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Sample records for hybridization fish method

  1. Interphase cytogenetics in pathology: principles, methods, and applications of fluorescence in situ hybridization (FISH).

    Science.gov (United States)

    Werner, M; Wilkens, L; Aubele, M; Nolte, M; Zitzelsberger, H; Komminoth, P

    1997-01-01

    Characteristic chromosome aberrations have been identified in various tumors. Fluorescence in situ hybridization (FISH) using specific probes that are generated by vector cloning or in vitro amplification and labeled with fluorescent dyes allow for the detection of these genetic changes in interphase cells. This technique, that is also referred to as "interphase cytogenetics", can be performed in cytological preparations as well as in sections of routinely formaldehyde-fixed and paraffin-embedded tissue. In cancer research and diagnostics, interphase cytogenetics by FISH is used to detect numerical chromosome changes and structural aberrations, e.g., translocations, deletions, or amplifications. In this technical overview, we explain the principles of the FISH method and provide protocols for FISH in cytological preparations and paraffin sections. Moreover, possible applications of FISH are discussed.

  2. Marine Fish Hybridization

    KAUST Repository

    He, Song

    2017-04-01

    Natural hybridization is reproduction (without artificial influence) between two or more species/populations which are distinguishable from each other by heritable characters. Natural hybridizations among marine fishes were highly underappreciated due to limited research effort; it seems that this phenomenon occurs more often than is commonly recognized. As hybridization plays an important role in biodiversity processes in the marine environment, detecting hybridization events and investigating hybridization is important to understand and protect biodiversity. The first chapter sets the framework for this disseration study. The Cohesion Species Concept was selected as the working definition of a species for this study as it can handle marine fish hybridization events. The concept does not require restrictive species boundaries. A general history and background of natural hybridization in marine fishes is reviewed during in chapter as well. Four marine fish hybridization cases were examed and documented in Chapters 2 to 5. In each case study, at least one diagnostic nuclear marker, screened from among ~14 candidate markers, was found to discriminate the putative hybridizing parent species. To further investigate genetic evidence to support the hybrid status for each hybrid offspring in each case, haploweb analysis on diagnostic markers (nuclear and/or mitochondrial) and the DAPC/PCA analysis on microsatellite data were used. By combining the genetic evidences, morphological traits, and ecological observations together, the potential reasons that triggered each hybridization events and the potential genetic/ecology effects could be discussed. In the last chapter, sequences from 82 pairs of hybridizing parents species (for which COI barcoding sequences were available either on GenBank or in our lab) were collected. By comparing the COI fragment p-distance between each hybridizing parent species, some general questions about marine fish hybridization were discussed: Is

  3. Distant hybridization leads to different ploidy fishes

    Institute of Scientific and Technical Information of China (English)

    2010-01-01

    Distant hybridization makes it possible to transfer the genome of one species to another, which results in changes in phenotypes and genotypes of the progenies. This study shows that distant hybridization or the combination of this method with gynogenesis or androgenesis lead to different ploidy fishes with genetic variation, including fertile tetraploid hybrids, sterile triploid hybrids, fertile diploid hybrids, fertile diploid gynogenetic fish, and their derived progenies. The formations of the different ploidy fishes depend on the genetic relationship between the parents. In this study, several types of distant hybridization, including red crucian carp (Carassius auratus red var.) (2n=100, abbreviated as RCC) (♀)×common carp (Cyprinus carpio L.) (2n=100, abbreviated as CC) (♂), and RCC (2n=100) (♀)×blunt snout bream (Megalobrama amblycephala) (2n=48, abbreviated as BSB) (♂) are described. In the distant hybridization of RCC (♀)×CC (♂), bisexual fertile F3–F18 allotetraploid hybrids (4n=200, abbreviated as 4nAT) were formed. The diploid hybrid eggs and diploid sperm generated by the females and males of 4nAT developed into diploid gynogenetic hybrids and diploid androgenetic hybrids, respectively, by gynogenesis and androgenesis, without treatment for doubling the chromosome. Improved tetraploid hybrids and improved diploid fishes with genetic variation were derived from the gynogenetic hybrid line. The improved diploid fishes included the high-body RCC and high-body goldfish. The formation of the tetraploid hybrids was related to the occurrence of unreduced gametes generated from the diploid hybrids, which involved in premeiotic endoreduplication, endomitosis, or fusion of germ cells. The sterile triploid hybrids (3n=150) were produced on a large scale by crossing the males of tetraploid hybrids with females of diploid fish (2n=100). In another distant hybridization of RCC (♀)×BSB (♂), different ploidy fishes were obtained, including

  4. Distant hybridization leads to different ploidy fishes.

    Science.gov (United States)

    Liu, ShaoJun

    2010-04-01

    Distant hybridization makes it possible to transfer the genome of one species to another, which results in changes in phenotypes and genotypes of the progenies. This study shows that distant hybridization or the combination of this method with gynogenesis or androgenesis lead to different ploidy fishes with genetic variation, including fertile tetraploid hybrids, sterile triploid hybrids, fertile diploid hybrids, fertile diploid gynogenetic fish, and their derived progenies. The formations of the different ploidy fishes depend on the genetic relationship between the parents. In this study, several types of distant hybridization, including red crucian carp (Carassius auratus red var.) (2n=100, abbreviated as RCC) (female) x common carp (Cyprinus carpio L.) (2n=100, abbreviated as CC) (male), and RCC (2n=100) (female) x blunt snout bream (Megalobrama amblycephala) (2n=48, abbreviated as BSB) (male) are described. In the distant hybridization of RCC (female) x CC (male), bisexual fertile F(3)-F(18) allotetraploid hybrids (4n=200, abbreviated as 4nAT) were formed. The diploid hybrid eggs and diploid sperm generated by the females and males of 4nAT developed into diploid gynogenetic hybrids and diploid androgenetic hybrids, respectively, by gynogenesis and androgenesis, without treatment for doubling the chromosome. Improved tetraploid hybrids and improved diploid fishes with genetic variation were derived from the gynogenetic hybrid line. The improved diploid fishes included the high-body RCC and high-body goldfish. The formation of the tetraploid hybrids was related to the occurrence of unreduced gametes generated from the diploid hybrids, which involved in premeiotic endoreduplication, endomitosis, or fusion of germ cells. The sterile triploid hybrids (3n=150) were produced on a large scale by crossing the males of tetraploid hybrids with females of diploid fish (2n=100). In another distant hybridization of RCC (female) x BSB (male), different ploidy fishes were

  5. Locked Nucleic Acid Flow Cytometry-fluorescence in situ Hybridization (LNA flow-FISH): A Method for Bacterial Small RNA Detection

    Science.gov (United States)

    2012-01-10

    Friedrich, U. & Lenke, J. Improved Enumeration of Lactic Acid Bacteria in Mesophilic Dairy Starter Cultures by Using Multiplex Quantitative Real...messenger RNA using locked nucleic acid probes. Anal. Biochem. 390, 109-114 (2009). 13. Waters, L. & Storz, G. Regulatory RNAs in bacteria . Cell. 136, 615...Video Article Locked Nucleic Acid Flow Cytometry-fluorescence in situ Hybridization (LNA flow-FISH): a Method for Bacterial Small RNA Detection Kelly

  6. Hybrid seine for full fish community collections

    Science.gov (United States)

    McKenna, James E.; Waldt, Emily M.; Abbett, Ross; David, Anthony; Snyder, James

    2013-01-01

    Seines are simple and effective fish collection gears, but the net mesh size influences how well the catch represents the fish communities. We designed and tested a hybrid seine with a dual-mesh bag (1/4″ and 1/8″) and compared the fish assemblage collected by each mesh. The fine-mesh net retained three times as many fish and collected more species (as many as eight), including representatives of several rare species, than did the coarser mesh. The dual-mesh bag permitted us to compare both sizes and species retained by each layer and to develop species-specific abundance correction factors, which allowed comparison of catches with the coarse-mesh seine used for earlier collections. The results indicate that a hybrid seine with coarse-mesh wings and a fine-mesh bag would enhance future studies of fish communities, especially when small-bodied fishes or early life stages are the research focus.

  7. Application of fluorescence in situ hybridization (FISH) to the ...

    African Journals Online (AJOL)

    Application of fluorescence in situ hybridization (FISH) to the analysis of ... In this study, fluorescent in situ hybridization (FISH) as a culture-independent molecular ... a high percentage and took place in an oily biological system under aerobic ...

  8. The chromosomal constitution of fish hybrid lineage revealed by 5S rDNA FISH.

    Science.gov (United States)

    Zhang, Chun; Ye, Lihai; Chen, Yiyi; Xiao, Jun; Wu, Yanhong; Tao, Min; Xiao, Yamei; Liu, Shaojun

    2015-12-03

    The establishment of the bisexual fertile fish hybrid lineage including the allodiploid and allotetraploid hybrids, from interspecific hybridization of red crucian carp (Carassius auratus red var. 2n = 100, 2n = AA) (♀) × common carp (Cyprinus carpio L. 2n = 100, 2n = BB) (♂), provided a good platform to investigate genetic relationship between the parents and their hybrid progenies. The chromosomal inheritance of diploid and allotetraploid hybrid progenies in successive generations, was studied by applying 5S rDNA fluorescence in situ hybridization. Signals of 5S rDNA distinguished the chromosomal constitution of common carp (B-genome) from red crucian carp (A-genome), in which two strong signals were observed on the first submetacentric chromosome, while no major signal was found in common carp. After fish hybridization, one strong signal of 5S rDNA was detected in the same locus on the chromosome of diploid hybrids. As expected, two strong signals were observed in 4nF3 tetraploid hybrids offspring and it is worth mentioning that two strong signals were detected in a separating bivalent of a primary spermatocyte in 4nF3. Furthermore, the mitosis of heterozygous chromosomes was shown normal and stable with blastular tissue histological studies. We revealed that 5S rDNA signal can be applied to discern A-genome from B-genome, and that 5S rDNA bearing chromosomes can be stably passed down in successive generations. Our work provided a significant method in fish breeding and this is important for studies in fish evolutionary biology.

  9. [Evaluation of peptide nucleic acid fluorescent in situ hybridization (PNA FISH) method in the identifi cation of Candida species isolated from blood cultures].

    Science.gov (United States)

    Aydemir, Gonca; Koç, Ayşe Nedret; Atalay, Mustafa Altay

    2016-04-01

    In recent years, increased number of patients who are hospitalized in intensive care units, received immunosuppressive therapy and treated with broad-spectrum antibiotics that can lead an increase in the incidence of systemic candidiasis. In these patients, the most common clinical manifestation is candidemia. Since the identification of Candida species isolated from blood cultures is time consuming by conventional (morphological and biochemical) methods, rapid, reliable and accurate methods are needed. For this purpose novel systems have been developed to identify the agent directly. The aim of this study was to evaluate the peptide nucleic acid fluorescent in situ hybridization (PNA FISH) method for the identification of Candida species by comparing with the conventional methods. A total of 50 patients who were admitted to Erciyes University Medical Faculty Hospital clinics and followed with prediagnosis of systemic fungal infections whose blood cultures were positive for the yeasts between July 2011 and July 2012 were included in the study. The conventional identification of Candida isolates was performed by considering macroscopic and microscopic morphology, germ tube test, cycloheximide sensitivity, urease activity and carbohydrate assimilation patterns with API 20C AUX (bioMerieux, France) test. PNA FISH method was conducted by the use of a commercial kit namely Yeast Traffic Light(®) PNA FISH (AdvanDx, USA). According to morphological and biochemical characteristics (conventional methods), 19 (38%) out of 50 Candida isolates were identified as C.albicans, 12 (24%) as C.glabrata, five (10%) as C.parapsilosis, five (10%) as C.kefyr, four (8%) as C.krusei, two (4%) as C.guilliermondii, two (4%) as C.tropicalis and one (2%) as C.lusitaniae. On the other hand, 24 (48%) of the isolates were identified as C.albicans/C.parapsilosis (with green fluorescence), 16 (32%) as C.glabrata/C.krusei (with red fluorescence) and one (%2) as C.tropicalis (with yellow

  10. Fish elevator and method of elevating fish

    Science.gov (United States)

    Truebe, Jonathan; Drooker, Michael S.

    1984-01-01

    A means and method for transporting fish from a lower body of water to a higher body of water. The means comprises a tubular lock with a gated entrance below the level of the lower body of water through which fish may enter the lock and a discharge passage above the level of the upper body of water. The fish raising means in the lock is a crowder pulled upward by a surface float as water from the upper body of water gravitationally flows into the closed lock filling it to the level of the upper body. Water is then pumped into the lock to raise the level to the discharge passage. The crowder is then caused to float upward the remaining distance through the water to the level of the discharge passage by the introduction of air into a pocket on the underside of the crowder. The fish are then automatically discharged from the lock into the discharge passage by the out of water position of the crowder. The movement of the fish into the discharge passage is aided by the continuous overflow of water still being pumped into the lock. A pipe may be connected to the discharge passage to deliver the fish to a selected location in the upper body of water.

  11. Metaphase FISH on a Chip: Miniaturized Microfluidic Device for Fluorescence in situ Hybridization

    DEFF Research Database (Denmark)

    Vedarethinam, Indumathi; Shah, Pranjul Jaykumar; Dimaki, Maria;

    2010-01-01

    Fluorescence in situ Hybridization (FISH) is a major cytogenetic technique for clinical genetic diagnosis of both inherited and acquired chromosomal abnormalities. Although FISH techniques have evolved and are often used together with other cytogenetic methods like CGH, PRINS and PNA-FISH, the pr......Fluorescence in situ Hybridization (FISH) is a major cytogenetic technique for clinical genetic diagnosis of both inherited and acquired chromosomal abnormalities. Although FISH techniques have evolved and are often used together with other cytogenetic methods like CGH, PRINS and PNA...

  12. Study of the Artificial Fish Swarm Algorithm for Hybrid Clustering

    Directory of Open Access Journals (Sweden)

    Hongwei Zhao

    2015-06-01

    Full Text Available The basic Artificial Fish Swarm (AFS Algorithm is a new type of an heuristic swarm intelligence algorithm, but it is difficult to optimize to get high precision due to the randomness of the artificial fish behavior, which belongs to the intelligence algorithm. This paper presents an extended AFS algorithm, namely the Cooperative Artificial Fish Swarm (CAFS, which significantly improves the original AFS in solving complex optimization problems. K-medoids clustering algorithm is being used to classify data, but the approach is sensitive to the initial selection of the centers with low quality of the divided cluster. A novel hybrid clustering method based on the CAFS and K-medoids could be used for solving clustering problems. In this work, first, CAFS algorithm is used for optimizing six widely-used benchmark functions, coming up with comparative results produced by AFS and CAFS, then Particle Swarm Optimization (PSO is studied. Second, the hybrid algorithm with K-medoids and CAFS algorithms is used for data clustering on several benchmark data sets. The performance of the hybrid algorithm based on K-medoids and CAFS is compared with AFS and CAFS algorithms on a clustering problem. The simulation results show that the proposed CAFS outperforms the other two algorithms in terms of accuracy and robustness.

  13. Marine genetic swamping: hybrids replace an obligately estuarine fish.

    Science.gov (United States)

    Roberts, David G; Gray, Charles A; West, Ronald J; Ayre, David J

    2010-02-01

    Populations of obligately estuarine taxa are potentially small and isolated and may lack genetic variation and display regional differentiation as a result of drift and inbreeding. Hybridization with a wide-ranging marine congener should introduce genetic variation and reduce the effects of inbreeding depression and genetic drift. However, high levels of hybridization can cause demographic and genetic swamping. In southeastern Australia hybridization occurs between obligately estuarine Black bream (Acanthopagrus butcheri) and migratory marine Yellowfin bream (Acanthopagrus australis). Here, we surveyed genetic variation at eight microsatellite loci and the mitochondrial control region of juvenile fish from five coastal lagoons (including temporal replication in two lagoons) (total n = 970) to determine the frequency and persistence of hybridization, and its likely consequence for the estuarine restricted A. butcheri. Of 688 juvenile fish genotyped 95% were either A. australis (347) or hybrids (309); only 5% (32) were A. butcheri. Most hybrids were later generation hybrids or A. butcheri backcrosses, which are likely multi-generational residents within lagoons. Far greater proportions of hybrid juveniles were found within two lagoons that are generally closed to the ocean (>90% hybrid fish within generally closed lagoons vs. 12-27% in permanently or intermittently open lagoons). In both lagoons, this was consistent across multiple cohorts of fish [79-97% hybrid fish (n = 282)]. Hybridization and introgression represent a major threat to the persistence of A. butcheri and have yet to be investigated for large numbers of estuarine taxa.

  14. Ancient hybridization and genomic stabilization in a swordtail fish.

    Science.gov (United States)

    Schumer, Molly; Cui, Rongfeng; Powell, Daniel L; Rosenthal, Gil G; Andolfatto, Peter

    2016-06-01

    A rapidly increasing body of work is revealing that the genomes of distinct species often exhibit hybrid ancestry, presumably due to postspeciation hybridization between closely related species. Despite the growing number of documented cases, we still know relatively little about how genomes evolve and stabilize following hybridization, and to what extent hybridization is functionally relevant. Here, we examine the case of Xiphophorus nezahualcoyotl, a teleost fish whose genome exhibits significant hybrid ancestry. We show that hybridization was relatively ancient and is unlikely to be ongoing. Strikingly, the genome of X. nezahualcoyotl has largely stabilized following hybridization, distinguishing it from examples such as human-Neanderthal hybridization. Hybridization-derived regions are remarkably distinct from other regions of the genome, tending to be enriched in genomic regions with reduced constraint. These results suggest that selection has played a role in removing hybrid ancestry from certain functionally important regions. Combined with findings in other systems, our results raise many questions about the process of genomic stabilization and the role of selection in shaping patterns of hybrid ancestry in the genome. © 2016 John Wiley & Sons Ltd.

  15. Parasitic fauna in hybrid tambacu from fish farms

    Directory of Open Access Journals (Sweden)

    Ronilson Macedo Silva

    2013-08-01

    Full Text Available The objective of this work was to evaluate the parasitic fauna of hybrid tambacu (Colossoma macropomum x Piaractus mesopotamicus from fish farms and the host-parasite relationship. A hundred and fourteen fish were collected from four fish farms in Macapá, in the state of Amapá, Brazil, 80.7% of which were infected by: Ichthyophthirius multifiliis (Ciliophora; Piscinoodinium pillulare (Dinoflagellida; Anacanthorus spatulatus, Notozothecium janauachensis, and Mymarothecium viatorum (Monogenoidea; Neoechinorhynchus buttnerae (Acanthocephala; Cucullanus colossomi (Nematoda; Perulernaea gamitanae (Lernaeidae; and Proteocephalidae larvae (Cestoda. A total of 8,136,252 parasites were collected from the examined fish. This is the first record of N. buttnerae, C. colossomi, N. janauachensis, M. viatorum, and Proteocephalidae for hybrid tambacu in Brazil. Ichthyophthirius multifiliis was the most prevalent parasite, whereas endohelminths were the less. A positive correlation was observed between number of I. multifiliis and total length and weight of fish, as well as between number of P. gamitanae and total length. The infection by I. multifiliis had association with the parasitism by Monogenoidea. Low water quality contributes to high parasitism of hybrid tambacu by ectoparasites, which, however, does not influence the relative condition factor of fish.

