUs related to Methylobacterium and no proteins associated with the metabolism of one-carbon molecules were detected in the phyllospheres of the tree species studied here. Our data suggest that even though the phyllosphere bacterial communities of different tree species are phylogenetically diverse, their metaproteomes are functionally convergent with respect to traits required for survival on leaf surfaces.

  12. Partial knee replacement - slideshow

    Science.gov (United States)

    ... page: //medlineplus.gov/ency/presentations/100225.htm Partial knee replacement - series—Normal anatomy To use the sharing ... A.M. Editorial team. Related MedlinePlus Health Topics Knee Replacement A.D.A.M., Inc. is accredited ...

  13. Beginning partial differential equations

    CERN Document Server

    O'Neil, Peter V

    2014-01-01

    A broad introduction to PDEs with an emphasis on specialized topics and applications occurring in a variety of fields Featuring a thoroughly revised presentation of topics, Beginning Partial Differential Equations, Third Edition provides a challenging, yet accessible,combination of techniques, applications, and introductory theory on the subjectof partial differential equations. The new edition offers nonstandard coverageon material including Burger's equation, the telegraph equation, damped wavemotion, and the use of characteristics to solve nonhomogeneous problems. The Third Edition is or

  14. REDUNDANT ELECTRIC MOTOR DRIVE CONTROL UNIT DESIGN USING AUTOMATA-BASED APPROACH

    Directory of Open Access Journals (Sweden)

    Yuri Yu. Yankin

    2014-11-01

    Full Text Available Implementation of redundant unit for motor drive control based on programmable logic devices is discussed. Continuous redundancy method is used. As compared to segregated standby redundancy and whole system standby redundancy, such method provides preservation of all unit functions in case of redundancy and gives the possibility for continuous monitoring of major and redundant elements. Example of that unit is given. Electric motor drive control channel block diagram contains two control units – the major and redundant; it also contains four power supply units. Control units programming was carried out using automata-based approach. Electric motor drive control channel model was developed; it provides complex simulation of control state-machine and power converter. Through visibility and hierarchy of finite state machines debug time was shortened as compared to traditional programming. Control state-machine description using hardware description language is required for its synthesis with FPGA-devices vendor design software. This description was generated automatically by MATLAB software package. To verify results two prototype control units, two prototype power supply units, and device mock-up were developed and manufactured. Units were installed in the device mock-up. Prototype units were created in accordance with requirements claimed to deliverable hardware. Control channel simulation and tests results in the perfect state and during imitation of major element fault are presented. Automata-based approach made it possible to observe and debug control state-machine transitions during simulation of transient processes, occurring at imitation of faults. Results of this work can be used in development of fault tolerant electric motor drive control channels.

  15. Multiclass gene selection using Pareto-fronts.

    Science.gov (United States)

    Rajapakse, Jagath C; Mundra, Piyushkumar A

    2013-01-01

    Filter methods are often used for selection of genes in multiclass sample classification by using microarray data. Such techniques usually tend to bias toward a few classes that are easily distinguishable from other classes due to imbalances of strong features and sample sizes of different classes. It could therefore lead to selection of redundant genes while missing the relevant genes, leading to poor classification of tissue samples. In this manuscript, we propose to decompose multiclass ranking statistics into class-specific statistics and then use Pareto-front analysis for selection of genes. This alleviates the bias induced by class intrinsic characteristics of dominating classes. The use of Pareto-front analysis is demonstrated on two filter criteria commonly used for gene selection: F-score and KW-score. A significant improvement in classification performance and reduction in redundancy among top-ranked genes were achieved in experiments with both synthetic and real-benchmark data sets.

  16. Exploring the phenotypic expression of a regulatory proteome- altering gene by spectroscopy and chemometrics

    DEFF Research Database (Denmark)

    Munck, L.; Nielsen, J.P.; Møller, B.

    2001-01-01

    electrophoresis, resulting in a radically changed amino acid and chemical composition. A synergy interval partial least squares regression model (si-PLSR) is tested to select combinations of spectral segments which have a high correlation to defined chemical components indicative of the lys3a gene, such as direct...... effects of the changed proteome, for example, the amide content, or indirect effects due to changes in carbohydrate and fat composition. It is concluded that the redundancy of biological information on the DNA sequence level is also represented at the phenotypic level in the dataset read by the NIR...... spectroscopic sensor from the chemical physical fingerprint. The PLS algorithm chooses spectral intervals: which combine both direct and indirect proteome effects. This explains the robustness of NIR spectral predictions by PLSR for a wide range of chemical components. The new option of using spectroscopy...

  17. RSAT matrix-clustering: dynamic exploration and redundancy reduction of transcription factor binding motif collections.

    Science.gov (United States)

    Castro-Mondragon, Jaime Abraham; Jaeger, Sébastien; Thieffry, Denis; Thomas-Chollier, Morgane; van Helden, Jacques

    2017-07-27

    Transcription factor (TF) databases contain multitudes of binding motifs (TFBMs) from various sources, from which non-redundant collections are derived by manual curation. The advent of high-throughput methods stimulated the production of novel collections with increasing numbers of motifs. Meta-databases, built by merging these collections, contain redundant versions, because available tools are not suited to automatically identify and explore biologically relevant clusters among thousands of motifs. Motif discovery from genome-scale data sets (e.g. ChIP-seq) also produces redundant motifs, hampering the interpretation of results. We present matrix-clustering, a versatile tool that clusters similar TFBMs into multiple trees, and automatically creates non-redundant TFBM collections. A feature unique to matrix-clustering is its dynamic visualisation of aligned TFBMs, and its capability to simultaneously treat multiple collections from various sources. We demonstrate that matrix-clustering considerably simplifies the interpretation of combined results from multiple motif discovery tools, and highlights biologically relevant variations of similar motifs. We also ran a large-scale application to cluster ∼11 000 motifs from 24 entire databases, showing that matrix-clustering correctly groups motifs belonging to the same TF families, and drastically reduced motif redundancy. matrix-clustering is integrated within the RSAT suite (http://rsat.eu/), accessible through a user-friendly web interface or command-line for its integration in pipelines. © The Author(s) 2017. Published by Oxford University Press on behalf of Nucleic Acids Research.