  16. Hybrid codes: Methods and applications

    Energy Technology Data Exchange (ETDEWEB)

    Winske, D. (Los Alamos National Lab., NM (USA)); Omidi, N. (California Univ., San Diego, La Jolla, CA (USA))

    1991-01-01

    In this chapter we discuss hybrid'' algorithms used in the study of low frequency electromagnetic phenomena, where one or more ion species are treated kinetically via standard PIC methods used in particle codes and the electrons are treated as a single charge neutralizing massless fluid. Other types of hybrid models are possible, as discussed in Winske and Quest, but hybrid codes with particle ions and massless fluid electrons have become the most common for simulating space plasma physics phenomena in the last decade, as we discuss in this paper.

  17. Hybrid particles and associated methods

    Science.gov (United States)

    Fox, Robert V; Rodriguez, Rene; Pak, Joshua J; Sun, Chivin

    2015-02-10

    Hybrid particles that comprise a coating surrounding a chalcopyrite material, the coating comprising a metal, a semiconductive material, or a polymer; a core comprising a chalcopyrite material and a shell comprising a functionalized chalcopyrite material, the shell enveloping the core; or a reaction product of a chalcopyrite material and at least one of a reagent, heat, and radiation. Methods of forming the hybrid particles are also disclosed.

  18. Metaphase FISH on a Chip: Miniaturized Microfluidic Device for Fluorescence in situ Hybridization

    Directory of Open Access Journals (Sweden)

    Niels Tommerup

    2010-11-01

    Full Text Available Fluorescence in situ Hybridization (FISH is a major cytogenetic technique for clinical genetic diagnosis of both inherited and acquired chromosomal abnormalities. Although FISH techniques have evolved and are often used together with other cytogenetic methods like CGH, PRINS and PNA-FISH, the process continues to be a manual, labour intensive, expensive and time consuming technique, often taking over 3–5 days, even in dedicated labs. We have developed a novel microFISH device to perform metaphase FISH on a chip which overcomes many shortcomings of the current laboratory protocols. This work also introduces a novel splashing device for preparing metaphase spreads on a microscope glass slide, followed by a rapid adhesive tape-based bonding protocol leading to rapid fabrication of the microFISH device. The microFISH device allows for an optimized metaphase FISH protocol on a chip with over a 20-fold reduction in the reagent volume. This is the first demonstration of metaphase FISH on a microfluidic device and offers a possibility of automation and significant cost reduction of many routine diagnostic tests of genetic anomalies.

  19. Ancient hybridization fuels rapid cichlid fish adaptive radiations

    Science.gov (United States)

    Meier, Joana I.; Marques, David A.; Mwaiko, Salome; Wagner, Catherine E.; Excoffier, Laurent; Seehausen, Ole

    2017-01-01

    Understanding why some evolutionary lineages generate exceptionally high species diversity is an important goal in evolutionary biology. Haplochromine cichlid fishes of Africa's Lake Victoria region encompass >700 diverse species that all evolved in the last 150,000 years. How this ‘Lake Victoria Region Superflock' could evolve on such rapid timescales is an enduring question. Here, we demonstrate that hybridization between two divergent lineages facilitated this process by providing genetic variation that subsequently became recombined and sorted into many new species. Notably, the hybridization event generated exceptional allelic variation at an opsin gene known to be involved in adaptation and speciation. More generally, differentiation between new species is accentuated around variants that were fixed differences between the parental lineages, and that now appear in many new combinations in the radiation species. We conclude that hybridization between divergent lineages, when coincident with ecological opportunity, may facilitate rapid and extensive adaptive radiation. PMID:28186104

  20. Clinical Application of Fluorescence in Situ Hybridization (FISH) to Detect HER-2 Gene in Breast Cancer

    Institute of Scientific and Technical Information of China (English)

    Maurie Buehler; Ellie Guardino; Jung Sik Park; Eun Jeong Jang

    2014-01-01

    Objective: To investigate the clinical application of the detection of HER-2 gene by lfuorescence in situ hybridization (FISH) in breast cancer and the correlation between HER-2 gene ampliifcation and clinicopathology of breast cancer. Methods:Parafifn-embedded breast inifltrating ductal carcinoma from 48 patients were detected by FISH and immunohistochemistry (IHC) respectively for comparing the results of two methods. Results: HER-2 protein expressions were classified into three groups (3+/2+/1+ or 0) and the positive rates of HER-2 gene ampliifcation by FISH were 77.8%, 57.1% and 10.5%, respectively. Of the 29 cases with positive axillary lymph node, 12 were with HER-2 gene ampliifcation (P0.05). Conclusion:The false positive and negative rates are higher in HER-2 protein expression by IHC. Compared with IHC, FISH, being more effective and precise, can be applied extensively in clinic. HER-2 gene ampliifcation is concerned with axillary nodes metastases.

  1. Chromogenic in situ hybridization: a multicenter study comparing silver in situ hybridization with FISH.

    Science.gov (United States)

    Bartlett, J M S; Campbell, Fiona M; Ibrahim, Merdol; Wencyk, Peter; Ellis, Ian; Kay, Elaine; Connolly, Yvonne; O'Grady, Anthony; Di Palma, Silvana; Starczynski, Jane; Morgan, John M; Jasani, Bharat; Miller, Keith

    2009-10-01

    Our purposes were to perform a robust assessment of a new HER2 chromogenic in situ hybridization test and report on concordance of silver in situ hybridization (SISH) data with fluorescence in situ hybridization (FISH) data and on intraobserver and interlaboratory scoring consistency. HER2 results were scored from 45 breast cancers in 7 laboratories using the Ventana (Tucson, AZ) INFORM HER-2 SISH assay and in 1 central laboratory using a standard FISH assay. Overall, 94.8% of cases were successfully analyzed by SISH across the 6 participating laboratories that reported data. Concordance for diagnosis of HER2 amplification by SISH compared with FISH was high (96.0% overall). Intraobserver variability (8.0%) and intersite variability (12.66%) of absolute HER2/chromosome 17 ratios appear to be tightly controlled across all 6 participating laboratories. The Ventana INFORM HER-2 SISH assay is robust and reproducible, shows good concordance with a standard FISH assay, and complies with requirements in national guidelines for performance of diagnostic tests.

  2. Comparison Between Fluorescent In Situ Hybridization (FISH) and ...

    African Journals Online (AJOL)

    ... were collected, for culture method and bacteria characterized by biochemical ... for 24 hours and later preserved in 70% alcohol before in situ hybridization test. ... were observed in 47 to 75% while the bacterium was isolated on culture in 7 ...

  3. itFISH: Enhanced Staining by Iterative Fluorescent In Situ Hybridization.

    Science.gov (United States)

    Row, Richard H; Martin, Benjamin L

    2017-03-20

    Fluorescent in situ hybridization (FISH) is an important tool for zebrafish research, particularly when observing the expression of two different genes in the same embryo. Peroxidase-catalyzed deposition of tyramide-conjugated dyes is a widely used and cost-effective approach to performing FISH. A major limitation of the technique is that it does not work well for weakly expressed genes. Here we present a method adapted from planarian research for use in zebrafish that provides a dramatic enhancement of weak staining. By iterating the antibody staining and development steps, a strong signal can be obtained from probes that were previously too weak to detect.

  4. Fluorescent in situ hybridization (FISH on the veterinary diagnostic field

    Directory of Open Access Journals (Sweden)

    Ján Dianovský

    2016-09-01

    Full Text Available Proceeding deals with of genomic changes detectable by FISH . The DSD syndrom in Yorkshire terrier 78,XY t (Y-;6p+ was observed by the use of X and Y FISH WCP probes. Following results indicated numerous genomic changes in cancers. Using comparative genomic hybridization numerous chromosomal rearrangements were detected, which indicated the heterogeneity in tumour growth. In Bernese Mountain Dog bitch,8 loses on chromosomes and gains on 18 different of chromosomes were detected. The last study was focused on chromosomal position and nucleotide sequencing of the LCA5L exons. Those were analysed in cattle of BTA1q44, sheep OAR1q43 and of CHI1q44 in the goats.

  5. Analysis of Single-cell Gene Transcription by RNA Fluorescent In Situ Hybridization (FISH)

    DEFF Research Database (Denmark)

    Ronander, Elena; Bengtsson, Dominique C; Joergensen, Louise;

    2012-01-01

    and the consequence of differential binding on the clinical outcome of P. falciparum infections. Recently, the mutually exclusive transcription paradigm has been called into doubt by transcription assays based on individual P. falciparum transcript identification in single infected erythrocytic cells using RNA...... fluorescent in situ hybridization (FISH) analysis of var gene transcription by the parasite in individual nuclei of P. falciparum IE(1). Here, we present a detailed protocol for carrying out the RNA-FISH methodology for analysis of var gene transcription in single-nuclei of P. falciparum infected human...... erythrocytes. The method is based on the use of digoxigenin- and biotin- labeled antisense RNA probes using the TSA Plus Fluorescence Palette System(2) (Perkin Elmer), microscopic analyses and freshly selected P. falciparum IE. The in situ hybridization method can be used to monitor transcription...

  6. A New Type of Hybrid Fish-like Microrobot

    Institute of Scientific and Technical Information of China (English)

    Wei Zhang; Shu-Xiang Guo; Kinji Asaka

    2006-01-01

    In order to develop a new type of fish-like microrobot with swimming, walking, and floating motions, in our past research, we developed a hybrid microrobot actuated by ionic conducting polymer film (ICPF) actuators. But the microrobot had some problems in walking and floating motions. In this paper, we propose a concept of hybrid microrobot (see Fig. 1). The microrobot is actuated by a pair of caudal fins, a base with legs and an array of artificial swim bladders. We have developed a prototype of the base with legs and one artificial swim bladder, respectively, and carried out experiments for evaluating their characteristics. Experimental results show the base with legs can realize walking speed of 6 mm/s and rotating speed of 7.1 degrees/s respectively, and the prototype of the artificial swim bladder has a maximum floatage of 2.6 mN. The experimental results also indicate that the microrobot has some advantages, such as walking motion with 2 degrees of freedom, the walking ability on rough surface (sand paper), the controllable floatage, etc. This kind of fish-like microrobot is expected for industrial and medical applications.

  7. Hybrid Power Management System and Method

    Science.gov (United States)

    Eichenberg, Dennis J. (Inventor)

    2008-01-01

    A system and method for hybrid power management. The system includes photovoltaic cells, ultracapacitors, and pulse generators. In one embodiment, the hybrid power management system is used to provide power for a highway safety flasher.

  8. Introgressive hybridization as a promoter of genome reshuffling in natural homoploid fish hybrids (Cyprinidae, Leuciscinae).

    Science.gov (United States)

    Pereira, C S A; Aboim, M A; Ráb, P; Collares-Pereira, M J

    2014-03-01

    Understanding the mechanisms underlying diversification and speciation by introgressive hybridization is currently one of the major challenges in evolutionary biology. Here, the analysis of hybridization between two pairs of Iberian Leuciscinae provided new data on independent hybrid zones involving Achondrostoma oligolepis (AOL) and Pseudochondrostoma duriense (PDU), and confirmed the occurrence of hybrids between AOL and Pseudochondrostoma polylepis (PPO). A multilevel survey combining morphological, genetic and cytogenomic markers on a vast population screening successfully sorted the selected fishes as admixed. Results were similar in both AOL × PDU and AOL × PPO systems. Overall, hybrid morphotypes, cytogenomic data and genetic profiling indicated preferential backcrossing and suggested AOL as a major genomic contributor. Moreover, results implied AOL as more permissive to introgression than PDU or PPO. Although PDU- and PPO-like individuals appeared more resilient to genome modifications, AOL appeared to be more involved and affected by the ongoing hybridization events, as chromosomal translocations were only found in AOL-like individuals. All hybrids analysed evidenced extensive ribosomal DNA (rDNA) polymorphism that was not found in parental species, but usually seen falling within the range of possible parental combinations. Yet, transgressive phenotypes that cannot be explained by normal recombination, including more rDNA clusters than expected or the occurrence of syntenic rDNAs, were also detected. Present results proved rapid genomic evolution providing the genetic novelty for species to persist. In addition, although the ultimate consequences of such apparently extensive and recurrent events remain unknown, modern genome-wide methodologies are of great promise towards answering questions concerning the causes, dynamics and impacts of hybridization.

  9. Detection of Helicobacter pylori in raw bovine milk by fluorescence in situ hybridization (FISH).

    Science.gov (United States)

    Angelidis, Apostolos S; Tirodimos, Ilias; Bobos, Mattheos; Kalamaki, Mary S; Papageorgiou, Demetrios K; Arvanitidou, Malamatenia

    2011-12-02

    The transmission pathways of Helicobacter pylori in humans have not been fully elucidated. Research in the last decade has proposed that foodborne transmission, among others, may be a plausible route of human infection. Owing to the organism's fastidious growth characteristics and its ability to convert to viable, yet unculturable states upon exposure to stress conditions, the detection of H. pylori in foods via culture-dependent methods has been proven to be laborious, difficult and in most cases unsuccessful. Hence, nucleic acid-based methods have been proposed as alternative methods but, to date, only PCR-based methods have been reported in the literature. In the current study, fluorescence in situ hybridization (FISH) was used for the detection of H. pylori in raw, bulk-tank bovine milk. After repeated milk centrifugation and washing steps, the bacterial flora of raw milk was subjected to fixation and permeabilization and H. pylori detection was conducted by FISH after hybridization with an H. pylori-specific 16S rRNA-directed fluorescent oligonucleotide probe. Using this protocol, H. pylori was detected in four out of the twenty (20%) raw milk samples examined. The data presented in this manuscript indicate that FISH can serve as an alternative molecular method for screening raw bovine milk for the presence of H. pylori.

  10. HER2 in situ hybridization in gastric and gastroesophageal adenocarcinoma: comparison of automated dual ISH to FISH.

    Science.gov (United States)

    Grin, Andrea; Brezden-Masley, Christine; Bauer, Sharon; Streutker, Catherine J

    2013-12-01

    Patients with gastric and gastroesophageal junction (GEJ) adenocarcinomas that are HER2 positive by immunohistochemistry (IHC) or in situ hybridization show a significant survival benefit with trastuzumab therapy. In situ hybridization is traditionally done by fluorescence in situ hybridization (FISH), despite some limitations. An alternative is the dual in situ hybridization (Dual ISH) technique that is fully automated and uses differentially labeled CEP17 and HER2 probes that can be read by light microscopy on 1 slide. The aim of this study was to assess the utility of Dual ISH in gastric/GEJ cancer and to compare the results with those obtained by IHC and FISH. Cases of gastric/GEJ adenocarcinoma were analyzed by IHC, FISH, and Dual ISH and the correlation between methods calculated. Results for 50 patients were available. There was a 98% (49/50) concordance rate between Dual ISH and FISH. One discrepant case was nonamplified by FISH but showed focal amplification by Dual ISH. Discrepancy was attributed to tumor heterogeneity, which was a frequent finding (78% of HER2-positive cases). There was excellent correlation between Dual ISH and FISH for assessment of HER2 amplification. Dual ISH was rapid, easy to interpret, and maintained cell morphology, which was valuable in identifying tumor heterogeneity.

  11. Detection of airborne Legionella while showering using liquid impingement and fluorescent in situ hybridization (FISH).

    Science.gov (United States)

    Deloge-Abarkan, Magali; Ha, Thi-Lan; Robine, Enric; Zmirou-Navier, Denis; Mathieu, Laurence

    2007-01-01

    Aerosols of water contaminated with Legionella bacteria constitute the only mode of exposure for humans. However, the prevention strategy against this pathogenic bacteria risk is managed through the survey of water contamination. No relationship linked the Legionella bacteria water concentration and their airborne abundance. Therefore, new approaches in the field of the metrological aspects of Legionella bioaerosols are required. This study was aimed at testing the main principles for bioaerosol collection (solid impaction, liquid impingement and filtration) and the in situ hybridization (FISH) method, both in laboratory and field assays, with the intention of applying such methodologies for airborne Legionella bacteria detection while showering. An aerosolization chamber was developed to generate controlled and reproducible L. pneumophila aerosols. This tool allowed the identification of the liquid impingement method as the most appropriate one for collecting airborne Legionella bacteria. The culturable fraction of airborne L. pneumophila recovered with the liquid impingement principle was 4 and 700 times higher compared to the impaction and filtration techniques, respectively. Moreover, the concentrations of airborne L. pneumophila in the impinger fluid were on average 7.0 x 10(5) FISH-cells m(-3) air with the fluorescent in situ hybridization (FISH) method versus 9.0 x 10(4) CFU m(-3) air with the culture method. These results, recorded under well-controlled conditions, were confirmed during the field experiments performed on aerosols generated by hot water showers in health institutions. This new approach may provide a more accurate characterization of aerobiocontamination by Legionella bacteria.

  12. Studies of the Ecophysiology of Single Cells in Microbial Communities by (Quantitative) Microautoradiography and Fluorescence In Situ Hybridization (MAR-FISH)

    DEFF Research Database (Denmark)

    Nierychlo, Marta; Nielsen, Jeppe Lund; Nielsen, Per Halkjær

    2015-01-01

    Microautoradiography (MAR) in combination with fluorescence in situ hybridization (FISH) is a powerful method of obtaining information about the ecophysiology of probe-defined single cells in mixed microbial communities. The incorporation of radiolabelled substrates can be quantified by automated...

  13. Characterization of B chromosomes in Lilium hybrids through GISH and FISH

    NARCIS (Netherlands)

    Xie, S.L.; Marasek-Ciolakowska, A.; Ramanna, M.S.; Arens, P.F.P.; Visser, R.G.F.; Tuyl, van J.M.

    2014-01-01

    Supernumerary (B) chromosomes and small aberrant chromosomes were detected in Lilium hybrids and characterized through genomic in situ hybridization (GISH) and florescence in situ hybridization (FISH). Two small, supernumerary or B chromosomes were detected as extra chromosomes in a tetraploid plant

  14. Discrimination of bacteriophage infected cells using locked nucleic acid fluorescent in situ hybridization (LNA-FISH).

    Science.gov (United States)

    Vilas Boas, Diana; Almeida, Carina; Sillankorva, Sanna; Nicolau, Ana; Azeredo, Joana; Azevedo, Nuno F

    2016-01-01

    Bacteriophage-host interaction studies in biofilm structures are still challenging due to the technical limitations of traditional methods. The aim of this study was to provide a direct fluorescence in situ hybridization (FISH) method based on locked nucleic acid (LNA) probes, which targets the phage replication phase, allowing the study of population dynamics during infection. Bacteriophages specific for two biofilm-forming bacteria, Pseudomonas aeruginosa and Acinetobacter, were selected. Four LNA probes were designed and optimized for phage-specific detection and for bacterial counterstaining. To validate the method, LNA-FISH counts were compared with the traditional plaque forming unit (PFU) technique. To visualize the progression of phage infection within a biofilm, colony-biofilms were formed and infected with bacteriophages. A good correlation (r = 0.707) was observed between LNA-FISH and PFU techniques. In biofilm structures, LNA-FISH provided a good discrimination of the infected cells and also allowed the assessment of the spatial distribution of infected and non-infected populations.

  15. On Hybrid and mixed finite element methods

    Science.gov (United States)

    Pian, T. H. H.

    1981-01-01

    Three versions of the assumed stress hybrid model in finite element methods and the corresponding variational principles for the formulation are presented. Examples of rank deficiency for stiffness matrices by the hybrid stress model are given and their corresponding kinematic deformation modes are identified. A discussion of the derivation of general semi-Loof elements for plates and shells by the hybrid stress method is given. It is shown that the equilibrium model by Fraeijs de Veubeke can be derived by the approach of the hybrid stress model as a special case of semi-Loof elements.

  16. Mitochondrial Genome Variation after Hybridization and Differences in the First and Second Generation Hybrids of Bream Fishes.

    Directory of Open Access Journals (Sweden)

    Wei-Zhuo Zhang

    Full Text Available Hybridization plays an important role in fish breeding. Bream fishes contribute a lot to aquaculture in China due to their economically valuable characteristics and the present study included five bream species, Megalobrama amblycephala, Megalobrama skolkovii, Megalobrama pellegrini, Megalobrama terminalis and Parabramis pekinensis. As maternal inheritance of mitochondrial genome (mitogenome involves species specific regulation, we aimed to investigate in which way the inheritance of mitogenome is affected by hybridization in these fish species. With complete mitogenomes of 7 hybrid groups of bream species being firstly reported in the present study, a comparative analysis of 17 mitogenomes was conducted, including representatives of these 5 bream species, 6 first generation hybrids and 6 second generation hybrids. The results showed that these 17 mitogenomes shared the same gene arrangement, and had similar gene size and base composition. According to the phylogenetic analyses, all mitogenomes of the hybrids were consistent with a maternal inheritance. However, a certain number of variable sites were detected in all F1 hybrid groups compared to their female parents, especially in the group of M. terminalis (♀ × M. amblycephala (♂ (MT×MA, with a total of 86 variable sites between MT×MA and its female parent. Among the mitogenomes genes, the protein-coding gene nd5 displayed the highest variability. The number of variation sites was found to be related to phylogenetic relationship of the parents: the closer they are, the lower amount of variation sites their hybrids have. The second generation hybrids showed less mitogenome variation than that of first generation hybrids. The non-synonymous and synonymous substitution rates (dN/dS were calculated between all the hybrids with their own female parents and the results indicated that most PCGs were under negative selection.

  17. A HYBRID METHOD FOR LINEAR PROGRAMMING

    Institute of Scientific and Technical Information of China (English)

    XIU Naihua; WU Fang

    1999-01-01

    In this paper, a hybrid method for linear programming is established.Its search direction is defined as a combination of two directions insimplex method and affine-scaling interior point method.The method is proven to have some promising convergence properties.The relation among the new method, the simplex method and the affine-scalinginteriorpoint method is discussed.

  18. Effect of graded fingerlings on hybrid catfish food fish size distribution

    Science.gov (United States)

    It is not unusual to have both 0.5 lb and 5 lb fish harvested from a single-batch hybrid catfish production pond at the end of the growing season. When that happens, farmers may be docked for fish that are either larger or smaller than the processor’s preferred size range. This study was conducted t...

  19. Role of fluorescence in situ hybridization (FISH) in sequencing the tomato genome

    Science.gov (United States)

    Chromosomes at various stages of the cell cycle can be used for localization of DNA probes via Fluorescence in situ hybridization (FISH). While mitotic metaphase chromosomes are demonstrably too short and compact for this purpose, long pachytene chromosomes are ideal. BACs that hybridize to euchrom...

  20. The Formation of the Polyploid Hybrids From Different Subfamily Fish Crossings and Its Evolutionary Significance

    OpenAIRE

    Liu, Shaojun; Qin, Qinbo; Xiao, Jun; Lu, Wenting; Shen, Jiamin; Li, Wei; Liu, Jifang; Duan, Wei; Zhang, Chun; Tao, De Min; Zhao, Rurong; Yan, Jinpeng; Liu, Yun

    2007-01-01

    This study provides genetic evidences at the chromosome, DNA content, DNA fragment and sequence, and morphological levels to support the successful establishment of the polyploid hybrids of red crucian carp × blunt snout bream, which belonged to a different subfamily of fish (Cyprininae subfamily and Cultrinae subfamily) in the catalog. We successfully obtained the sterile triploid hybrids and bisexual fertile tetraploid hybrids of red crucian carp (RCC) (♀) × blunt snout bream (BSB) (♂) as w...

  1. Hybrid methods for cybersecurity analysis :

    Energy Technology Data Exchange (ETDEWEB)

    Davis, Warren Leon,; Dunlavy, Daniel M.

    2014-01-01

    Early 2010 saw a signi cant change in adversarial techniques aimed at network intrusion: a shift from malware delivered via email attachments toward the use of hidden, embedded hyperlinks to initiate sequences of downloads and interactions with web sites and network servers containing malicious software. Enterprise security groups were well poised and experienced in defending the former attacks, but the new types of attacks were larger in number, more challenging to detect, dynamic in nature, and required the development of new technologies and analytic capabilities. The Hybrid LDRD project was aimed at delivering new capabilities in large-scale data modeling and analysis to enterprise security operators and analysts and understanding the challenges of detection and prevention of emerging cybersecurity threats. Leveraging previous LDRD research e orts and capabilities in large-scale relational data analysis, large-scale discrete data analysis and visualization, and streaming data analysis, new modeling and analysis capabilities were quickly brought to bear on the problems in email phishing and spear phishing attacks in the Sandia enterprise security operational groups at the onset of the Hybrid project. As part of this project, a software development and deployment framework was created within the security analyst work ow tool sets to facilitate the delivery and testing of new capabilities as they became available, and machine learning algorithms were developed to address the challenge of dynamic threats. Furthermore, researchers from the Hybrid project were embedded in the security analyst groups for almost a full year, engaged in daily operational activities and routines, creating an atmosphere of trust and collaboration between the researchers and security personnel. The Hybrid project has altered the way that research ideas can be incorporated into the production environments of Sandias enterprise security groups, reducing time to deployment from months and

  2. The path exchange method for hybrid LCA.

    Science.gov (United States)

    Lenzen, Manfred; Crawford, Robert

    2009-11-01

    Hybrid techniques for Life-Cycle Assessment (LCA) provide a way of combining the accuracy of process analysis and the completeness of input-output analysis. A number of methods have been suggested to implement a hybrid LCA in practice, with the main challenge being the integration of specific process data with an overarching input-output system. In this work we present a new hybrid LCA method which works at the finest input-output level of detail: structural paths. This new Path Exchange method avoids double-counting and system disturbance just as previous hybrid LCA methods, but instead of a large LCA database it requires only a minimum of external information on those structural paths that are to be represented by process data.

  3. Multiplex fluorescence in situ hybridization (M-FISH) and confocal laser scanning microscopy (CLSM) to analyze multispecies oral biofilms.

    Science.gov (United States)

    Karygianni, Lamprini; Hellwig, Elmar; Al-Ahmad, Ali

    2014-01-01

    Multiplex fluorescence in situ hybridization (M-FISH) constitutes a favorable microbiological method for the analysis of spatial distribution of highly variable phenotypes found in multispecies oral biofilms. The combined use of confocal laser scanning microscopy (CLSM) produces high-resolution three-dimensional (3D) images of individual bacteria in their natural environment. Here, we describe the application of M-FISH on early (Streptococcus spp., Actinomyces naeslundii) and late colonizers (Fusobacterium nucleatum, Veillonella spp.) of in situ-formed oral biofilms, the acquisition of CLSM images, as well as the qualitative and quantitative analysis of these digitally obtained and processed images.

  4. Fluorescence in situ hybridization (FISH analysis of primary ocular adnexal MALT lymphoma

    Directory of Open Access Journals (Sweden)

    Harada Mine

    2006-10-01

    Full Text Available Abstract Background It remains unknown whether primary ocular adnexal extranodal marginal zone B-cell lymphoma of mucosa-associated lymphoid tissue (MALT lymphoma is a homogeneous entity, as there are few reports of the results of cytogenetic or molecular analyses of these tumors. Methods We performed interphase fluorescence in situ hybridization (FISH analysis to detect translocations and aneuploidy in 34 cases of primary ocular adnexal MALT lymphoma, and reviewed the histopathological findings. Correlations between the results of FISH analysis, the histopathological features and the clinical data were also analyzed. Results Among the 34 cases, FISH analysis revealed t(14;18(q32;q21 in one case, trisomy 3 in 21 cases (62%, and trisomy 18 in 16 cases (47%. The cases with trisomy 18 had significantly more prominent lymphoepithelial lesions (LELs and less nodularity in the tumors. In regard to the clinical correlations, tumors with trisomy 18 were observed predominantly in females and younger patients; also, in the majority of the cases, the tumor was of conjunctival origin. All the cases with recurrence showed trisomy 18 in the tumor. Conclusion Primary ocular adnexal MALT lymphoma is a significantly heterogeneous entity. Cases with trisomy 18 may have unique clinicopathological features.

  5. The formation of the polyploid hybrids from different subfamily fish crossings and its evolutionary significance.

    Science.gov (United States)

    Liu, Shaojun; Qin, Qinbo; Xiao, Jun; Lu, Wenting; Shen, Jiamin; Li, Wei; Liu, Jifang; Duan, Wei; Zhang, Chun; Tao, Min; Zhao, Rurong; Yan, Jinpeng; Liu, Yun

    2007-06-01

    This study provides genetic evidences at the chromosome, DNA content, DNA fragment and sequence, and morphological levels to support the successful establishment of the polyploid hybrids of red crucian carp x blunt snout bream, which belonged to a different subfamily of fish (Cyprininae subfamily and Cultrinae subfamily) in the catalog. We successfully obtained the sterile triploid hybrids and bisexual fertile tetraploid hybrids of red crucian carp (RCC) (female symbol) x blunt snout bream (BSB) (male symbol) as well as their pentaploid hybrids. The triploid hybrids possessed 124 chromosomes with two sets from RCC and one set from BSB; the tetraploid hybrids had 148 chromosomes with two sets from RCC and two sets from BSB. The females of tetraploid hybrids produced unreduced tetraploid eggs that were fertilized with the haploid sperm of BSB to generate pentaploid hybrids with 172 chromosomes with three sets from BSB and two sets from RCC. The ploidy levels of triploid, tetraploid, and pentaploid hybrids were confirmed by counting chromosomal number, forming chromosomal karyotype, and measuring DNA content and erythrocyte nuclear volume. The similar and different DNA fragments were PCR amplified and sequenced in triploid, tetraploid hybrids, and their parents, indicating their molecular genetic relationship and genetic markers. In addition, this study also presents results about the phenotypes and feeding habits of polyploid hybrids and discusses the formation mechanism of the polyploid hybrids. It is the first report on the formation of the triploid, tetraploid, and pentaploid hybrids by crossing parents with a different chromosome number in vertebrates. The formation of the polyploid hybrids is potentially interesting in both evolution and fish genetic breeding.

  6. Current and historical hybridization with differential introgression among three species of cyprinid fishes (genus Cyprinella).

    Science.gov (United States)

    Broughton, Richard E; Vedala, Krishna C; Crowl, Tessa M; Ritterhouse, Lauren L

    2011-05-01

    Hybridization is common among freshwater fishes, particular among the Cyprinidae. We used two mitochondrial genes and one nuclear gene to characterize hybridization among two species pairs of Cyprinella in southwestern North America. Genalogical patterns revealed that C. lutrensis and C. venusta are currently hybridizing in several localities producing apparent F(1), F(2) and backcross generations, yet there was no evidence for introgression outside of local hybrid zones. Alternatively, mitochondrial haplotypes from C. lutrensis appear to have introgressed into a C. lepida population in the Nueces River completely replacing the native C. lepida haplotype. There was no evidence of introgression of nuclear DNA and there does not appear to be ongoing hybridization. The population of C. lepida from the nearby Frio River exhibits no evidence of hybridization with C. lutrensis. Thus, contact between C. lutrensis and C. venusta results in the formation of localized hybrid swarms, while contact between C. lutrensis and C. lepida has resulted in complete mitochondrial introgression in the Nueces River or no apparent hybridization in the Frio River. The three different outcomes of contact between these species illustrate the variable nature of interspecific reproductive interactions and provide an excellent system in which to better understand the factors influencing hybridization among freshwater fishes.

  7. Methods to evaluate fish freshness in research and industry

    DEFF Research Database (Denmark)

    Olafsdottir, G.; Martinsdóttir, E.; Oehlenschläger, J.;

    1997-01-01

    Current work in a European concerted action project 'Evaluation of Fish Freshness' (AIR3 CT94-2283) focuses on harmonizing research activities in the area of fish freshness evaluation in leading fish laboratories in Europe (see Box 1). The overall aim of the concerted action project is to validate...... methods for the assessment of fish freshness and to discuss the freshness criteria for fish commercialized within the European Union. The project's participants are working in subgroups studying sensory analysis, microbiology, volatile compounds, proteins, lipids, adenosine triphosphate and physical...... measurements with respect to fish freshness evaluation. In this article, the different subgroups have summarized changes that occur in fish and methods to evaluate fish freshness as a first step towards the definition of criteria for fish freshness...

  8. Methods to evaluate fish freshness in research and industry

    DEFF Research Database (Denmark)

    Olafsdottir, G.; Martinsdóttir, E.; Oehlenschläger, J.

    1997-01-01

    Current work in a European concerted action project 'Evaluation of Fish Freshness' (AIR3 CT94-2283) focuses on harmonizing research activities in the area of fish freshness evaluation in leading fish laboratories in Europe (see Box 1). The overall aim of the concerted action project is to validate...... methods for the assessment of fish freshness and to discuss the freshness criteria for fish commercialized within the European Union. The project's participants are working in subgroups studying sensory analysis, microbiology, volatile compounds, proteins, lipids, adenosine triphosphate and physical...... measurements with respect to fish freshness evaluation. In this article, the different subgroups have summarized changes that occur in fish and methods to evaluate fish freshness as a first step towards the definition of criteria for fish freshness...

  9. CONGESTION MANAGEMENT BY OPTIMAL ALLOCATION OF FACTS CONTROLLERS USING HYBRID FISH BEE OPTIMIZATION

    Directory of Open Access Journals (Sweden)

    S. Thangalakshmi

    2014-01-01

    Full Text Available The role of Independent System Operator (ISO in the restructured power industry includes system control, capacity planning, transmission tariff and congestion management; the challenging task being minimizing the congestion. One of the popular techniques used to alleviate congestion is using Flexible AC Transmission Systems (FACTS devices. The power system generally operates near its rated capacity in deregulated market because of intensive usage of transmission grids. So, the major issues that need to be addressed are improving the voltage profile and reducing the power loss in the electrical network. Motivation: The location of FACTS devices can improve the power flow in the line, maintain the bus profile and reduce the losses. However locating the ideal location is a NP problem. This study presents a novel heuristic method to determine the types of FACTS devices and its optimal location in a power system without violating the thermal and voltage limits. Power flow sensitivity index to find the optimal location of UPFC is suggested in this study. A hybrid fish bee swarm optimization is proposed which is based on Artificial Bee Colony (ABC and Fish School Search (FSS methods. This proposed algorithm is tested based on IEEE 30 bus system and line performances are studied.

  10. DNA breakage detection-fluorescence in situ hybridization (DBD-FISH in buccal cells

    Directory of Open Access Journals (Sweden)

    E. I. Cortés-Gutiérrez

    2012-12-01

    Full Text Available DNA breakage detection-fluorescence in situ hybridization (DBD-FISH is a recently developed technique that allows cell-by-cell detection and quantification of DNA breakage in the whole genome or within specific DNA sequences. The present investigation was conducted to adapt the methodology of DBD-FISH to the visualization and evaluation of DNA damage in buccal epithelial cells. DBD-FISH revealed that DNA damage increased significantly according to H2O2 concentration (r2=0.91. In conclusion, the DBD-FISH technique is easy to apply in buccal cells and provides prompt results that are easy to interpret. Future studies are needed to investigate the potential applicability of a buccal cell DBD-FISH model to human biomonitoring and nutritional work.

  11. DNA breakage detection-fluorescence in situ hybridization (DBD-FISH) in buccal cells.

    Science.gov (United States)

    Cortés-Gutiérrez, E I; Dávila-Rodríguez, M I; Fernández, J L; López-Fernández, C; Gosálvez, J

    2012-12-28

    DNA breakage detection-fluorescence in situ hybridization (DBD-FISH) is a recently developed technique that allows cell-by-cell detection and quantification of DNA breakage in the whole genome or within specific DNA sequences. The present investigation was conducted to adapt the methodology of DBD-FISH to the visualization and evaluation of DNA damage in buccal epithelial cells. DBD-FISH revealed that DNA damage increased significantly according to H2O2 concentration (r2=0.91). In conclusion, the DBD-FISH technique is easy to apply in buccal cells and provides prompt results that are easy to interpret. Future studies are needed to investigate the potential applicability of a buccal cell DBD-FISH model to human biomonitoring and nutritional work.

  12. Characterization of the Arachis (Leguminosae) D genome using fluorescence in situ hybridization (FISH) chromosome markers and total genome DNA hybridization

    OpenAIRE

    Germán Robledo; Guillermo Seijo

    2008-01-01

    Chromosome markers were developed for Arachis glandulifera using fluorescence in situ hybridization (FISH) of the 5S and 45S rRNA genes and heterochromatic 4'-6-diamidino-2-phenylindole (DAPI) positive bands. We used chromosome landmarks identified by these markers to construct the first Arachis species ideogram in which all the homologous chromosomes were precisely identified. The comparison of this ideogram with those published for other Arachis species revealed very poor homeologies with a...

  13. Inconsistent phylogeographic pattern between a sperm dependent fish and its host: in situ hybridization vs dispersal.