  18. Techno-Economic Assessment of Redundancy Systems for a Cogeneration Plant

    Directory of Open Access Journals (Sweden)

    Majid Mohd Amin Abd

    2014-07-01

    Full Text Available The use of distributed power generation has advantage as well as disadvantage. One of the disadvantages is that the plant requires a dependable redundancy system to provide back up of power during failure of its power generation equipment. This paper presents a study on techno-economic assessment of redundancy systems for a cogeneration plant. Three redundancy systems were investigated; using public utility, generator set and gas turbine as back up during failures. Results from the analysis indicate that using public utility provides technical as well as economic advantages in comparison to using generator set or turbine as back up. However, the economic advantage of the public utility depends on the frequency of failures the plant will experience as well on the maximum demand charge. From the break even analysis of the understudied plant, if the number of failures exceeds 3 failures per year for the case of maximum demand charge of RM56.80, it is more economical to install a generator set as redundancy. The study will be useful for the co-generator operators to evaluate the feasibility of redundancy systems.

  19. Redundancy of einselected information in quantum Darwinism: The irrelevance of irrelevant environment bits

    Science.gov (United States)

    Zwolak, Michael; Zurek, Wojciech H.

    2017-03-01

    The objective, classical world emerges from the underlying quantum substrate via the proliferation of redundant copies of selected information into the environment, which acts as a communication channel, transmitting that information to observers. These copies are independently accessible, allowing many observers to reach consensus about the state of a quantum system via its imprints in the environment. Quantum Darwinism recognizes that the redundancy of information is thus central to the emergence of objective reality in the quantum world. However, in addition to the "quantum system of interest," there are many other systems "of no interest" in the Universe that can imprint information on the common environment. There is therefore a danger that the information of interest will be diluted with irrelevant bits, suppressing the redundancy responsible for objectivity. We show that mixing of the relevant (the "wheat") and irrelevant (the "chaff") bits of information makes little quantitative difference to the redundancy of the information of interest. Thus, we demonstrate that it does not matter whether one separates the wheat (relevant information) from the (irrelevant) chaff: The large redundancy of the relevant information survives dilution, providing evidence of the objective, effectively classical world.

  20. Design method of redundancy of brace-anchor sharing supporting based on cooperative deformation

    Science.gov (United States)

    Liu, Jun-yan; Li, Bing; Liu, Yan; Cai, Shan-bing

    2017-11-01

    Because of the complicated environment requirement, the support form of foundation pit is diversified, and the brace-anchor sharing support is widely used. However, the research on the force deformation characteristics and the related aspects of the cooperative response of the brace-anchor sharing support is insufficient. The application of redundancy theory in structural engineering has been more mature, but there is little theoretical research on redundancy theory in underground engineering. Based on the idea of collaborative deformation, the paper calculates the ratio of the redundancy degree of the cooperative deformation by using the local reinforcement design method and the structural component redundancy parameter calculation formula based on Frangopol. Combined with the engineering case, through the calculation of the ratio of cooperative deformation redundancy in the joint of brace-anchor sharing support. This paper explores the optimal anchor distribution form under the condition of cooperative deformation, and through the analysis and research of displacement field and stress field, the results of the collaborative deformation are validated by comparing the field monitoring data. It provides theoretical basis for the design of this kind of foundation pit in the future.

  1. An improved method for calculating self-motion coordinates for redundant manipulators

    International Nuclear Information System (INIS)

    Reister, D.B.

    1997-04-01

    For a redundant manipulator, the objective of redundancy resolution is to follow a specified path in Cartesian space and simultaneously perform another task (for example, maximize an objective function or avoid obstacles) at every point along the path. The conventional methods have several drawbacks: a new function must be defined for each task, the extended Jacobian can be singular, closed cycles in Cartesian space may not yield closed cycles in joint space, and the objective is point-wise redundancy resolution (to determine a single point in joint space for each point in Cartesian space). The author divides the redundancy resolution problem into two parts: (1) calculate self-motion coordinates for all possible positions of a manipulator at each point along a Cartesian path and (2) determination of optimal self-motion coordinates that maximize an objective function along the path. This paper will discuss the first part of the problem. The path-wise approach overcomes all of the drawbacks of conventional redundancy resolution methods: no need to define a new function for each task, extended Jacobian cannot be singular, and closed cycles in extended Cartesian space will yield closed cycles in joint space

  2. The impact of the operating environment on the design of redundant configurations

    International Nuclear Information System (INIS)

    Marseguerra, M.; Padovani, E.; Zio, E.

    1999-01-01

    Safety systems are often characterized by substantial redundancy and diversification in safety critical components. In principle, such redundancy and diversification can bring benefits when compared to single-component systems. However, it has also been recognized that the evaluation of these benefits should take into account that redundancies cannot be founded, in practice, on the assumption of complete independence, so that the resulting risk profile is strongly dominated by dependent failures. It is therefore mandatory that the effects of common cause failures be estimated in any probabilistic safety assessment (PSA). Recently, in the Hughes model for hardware failures and in the Eckhardt and Lee models for software failures, it was proposed that the stressfulness of the operating environment affects the probability that a particular type of component will fail. Thus, dependence of component failure behaviors can arise indirectly through the variability of the environment which can directly affect the success of a redundant configuration. In this paper we investigate the impact of indirect component dependence by means of the introduction of a probability distribution which describes the variability of the environment. We show that the variance of the distribution of the number, or times, of system failures can give an indication of the presence of the environment. Further, the impact of the environment is shown to affect the reliability and the design of redundant configurations

  3. Compliant behaviour of redundant robot arm - experiments with null-space

    Directory of Open Access Journals (Sweden)

    Petrović Petar B.