    Science.gov (United States)

    Vergilino, Roland; Leung, Christelle; Angers, Bernard

    2016-09-06

    Co-dispersal of sperm-dependent hybrids and their sexual relatives is expected to result in consistent spatial patterns between assemblages of hybrids and genetic structure of parental species. However, local hybridization events may blur this signal as assemblages could be organized under different connectivity constraints. This study aims at testing the hypothesis of local hybridization events by comparing the assemblage of hybrid fish Chrosomus eos-neogaeus to the genetic diversity of one of its parental species, Chrosomus eos. An extensive survey performed on a total of 132 sites located in two regions of Southern Quebec (West-Qc and East-Qc) revealed a distinct organization of hybrid lineages. One of the six hybrid lineages detected in West-Qc is widespread throughout this region resulting in a low α-diversity (1.38) and β-diversity (4.35). On the other hand, 36 hybrid lineages were detected in East-Qc and displayed narrow geographic distributions leading to a high α-diversity (2.30) and β-diversity (15.68). In addition, the C. eos multilocus haplotype of several of these hybrids is assigned to their respective sympatric C. eos population. Finally, contrasting with hybrids, the paternal species C. eos displayed a higher ρST in West-Qc (0.2300) than in East-Qc (0.0734). The unusually high diversity of hybrid lineages in East-Qc as well as the spatial organization and the close genetic relationship with C. eos sympatric populations support the hypothesis that multiple hybridization events occurred in situ. These findings coupled to the near absence of the maternal species Chrosomus neogeaus suggest that the decline of this species could be the trigger event at the origin of the high rates of spontaneous hybridization in this region.

  14. Behavioural isolation may facilitate homoploid hybrid speciation in cichlid fish

    NARCIS (Netherlands)

    Selz, O. M.; Thommen, R.; Maan, M. E.; Seehausen, O.

    Hybrid speciation is constrained by the homogenizing effects of gene flow from the parental species. In the absence of post-mating isolation due to structural changes in the genome, or temporal or spatial premating isolation, another form of reproductive isolation would be needed for homoploid

  15. Water quality in hybrid catfish ponds after partial fish harvest

    Science.gov (United States)

    Intensification of United States catfish aquaculture involves hybrid catfish ('channel catfish Ictalurus punctatus x ' blue catfish I. furcatus) grown in ponds with abundant aeration and high feeding rates. High feeding rates cause water quality deterioration because most of the nitrogen, phosphorus...

  16. Behavioural isolation may facilitate homoploid hybrid speciation in cichlid fish

    NARCIS (Netherlands)

    Selz, O. M.; Thommen, R.; Maan, M. E.; Seehausen, O.

    2014-01-01

    Hybrid speciation is constrained by the homogenizing effects of gene flow from the parental species. In the absence of post-mating isolation due to structural changes in the genome, or temporal or spatial premating isolation, another form of reproductive isolation would be needed for homoploid hybri

  17. An Improved Hybrid Method for Inverse Obstacle Scattering Problems

    Institute of Scientific and Technical Information of China (English)

    LIU JUAN; MA FU-MING

    2011-01-01

    An improved hybrid method is introduced in this paper as a numerical method to reconstruct the scatterer by far-field pattern for just one incident direction with unknown physical properties of the scatterer.The improved hybrid method inherits the idea of the hybrid method by Kress and Serranho which is a combination of Newton and decomposition method,and it improves the hybrid method by introducing a general boundary condition.The numerical experiments show the feasibility of this method.

  18. Probabilistic Analysis Methods for Hybrid Ventilation

    DEFF Research Database (Denmark)

    Brohus, Henrik; Frier, Christian; Heiselberg, Per

    This paper discusses a general approach for the application of probabilistic analysis methods in the design of ventilation systems. The aims and scope of probabilistic versus deterministic methods are addressed with special emphasis on hybrid ventilation systems. A preliminary application of stoc...... of stochastic differential equations is presented comprising a general heat balance for an arbitrary number of loads and zones in a building to determine the thermal behaviour under random conditions....

  19. Telomere analysis of platyhelminths and acanthocephalans by FISH and Southern hybridization.

    Science.gov (United States)

    Bombarová, Marta; Vítková, Magda; Spakulová, Marta; Koubková, Bozena

    2009-11-01

    We examined the composition of telomeres in chromosomes of parasitic worms, representatives of the flatworm groups Monogenea and Cestoda (Platyhelminthes), and thorny-headed worms (Syndermata: Acanthocephala) by fluorescence in situ hybridization (FISH) with different telomeric repeat probes. Our results show that the (TTAGGG)n sequence, supposed to be the ancestral telomeric repeat motif of Metazoa, is conserved in Monogenea (Paradiplozoon homoion) and Cestoda (Caryophyllaeus laticeps, Caryophyllaeides fennica, and Nippotaenia mogurndae) but not in Acanthocephala (Pomphorhynchus laevis and Pomphorhynchus tereticollis). In the Pomphorhynchus species, no hybridization signals were obtained with the "nematode" (TTAGGC)n, "arthropod" (TTAGG)n, and bdelloid (TGTGGG)n telomeric probes using FISH with their chromosomes and Southern hybridization with P. laevis DNA. Therefore, we suggest that parasitic Acanthocephala have evolved yet unknown telomeric repeat motifs or different mechanisms of telomere maintenance.

  20. Hybrid Lanczos-type product methods

    Energy Technology Data Exchange (ETDEWEB)

    Ressel, K.J. [Swiss Center for Scientific Computing, Zuerich (Switzerland)

    1996-12-31

    A general framework is proposed to construct hybrid iterative methods for the solution of large nonsymmetric systems of linear equations. This framework is based on Lanczos-type product methods, whose iteration polynomial consists of the Lanczos polynomial multiplied by some other arbitrary, {open_quotes}shadow{close_quotes} polynomial. By using for the shadow polynomial Chebyshev (more general Faber) polynomials or L{sup 2}-optimal polynomials, hybrid (Chebyshev-like) methods are incorporated into Lanczos-type product methods. In addition, to acquire spectral information on the system matrix, which is required for such a choice of shadow polynomials, the Lanczos-process can be employed either directly or in an QMR-like approach. The QMR like approach allows the cheap computation of the roots of the B-orthogonal polynomials and the residual polynomials associated with the QMR iteration. These roots can be used as a good approximation for the spectrum of the system matrix. Different choices for the shadow polynomials and their construction are analyzed. The resulting hybrid methods are compared with standard Lanczos-type product methods, like BiOStab, BiOStab({ell}) and BiOS.

  1. When biogeographical provinces collide: Hybridization of reef fishes at the crossroads of marine biogeographical provinces in the Arabian Sea

    KAUST Repository

    DiBattista, Joseph

    2015-04-01

    Aim: Suture zones are areas where closely related species from different biogeographical regions come into contact and interbreed. This concept originated from the study of terrestrial ecosystems but it remains unclear whether a similar phenomenon occurs in the marine environment. Here we investigate a potential suture zone from a previously unknown hybrid hotspot at the Socotra Archipelago (Yemen), located in the Arabian Sea, where fauna from the Red Sea, Gulf of Aden, Arabian Sea, western Indian Ocean and greater Indo-Polynesian Province intersect. Location: Red Sea, Gulf of Aden, Arabian Sea and Indian Ocean. Methods: Putative hybrid reef fish were identified based on intermediate coloration and morphology. Underwater observations and collections were conducted to determine: (1) whether parent species form heterospecific social groups or breeding pairs; (2) the sex and reproductive status of morphologically intermediate individuals; and (3) whether parent species were forming mixed species associations owing to a dearth of conspecific partners. To support hybrid status, morphologically intermediate and parental individuals were genotyped using mitochondrial DNA cytochrome c oxidase subunit I (COI), nuclear recombination-activating gene 2 (RAG2) and the nuclear TMO-4C4 (TMO) gene. Results: We observed putative hybrids involving 14 species from four reef fish families at Socotra. Most cases involved a parental species with a restricted distribution (e.g. Red Sea or Arabian Sea) and a broadly distributed Indo-Pacific species. In most cases, at least one of the parent species was rare at Socotra. Hybrid gene flow was largely unidirectional, and although introgression was rare, we found evidence that some butterflyfish and surgeonfish hybrids were fertile and formed breeding groups with parental species. Main conclusions: The rate of hybrid discovery at Socotra is much greater than that recorded elsewhere in the marine environment and involved both allopatric and

  2. Hybrid Method Simulation of Slender Marine Structures

    DEFF Research Database (Denmark)

    Christiansen, Niels Hørbye

    This present thesis consists of an extended summary and five appended papers concerning various aspects of the implementation of a hybrid method which combines classical simulation methods and artificial neural networks. The thesis covers three main topics. Common for all these topics...... is that they deal with time domain simulation of slender marine structures such as mooring lines and flexible risers used in deep sea offshore installations. The first part of the thesis describes how neural networks can be designed and trained to cover a large number of different sea states. Neural networks can...... that a single neural network can cover all relevant sea states. The applicability and performance of the present hybrid method is demonstrated on a numerical model of a mooring line attached to a floating offshore platform. The second part of the thesis demonstrates how sequential neural networks can be used...

  3. Ocean warming, a rapid distributional shift, and the hybridization of a coastal fish species.

    Science.gov (United States)

    Potts, Warren M; Henriques, Romina; Santos, Carmen V; Munnik, Kate; Ansorge, Isabelle; Dufois, Francois; Booth, Anthony J; Kirchner, Carola; Sauer, Warwick H H; Shaw, Paul W

    2014-09-01

    Despite increasing awareness of large-scale climate-driven distribution shifts in the marine environment, no study has linked rapid ocean warming to a shift in distribution and consequent hybridization of a marine fish species. This study describes rapid warming (0.8 °C per decade) in the coastal waters of the Angola-Benguela Frontal Zone over the last three decades and a concomitant shift by a temperature sensitive coastal fish species (Argyrosomus coronus) southward from Angola into Namibia. In this context, rapid shifts in distribution across Economic Exclusive Zones will complicate the management of fishes, particularly when there is a lack of congruence in the fisheries policy between nations. Evidence for recent hybridization between A. coronus and a congener, A. inodorus, indicate that the rapid shift in distribution of A. coronus has placed adults of the two species in contact during their spawning events. Ocean warming may therefore revert established species isolation mechanisms and alter the evolutionary history of fishes. While the consequences of the hybridization on the production of the resource remain unclear, this will most likely introduce additional layers of complexity to their management.

  4. Prediction of melting temperatures in fluorescence in situ hybridization (FISH) procedures using thermodynamic models.

    Science.gov (United States)

    Fontenete, Sílvia; Guimarães, Nuno; Wengel, Jesper; Azevedo, Nuno Filipe

    2016-01-01

    The thermodynamics and kinetics of DNA hybridization, i.e. the process of self-assembly of one, two or more complementary nucleic acid strands, has been studied for many years. The appearance of the nearest-neighbor model led to several theoretical and experimental papers on DNA thermodynamics that provide reasonably accurate thermodynamic information on nucleic acid duplexes and allow estimation of the melting temperature. Because there are no thermodynamic models specifically developed to predict the hybridization temperature of a probe used in a fluorescence in situ hybridization (FISH) procedure, the melting temperature is used as a reference, together with corrections for certain compounds that are used during FISH. However, the quantitative relation between melting and experimental FISH temperatures is poorly described. In this review, various models used to predict the melting temperature for rRNA targets, for DNA oligonucleotides and for nucleic acid mimics (chemically modified oligonucleotides), will be addressed in detail, together with a critical assessment of how this information should be used in FISH.

  5. Fluorescent in-situ hybridization (FISH for BCR/ABL in chronic myeloid leukemia after bone marrow transplantation

    Directory of Open Access Journals (Sweden)

    Maria de Lourdes Lopes Ferrari Chauffaille

    2001-01-01

    Full Text Available CONTEXT: Identification of Philadelphia chromosome or BCR/ABL gene rearrangement in chronic myeloid leukemia is important at diagnosis as well as after treatment. OBJECTIVE: To compare the results of karyotyping using fluorescent in-situ hybridization (FISH upon diagnosis and 1 year after bone marrow transplantation in 12 patients. TYPE OF STUDY: Diagnostic test and residual disease detection. SETTING: Hematology and Hemotherapy Department, Federal University of São Paulo/Escola Paulista de Medicina, São Paulo, Brazil. SAMPLE: 12 patients with chronic myeloid leukemia at diagnosis and 1 year after bone marrow transplantation. DIAGNOSTIC TEST: Karyotyping was done in the usual way and the BCR/ABL gene-specific probe was used for FISH. MAIN MEASUREMENTS: Disease at diagnosis and residual. RESULTS: At diagnosis, 10 patients presented t(9;22(q34.1;q11 as well as positive FISH. Two cases did not have metaphases but FISH was positive. After bone marrow transplantation, 8 patients presented normal karyotype, 1 had persistence of identifiable Philadelphia chromosome and 3 had no metaphases. Two cases showed complete chimera and 2 had donor and host cells simultaneously. FISH was possible in all cases after bone marrow transplantation and confirmed the persistence of identifiable Philadelphia chromosome clone in one patient, and identified another that did not present metaphases for analysis. Cases that showed mixed chimera in karyotype were negative for BCR/ABL by FISH. CONCLUSION: The applicability of FISH is clear, particularly for residual disease detection. Classical and molecular cytogenetics are complementary methods.

  6. Fluorescence in situ hybridizations (FISH) for the localization of viruses and endosymbiotic bacteria in plant and insect tissues.

    Science.gov (United States)

    Kliot, Adi; Kontsedalov, Svetlana; Lebedev, Galina; Brumin, Marina; Cathrin, Pakkianathan Britto; Marubayashi, Julio Massaharu; Skaljac, Marisa; Belausov, Eduard; Czosnek, Henryk; Ghanim, Murad

    2014-02-24

    Fluorescence in situ hybridization (FISH) is a name given to a variety of techniques commonly used for visualizing gene transcripts in eukaryotic cells and can be further modified to visualize other components in the cell such as infection with viruses and bacteria. Spatial localization and visualization of viruses and bacteria during the infection process is an essential step that complements expression profiling experiments such as microarrays and RNAseq in response to different stimuli. Understanding the spatiotemporal infections with these agents complements biological experiments aimed at understanding their interaction with cellular components. Several techniques for visualizing viruses and bacteria such as reporter gene systems or immunohistochemical methods are time-consuming, and some are limited to work with model organisms and involve complex methodologies. FISH that targets RNA or DNA species in the cell is a relatively easy and fast method for studying spatiotemporal localization of genes and for diagnostic purposes. This method can be robust and relatively easy to implement when the protocols employ short hybridizing, commercially-purchased probes, which are not expensive. This is particularly robust when sample preparation, fixation, hybridization, and microscopic visualization do not involve complex steps. Here we describe a protocol for localization of bacteria and viruses in insect and plant tissues. The method is based on simple preparation, fixation, and hybridization of insect whole mounts and dissected organs or hand-made plant sections, with 20 base pairs short DNA probes conjugated to fluorescent dyes on their 5' or 3' ends. This protocol has been successfully applied to a number of insect and plant tissues, and can be used to analyze expression of mRNAs or other RNA or DNA species in the cell.

  7. Small RNA Detection by in Situ Hybridization Methods

    Directory of Open Access Journals (Sweden)

    Martyna O. Urbanek

    2015-06-01

    Full Text Available Small noncoding RNAs perform multiple regulatory functions in cells, and their exogenous mimics are widely used in research and experimental therapies to interfere with target gene expression. MicroRNAs (miRNAs are the most thoroughly investigated representatives of the small RNA family, which includes short interfering RNAs (siRNAs, PIWI-associated RNA (piRNAs, and others. Numerous methods have been adopted for the detection and characterization of small RNAs, which is challenging due to their short length and low level of expression. These include molecular biology methods such as real-time RT-PCR, northern blotting, hybridization to microarrays, cloning and sequencing, as well as single cell miRNA detection by microscopy with in situ hybridization (ISH. In this review, we focus on the ISH method, including its fluorescent version (FISH, and we present recent methodological advances that facilitated its successful adaptation for small RNA detection. We discuss relevant technical aspects as well as the advantages and limitations of ISH. We also refer to numerous applications of small RNA ISH in basic research and molecular diagnostics.

  8. Characterization of the Arachis (Leguminosae D genome using fluorescence in situ hybridization (FISH chromosome markers and total genome DNA hybridization

    Directory of Open Access Journals (Sweden)

    Germán Robledo

    2008-01-01

    Full Text Available Chromosome markers were developed for Arachis glandulifera using fluorescence in situ hybridization (FISH of the 5S and 45S rRNA genes and heterochromatic 4'-6-diamidino-2-phenylindole (DAPI positive bands. We used chromosome landmarks identified by these markers to construct the first Arachis species ideogram in which all the homologous chromosomes were precisely identified. The comparison of this ideogram with those published for other Arachis species revealed very poor homeologies with all A and B genome taxa, supporting the special genome constitution (D genome of A. glandulifera. Genomic affinities were further investigated by dot blot hybridization of biotinylated A. glandulifera total DNA to DNA from several Arachis species, the results indicating that the D genome is positioned between the A and B genomes.

  9. Optimized Vertex Method and Hybrid Reliability

    Science.gov (United States)

    Smith, Steven A.; Krishnamurthy, T.; Mason, B. H.

    2002-01-01

    A method of calculating the fuzzy response of a system is presented. This method, called the Optimized Vertex Method (OVM), is based upon the vertex method but requires considerably fewer function evaluations. The method is demonstrated by calculating the response membership function of strain-energy release rate for a bonded joint with a crack. The possibility of failure of the bonded joint was determined over a range of loads. After completing the possibilistic analysis, the possibilistic (fuzzy) membership functions were transformed to probability density functions and the probability of failure of the bonded joint was calculated. This approach is called a possibility-based hybrid reliability assessment. The possibility and probability of failure are presented and compared to a Monte Carlo Simulation (MCS) of the bonded joint.

  10. Design of Hybrid Solar and Wind Energy Harvester for Fishing Boat

    Science.gov (United States)

    Banjarnahor, D. A.; Hanifan, M.; Budi, E. M.

    2017-07-01

    In southern beach of West Java, Indonesia, there are many villagers live as fishermen. They use small boats for fishing, in one to three days. Therefore, they need a fish preservation system. Fortunately, the area has high potential of solar and wind energy. This paper presents the design of a hybrid solar and wind energy harvester to power a refrigerator in the fishing boat. The refrigerator should keep the fish in 2 - 4 °C. The energy needed is 720 Wh daily. In the area, the daily average wind velocity is 4.27 m/s and the sun irradiation is 672 W/m2. The design combined two 100W solar panels and a 300W wind turbine. The testing showed that the solar panels can harvest 815 - 817 Wh of energy, while the wind turbine can harvest 43 - 62 Wh of energy daily. Therefore, the system can fulfil the energy requirement in fishing boat, although the solar panels were more dominant. To install the wind turbine on the fishing-boat, a computational design had been conducted. The boat hydrostatic dimension was measured to determine its stability condition. To reach a stable equilibrium condition, the wind turbine should be installed no more than 1.7 m of height.

  11. Hybrid lattice Boltzmann method on overlapping grids.

    Science.gov (United States)

    Di Ilio, G; Chiappini, D; Ubertini, S; Bella, G; Succi, S

    2017-01-01

    In this work, a hybrid lattice Boltzmann method (HLBM) is proposed, where the standard lattice Boltzmann implementation based on the Bhatnagar-Gross-Krook (LBGK) approximation is combined together with an unstructured finite-volume lattice Boltzmann model. The method is constructed on an overlapping grid system, which allows the coexistence of a uniform lattice nodes spacing and a coordinate-free lattice structure. The natural adaptivity of the hybrid grid system makes the method particularly suitable to handle problems involving complex geometries. Moreover, the provided scheme ensures a high-accuracy solution near walls, given the capability of the unstructured submodel of achieving the desired level of refinement in a very flexible way. For these reasons, the HLBM represents a prospective tool for solving multiscale problems. The proposed method is here applied to the benchmark problem of a two-dimensional flow past a circular cylinder for a wide range of Reynolds numbers and its numerical performances are measured and compared with the standard LBGK ones.

  12. Detection of VHSV IVb within the gonads of Great Lakes fish using in situ hybridization.

    Science.gov (United States)

    Al-Hussinee, L; Lumsden, J S

    2011-05-24

    Viral haemorrhagic septicaemia virus (VHSV) genotype IVb was recently detected as the cause of numerous mortality events in Great Lakes fish. In situ hybridization was used to examine the gonads from 13 fish, including freshwater drum Aplodinotus grunniens and muskellunge Esox masquinongy that were infected naturally, as well as rainbow trout Oncorhynchus mykiss and fathead minnows Pimphales promelas, which were experimentally infected. Although the ovaries and testes of fish infected by VHSV IVb had few lesions, viral RNA was present in the ovaries of the rainbow trout and fathead minnow and was abundant in the gonads of muskellunge and in the ovaries of freshwater drum. Viral RNA was present mainly surrounding yolk vacuoles/granules or adjacent to the germinal vesicle, with lesser amounts found within the germinal vesicle, in the mesovarium and/or tunica albuginea and blood vessels of the ovary. Viral RNA was also found in and surrounding primary and secondary spermatocytes of the muskellunge.

  13. Detection of integrated herpesvirus genomes by fluorescence in situ hybridization (FISH).

    Science.gov (United States)

    Kaufer, Benedikt B

    2013-01-01

    Fluorescence in situ hybridization (FISH) is widely used to visualize nucleotide sequences in interphase cells or on metaphase chromosomes using specific probes that are complementary to the respective targets. Besides its broad application in cytogenetics and cancer research, FISH facilitates the localization of virus genomes in infected cells. Some herpesviruses, including human herpesvirus 6 (HHV-6) and Marek's disease virus (MDV), have been shown to integrate their genetic material into host chromosomes, which allows transmission of HHV-6 via the germ line and is required for efficient MDV-induced tumor formation. We describe here the detection by FISH of integrated herpesvirus genomes in metaphase chromosomes and interphase nuclei of herpesvirus-infected cells.

  14. Transport Test Problems for Hybrid Methods Development

    Energy Technology Data Exchange (ETDEWEB)

    Shaver, Mark W.; Miller, Erin A.; Wittman, Richard S.; McDonald, Benjamin S.

    2011-12-28

    This report presents 9 test problems to guide testing and development of hybrid calculations for the ADVANTG code at ORNL. These test cases can be used for comparing different types of radiation transport calculations, as well as for guiding the development of variance reduction methods. Cases are drawn primarily from existing or previous calculations with a preference for cases which include experimental data, or otherwise have results with a high level of confidence, are non-sensitive, and represent problem sets of interest to NA-22.

  15. Risk stratification of plasma cell neoplasm: insights from plasma cell-specific cytoplasmic immunoglobulin fluorescence in situ hybridization (cIg FISH) vs. conventional FISH.

    Science.gov (United States)

    Dong, Henry; Yang, Hai-Su; Jagannath, Sundar; Stephenson, Christine F; Brenholz, Pauline; Mazumder, Amitabha; Chari, Ajai

    2012-10-01

    We directly compared the results of routine fluorescence in situ hybridization (FISH) and plasma cell-specific cytoplasmic immunoglobulin (cIg) FISH from 75 paired samples for myeloma risk stratification. CIg FISH improves test specificity and sensitivity and tends to eliminate borderline results. It proves that most plasma cells (PCs) consistently carry the abnormality in myelomas with an IGH translocation, whereas routine FISH detects these cells only at variably low levels. Routine cytogenetic analysis of plasma cell neoplasms (PCNs) has a low sensitivity. Conventional fluorescence in situ hybridization (FISH) is not plasma cell (PC) specific and results are diluted by other cells in the sample. Although PC-specific FISH testing has been recommended for multiple myeloma (MM) risk stratification, eg, by combining cytoplasmic immunoglobulin (cIg) staining with FISH, the benefits of cIg FISH have never been directly demonstrated in a controlled study. Seventy-five samples from patients with PCNs were analyzed by concomitant conventional FISH and cIg FISH with probes for t(4;14), t(11;14), t(14;16), -13, 17p-, and +3. The results were compared for their reliability, specificity, and consistency. Apart from marginally improving detection threshold in samples with low PC burden, cIg FISH identified more abnormal cases (50 vs. 47 cases) and more chromosome abnormalities (113 vs. 103 events) than did conventional FISH. It differentiated del(13q) in myelodysplasia from MM. Remarkably, cIg FISH consistently identified a high percentage of abnormal PCs in all cases. It detected IGH translocation in 78% to 100% of PCs in all but 2 positive cases, whereas conventional FISH detected 0% to 46% in these cases (median, 91% vs. 9%). The abnormal cells found in patients with 17p- were 19% to 96% by cIg FISH vs. 0% to 13% by conventional FISH (median, 54% vs. 9%). Cases with insufficient PCs for cIg FISH had only normal conventional FISH results. CIg FISH improves reliability of

  16. Development of a fluorescent in situ hybridization (FISH) technique for visualizing CGMMV in plant tissues.

    Science.gov (United States)

    Shargil, D; Zemach, H; Belausov, E; Lachman, O; Kamenetsky, R; Dombrovsky, A

    2015-10-01

    Cucumber green mottle mosaic virus (CGMMV), which belongs to the genus Tobamovirus, is a major pathogen of cucurbit crops grown indoors and in open fields. Currently, immunology (e.g., ELISA) and molecular amplification techniques (e.g., RT-PCR) are employed extensively for virus detection in plant tissues and commercial seed lots diagnostics. In this study, a fluorescent in situ hybridization (FISH) technique, using oligonucleotides whose 5'-terminals were labeled with red cyanine 3 (Cy3) or green fluorescein isothiocyanate (FITC), was developed for the visualization of the pathogen in situ. This simple and reliable method allows detection and localization of CGMMV in the vegetative and reproductive tissues of cucumber and melon. When this technique was applied in male flowers, anther tissues were found to be infected; whereas the pollen grains were found to be virus-free. These results have meaningful epidemiological implications for the management of CGMMV, particularly with regard to virus transfer via seed and the role of insects as CGMMV vectors.

  17. Optimization methods applied to hybrid vehicle design

    Science.gov (United States)

    Donoghue, J. F.; Burghart, J. H.

    1983-01-01

    The use of optimization methods as an effective design tool in the design of hybrid vehicle propulsion systems is demonstrated. Optimization techniques were used to select values for three design parameters (battery weight, heat engine power rating and power split between the two on-board energy sources) such that various measures of vehicle performance (acquisition cost, life cycle cost and petroleum consumption) were optimized. The apporach produced designs which were often significant improvements over hybrid designs already reported on in the literature. The principal conclusions are as follows. First, it was found that the strategy used to split the required power between the two on-board energy sources can have a significant effect on life cycle cost and petroleum consumption. Second, the optimization program should be constructed so that performance measures and design variables can be easily changed. Third, the vehicle simulation program has a significant effect on the computer run time of the overall optimization program; run time can be significantly reduced by proper design of the types of trips the vehicle takes in a one year period. Fourth, care must be taken in designing the cost and constraint expressions which are used in the optimization so that they are relatively smooth functions of the design variables. Fifth, proper handling of constraints on battery weight and heat engine rating, variables which must be large enough to meet power demands, is particularly important for the success of an optimization study. Finally, the principal conclusion is that optimization methods provide a practical tool for carrying out the design of a hybrid vehicle propulsion system.

  18. A simple protocol for attenuating the auto-fluorescence of cyanobacteria for optimized fluorescence in situ hybridization (FISH) imaging.

    Science.gov (United States)

    Zeller, Perrine; Ploux, Olivier; Méjean, Annick

    2016-03-01

    Cyanobacteria contain pigments, which generate auto-fluorescence that interferes with fluorescence in situ hybridization (FISH) imaging of cyanobacteria. We describe simple chemical treatments using CuSO4 or H2O2 that significantly reduce the auto-fluorescence of Microcystis strains. These protocols were successfully applied in FISH experiments using 16S rRNA specific probes and filamentous cyanobacteria.

  19. The complete mitochondrial genome of Channa argus, Channa maculata and hybrid snakehead fish [Channa maculata (♀) × Channa argus (♂)].

    Science.gov (United States)

    Zhu, Shu-Ren; Ma, Ke-Yi; Xing, Zhi-Jun; Xie, Nan; Wang, Yu-Xi; Wang, Qun; Li, Jia-Le

    2013-06-01

    We sequenced and characterized the complete mitochondrial genome of Channa argus, Channa maculata and their hybrid [C. maculata (♀) and C. argus (♂)]. All the three mitochondrial genomes contained the typical complement of 13 protein-coding genes, 22 transfer RNAs (tRNAs), 2 ribosomal RNAs (rRNAs) and 1 control region. The entire mitochondrial DNA (mtDNA) molecule of C. maculata was 16,559 bp long while the complete mtDNA molecule of C. argus and hybrid snakehead fish was 16,558 bp long. This is the first report on the complete mitogenome sequence of C. maculata and hybrid snakehead fish.

  20. Detection of a complex translocation using fluorescent in situ hybridization (FISH)

    Energy Technology Data Exchange (ETDEWEB)

    Rosen, B.A. [Brandeis Univ., Waltham, MA (United States); Abuelo, D.N. [Rhode Island Hospital, Providence, RI (United States); Mark, H.F. [Brown Univ. School of Medicine, Providence, RI (United States)

    1994-09-01

    The use of fluorescent in situ hybridization (FISH) allowed the detection of a complex 3-way translocation in a patient with multiple congenital malformations and mental retardation. The patient was a 10-year-old girl with mental retardation, seizures, repaired cleft palate, esotropia, epicanthal folds, broad nasal bridge, upward slanting palpebral fissures, single transverse palmar crease, brachydactyly, hypoplastic nails, ectrodactyly between the third and fourth right toes, and hypoplasia of the left third toe. Chromosome analysis performed at birth was reported as normal. We performed high resolution banding analysis which revealed an apparently balanced translocation between chromosomes 2 and 9. However, because of her multiple abnormalities, further studies were ordered. Fluorescent in situ hybridization (FISH) using chromosome painting probes revealed a karyotype of 46,XX,t(2;8;9) (2pter{yields}q31::8q21.2{yields}8qter; 8pter{yields}q21.2::2q31{yields}q34::9q34{yields}qter; 9pter{yields}q34::2q34{yields}qter). The 3-way translocation appears to be de novo, as neither parent is a translocation carrier. This case illustrates the importance of using FISH to further investigate cases of apparently balanced translocations in the presence of phenotypic abnormalities and/or mental retardation.

  1. Segregation of Species-Specific Male Attractiveness in F2 Hybrid Lake Malawi Cichlid Fish

    Directory of Open Access Journals (Sweden)

    Ola Svensson

    2011-01-01

    Full Text Available Among the huge radiations of haplochromine cichlid fish in Lakes Malawi and Victoria, closely related species are often reproductively isolated via female mate choice although viable fertile hybrids can be produced when females are confined only with heterospecific males. We generated F2 hybrid males from a cross between a pair of closely related sympatric cichlid fish from Lake Malawi. Laboratory mate choice experiments using microsatellite paternity analysis demonstrated that F2 hybrid males differed significantly in their attractiveness to females of the two parental species, indicating heritable variation in traits involved in mate choice that may contribute to reproductive isolation between these species. We found no significant correlation between male mating success and any measurement of male colour pattern. A simple quantitative genetic model of reproductive isolation suggests that there may be as few as two chromosomal regions controlling species-specific attractiveness. We propose that adaptive radiation of Lake Malawi cichlids could be facilitated by the presence of genes with major effects on mate choice and reproductive isolation.

  2. Fully automated fluorescent in situ hybridization (FISH staining and digital analysis of HER2 in breast cancer: a validation study.

    Directory of Open Access Journals (Sweden)

    Elise M J van der Logt

    Full Text Available HER2 assessment is routinely used to select patients with invasive breast cancer that might benefit from HER2-targeted therapy. The aim of this study was to validate a fully automated in situ hybridization (ISH procedure that combines the automated Leica HER2 fluorescent ISH system for Bond with supervised automated analysis with the Visia imaging D-Sight digital imaging platform. HER2 assessment was performed on 328 formalin-fixed/paraffin-embedded invasive breast cancer tumors on tissue microarrays (TMA and 100 (50 selected IHC 2+ and 50 random IHC scores full-sized slides of resections/biopsies obtained for diagnostic purposes previously. For digital analysis slides were pre-screened at 20x and 100x magnification for all fluorescent signals and supervised-automated scoring was performed on at least two pictures (in total at least 20 nuclei were counted with the D-Sight HER2 FISH analysis module by two observers independently. Results were compared to data obtained previously with the manual Abbott FISH test. The overall agreement with Abbott FISH data among TMA samples and 50 selected IHC 2+ cases was 98.8% (κ = 0.94 and 93.8% (κ = 0.88, respectively. The results of 50 additionally tested unselected IHC cases were concordant with previously obtained IHC and/or FISH data. The combination of the Leica FISH system with the D-Sight digital imaging platform is a feasible method for HER2 assessment in routine clinical practice for patients with invasive breast cancer.

  3. Water quality and plankton communities in hybrid catfish (female channel catfish, Ictalurus punctatus x male blue catfish, I. furcatus) ponds after partial fish harvest

    Science.gov (United States)

    Twelve, 0.4-ha ponds were stocked with 10,000 hybrid catfish fingerlings in March 2015. Six ponds were partially harvested in August to remove fish larger than ~ 0.57 kg. All remaining fish were removed in October and November. Partial harvest of faster-growing fish removed ~26% of fish initially st...

  4. Efficient Hybrid Method for Binary Floating Point Multiplication

    Directory of Open Access Journals (Sweden)

    S. Praveenkumar Reddy,

    2014-04-01

    Full Text Available This paper presents a high speed binary floating point multiplier based on Hybrid Method. To improve speed multiplication of mantissa is done using Hybrid method replacing existing multipliers like Carry Save Multiplier, Dadda Multiplier and Modified Booth Multiplier. Hybrid method is a combination of Dadda Multiplier and Modified Radix-8 Booth Multiplier. The design achieves high speed with maximum frequency of 555 MHz compared to existing floating point multipliers. The multiplier implemented in Verilog HDL and analyzed in Quartus II 10.0 version. Hybrid Multiplier is compared with existing multipliers.

  5. Detection of Inter-chromosomal Stable Aberrations by Multiple Fluorescence In Situ Hybridization (mFISH) and Spectral Karyotyping (SKY) in Irradiated Mice.

    Science.gov (United States)

    Pathak, Rupak; Koturbash, Igor; Hauer-Jensen, Martin

    2017-01-11

    Ionizing radiation (IR) induces numerous stable and unstable chromosomal aberrations. Unstable aberrations, where chromosome morphology is substantially compromised, can easily be identified by conventional chromosome staining techniques. However, detection of stable aberrations, which involve exchange or translocation of genetic materials without considerable modification in the chromosome morphology, requires sophisticated chromosome painting techniques that rely on in situ hybridization of fluorescently labeled DNA probes, a chromosome painting technique popularly known as fluorescence in situ hybridization (FISH). FISH probes can be specific for whole chromosome/s or precise sub-region on chromosome/s. The method not only allows visualization of stable aberrations, but it can also allow detection of the chromosome/s or specific DNA sequence/s involved in a particular aberration formation. A variety of chromosome painting techniques are available in cytogenetics; here two highly sensitive methods, multiple fluorescence in situ hybridization (mFISH) and spectral karyotyping (SKY), are discussed to identify inter-chromosomal stable aberrations that form in the bone marrow cells of mice after exposure to total body irradiation. Although both techniques rely on fluorescent labeled DNA probes, the method of detection and the process of image acquisition of the fluorescent signals are different. These two techniques have been used in various research areas, such as radiation biology, cancer cytogenetics, retrospective radiation biodosimetry, clinical cytogenetics, evolutionary cytogenetics, and comparative cytogenetics.

  6. A Fast Air-dry Dropping Chromosome Preparation Method Suitable for FISH in Plants.

    Science.gov (United States)

    Aliyeva-Schnorr, Lala; Ma, Lu; Houben, Andreas

    2015-12-16

    Preparation of chromosome spreads is a prerequisite for the successful performance of fluorescence in situ hybridization (FISH). Preparation of high quality plant chromosome spreads is challenging due to the rigid cell wall. One of the approved methods for the preparation of plant chromosomes is a so-called drop preparation, also known as drop-spreading or air-drying technique. Here, we present a protocol for the fast preparation of mitotic chromosome spreads suitable for the FISH detection of single and high copy DNA probes. This method is an improved variant of the air-dry drop method performed under a relative humidity of 50%-55%. This protocol comprises a reduced number of washing steps making its application easy, efficient and reproducible. Obvious benefits of this approach are well-spread, undamaged and numerous metaphase chromosomes serving as a perfect prerequisite for successful FISH analysis. Using this protocol we obtained high-quality chromosome spreads and reproducible FISH results for Hordeum vulgare, H. bulbosum, H. marinum, H. murinum, H. pubiflorum and Secale cereale.

  7. MOLECULAR GENETIC MARKERS AND METHODS OF THEIR IDENTIFICATION IN MODERN FISH-FARMING

    Directory of Open Access Journals (Sweden)

    I. Hrytsyniak

    2014-03-01

    Full Text Available Purpose. The application of molecular genetic markers has been widely used in modern experimental fish-farming in recent years. This methodology is currently presented by a differentiated approach with individual mechanisms and clearly defined possibilities. Numerous publications in the scientific literature that are dedicated to molecular genetic markers for the most part offer purely practical data. Thus, the synthesis and analysis of existing information on the general principles of action and the limits of the main methods of using molecular genetic markers is an actual problem. In particular, such a description will make it possible to plan more effectively the experiment and to obtain the desired results with high reliability. Findings. The main types of variable parts of DNA that can be used as molecular genetic markers in determining the level of stock hybridization, conducting genetic inventory of population and solving other problems in modern fish-farming are described in this paper. Also, the article provides an overview of principal modern methods that can be used to identify molecular genetic markers. Originality. This work is a generalization of modern ideas about the mechanisms of experiments with molecular genetic markers in fish-farming. Information is provided in the form of consistent presentation of the principles and purpose of each method, as well as significant advances during their practical application. Practical value. The proposed review of classic and modern literature data on molecular genetic markers can be used for planning, modernization and correction of research activity in modern fish-farming.