    2015-01-01

    Full Text Available This paper presents theoretical and experimental aspects of Jacobian nullspace use in kinematically redundant robots for achieving kinetostatically consistent control of their compliant behavior. When the stiffness of the robot endpoint is dominantly influenced by the compliance of the robot joints, generalized stiffness matrix can be mapped into joint space using appropriate congruent transformation. Actuation stiffness matrix achieved by this transformation is generally nondiagonal. Off-diagonal elements of the actuation matrix can be generated by redundant actuation only (polyarticular actuators, but such kind of actuation is very difficult to realize practically in technical systems. The approach of solving this problem which is proposed in this paper is based on the use of kinematic redundancy and nullspace of the Jacobian matrix. Evaluation of the developed analytical model was done numerically by a minimal redundant robot with one redundant d.o.f. and experimentally by a 7 d.o.f. Yaskawa SIA 10F robot arm. [Projekat Ministarstva nauke Republike Srbije, br. TR35007

  4. Partial differential equations

    CERN Document Server

    Evans, Lawrence C

    2010-01-01

    This text gives a comprehensive survey of modern techniques in the theoretical study of partial differential equations (PDEs) with particular emphasis on nonlinear equations. The exposition is divided into three parts: representation formulas for solutions; theory for linear partial differential equations; and theory for nonlinear partial differential equations. Included are complete treatments of the method of characteristics; energy methods within Sobolev spaces; regularity for second-order elliptic, parabolic, and hyperbolic equations; maximum principles; the multidimensional calculus of variations; viscosity solutions of Hamilton-Jacobi equations; shock waves and entropy criteria for conservation laws; and, much more.The author summarizes the relevant mathematics required to understand current research in PDEs, especially nonlinear PDEs. While he has reworked and simplified much of the classical theory (particularly the method of characteristics), he primarily emphasizes the modern interplay between funct...

  5. Optimization of partial search

    International Nuclear Information System (INIS)

    Korepin, Vladimir E

    2005-01-01

    A quantum Grover search algorithm can find a target item in a database faster than any classical algorithm. One can trade accuracy for speed and find a part of the database (a block) containing the target item even faster; this is partial search. A partial search algorithm was recently suggested by Grover and Radhakrishnan. Here we optimize it. Efficiency of the search algorithm is measured by the number of queries to the oracle. The author suggests a new version of the Grover-Radhakrishnan algorithm which uses a minimal number of such queries. The algorithm can run on the same hardware that is used for the usual Grover algorithm. (letter to the editor)

  6. Analytical Redundancy Design for Aeroengine Sensor Fault Diagnostics Based on SROS-ELM

    Directory of Open Access Journals (Sweden)

    Jun Zhou

    2016-01-01

    Full Text Available Analytical redundancy technique is of great importance to guarantee the reliability and safety of aircraft engine system. In this paper, a machine learning based aeroengine sensor analytical redundancy technique is developed and verified through hardware-in-the-loop (HIL simulation. The modified online sequential extreme learning machine, selective updating regularized online sequential extreme learning machine (SROS-ELM, is employed to train the model online and estimate sensor measurements. It selectively updates the output weights of neural networks according to the prediction accuracy and the norm of output weight vector, tackles the problems of singularity and ill-posedness by regularization, and adopts a dual activation function in the hidden nodes combing neural and wavelet theory to enhance prediction capability. The experimental results verify the good generalization performance of SROS-ELM and show that the developed analytical redundancy technique for aeroengine sensor fault diagnosis based on SROS-ELM is effective and feasible.

  7. Fault detection in multiply-redundant measurement systems via sequential testing

    International Nuclear Information System (INIS)

    Ray, A.

    1988-01-01

    The theory and application of a sequential test procedure for fault detection and isolation. The test procedure is suited for development of intelligent instrumentation in strategic processes like aircraft and nuclear plants where redundant measurements are usually available for individual critical variables. The test procedure consists of: (1) a generic redundancy management procedure which is essentially independent of the fault detection strategy and measurement noise statistics, and (2) a modified version of sequential probability ratio test algorithm for fault detection and isolation, which functions within the framework of this redundancy management procedure. The sequential test procedure is suitable for real-time applications using commercially available microcomputers and its efficacy has been verified by online fault detection in an operating nuclear reactor. 15 references

  8. Fault-Tolerant Region-Based Control of an Underwater Vehicle with Kinematically Redundant Thrusters

    Directory of Open Access Journals (Sweden)

    Zool H. Ismail

    2014-01-01

    Full Text Available This paper presents a new control approach for an underwater vehicle with a kinematically redundant thruster system. This control scheme is derived based on a fault-tolerant decomposition for thruster force allocation and a region control scheme for the tracking objective. Given a redundant thruster system, that is, six or more pairs of thrusters are used, the proposed redundancy resolution and region control scheme determine the number of thruster faults, as well as providing the reference thruster forces in order to keep the underwater vehicle within the desired region. The stability of the presented control law is proven in the sense of a Lyapunov function. Numerical simulations are performed with an omnidirectional underwater vehicle and the results of the proposed scheme illustrate the effectiveness in terms of optimizing the thruster forces.

  9. Effect of a certain class of potential common mode failures on the reliability of redundant systems

    International Nuclear Information System (INIS)

    Apostolakis, G.E.