  8. Insertional translocation detected using FISH confirmation of array-comparative genomic hybridization (aCGH) results.

    Science.gov (United States)

    Kang, Sung-Hae L; Shaw, Chad; Ou, Zhishuo; Eng, Patricia A; Cooper, M Lance; Pursley, Amber N; Sahoo, Trilochan; Bacino, Carlos A; Chinault, A Craig; Stankiewicz, Pawel; Patel, Ankita; Lupski, James R; Cheung, Sau Wai

    2010-05-01

    Insertional translocations (ITs) are rare events that require at least three breaks in the chromosomes involved and thus qualify as complex chromosomal rearrangements (CCR). In the current study, we identified 40 ITs from approximately 18,000 clinical cases (1:500) using array-comparative genomic hybridization (aCGH) in conjunction with fluorescence in situ hybridization (FISH) confirmation of the aCGH findings, and parental follow-up studies. Both submicroscopic and microscopically visible IT events were detected. They were divided into three major categories: (1) simple intrachromosomal and interchromosomal IT resulting in pure segmental trisomy, (2) complex IT involving more than one abnormality, (3) deletion inherited from a parent with a balanced IT resulting in pure segmental monosomy. Of the cases in which follow-up parental studies were available, over half showed inheritance from an apparently unaffected parent carrying the same unbalanced rearrangement detected in the propositi, thus decreasing the likelihood that these IT events are clinically relevant. Nevertheless, we identified six cases in which small submicroscopic events were detected involving known disease-associated genes/genomic segments and are likely to be pathogenic. We recommend that copy number gains detected by clinical aCGH analysis should be confirmed using FISH analysis whenever possible in order to determine the physical location of the duplicated segment. We hypothesize that the increased use of aCGH in the clinic will demonstrate that IT occurs more frequently than previously considered but can identify genomic rearrangements with unclear clinical significance.

  9. Fluorescent in situ hybridization (FISH) assessment of chromosome copy number in sperm

    Energy Technology Data Exchange (ETDEWEB)

    Sheu, M.; Sigman, M.; Mark, H.F.L. [Brown Univ. School of Medicine, Providence, RI (United States)

    1994-09-01

    Approximately 15% of all recognized pregnancies end in spontaneous abortions. The overall frequency of chromosome abnormalities in spontaneous abortions is approximately 50%. Thus aneuploidy is a significant cause of fetal wastage. In addition, structural and numerical abnormalities of chromosomes can also lead to birth defects, developmental delay, mental retardation and infertility. Conventional cytogenetic analysis via GTG- and other banding techniques is a powerful tool in the elucidation of the nature of chromosomal abnormalities. Fluorescent in situ hybridization (FISH) enables detection of numerical chromosomal abnormalities, especially trisomies, in intact cells. Using FISH and commercially available biotin-labeled probes, we have initiated a prospective study to assess specific chromosome copy number of preparations of unstained smears from men referred for a male infertility evaluation as well as smears from normal control males chosen randomly from the sample of sperm donors. A total of approximately 19,000 sperm nuclei have been examined thus far. Of those suitable for analysis, 7382 (38.75%) were normal possessing one copy of chromosome 8, 155 (0.81%) were disomic, and 15 (0.079%) had more than two copies of chromosome 8. Comparisons with data available in the literature will be discussed. Work is ongoing to increase the efficiency of hybridization using both reported and previously untried pretreatment and fixation protocols. We have also initiated studies using multicolor FISH with various chromosome enumeration probes. The assay described here is a potentially powerful tool for detecting rare events such as spontaneous germ cell aneuploidy, aneuploidy detected in semen from men with carcinoma in situ of the testis and aneuploidy induced by potential environmental genotoxicants. It can also be utilized for segregation analysis and for correlating chromosome copy number with germ cell morphology.

  10. Distribution characteristics of ammonia-oxidizing bacteria in the Typha latifolia constructed wetlands using fluorescent in situ hybridization (FISH).

    Science.gov (United States)

    Yan, Li; Inamori, Ryuhei; Gui, Ping; Xu, Kai-qin; Kong, Hai-nan; Matsumura, Masatoshi; Inamori, Yuhei

    2005-01-01

    A molecular biology method, fluorescent in situ hybridization (FISH), in which the pre-treatment was improved in allusion to the media of the constructed wetlands (CW), e.g. the soil and the grit, was used to investigate the vertical distribution characteristics of ammonia-oxidizing bacteria (AOB) quantity and the relation with oxidation-reduction potential (ORP) in the Typha latifolia constructed wetlands under three different loadings in summer from May to September. Results showed that the quantity of the AOB decreased in the Typha latifolia CW with the increase of vertical depth. However, the AOB quantity was 2-4 times the quantity of the control in the root area. Additionally, ORP in the rhizosphere was found to be higher than other areas, which showed that Typha latifolia CW was in an aerobic state in summer when using simulated non-point sewage at the rural area of Taihu Lake in China and small town combined sewage.

  11. Hybrid systems, optimal control and hybrid vehicles theory, methods and applications

    CERN Document Server

    Böhme, Thomas J

    2017-01-01

    This book assembles new methods showing the automotive engineer for the first time how hybrid vehicle configurations can be modeled as systems with discrete and continuous controls. These hybrid systems describe naturally and compactly the networks of embedded systems which use elements such as integrators, hysteresis, state-machines and logical rules to describe the evolution of continuous and discrete dynamics and arise inevitably when modeling hybrid electric vehicles. They can throw light on systems which may otherwise be too complex or recondite. Hybrid Systems, Optimal Control and Hybrid Vehicles shows the reader how to formulate and solve control problems which satisfy multiple objectives which may be arbitrary and complex with contradictory influences on fuel consumption, emissions and drivability. The text introduces industrial engineers, postgraduates and researchers to the theory of hybrid optimal control problems. A series of novel algorithmic developments provides tools for solving engineering pr...

  12. Fabrication of hydroxyapatite from fish bones waste using reflux method

    Science.gov (United States)

    Cahyanto, A.; Kosasih, E.; Aripin, D.; Hasratiningsih, Z.

    2017-02-01

    The aim of this present study was to investigate the fabrication of hydroxyapatites, which were synthesized from fish bone wastes using reflux method. The fish bone wastes collected from the restaurant were brushed and boiled at 100°C for 10 minutes to remove debris and fat. After drying, the fish bones were crushed, and ball milled into a fine powder. The fish bone wastes were then processed by refluxing using KOH and H3PO4 solutions. The samples were calcined at 900°C and characterized by X-Ray Diffraction (XRD) and Fourier Transform Infrared Spectrometry (FT-IR). The XRD pattern of samples after treatment revealed that the peak of hydroxyapatite was observed and the bands of OH- and PO4 3- were observed by FT-IR. The scanning electron microscope evaluation of sample showed the entangled crystal and porous structure of hydroxyapatite. In conclusion, the hydroxyapatite was successfully synthesized from fish bone wastes using reflux method.

  13. Hybrid Prediction Method for Aircraft Interior Noise Project

    Data.gov (United States)

    National Aeronautics and Space Administration — The goal of the project is research and development of methods for application of the Hybrid FE-SEA method to aircraft vibro-acoustic problems. This proposal...

  14. Learning the scientific method using GloFish.

    Science.gov (United States)

    Vick, Brianna M; Pollak, Adrianna; Welsh, Cynthia; Liang, Jennifer O

    2012-12-01

    Here we describe projects that used GloFish, brightly colored, fluorescent, transgenic zebrafish, in experiments that enabled students to carry out all steps in the scientific method. In the first project, students in an undergraduate genetics laboratory course successfully tested hypotheses about the relationships between GloFish phenotypes and genotypes using PCR, fluorescence microscopy, and test crosses. In the second and third projects, students doing independent research carried out hypothesis-driven experiments that also developed new GloFish projects for future genetics laboratory students. Brianna Vick, an undergraduate student, identified causes of the different shades of color found in orange GloFish. Adrianna Pollak, as part of a high school science fair project, characterized the fluorescence emission patterns of all of the commercially available colors of GloFish (red, orange, yellow, green, blue, and purple). The genetics laboratory students carrying out the first project found that learning new techniques and applying their knowledge of genetics were valuable. However, assessments of their learning suggest that this project was not challenging to many of the students. Thus, the independent projects will be valuable as bases to widen the scope and range of difficulty of experiments available to future genetics laboratory students.

  15. Validation of interphase fluorescence in situ hybridization (iFISH for multiple myeloma using CD138 positive cells

    Directory of Open Access Journals (Sweden)

    Renata Kiyomi Kishimoto

    2016-06-01

    Full Text Available ABSTRACT BACKGROUND: Multiple myeloma is a plasma cell neoplasm with acquired genetic abnormalities of clinical and prognostic importance. Multiple myeloma differs from other hematologic malignancies due to a high fraction of low proliferating malignant plasma cells and the paucity of plasma cells in bone marrow aspiration samples, making cytogenetic analysis a challenge. An abnormal karyotype is found in only one-third of patients with multiple myeloma and interphase fluorescence in situ hybridization is the most useful test for studying the chromosomal abnormalities present in almost 90% of cases. However, it is necessary to study the genetic abnormalities in plasma cells after their identification or selection by morphology, immunophenotyping or sorting. Other challenges are the selection of the most informative FISH panel and determining cut-off levels for FISH probes. This study reports the validation of interphase fluorescence in situ hybridization using CD138 positive cells, according to proposed guidelines published by the European Myeloma Network (EMN in 2012. METHOD: Bone marrow samples from patients with multiple myeloma were used to standardize a panel of five probes [1q amplification, 13q14 deletion, 17p deletion, t(4;14, and t(14;16] in CD138+ cells purified by magnetic cell sorting. RESULTS: This test was validated with a low turnaround time and good reproducibility. Five of six samples showed genetic abnormalities. Monosomy/deletion 13 plus t(4;14 were found in two cases. CONCLUSION: This technique together with magnetic cell sorting is effective and can be used in the routine laboratory practice. In addition, magnetic cell sorting provides a pure plasma cell population that allows other molecular and genomic studies.

  16. 5th Symposium on Hybrid RANS-LES Methods

    CERN Document Server

    Haase, Werner; Peng, Shia-Hui; Schwamborn, Dieter

    2015-01-01

    This book gathers the proceedings of the Fifth Symposium on Hybrid RANS-LES Methods, which was held on March 19-21 in College Station, Texas, USA. The different chapters, written by leading experts, reports on the most recent developments in flow physics modelling, and gives a special emphasis to industrially relevant applications of hybrid RANS-LES methods and other turbulence-resolving modelling approaches. The book addresses academic researchers, graduate students, industrial engineers, as well as industrial R&D managers and consultants dealing with turbulence modelling, simulation and measurement, and with multidisciplinary applications of computational fluid dynamics (CFD), such as flow control, aero-acoustics, aero-elasticity and CFD-based multidisciplinary optimization. It discusses in particular advanced hybrid RANS-LES methods. Further topics include wall-modelled Large Eddy Simulation (WMLES) methods, embedded LES, and a comparison of the LES methods with both hybrid RANS-LES and URANS methods. ...

  17. Trade-off between morphological convergence and opportunistic diet behavior in fish hybrid zone

    Directory of Open Access Journals (Sweden)

    Grey Jonathan

    2009-10-01

    Full Text Available Abstract Background The invasive Chondrostoma nasus nasus has colonized part of the distribution area of the protected endemic species Chondrostoma toxostoma toxostoma. This hybrid zone is a complex system where multiple effects such as inter-species competition, bi-directional introgression, strong environmental pressure and so on are combined. Why do sympatric Chondrostoma fish present a unidirectional change in body shape? Is this the result of inter-species interactions and/or a response to environmental effects or the result of trade-offs? Studies focusing on the understanding of a trade-off between multiple parameters are still rare. Although this has previously been done for Cichlid species flock and for Darwin finches, where mouth or beak morphology were coupled to diet and genetic identification, no similar studies have been done for a fish hybrid zone in a river. We tested the correlation between morphology (body and mouth morphology, diet (stable carbon and nitrogen isotopes and genomic combinations in different allopatric and sympatric populations for a global data set of 1330 specimens. To separate the species interaction effect from the environmental effect in sympatry, we distinguished two data sets: the first one was obtained from a highly regulated part of the river and the second was obtained from specimens coming from the less regulated part. Results The distribution of the hybrid combinations was different in the two part of the sympatric zone, whereas all the specimens presented similar overall changes in body shape and in mouth morphology. Sympatric specimens were also characterized by a larger diet behavior variance than reference populations, characteristic of an opportunistic diet. No correlation was established between the body shape (or mouth deformation and the stable isotope signature. Conclusion The Durance River is an untamed Mediterranean river despite the presence of numerous dams that split the river from

  18. Trade-off between morphological convergence and opportunistic diet behavior in fish hybrid zone.

    Science.gov (United States)

    Corse, Emmanuel; Costedoat, Caroline; Pech, Nicolas; Chappaz, Rémi; Grey, Jonathan; Gilles, André

    2009-10-27

    The invasive Chondrostoma nasus nasus has colonized part of the distribution area of the protected endemic species Chondrostoma toxostoma toxostoma. This hybrid zone is a complex system where multiple effects such as inter-species competition, bi-directional introgression, strong environmental pressure and so on are combined. Why do sympatric Chondrostoma fish present a unidirectional change in body shape? Is this the result of inter-species interactions and/or a response to environmental effects or the result of trade-offs? Studies focusing on the understanding of a trade-off between multiple parameters are still rare. Although this has previously been done for Cichlid species flock and for Darwin finches, where mouth or beak morphology were coupled to diet and genetic identification, no similar studies have been done for a fish hybrid zone in a river. We tested the correlation between morphology (body and mouth morphology), diet (stable carbon and nitrogen isotopes) and genomic combinations in different allopatric and sympatric populations for a global data set of 1330 specimens. To separate the species interaction effect from the environmental effect in sympatry, we distinguished two data sets: the first one was obtained from a highly regulated part of the river and the second was obtained from specimens coming from the less regulated part. The distribution of the hybrid combinations was different in the two part of the sympatric zone, whereas all the specimens presented similar overall changes in body shape and in mouth morphology. Sympatric specimens were also characterized by a larger diet behavior variance than reference populations, characteristic of an opportunistic diet. No correlation was established between the body shape (or mouth deformation) and the stable isotope signature. The Durance River is an untamed Mediterranean river despite the presence of numerous dams that split the river from upstream to downstream. The sympatric effect on morphology and

  19. Feasibility of using fluorescence in situ hybridization (FISH) to detect early gene changes in sputum cells from uranium miners

    Energy Technology Data Exchange (ETDEWEB)

    Neft, R.E.; Rogers, J.L.; Belinsky, S.A. [and others

    1995-12-01

    Epidemiological studies have shown that combined exposure to radon progeny and tobacco smoke produce a greater than additive or synergistic increase in lung cancer risk. Lung cancer results from multiple genetic changes over a long period of time. An early change that occurs in lung cancer is trisomy 7 which is found in 50% of non-small cell lung cancer and in the far margins of resected lung tumors. The 80% mortality associated with lung cancer is in part related to the high proportion of patients who present with an advanced, unresectable tumor. Therefore, early detection of patients at risk for tumor development is critical to improve treatment of this disease. Currently, it is difficult to detect lung cancer early while it is still amendable by surgery. Saccomanno, G. has shown that premalignant cytologic changes in sputum cells collected from uranium miners can be detected by a skilled, highly trained cytopathologist. A more objective alternative for identifying premalignant cells in sputum may be to determine whether an early genetic change such as trisomy 7 is present in these cells. Fluorescence in situ hybridization (FISH) can be used to identify cells with trisomy 7. The results of this investigation indicate that FISH may prove to be an accurate, efficient method to test at-risk individuals for genetic alterations in bronchial epithelial cells from sputum.

  20. Characterizing lentic freshwater fish assemblages using multiple sampling methods

    Science.gov (United States)

    Fischer, Jesse R.; Quist, Michael

    2014-01-01

    Characterizing fish assemblages in lentic ecosystems is difficult, and multiple sampling methods are almost always necessary to gain reliable estimates of indices such as species richness. However, most research focused on lentic fish sampling methodology has targeted recreationally important species, and little to no information is available regarding the influence of multiple methods and timing (i.e., temporal variation) on characterizing entire fish assemblages. Therefore, six lakes and impoundments (48–1,557 ha surface area) were sampled seasonally with seven gear types to evaluate the combined influence of sampling methods and timing on the number of species and individuals sampled. Probabilities of detection for species indicated strong selectivities and seasonal trends that provide guidance on optimal seasons to use gears when targeting multiple species. The evaluation of species richness and number of individuals sampled using multiple gear combinations demonstrated that appreciable benefits over relatively few gears (e.g., to four) used in optimal seasons were not present. Specifically, over 90 % of the species encountered with all gear types and season combinations (N = 19) from six lakes and reservoirs were sampled with nighttime boat electrofishing in the fall and benthic trawling, modified-fyke, and mini-fyke netting during the summer. Our results indicated that the characterization of lentic fish assemblages was highly influenced by the selection of sampling gears and seasons, but did not appear to be influenced by waterbody type (i.e., natural lake, impoundment). The standardization of data collected with multiple methods and seasons to account for bias is imperative to monitoring of lentic ecosystems and will provide researchers with increased reliability in their interpretations and decisions made using information on lentic fish assemblages.

  1. Hybrid ODE/SSA methods and the cell cycle model

    Science.gov (United States)

    Wang, S.; Chen, M.; Cao, Y.

    2017-07-01

    Stochastic effect in cellular systems has been an important topic in systems biology. Stochastic modeling and simulation methods are important tools to study stochastic effect. Given the low efficiency of stochastic simulation algorithms, the hybrid method, which combines an ordinary differential equation (ODE) system with a stochastic chemically reacting system, shows its unique advantages in the modeling and simulation of biochemical systems. The efficiency of hybrid method is usually limited by reactions in the stochastic subsystem, which are modeled and simulated using Gillespie's framework and frequently interrupt the integration of the ODE subsystem. In this paper we develop an efficient implementation approach for the hybrid method coupled with traditional ODE solvers. We also compare the efficiency of hybrid methods with three widely used ODE solvers RADAU5, DASSL, and DLSODAR. Numerical experiments with three biochemical models are presented. A detailed discussion is presented for the performances of three ODE solvers.

  2. Salmonellae in fish feces analyzed by in situ hybridization and quantitative polymerase chain reaction.

    Science.gov (United States)

    Sha, Qiong; Forstner, Michael R J; Bonner, Timothy H; Hahn, Dittmar

    2013-09-01

    The potential of fish to transfer salmonellae from heterogeneous aquatic biofilms into feces was assessed in controlled aquarium studies with Suckermouth Catfish Hypostomus plecostomus and with biofilms inoculated with salmonellae. Neither the presence of catfish nor inoculation with salmonellae had detectable effects on the abundance of the microbial community. Densities of the microbial community were about 10(5) cells/mL in the water during a 1-week period, whereas densities of the microbial community increased 10-fold (10(6) to 10(7) cells/mg) in catfish feces during the same period. Salmonellae were detected by both quantitative polymerase chain reaction (qPCR) and situ hybridization in water samples immediately after inoculation, in numbers of about 10(4) cells/mL, representing up to 20% of the cells of the microbial community. Numbers decreased by three orders of magnitude within the first 3 d of the study, which represented only 0.01% of the community, and became undetectable after day 5. In catfish feces, numbers of Salmonella initially increased to up to 6% of the cells of the community but then declined. These results suggest that Salmonella are not biomagnified during gut passage, and thus, fish only provide a means for the translocation of this pathogen.

  3. Diagnosis of bacterial vaginosis by a new multiplex peptide nucleic acid fluorescence in situ hybridization method

    Science.gov (United States)

    Machado, António; Castro, Joana; Cereija, Tatiana; Almeida, Carina

    2015-01-01

    Bacterial vaginosis (BV) is one of most common vaginal infections. However, its diagnosis by classical methods reveals low specificity. Our goal was to evaluate the accuracy diagnosis of 150 vaginal samples with research gold standard methods and our Peptide Nucleic Acid (PNA) probes by Fluorescence in situ Hybridization (FISH) methodology. Also, we described the first PNA-FISH methodology for BV diagnosis, which provides results in approximately 3 h. The results showed a sensitivity of 84.6% (95% confidence interval (CI), from 64.3 to 95.0%) and a specificity of 97.6% (95% CI [92.6–99.4%]), demonstrating the higher specificity of the PNA-FISH method and showing false positive results in BV diagnosis commonly obtained by the classical methods. This methodology combines the specificity of PNA probes for Lactobacillus species and G. vaginalis visualization and the calculation of the microscopic field by Nugent score, allowing a trustful evaluation of the bacteria present in vaginal microflora and avoiding the occurrence of misleading diagnostics. Therefore, the PNA-FISH methodology represents a valuable alternative for BV diagnosis. PMID:25737820

  4. Trypanosomiasis in hybrid catfish (Clarias macrocephalus x Clarias gariepinus and other freshwater fishes

    Directory of Open Access Journals (Sweden)

    Promkhunthong, W.

    2005-02-01

    Full Text Available The infestation of Trypanosoma sp. (Kinetoplastida in the hybrid catfish and some fresh water fish was studied showing such parasitic infestation was specific only in catfish. The virulence as determined by LD50 for 5 days was 2.28x1010 cell in a fish sample. The parasitic infestation caused hematological changes by the reduction of red as well as white blood cells. The reductions were highly significant as compared to the healthy sample (p<0.05 as noted by the red and white blood cell count which dropped from 2.14±0.48x106 to 1.62±0.27x106 cells/ml and from 1.45±3.76x105 to 2.42±0.78x104 cells/ml blood in the infested samples, respectively. Similar trend was noted for hemoglobin and hematocrit which dropped significantly (p<0.05. The hemoglobin in healthy fish is 7.075±0.929g/100g, which dropped to 6.268±0.697g/100g in the samples with infestation. The percentage of hematocrit in healthy sample is 25.275±3.318%, which dropped to 21.722±3.068% in the samples with infestation. The reverse trend was recognized for serum protein andleukocrit which increased in the samples with Trypanosoma sp. infestation. The density gradient centrifugation technique was employed in the isolation of parasites in which 50% Percoll solution in 0.85% final preparation of saline solution was capable of removing Trypanosoma sp. from the blood. The study of antibody levels in serum showed that the infested hybrid catfish could develop the antibody which reached a peak 14 days after the infestation. Trypanosoma sp. was unable to cause histological changes in the tissues of gill, liver, kidney, spleen, stomach and intestine. Minor inflammations were observed, even the cases that large number of parasites were found in the tissues, blood streams and sinuses. Marked reductions were recorded for mature red blood cells while there were the formation of immature red blood and phagocytotic cells at higher rates as compared to the healthy individual.

  5. A Mixed-Method Approach for Quantifying Illegal Fishing and Its Impact on an Endangered Fish Species.

    Science.gov (United States)

    Free, Christopher M; Jensen, Olaf P; Mendsaikhan, Bud

    2015-01-01

    Illegal harvest is recognized as a widespread problem in natural resource management. The use of multiple methods for quantifying illegal harvest has been widely recommended yet infrequently applied. We used a mixed-method approach to evaluate the extent, character, and motivations of illegal gillnet fishing in Lake Hovsgol National Park, Mongolia and its impact on the lake's fish populations, especially that of the endangered endemic Hovsgol grayling (Thymallus nigrescens). Surveys for derelict fishing gear indicate that gillnet fishing is widespread and increasing and that fishers generally use 3-4 cm mesh gillnet. Interviews with resident herders and park rangers suggest that many residents fish for subsistence during the spring grayling spawning migration and that some residents fish commercially year-round. Interviewed herders and rangers generally agree that fish population sizes are decreasing but are divided on the causes and solutions. Biological monitoring indicates that the gillnet mesh sizes used by fishers efficiently target Hovsgol grayling. Of the five species sampled in the monitoring program, only burbot (Lota lota) showed a significant decrease in population abundance from 2009-2013. However, grayling, burbot, and roach (Rutilus rutilus) all showed significant declines in average body size, suggesting a negative fishing impact. Data-poor stock assessment methods suggest that the fishing effort equivalent to each resident family fishing 50-m of gillnet 11-15 nights per year would be sufficient to overexploit the grayling population. Results from the derelict fishing gear survey and interviews suggest that this level of effort is not implausible. Overall, we demonstrate the ability for a mixed-method approach to effectively describe an illegal fishery and suggest that these methods be used to assess illegal fishing and its impacts in other protected areas.

  6. A Mixed-Method Approach for Quantifying Illegal Fishing and Its Impact on an Endangered Fish Species.

    Directory of Open Access Journals (Sweden)

    Christopher M Free

    Full Text Available Illegal harvest is recognized as a widespread problem in natural resource management. The use of multiple methods for quantifying illegal harvest has been widely recommended yet infrequently applied. We used a mixed-method approach to evaluate the extent, character, and motivations of illegal gillnet fishing in Lake Hovsgol National Park, Mongolia and its impact on the lake's fish populations, especially that of the endangered endemic Hovsgol grayling (Thymallus nigrescens. Surveys for derelict fishing gear indicate that gillnet fishing is widespread and increasing and that fishers generally use 3-4 cm mesh gillnet. Interviews with resident herders and park rangers suggest that many residents fish for subsistence during the spring grayling spawning migration and that some residents fish commercially year-round. Interviewed herders and rangers generally agree that fish population sizes are decreasing but are divided on the causes and solutions. Biological monitoring indicates that the gillnet mesh sizes used by fishers efficiently target Hovsgol grayling. Of the five species sampled in the monitoring program, only burbot (Lota lota showed a significant decrease in population abundance from 2009-2013. However, grayling, burbot, and roach (Rutilus rutilus all showed significant declines in average body size, suggesting a negative fishing impact. Data-poor stock assessment methods suggest that the fishing effort equivalent to each resident family fishing 50-m of gillnet 11-15 nights per year would be sufficient to overexploit the grayling population. Results from the derelict fishing gear survey and interviews suggest that this level of effort is not implausible. Overall, we demonstrate the ability for a mixed-method approach to effectively describe an illegal fishery and suggest that these methods be used to assess illegal fishing and its impacts in other protected areas.

  7. Reduction Methods for Real-time Simulations in Hybrid Testing

    DEFF Research Database (Denmark)

    Andersen, Sebastian

    2016-01-01

    Hybrid testing constitutes a cost-effective experimental full scale testing method. The method was introduced in the 1960's by Japanese researchers, as an alternative to conventional full scale testing and small scale material testing, such as shake table tests. The principle of the method...... is to divide a structure into a physical substructure and a numerical substructure, and couple these in a test. If the test is conducted in real-time it is referred to as real time hybrid testing. The hybrid testing concept has developed significantly since its introduction in the 1960', both with respect...... without introducing further unknowns into the system. The basis formulation is shown to exhibit high precision and to reduce the computational cost significantly. Furthermore, the basis formulation exhibits a significant higher stability, than standard nonlinear algorithms. A real-time hybrid test...

  8. Hole-in-head disease: New method of treatment in flower horn ornamental fish

    Directory of Open Access Journals (Sweden)

    Javad Sahandi

    2011-11-01

    Full Text Available In this study we generally describe the hole-in-head disease and introduce a new method oftreatment that called cupping. Cupping is important and old treatment for specific diseases in human,used by Iranian and Chinese medicinists in the past. This disease, often called hexamitiasis, is causedby a member of the genus Hexamita or Spironucleus. This parasite has two forms of infection one ofthem is external and cause hole-in-head disease and the other form is internal that cause intestinalproblems. Hole-in-head disease cause death in flower horn fishes which are expensive and verypopular members of Cichlidae family. Flower horn fish is a genetically improved hybrid betweenAmphilophus labiatus and Amphilophus trimaculatus. This simple method of cupping combined withstress factors removal was applied by us for the treatment of external hexamitiasis resulting in morethan 50% cases of fish health recovery. The first signs of heath in treated specimens become visibleafter 4-6 days of treatment.

  9. A Hybrid Method for Nonlinear Least Squares Problems

    Institute of Scientific and Technical Information of China (English)

    Zhongyi Liu; Linping Sun

    2007-01-01

    A negative curvature method is applied to nonlinear least squares problems with indefinite Hessian approximation matrices. With the special structure of the method,a new switch is proposed to form a hybrid method. Numerical experiments show that this method is feasible and effective for zero-residual,small-residual and large-residual problems.

  10. Cleft Lip Repair: The Hybrid Subunit Method.

    Science.gov (United States)

    Tollefson, Travis T

    2016-04-01

    The unilateral cleft lip repair is one of the most rewarding and challenging of plastic surgery procedures. Surgeons have introduced a variety of straight line, geometric, and rotation-advancement designs, while in practice the majority of North American surgeons have been using hybrids of the rotation-advancement techniques. The anatomic subunit approach was introduced in 2005 by Fisher and has gained popularity, with early adopters of the design touting its simplicity and effectiveness. The objectives of this article are to summarize the basic tenets of respecting the philtral subunit, accurate measurement and planning, and tips for transitioning to this subunit approach.

  11. Fluorescence in situ hybridization (FISH using non-commercial probes in the diagnosis of clinically suspected microdeletion syndromes

    Directory of Open Access Journals (Sweden)

    Ashutosh Halder

    2013-01-01

    Interpretation & conclusion: We conclude that FISH should not be the method of choice for clinically suspected microdeletion syndromes. We propose to follow strict clinical criteria for FISH testing or preferably to follow better methods (genotype first approach. Whole genome screening may be used as first line of test and FISH may be used for confirmation of screening result, screening of family members and prenatal diagnosis.

  12. Karyotype of Zea luxurians and Z. mays subsp. mays using FISH/DAPI, and analysis of meiotic behavior of hybrids.

    Science.gov (United States)

    González, Graciela E; Poggio, Lidia

    2011-01-01

    The karyotypes of Zea luxurians and a race of maize from northwestern Argentina are described and compared using 4′,6-diamidino-2-phenylindole (DAPI) banding and fluorescent in situ hybridization (FISH) to localize the 180 bp knobs. The meiotic behavior of the F₁ artificial hybrids Z. luxurians × maize is also analyzed to determine the genomic relationships between both species. Neocentromere activity at knobs in the meiosis of the hybrids is particularly discussed. The meiotic behavior and the high pollen sterility of the hybrid revealed genetical and (or) chromosomal divergences, leading to postzygotic reproductive isolation among their parents. Here, we propose that maize shows lower genomic affinity to Z. luxurians than to other species of the genus with 2n = 20.

  13. Reconstruction of 3-D digital cores using a hybrid method

    Institute of Scientific and Technical Information of China (English)

    Liu Xuefeng; Sun Jianmeng; Wang Haitao

    2009-01-01

    A 3-D digital core describes the pore space microstructure of rocks. An X-ray micro CT scan is the most accurate and direct but costly method to obtain a 3-D digital core. In this study, we propose a hybrid method which combines sedimentation simulation and simulated annealing (SA) method to generate 3-D digital cores based on 2-D images of rocks. The method starts with the sedimentation simulation to build a 3-D digital core, which is the initial configuration for the SA method. We update the initial digital core using the SA method to match the auto-correlation function of the 2-D rock image and eventually build the final 3-D digital core. Compared with the typical SA method, the hybrid method has significantly reduced the computation time. Local porosity theory is applied to quantitatively compare the reconstructed 3-D digital cores with the X-ray micro CT 3-D images. The results indicate that the 3-D digital cores reconstructed by the hybrid method have homogeneity and geometric connectivity similar to those of the X-ray micro CT image. The formation factors and permeabilities of the reconstructed 3-D digital cores are estimated using the finite element method (FEM) and lattice Boltzmann method (LBM), respectively. The simulated results are in good agreement with the experimental measurements. Comparison of the simulation results suggests that the digital cores reconstructed by the hybrid method more closely reflect the true transport properties than the typical SA method alone.

  14. Hybrid architecture active wavefront sensing and control system, and method

    Science.gov (United States)

    Feinberg, Lee D. (Inventor); Dean, Bruce H. (Inventor); Hyde, Tristram T. (Inventor)

    2011-01-01

    According to various embodiments, provided herein is an optical system and method that can be configured to perform image analysis. The optical system can comprise a telescope assembly and one or more hybrid instruments. The one or more hybrid instruments can be configured to receive image data from the telescope assembly and perform a fine guidance operation and a wavefront sensing operation, simultaneously, on the image data received from the telescope assembly.

  15. Subsistence fishing methods of Nicobari tribes using traditional knowledge

    Directory of Open Access Journals (Sweden)

    T. Ravikumar

    2016-06-01

    Full Text Available Nicobarese are one of the six aboriginal tribes inhabiting Andaman and Nicobar Islands. They account for over 95% of the total tribal population in the islands and majority of them inhabit at Car Nicobar, which is the capital of Nicobar district and popularly called as Coconut Island. The Nicobari tribes are hunters and gatherers who use their indigenous knowledge for exploitation of marine fishery resources using locally available materials. The common fishing methods in vogue are tamatu (trap, thanam kak (spear with rope chok/linreny kak (spear with rubber, kinyav (icthyotoxic seed, thakua kak (line, kel thakua kak (hand line, tamarotha thakua kak (long line, Hanak Inhal Kak (shore seine, Inruon thakua kak (troll line and Inhal (gill net. The Nicobari tribes have inherited the skill for designing and operating these gears from their forefathers. This paper summarises the traditional knowledge existing and commonly practiced among the Nicobari tribes for exploitation of marine fish at Car Nicobar.

  16. Battery control system for hybrid vehicle and method for controlling a hybrid vehicle battery

    Science.gov (United States)

    Bockelmann, Thomas R [Battle Creek, MI; Hope, Mark E [Marshall, MI; Zou, Zhanjiang [Battle Creek, MI; Kang, Xiaosong [Battle Creek, MI

    2009-02-10

    A battery control system for hybrid vehicle includes a hybrid powertrain battery, a vehicle accessory battery, and a prime mover driven generator adapted to charge the vehicle accessory battery. A detecting arrangement is configured to monitor the vehicle accessory battery's state of charge. A controller is configured to activate the prime mover to drive the generator and recharge the vehicle accessory battery in response to the vehicle accessory battery's state of charge falling below a first predetermined level, or transfer electrical power from the hybrid powertrain battery to the vehicle accessory battery in response to the vehicle accessory battery's state of charge falling below a second predetermined level. The invention further includes a method for controlling a hybrid vehicle powertrain system.

  17. Efficient hybrid method for time reversal superresolution imaging

    Institute of Scientific and Technical Information of China (English)

    Xiaohua Wang,Wei Gao,; Bingzhong Wang

    2015-01-01

    An efficient hybrid time reversal (TR) imaging method based on signal subspace and noise subspace is proposed for electromagnetic superresolution detecting and imaging. First, the locations of targets are estimated by the transmitting-mode decom-position of the TR operator (DORT) method employing the signal subspace. Then, the TR multiple signal classification (TR-MUSIC) method employing the noise subspace is used in the estimated target area to get the superresolution imaging of targets. Two examples with homogeneous and inhomogeneous background mediums are considered, respectively. The results show that the proposed hybrid method has advantages in CPU time and memory cost because of the combination of rough and fine imaging.

  18. [A hybrid volume rendering method using general hardware].

    Science.gov (United States)

    Li, Bin; Tian, Lianfang; Chen, Ping; Mao, Zongyuan

    2008-06-01

    In order to improve the effect and efficiency of the reconstructed image after hybrid volume rendering of different kinds of volume data from medical sequential slices or polygonal models, we propose a hybrid volume rendering method based on Shear-Warp with economical hardware. First, the hybrid volume data are pre-processed by Z-Buffer method and RLE (Run-Length Encoded) data structure. Then, during the process of compositing intermediate image, a resampling method based on the dual-interpolation and the intermediate slice interpolation methods is used to improve the efficiency and the effect. Finally, the reconstructed image is rendered by the texture-mapping technology of OpenGL. Experiments demonstrate the good performance of the proposed method.

  19. Hybrid Method for Tokamak MHD Equilibrium Configuration Reconstruction

    Institute of Scientific and Technical Information of China (English)

    HE Hong-Da; DONG Jia-Qi; ZHANG Jin-Hua; JIANG Hai-Bin

    2007-01-01

    A hybrid method for tokamak MHD equilibrium configuration reconstruction is proposed and employed in the modified EFIT code. This method uses the free boundary tokamak equilibrium configuration reconstruction algorithm with one boundary point fixed. The results show that the position of the fixed point has explicit effects on the reconstructed divertor configurations. In particular, the separatrix of the reconstructed divertor configuration precisely passes the required position when the hybrid method is used in the reconstruction. The profiles of plasma parameters such as pressure and safety factor for reconstructed HL-2A tokamak configurations with the hybrid and the free boundary methods are compared. The possibility for applications of the method to swing the separatrix strike point on the divertor target plate is discussed.

  20. A Hybrid of DL and WYL Nonlinear Conjugate Gradient Methods

    Directory of Open Access Journals (Sweden)

    Shengwei Yao

    2014-01-01

    Full Text Available The conjugate gradient method is an efficient method for solving large-scale nonlinear optimization problems. In this paper, we propose a nonlinear conjugate gradient method which can be considered as a hybrid of DL and WYL conjugate gradient methods. The given method possesses the sufficient descent condition under the Wolfe-Powell line search and is globally convergent for general functions. Our numerical results show that the proposed method is very robust and efficient for the test problems.