    1975-11-01

    This is a theoretical investigation of the importance of common mode failures on the reliability of redundant systems. These failures are assumed to be the result of fatal shocks (e.g., from earthquakes, explosions, etc.) which occur at a constant rate. This formulation makes it possible to predict analytically results obtained in the past which showed that the probability of a common mode failure of the redundant channels of the protection system of a typical nuclear power plant was orders of magnitude larger than the probability of failure from chance failures alone. Furthermore, since most reliability analyses of redundant systems do not include potential common mode failures in the probabilistic calculations, criteria are established which can be used to decide either that the common-mode-failure effects are indeed insignificant or that such calculations are meaningless, and more sophisticated methods of analysis are required, because common mode failures cannot be ignored

  10. The Effect of Antenna Position Errors on Redundant-Baseline Calibration of HERA

    Science.gov (United States)

    Orosz, Naomi; Dillon, Joshua; Ewall-Wice, Aaron; Parsons, Aaron; HERA Collaboration

    2018-01-01

    HERA (the Hydrogen Epoch of Reionization Array) is a large, highly-redundant radio interferometer in South Africa currently being built out to 350 14-m dishes. Its mission is to probe large scale structure during and prior to the epoch of reionization using the 21 cm hyperfine transition of neutral hydrogen. The array is designed to be calibrated using redundant baselines of known lengths. However, the dishes can deviate from ideal positions, with errors on the order of a few centimeters. This potentially increases foreground contamination of the 21 cm power spectrum in the cleanest part of Fourier space. The calibration algorithm treats groups of baselines that should be redundant, but are not due to position errors, as if they actually are. Accurate, precise calibration is critical because the foreground signals are 100,000 times stronger than the reionization signal. We explain the origin of this effect and discuss weighting strategies to mitigate it.

  11. Electronic logic to enhance switch reliability in detecting openings and closures of redundant switches

    Science.gov (United States)

    Cooper, James A.

    1986-01-01

    A logic circuit is used to enhance redundant switch reliability. Two or more switches are monitored for logical high or low output. The output for the logic circuit produces a redundant and failsafe representation of the switch outputs. When both switch outputs are high, the output is high. Similarly, when both switch outputs are low, the logic circuit's output is low. When the output states of the two switches do not agree, the circuit resolves the conflict by memorizing the last output state which both switches were simultaneously in and produces the logical complement of this output state. Thus, the logic circuit of the present invention allows the redundant switches to be treated as if they were in parallel when the switches are open and as if they were in series when the switches are closed. A failsafe system having maximum reliability is thereby produced.

  12. Interactions between facial emotion and identity in face processing: evidence based on redundancy gains.

    Science.gov (United States)

    Yankouskaya, Alla; Booth, David A; Humphreys, Glyn

    2012-11-01

    Interactions between the processing of emotion expression and form-based information from faces (facial identity) were investigated using the redundant-target paradigm, in which we specifically tested whether identity and emotional expression are integrated in a superadditive manner (Miller, Cognitive Psychology 14:247-279, 1982). In Experiments 1 and 2, participants performed emotion and face identity judgments on faces with sad or angry emotional expressions. Responses to redundant targets were faster than responses to either single target when a universal emotion was conveyed, and performance violated the predictions from a model assuming independent processing of emotion and face identity. Experiment 4 showed that these effects were not modulated by varying interstimulus and nontarget contingencies, and Experiment 5 demonstrated that the redundancy gains were eliminated when faces were inverted. Taken together, these results suggest that the identification of emotion and facial identity interact in face processing.

  13. Robust Redundant Input Reliable Tracking Control for Omnidirectional Rehabilitative Training Walker

    Directory of Open Access Journals (Sweden)

    Ping Sun

    2014-01-01

    Full Text Available The problem of robust reliable tracking control on the omnidirectional rehabilitative training walker is examined. The new nonlinear redundant input method is proposed when one wheel actuator fault occurs. The aim of the study is to design an asymptotically stable controller that can guarantee the safety of the user and ensure tracking on a training path planned by a physical therapist. The redundant degrees of freedom safety control and the asymptotically zero state detectable concept of the walker are presented, the model of redundant degree is constructed, and the property of center of gravity constant shift is obtained. A controller that can satisfy asymptotic stability is obtained using a common Lyapunov function for admissible uncertainties resulting from an actuator fault. Simulation results confirm the effectiveness of the proposed method and verify that the walker can provide safe sequential motion when one wheel actuator is at fault.

  14. A novel redundant INS based on triple rotary inertial measurement units

    Science.gov (United States)

    Chen, Gang; Li, Kui; Wang, Wei; Li, Peng

    2016-10-01

    Accuracy and reliability are two key performances of inertial navigation system (INS). Rotation modulation (RM) can attenuate the bias of inertial sensors and make it possible for INS to achieve higher navigation accuracy with lower-class sensors. Therefore, the conflict between the accuracy and cost of INS can be eased. Traditional system redundancy and recently researched sensor redundancy are two primary means to improve the reliability of INS. However, how to make the best use of the redundant information from redundant sensors hasn’t been studied adequately, especially in rotational INS. This paper proposed a novel triple rotary unit strapdown inertial navigation system (TRUSINS), which combines RM and sensor redundancy design to enhance the accuracy and reliability of rotational INS. Each rotary unit independently rotates to modulate the errors of two gyros and two accelerometers. Three units can provide double sets of measurements along all three axes of body frame to constitute a couple of INSs which make TRUSINS redundant. Experiments and simulations based on a prototype which is made up of six fiber-optic gyros with drift stability of 0.05° h-1 show that TRUSINS can achieve positioning accuracy of about 0.256 n mile h-1, which is ten times better than that of a normal non-rotational INS with the same level inertial sensors. The theoretical analysis and the experimental results show that due to the advantage of the innovative structure, the designed fault detection and isolation (FDI) strategy can tolerate six sensor faults at most, and is proved to be effective and practical. Therefore, TRUSINS is particularly suitable and highly beneficial for the applications where high accuracy and high reliability is required.

  15. A novel redundant INS based on triple rotary inertial measurement units

    International Nuclear Information System (INIS)

    Chen, Gang; Li, Kui; Wang, Wei; Li, Peng

    2016-01-01

    Accuracy and reliability are two key performances of inertial navigation system (INS). Rotation modulation (RM) can attenuate the bias of inertial sensors and make it possible for INS to achieve higher navigation accuracy with lower-class sensors. Therefore, the conflict between the accuracy and cost of INS can be eased. Traditional system redundancy and recently researched sensor redundancy are two primary means to improve the reliability of INS. However, how to make the best use of the redundant information from redundant sensors hasn’t been studied adequately, especially in rotational INS. This paper proposed a novel triple rotary unit strapdown inertial navigation system (TRUSINS), which combines RM and sensor redundancy design to enhance the accuracy and reliability of rotational INS. Each rotary unit independently rotates to modulate the errors of two gyros and two accelerometers. Three units can provide double sets of measurements along all three axes of body frame to constitute a couple of INSs which make TRUSINS redundant. Experiments and simulations based on a prototype which is made up of six fiber-optic gyros with drift stability of 0.05° h −1 show that TRUSINS can achieve positioning accuracy of about 0.256 n mile h −1 , which is ten times better than that of a normal non-rotational INS with the same level inertial sensors. The theoretical analysis and the experimental results show that due to the advantage of the innovative structure, the designed fault detection and isolation (FDI) strategy can tolerate six sensor faults at most, and is proved to be effective and practical. Therefore, TRUSINS is particularly suitable and highly beneficial for the applications where high accuracy and high reliability is required. (paper)

  16. Reliability optimization of series-parallel systems with a choice of redundancy strategies using a genetic algorithm

    Energy Technology Data Exchange (ETDEWEB)

    Tavakkoli-Moghaddam, R. [Department of Industrial Engineering, Faculty of Engineering, University of Tehran, P.O. Box 11365/4563, Tehran (Iran, Islamic Republic of); Department of Mechanical Engineering, The University of British Columbia, Vancouver (Canada)], E-mail: tavakoli@ut.ac.ir; Safari, J. [Department of Industrial Engineering, Science and Research Branch, Islamic Azad University, Tehran (Iran, Islamic Republic of)], E-mail: jalalsafari@pideco.com; Sassani, F. [Department of Mechanical Engineering, The University of British Columbia, Vancouver (Canada)], E-mail: sassani@mech.ubc.ca

    2008-04-15

    This paper proposes a genetic algorithm (GA) for a redundancy allocation problem for the series-parallel system when the redundancy strategy can be chosen for individual subsystems. Majority of the solution methods for the general redundancy allocation problems assume that the redundancy strategy for each subsystem is predetermined and fixed. In general, active redundancy has received more attention in the past. However, in practice both active and cold-standby redundancies may be used within a particular system design and the choice of the redundancy strategy becomes an additional decision variable. Thus, the problem is to select the best redundancy strategy, component, and redundancy level for each subsystem in order to maximize the system reliability under system-level constraints. This belongs to the NP-hard class of problems. Due to its complexity, it is so difficult to optimally solve such a problem by using traditional optimization tools. It is demonstrated in this paper that GA is an efficient method for solving this type of problems. Finally, computational results for a typical scenario are presented and the robustness of the proposed algorithm is discussed.

  17. Reliability optimization of series-parallel systems with a choice of redundancy strategies using a genetic algorithm

    International Nuclear Information System (INIS)

    Tavakkoli-Moghaddam, R.; Safari, J.; Sassani, F.

    2008-01-01

    This paper proposes a genetic algorithm (GA) for a redundancy allocation problem for the series-parallel system when the redundancy strategy can be chosen for individual subsystems. Majority of the solution methods for the general redundancy allocation problems assume that the redundancy strategy for each subsystem is predetermined and fixed. In general, active redundancy has received more attention in the past. However, in practice both active and cold-standby redundancies may be used within a particular system design and the choice of the redundancy strategy becomes an additional decision variable. Thus, the problem is to select the best redundancy strategy, component, and redundancy level for each subsystem in order to maximize the system reliability under system-level constraints. This belongs to the NP-hard class of problems. Due to its complexity, it is so difficult to optimally solve such a problem by using traditional optimization tools. It is demonstrated in this paper that GA is an efficient method for solving this type of problems. Finally, computational results for a typical scenario are presented and the robustness of the proposed algorithm is discussed

  18. Risk-based replacement strategies for redundant deteriorating reinforced concrete pipe networks

    International Nuclear Information System (INIS)

    Adey, B.; Bernard, O.; Gerard, B.

    2003-01-01

    This paper gives an example of how predictive models of the deterioration of reinforced concrete pipes and the consequences of failure can be used to develop risk-based replacement strategies for redundant reinforced concrete pipe networks. It also shows how an accurate deterioration prediction can lead to a reduction of agency costs, and illustrates the limitation of the incremental intervention step algorithm. The main conclusion is that the use of predictive models, such as those developed by Oxand S.A., in the determination of replacement strategies for redundant reinforced concrete pipe networks can lead to a significant reduction in overall costs for the owner of the structure. (author)

  19. Obstacle avoidance for kinematically redundant robots using an adaptive fuzzy logic algorithm

    International Nuclear Information System (INIS)

    Beheshti, M.T.H.; Tehrani, A.K.

    1999-05-01

    In this paper the Adaptive Fuzzy Logic approach for solving the inverse kinematics of redundant robots in an environment with obstacles is presented. The obstacles are modeled as convex bodies. A fuzzy rule base that is updated via an adaptive law is used to solve the inverse kinematic problem. Additional rules have been introduced to take care of the obstacles avoidance problem. The proposed method has advantages such as high accuracy, simplicity of computations and generality for all redundant robots. Simulation results illustrate much better tracking performance than the dynamic base solution for a given trajectory in cartesian space, while guaranteeing a collision-free trajectory and observation of a mechanical joint limit

  20. CCF analysis of high redundancy systems safety/relief valve data analysis and reference BWR application

    International Nuclear Information System (INIS)

    Mankamo, T.; Bjoere, S.; Olsson, Lena

    1992-12-01

    Dependent failure analysis and modeling were developed for high redundancy systems. The study included a comprehensive data analysis of safety and relief valves at the Finnish and Swedish BWR plants, resulting in improved understanding of Common Cause Failure mechanisms in these components. The reference application on the Forsmark 1/2 reactor relief system, constituting of twelve safety/relief lines and two regulating relief lines, covered different safety criteria cases of reactor depressurization and overpressure protection function, and failure to re close sequences. For the quantification of dependencies, the Alpha Factor Model, the Binomial Probability Model and the Common Load Model were compared for applicability in high redundancy systems

  1. A model for the coupling of failure rates in a redundant system

    International Nuclear Information System (INIS)

    Kleppmann, W.G.; Wutschig, R.

    1986-01-01

    A model is developed which takes into acount the coupling between failure rates or identical components in different redundancies of a safety system, i.e., the fact that the failure rates of identical components subjected to the same operating conditions will scatter less than the failure rates of any two components of the same type. It is shown that with increasing coupling the expectation value and the variance of the distribution of the failure probability of the redundant system increases. A consistent way to incorporate operating experience in a Bayesian framework is developed and the reults are presented. (orig.)

  2. A new way to improve the robustness of complex communication networks by allocating redundancy links

    International Nuclear Information System (INIS)

    Shi Chunhui; Zhuo Yue; Tang Jieying; Long Keping; Peng Yunfeng

    2012-01-01

    We investigate the robustness of complex communication networks on allocating redundancy links. The protecting key nodes (PKN) strategy is proposed to improve the robustness of complex communication networks against intentional attack. Our numerical simulations show that allocating a few redundant links among key nodes using the PKN strategy will significantly increase the robustness of scale-free complex networks. We have also theoretically proved and demonstrated the effectiveness of the PKN strategy. We expect that our work will help achieve a better understanding of communication networks. (paper)

  3. Auxiliary partial liver transplantation

    NARCIS (Netherlands)

    C.B. Reuvers (Cornelis Bastiaan)

    1986-01-01

    textabstractIn this thesis studies on auxiliary partial liver transplantation in the dog and the pig are reported. The motive to perform this study was the fact that patients with acute hepatic failure or end-stage chronic liver disease are often considered to form too great a risk for successful

  4. Partial Remission Definition

    DEFF Research Database (Denmark)

    Andersen, Marie Louise Max; Hougaard, Philip; Pörksen, Sven

    2014-01-01

    OBJECTIVE: To validate the partial remission (PR) definition based on insulin dose-adjusted HbA1c (IDAA1c). SUBJECTS AND METHODS: The IDAA1c was developed using data in 251 children from the European Hvidoere cohort. For validation, 129 children from a Danish cohort were followed from the onset...

  5. Fundamental partial compositeness

    DEFF Research Database (Denmark)

    Sannino, Francesco; Strumia, Alessandro; Tesi, Andrea

    2016-01-01

    We construct renormalizable Standard Model extensions, valid up to the Planck scale, that give a composite Higgs from a new fundamental strong force acting on fermions and scalars. Yukawa interactions of these particles with Standard Model fermions realize the partial compositeness scenario. Unde...

  6. Partially ordered models

    NARCIS (Netherlands)

    Fernandez, R.; Deveaux, V.

    2010-01-01

    We provide a formal definition and study the basic properties of partially ordered chains (POC). These systems were proposed to model textures in image processing and to represent independence relations between random variables in statistics (in the later case they are known as Bayesian networks).

  7. Partially Hidden Markov Models

    DEFF Research Database (Denmark)

    Forchhammer, Søren Otto; Rissanen, Jorma

    1996-01-01

    Partially Hidden Markov Models (PHMM) are introduced. They differ from the ordinary HMM's in that both the transition probabilities of the hidden states and the output probabilities are conditioned on past observations. As an illustration they are applied to black and white image compression where...

  8. Honesty in partial logic

    NARCIS (Netherlands)

    W. van der Hoek (Wiebe); J.O.M. Jaspars; E. Thijsse

    1995-01-01

    textabstractWe propose an epistemic logic in which knowledge is fully introspective and implies truth, although truth need not imply epistemic possibility. The logic is presented in sequential format and is interpreted in a natural class of partial models, called balloon models. We examine the

  9. Algebraic partial Boolean algebras

    International Nuclear Information System (INIS)

    Smith, Derek

    2003-01-01

    Partial Boolean algebras, first studied by Kochen and Specker in the 1960s, provide the structure for Bell-Kochen-Specker theorems which deny the existence of non-contextual hidden variable theories. In this paper, we study partial Boolean algebras which are 'algebraic' in the sense that their elements have coordinates in an algebraic number field. Several of these algebras have been discussed recently in a debate on the validity of Bell-Kochen-Specker theorems in the context of finite precision measurements. The main result of this paper is that every algebraic finitely-generated partial Boolean algebra B(T) is finite when the underlying space H is three-dimensional, answering a question of Kochen and showing that Conway and Kochen's infinite algebraic partial Boolean algebra has minimum dimension. This result contrasts the existence of an infinite (non-algebraic) B(T) generated by eight elements in an abstract orthomodular lattice of height 3. We then initiate a study of higher-dimensional algebraic partial Boolean algebras. First, we describe a restriction on the determinants of the elements of B(T) that are generated by a given set T. We then show that when the generating set T consists of the rays spanning the minimal vectors in a real irreducible root lattice, B(T) is infinite just if that root lattice has an A 5 sublattice. Finally, we characterize the rays of B(T) when T consists of the rays spanning the minimal vectors of the root lattice E 8

  10. Characterization of an aquaporin-2 water channel gene mutation causing partial nephrogenic diabetes insipidus in a Mexican family: evidence of increased frequency of the mutation in the town of origin.

    NARCIS (Netherlands)

    Boccalandro, C.; Mattia, F.P. de; Guo, D.C.; Xue, L.; Orlander, P.; King, T.M.; Gupta, P.; Deen, P.M.T.; Lavis, V.R.; Milewicz, D.M.

    2004-01-01

    A Mexican family with partial congenital nephrogenic diabetes insipidus (NDI) that resulted from a mutation in the aquaporin-2 water channel (AQP2) was characterized, and the source of this rare mutation was traced to the family's town of origin in Mexico. Affected individuals with profound polyuria

  11. A two-stage approach for managing actuators redundancy and its application to fault tolerant flight control

    Directory of Open Access Journals (Sweden)

    Zhong Lunlong

    2015-04-01

    Full Text Available In safety-critical systems such as transportation aircraft, redundancy of actuators is introduced to improve fault tolerance. How to make the best use of remaining actuators to allow the system to continue achieving a desired operation in the presence of some actuators failures is the main subject of this paper. Considering that many dynamical systems, including flight dynamics of a transportation aircraft, can be expressed as an input affine nonlinear system, a new state representation is adopted here where the output dynamics are related with virtual inputs associated with the intended operation. This representation, as well as the distribution matrix associated with the effectiveness of the remaining operational actuators, allows us to define different levels of fault tolerant governability with respect to actuators’ failures. Then, a two-stage control approach is developed, leading first to the inversion of the output dynamics to get nominal values for the virtual inputs and then to the solution of a linear quadratic (LQ problem to compute the solicitation of each operational actuator. The proposed approach is applied to the control of a transportation aircraft which performs a stabilized roll maneuver while a partial failure appears. Two fault scenarios are considered and the resulting performance of the proposed approach is displayed and discussed.

  12. Partial Androgen Insensitivity Syndrome Presenting with Gynecomastia

    Directory of Open Access Journals (Sweden)

    Sung Won Lee

    2015-06-01

    Full Text Available Gynecomastia is a benign enlargement of the male breast caused by the proliferation of glandular breast tissue. Determining the various causes of gynecomastia such as physiological causes, drugs, systemic diseases, and endocrine disorders is important. Androgen insensitivity syndrome (AIS is a rare endocrine disorder presenting with gynecomastia and is a disorder of male sexual differentiation caused by mutations within the androgen receptor gene. All individuals with AIS have the 46 XY karyotype, although AIS phenotypes can be classified as mild, partial or complete and can differ among both males and females including ambiguous genitalia or infertility in males. We experienced a case of partial AIS presenting with gynecomastia and identified the androgen receptor gene mutation.

  13. Homology-dependent Gene Silencing in Paramecium

    Science.gov (United States)

    Ruiz, Françoise; Vayssié, Laurence; Klotz, Catherine; Sperling, Linda; Madeddu, Luisa

    1998-01-01

    Microinjection at high copy number of plasmids containing only the coding region of a gene into the Paramecium somatic macronucleus led to a marked reduction in the expression of the corresponding endogenous gene(s). The silencing effect, which is stably maintained throughout vegetative growth, has been observed for all Paramecium genes examined so far: a single-copy gene (ND7), as well as members of multigene families (centrin genes and trichocyst matrix protein genes) in which all closely related paralogous genes appeared to be affected. This phenomenon may be related to posttranscriptional gene silencing in transgenic plants and quelling in Neurospora and allows the efficient creation of specific mutant phenotypes thus providing a potentially powerful tool to study gene function in Paramecium. For the two multigene families that encode proteins that coassemble to build up complex subcellular structures the analysis presented herein provides the first experimental evidence that the members of these gene families are not functionally redundant. PMID:9529389

  14. Genome-wide analysis of the Dof transcription factor gene family reveals soybean-specific duplicable and functional characteristics.

    Directory of Open Access Journals (Sweden)

    Yong Guo

    Full Text Available The Dof domain protein family is a classic plant-specific zinc-finger transcription factor family involved in a variety of biological processes. There is great diversity in the number of Dof genes in different plants. However, there are only very limited reports on the characterization of Dof transcription factors in soybean (Glycine max. In the present study, 78 putative Dof genes were identified from the whole-genome sequence of soybean. The predicted GmDof genes were non-randomly distributed within and across 19 out of 20 chromosomes and 97.4% (38 pairs were preferentially retained duplicate paralogous genes located in duplicated regions of the genome. Soybean-specific segmental duplications contributed significantly to the expansion of the soybean Dof gene family. These Dof proteins were phylogenetically clustered into nine distinct subgroups among which the gene structure and motif compositions were considerably conserved. Comparative phylogenetic analysis of these Dof proteins revealed four major groups, similar to those reported for Arabidopsis and rice. Most of the GmDofs showed specific expression patterns based on RNA-seq data analyses. The expression patterns of some duplicate genes were partially redundant while others showed functional diversity, suggesting the occurrence of sub-functionalization during subsequent evolution. Comprehensive expression profile analysis also provided insights into the soybean-specific functional divergence among members of the Dof gene family. Cis-regulatory element analysis of these GmDof genes suggested diverse functions associated with different processes. Taken together, our results provide useful information for the functional characterization of soybean Dof genes by combining phylogenetic analysis with global gene-expression profiling.

  15. Partially composite Higgs models

    DEFF Research Database (Denmark)

    Alanne, Tommi; Buarque Franzosi, Diogo; Frandsen, Mads T.

    2018-01-01

    We study the phenomenology of partially composite-Higgs models where electroweak symmetry breaking is dynamically induced, and the Higgs is a mixture of a composite and an elementary state. The models considered have explicit realizations in terms of gauge-Yukawa theories with new strongly...... interacting fermions coupled to elementary scalars and allow for a very SM-like Higgs state. We study constraints on their parameter spaces from vacuum stability and perturbativity as well as from LHC results and find that requiring vacuum stability up to the compositeness scale already imposes relevant...... constraints. A small part of parameter space around the classically conformal limit is stable up to the Planck scale. This is however already strongly disfavored by LHC results. in different limits, the models realize both (partially) composite-Higgs and (bosonic) technicolor models and a dynamical extension...

  16. Functional redundancy and sensitivity of fish assemblages in European rivers, lakes and estuarine ecosystems.

    Science.gov (United States)

    Teichert, Nils; Lepage, Mario; Sagouis, Alban; Borja, Angel; Chust, Guillem; Ferreira, Maria Teresa; Pasquaud, Stéphanie; Schinegger, Rafaela; Segurado, Pedro; Argillier, Christine

    2017-12-14

    The impact of species loss on ecosystems functioning depends on the amount of trait similarity between species, i.e. functional redundancy, but it is also influenced by the order in which species are lost. Here we investigated redundancy and sensitivity patterns across fish assemblages in lakes, rivers and estuaries. Several scenarios of species extinction were simulated to determine whether the loss of vulnerable species (with high propensity of extinction when facing threats) causes a greater functional alteration than random extinction. Our results indicate that the functional redundancy tended to increase with species richness in lakes and rivers, but not in estuaries. We demonstrated that i) in the three systems, some combinations of functional traits are supported by non-redundant species, ii) rare species in rivers and estuaries support singular functions not shared by dominant species, iii) the loss of vulnerable species can induce greater functional alteration in rivers than in lakes and estuaries. Overall, the functional structure of fish assemblages in rivers is weakly buffered against species extinction because vulnerable species support singular functions. More specifically, a hotspot of functional sensitivity was highlighted in the Iberian Peninsula, which emphasizes the usefulness of quantitative criteria to determine conservation priorities.

  17. Microsatellite-aided detection of genetic redundancy improves management of the International Cocoa Genebank, Trinidad

    Science.gov (United States)

    Cacao (Theobroma cacao L.), the tree from which cocoa butter and chocolate is derived, is conserved in field genebanks. The largest of these ex situ collections in the public domain is the International Cocoa Genebank, Trinidad (ICG,T). Reduction of genetic redundancy is essential to improve the acc...

  18. The Redundancy Effect on Retention and Transfer for Individuals with High Symptoms of ADHD

    Science.gov (United States)

    Brown, Victoria; Lewis, David; Toussaint, Mario

    2016-01-01

    The multimedia elements of text and audio need to be carefully integrated together to maximize the impact of those elements for learning in a multimedia environment. Redundancy information presented through audio and visual channels can inhibit learning for individuals diagnosed with ADHD, who may experience challenges in the processing of…

  19. Reliability Equivalence to Symmetrical UHVDC Transmission Systems Considering Redundant Structure Configuration

    Directory of Open Access Journals (Sweden)

    Xing Jiang

    2018-03-01

    Full Text Available In recent years, the ultra-high voltage direct current (UHVDC transmission system has been developed rapidly for its significant long-distance, high-capacity and low-loss properties. Equipment failures and overall outages of the UHVDC system have increasingly vital influence on the power supply of the receiving end grid. To improve the reliability level of UHVDC systems, a quantitative selection and configuration approach of redundant structures is proposed in this paper, which is based on multi-state reliability equivalence. Specifically, considering the symmetry characteristic of an UHVDC system, a state space model is established as a monopole rather than a bipole, which effectively reduces the state space dimensions to be considered by deducing the reliability merging operator of two poles. Considering the standby effect of AC filters and the recovery effect of converter units, the number of available converter units and corresponding probability are expressed with in universal generating function (UGF form. Then, a sensitivity analysis is performed to quantify the impact of component reliability parameters on system reliability and determine the most specific devices that should be configured in the redundant structure. Finally, a cost-benefit analysis is utilized to help determine the optimal scheme of redundant devices. Case studies are conducted to demonstrate the effectiveness and accuracy of the proposed method. Based on the numerical results, configuring a set of redundant transformers is indicated to be of the greatest significance to improve the reliability level of UHVDC transmission systems.

  20. Temporal information partitioning: Characterizing synergy, uniqueness, and redundancy in interacting environmental variables

    Science.gov (United States)

    Goodwell, Allison E.; Kumar, Praveen

    2017-07-01

    Information theoretic measures can be used to identify nonlinear interactions between source and target variables through reductions in uncertainty. In information partitioning, multivariate mutual information is decomposed into synergistic, unique, and redundant components. Synergy is information shared only when sources influence a target together, uniqueness is information only provided by one source, and redundancy is overlapping shared information from multiple sources. While this partitioning has been applied to provide insights into complex dependencies, several proposed partitioning methods overestimate redundant information and omit a component of unique information because they do not account for source dependencies. Additionally, information partitioning has only been applied to time-series data in a limited context, using basic pdf estimation techniques or a Gaussian assumption. We develop a Rescaled Redundancy measure (Rs) to solve the source dependency issue, and present Gaussian, autoregressive, and chaotic test cases to demonstrate its advantages over existing techniques in the presence of noise, various source correlations, and different types of interactions. This study constitutes the first rigorous application of information partitioning to environmental time-series data, and addresses how noise, pdf estimation technique, or source dependencies can influence detected measures. We illustrate how our techniques can unravel the complex nature of forcing and feedback within an ecohydrologic system with an application to 1 min environmental signals of air temperature, relative humidity, and windspeed. The methods presented here are applicable to the study of a broad range of complex systems composed of interacting variables.