  1. Nitrifying bacterial communities in an aquaculture wastewater treatment system using fluorescence in situ hybridization (FISH), 16S rRNA gene cloning, and phylogenetic analysis.

    Science.gov (United States)

    Paungfoo, Chanyarat; Prasertsan, Poonsuk; Burrell, Paul C; Intrasungkha, Nugul; Blackall, Linda L

    2007-07-01

    Aquaculture, especially shrimp farming, has played a major role in the growth of Thailand's economy in recent years, as well as in many South East Asian countries. However, the nutrient discharges from these activities have caused adverse impacts on the quality of the receiving waterways. In particular nitrogenous compounds, which may accumulate in aquaculture ponds, can be toxic to aquatic animals and cause environmental problems such as eutrophication. The mineralization process is well known, but certain aspects of the microbial ecology of nitrifiers, the microorganisms that convert ammonia to nitrate, are poorly understood. A previously reported enrichment of nitrifying bacteria (ammonia-oxidizing bacteria (AOB) and nitrite-oxidizing bacteria (NOB)) from a shrimp farm inoculated in a sequencing batch reactor (SBR) was studied by molecular methods. The initial identification and partial quantification of the nitrifying bacteria (AOB and NOB) were carried out by fluorescence in situ hybridization (FISH) using previously published 16S rRNA-targeting oligonucleotide probes. The two dominant bacterial groups detected by FISH were from the Cytophaga-Flavobacterium-Bacteroides and Proteobacteria (beta subdivision) phyla. Published FISH probes for Nitrobacter and Nitrospira did not hybridize to any of the bacterial cells. Therefore it is likely that new communities of NOBs, differing from previously reported ones, exist in the enrichments. Molecular genetic techniques (cloning, sequencing, and phylogenetic analysis) targeting the 16S rRNA genes from the nitrifying enrichments were performed to identify putative AOBs and NOBs.

  2. One for all--a highly efficient and versatile method for fluorescent immunostaining in fish embryos.

    Directory of Open Access Journals (Sweden)

    Daigo Inoue

    Full Text Available BACKGROUND: For the detection and sub-cellular (co-localization of proteins in the context of the tissue or organism immunostaining in whole mount preparations or on sections is still the best approach. So far, each antibody required its own fixation and antigen retrieval protocol so that optimizing immunostaining turned out to be tedious and time consuming. METHODOLOGY/PRINCIPAL FINDING: Here we present a novel method to efficiently retrieve the antigen in a widely applicable standard protocol, facilitating fluorescent immunostaining of both cryosections and whole mount preparations in zebrafish (Danio rerio and medaka (Oryzias latipes. CONCLUSIONS/SIGNIFICANCE: Our method overcomes the loss of sections and damage of tissue and cell morphology, and allows parallel immunostaining in multiple colors, co-immunostaining with fluorescent proteins in transgenic fish lines and in combination with whole mount in situ hybridization.

  3. Singular and Regular Implementations of the Hybrid Boundary Node Method

    Institute of Scientific and Technical Information of China (English)

    2007-01-01

    The hybrid boundary node method (HdBNM) combines a modified function with the moving least squares approximation to form a boundary-only truly meshless method. This paper describes two implementations of the HdBNM, the singular hybrid boundary node method (ShBNM) and the regular hybrid boundary node method (RhBNM). The ShBNM and RhBNM were compared with each other, and the parameters that influence their performance were studied in detail. The convergence rates and their applicability to thin structures were also investigated. The ShBNM and RhBNM are found to be very easy to implement and to efficiently obtain numerical solutions to computational mechanics problems.

  4. An accurate method for measuring triploidy of larval fish spawns

    Science.gov (United States)

    Jenkins, Jill A.; Draugelis-Dale, Rassa O.; Glennon, Robert; Kelly, Anita; Brown, Bonnie L.; Morrison, John

    2017-01-01

    A standard flow cytometric protocol was developed for estimating triploid induction in batches of larval fish. Polyploid induction treatments are not guaranteed to be 100% efficient, thus the ability to quantify the proportion of triploid larvae generated by a particular treatment helps managers to stock high-percentage spawns and researchers to select treatments for efficient triploid induction. At 3 d posthatch, individual Grass Carp Ctenopharyngodon idella were mechanically dissociated into single-cell suspensions; nuclear DNA was stained with propidium iodide then analyzed by flow cytometry. Following ploidy identification of individuals, aliquots of diploid and triploid cell suspensions were mixed to generate 15 levels (0–100%) of known triploidy (n = 10). Using either 20 or 50 larvae per level, the observed triploid percentages were lower than the known, actual values. Using nonlinear regression analyses, quadratic equations solved for triploid proportions in mixed samples and corresponding estimation reference plots allowed for predicting triploidy. Thus, an accurate prediction of the proportion of triploids in a spawn can be made by following a standard larval processing and analysis protocol with either 20 or 50 larvae from a single spawn, coupled with applying the quadratic equations or reference plots to observed flow cytometry results. Due to the universality of triploid DNA content being 1.5 times the diploid level and because triploid fish consist of fewer cells than diploids, this method should be applicable to other produced triploid fish species, and it may be adapted for use with bivalves or other species where batch analysis is appropriate.

  5. Spoken Language Identification Using Hybrid Feature Extraction Methods

    CERN Document Server

    Kumar, Pawan; Mishra, A N; Chandra, Mahesh

    2010-01-01

    This paper introduces and motivates the use of hybrid robust feature extraction technique for spoken language identification (LID) system. The speech recognizers use a parametric form of a signal to get the most important distinguishable features of speech signal for recognition task. In this paper Mel-frequency cepstral coefficients (MFCC), Perceptual linear prediction coefficients (PLP) along with two hybrid features are used for language Identification. Two hybrid features, Bark Frequency Cepstral Coefficients (BFCC) and Revised Perceptual Linear Prediction Coefficients (RPLP) were obtained from combination of MFCC and PLP. Two different classifiers, Vector Quantization (VQ) with Dynamic Time Warping (DTW) and Gaussian Mixture Model (GMM) were used for classification. The experiment shows better identification rate using hybrid feature extraction techniques compared to conventional feature extraction methods.BFCC has shown better performance than MFCC with both classifiers. RPLP along with GMM has shown be...

  6. A hybrid method for assessment of soil pollutants spatial distribution

    Science.gov (United States)

    Tarasov, D. A.; Medvedev, A. N.; Sergeev, A. P.; Shichkin, A. V.; Buevich, A. G.

    2017-07-01

    The authors propose a hybrid method to predict the distribution of topsoil pollutants (Cu and Cr). The method combines artificial neural networks and kriging. Corresponding computer models were built and tested on real data on example of subarctic regions of Russia. The network structure selection was based on the minimization of the Root-mean-square error between real and predicted concentrations. The constructed models show that the prognostic accuracy of the artificial neural network is higher than in case of the geostatistical (kriging) and deterministic methods. The conclusion is that hybridization of models (artificial neural network and kriging) provides the improvement of the total predictive accuracy.

  7. A Hybrid 3D Path Planning Method for UAVs

    DEFF Research Database (Denmark)

    Ortiz-Arroyo, Daniel

    2015-01-01

    This paper presents a hybrid method for path planning in 3D spaces. We propose an improvement to a near-optimal 2D off-line algorithm and a flexible normalized on-line fuzzy controller to find shortest paths. Our method, targeted to low altitude domains, is simple and efficient. Our preliminary resu...

  8. Method for production of sorghum hybrids with selected flowering times

    Science.gov (United States)

    Mullet, John E.; Rooney, William L.

    2016-08-30

    Methods and composition for the production of sorghum hybrids with selected and different flowering times are provided. In accordance with the invention, a substantially continual and high-yield harvest of sorghum is provided. Improved methods of seed production are also provided.

  9. Method for production of sorghum hybrids with selected flowering times

    Energy Technology Data Exchange (ETDEWEB)

    Mullet, John E.; Rooney, William L.

    2016-08-30

    Methods and composition for the production of sorghum hybrids with selected and different flowering times are provided. In accordance with the invention, a substantially continual and high-yield harvest of sorghum is provided. Improved methods of seed production are also provided.

  10. Heat-capacity measurements on small samples: The hybrid method

    NARCIS (Netherlands)

    Klaasse, J.C.P.; Brück, E.H.

    2008-01-01

    A newly developed method is presented for measuring heat capacities on small samples, particularly where thermal isolation is not sufficient for the use of the traditional semiadiabatic heat-pulse technique. This "hybrid technique" is a modification of this heat-pulse method in case the temperature

  11. Heat-capacity measurements on small samples: The hybrid method

    NARCIS (Netherlands)

    Klaasse, J.C.P.; Brück, E.H.

    2008-01-01

    A newly developed method is presented for measuring heat capacities on small samples, particularly where thermal isolation is not sufficient for the use of the traditional semiadiabatic heat-pulse technique. This "hybrid technique" is a modification of this heat-pulse method in case the temperature

  12. A hybrid formulation of a component mode synthesis method

    Science.gov (United States)

    Farhat, Charbel; Geradin, Michel

    1992-01-01

    Component mode synthesis is a substructuring technique frequently employed in structural dynamics. In this method, a given structure is subdivided into components or substructures, each of which is analyzed independently for natural frequencies and for mode shapes. The substructure mode shapes are then assembled to give displacement shapes or load patterns of the original structure. An analytical justification of the basic concept is presented using spectral decompositions, and a variant substructuring approach where intersubstructure continuity is enforced in a weak form is derived. This leads to a hybrid formulation of the basic method which is particularly suitable for assembling heterogeneous substructures and analyzing nonconforming and incompatible finite element substructure models. For problems where both the basic and hybrid methods are applicable, the hybrid variant can be computationally more advantageous.

  13. Comparison of immunohistochemistry (IHC and fluorescence in situ hybridization (FISH assessment for Her-2 status in breast cancer

    Directory of Open Access Journals (Sweden)

    Qi Minfang

    2009-11-01

    Full Text Available Abstract Background The concordance rate between IHC and FISH according to clinical performance is still controversial. We report a prospective study to reflect the concordance between IHC and FISH in Guilin city, People's Republic of China. Methods Fifty cases of invasive ductal carcinoma of breast tested by IHC and scored as 0, 1+, 2+ and 3+ by pathologists were further analyzed by FISH using a commercially available double-color probe, and the FISH findings were compared with IHC test results. Results A total concordance of 82.0% was observed with a Kappa coefficient of 0.640 (P Conclusion The IHC can be used firstly to screen the HER-2 status, and FISH can be used as a supplementary role to IHC and 2+ and some negative cases. And only those cases with Her-2 status of IHC 3+ or FISH positive should be treated with Herceptin.

  14. Novel hybrid method: pulse CO2 laser-TIG hybrid welding by coordinated control

    Institute of Scientific and Technical Information of China (English)

    Chen Yanbin; Lei Zhenglong; Li Liqun; Wu Lin; Xie Cheng

    2006-01-01

    In continuous wave CO2 laser-TIG hybrid welding process, the laser energy is not fully utilized because of the absorption and defocusing by plasma in the arc space. Therefore, the optimal welding result can only be achieved in a limited energy range. In order to improve the welding performance further, a novel hybrid welding method-pulse CO2 laser-TIG arc hybrid welding by coordinated control is proposed and investigated. The experimental results indicate that, compared with continuous wave CO2 laser-TIG hybrid welding, the absorption and defocusing of laser energy by plasma are decreased further, and at the same time, the availability ratio of laser and arc energy can be increased when a coordinated frequency is controlled. As a result, the weld appearance is also improved as well as the weld depth is deepened. Furthermore, the effect of frequency and phase of pulse laser and TIG arc on the arc images and welding characteristics is also studied. However, the novel hybrid method has great potentials in the application of industrials from views of techniques and economy.

  15. Multiple-time-stepping generalized hybrid Monte Carlo methods

    Energy Technology Data Exchange (ETDEWEB)

    Escribano, Bruno, E-mail: bescribano@bcamath.org [BCAM—Basque Center for Applied Mathematics, E-48009 Bilbao (Spain); Akhmatskaya, Elena [BCAM—Basque Center for Applied Mathematics, E-48009 Bilbao (Spain); IKERBASQUE, Basque Foundation for Science, E-48013 Bilbao (Spain); Reich, Sebastian [Universität Potsdam, Institut für Mathematik, D-14469 Potsdam (Germany); Azpiroz, Jon M. [Kimika Fakultatea, Euskal Herriko Unibertsitatea (UPV/EHU) and Donostia International Physics Center (DIPC), P.K. 1072, Donostia (Spain)

    2015-01-01

    Performance of the generalized shadow hybrid Monte Carlo (GSHMC) method [1], which proved to be superior in sampling efficiency over its predecessors [2–4], molecular dynamics and hybrid Monte Carlo, can be further improved by combining it with multi-time-stepping (MTS) and mollification of slow forces. We demonstrate that the comparatively simple modifications of the method not only lead to better performance of GSHMC itself but also allow for beating the best performed methods, which use the similar force splitting schemes. In addition we show that the same ideas can be successfully applied to the conventional generalized hybrid Monte Carlo method (GHMC). The resulting methods, MTS-GHMC and MTS-GSHMC, provide accurate reproduction of thermodynamic and dynamical properties, exact temperature control during simulation and computational robustness and efficiency. MTS-GHMC uses a generalized momentum update to achieve weak stochastic stabilization to the molecular dynamics (MD) integrator. MTS-GSHMC adds the use of a shadow (modified) Hamiltonian to filter the MD trajectories in the HMC scheme. We introduce a new shadow Hamiltonian formulation adapted to force-splitting methods. The use of such Hamiltonians improves the acceptance rate of trajectories and has a strong impact on the sampling efficiency of the method. Both methods were implemented in the open-source MD package ProtoMol and were tested on a water and a protein systems. Results were compared to those obtained using a Langevin Molly (LM) method [5] on the same systems. The test results demonstrate the superiority of the new methods over LM in terms of stability, accuracy and sampling efficiency. This suggests that putting the MTS approach in the framework of hybrid Monte Carlo and using the natural stochasticity offered by the generalized hybrid Monte Carlo lead to improving stability of MTS and allow for achieving larger step sizes in the simulation of complex systems.

  16. Stability estimates for hybrid coupled domain decomposition methods

    CERN Document Server

    Steinbach, Olaf

    2003-01-01

    Domain decomposition methods are a well established tool for an efficient numerical solution of partial differential equations, in particular for the coupling of different model equations and of different discretization methods. Based on the approximate solution of local boundary value problems either by finite or boundary element methods, the global problem is reduced to an operator equation on the skeleton of the domain decomposition. Different variational formulations then lead to hybrid domain decomposition methods.

  17. Robust Hybrid Finite Element Methods for Antennas and Microwave Circuits

    Science.gov (United States)

    Gong, J.; Volakis, John L.

    1996-01-01

    One of the primary goals in this dissertation is concerned with the development of robust hybrid finite element-boundary integral (FE-BI) techniques for modeling and design of conformal antennas of arbitrary shape. Both the finite element and integral equation methods will be first overviewed in this chapter with an emphasis on recently developed hybrid FE-BI methodologies for antennas, microwave and millimeter wave applications. The structure of the dissertation is then outlined. We conclude the chapter with discussions of certain fundamental concepts and methods in electromagnetics, which are important to this study.

  18. Hybrid SVM/HMM Method for Face Recognition

    Institute of Scientific and Technical Information of China (English)

    刘江华; 陈佳品; 程君实

    2004-01-01

    A face recognition system based on Support Vector Machine (SVM) and Hidden Markov Model (HMM) has been proposed. The powerful discriminative ability of SVM is combined with the temporal modeling ability of HMM. The output of SVM is moderated to be probability output, which replaces the Mixture of Gauss (MOG) in HMM. Wavelet transformation is used to extract observation vector, which reduces the data dimension and improves the robustness.The hybrid system is compared with pure HMM face recognition method based on ORL face database and Yale face database. Experiments results show that the hybrid method has better performance.

  19. BIOTECHNOLOGY OF THE FISH AQUACULTURE

    OpenAIRE

    L. P. Buchatsky

    2013-01-01

    The latest progress in biotechnology on fish aquaculture and different modern methods of investigations for increasing of fish productivity in aquaculture are analyzed. Except for the applied aspect, the use of modern biotechnological methods of investigations opens new possibilities for fundamental researches of sex-determining mechanisms, polyploidy, distant hybridization, and developmental biology of bony fishes. Review contains examples of utilizing modern biotechnology methods to obtain ...

  20. Annual trends in catchability and fish stock assessments

    OpenAIRE

    2003-01-01

    A key assumption of many fish stock assessment models is that catchability is constant over time. We assume here that trends in catchability may occur through fishing power creeping. The tuning fleets, which are prone to fishing power development, may be identified using the "Hybrid" method. A range of catchability trends, including values derived from the "Hybrid" method, is then implemented to standardise the fishing effort of some tuning fleets used in the stock assessments performed by XS...

  1. Hybrid recommendation methods in complex networks

    Science.gov (United States)

    Fiasconaro, A.; Tumminello, M.; Nicosia, V.; Latora, V.; Mantegna, R. N.

    2015-07-01

    We propose two recommendation methods, based on the appropriate normalization of already existing similarity measures, and on the convex combination of the recommendation scores derived from similarity between users and between objects. We validate the proposed measures on three data sets, and we compare the performance of our methods to other recommendation systems recently proposed in the literature. We show that the proposed similarity measures allow us to attain an improvement of performances of up to 20% with respect to existing nonparametric methods, and that the accuracy of a recommendation can vary widely from one specific bipartite network to another, which suggests that a careful choice of the most suitable method is highly relevant for an effective recommendation on a given system. Finally, we study how an increasing presence of random links in the network affects the recommendation scores, finding that one of the two recommendation algorithms introduced here can systematically outperform the others in noisy data sets.

  2. Hybrid recommendation methods in complex networks.

    Science.gov (United States)

    Fiasconaro, A; Tumminello, M; Nicosia, V; Latora, V; Mantegna, R N

    2015-07-01

    We propose two recommendation methods, based on the appropriate normalization of already existing similarity measures, and on the convex combination of the recommendation scores derived from similarity between users and between objects. We validate the proposed measures on three data sets, and we compare the performance of our methods to other recommendation systems recently proposed in the literature. We show that the proposed similarity measures allow us to attain an improvement of performances of up to 20% with respect to existing nonparametric methods, and that the accuracy of a recommendation can vary widely from one specific bipartite network to another, which suggests that a careful choice of the most suitable method is highly relevant for an effective recommendation on a given system. Finally, we study how an increasing presence of random links in the network affects the recommendation scores, finding that one of the two recommendation algorithms introduced here can systematically outperform the others in noisy data sets.

  3. A RAPID PCR-QUALITY DNA EXTRACTION METHOD IN FISH

    Institute of Scientific and Technical Information of China (English)

    LI Zhong; LIANG Hong-Wei; ZOU Gui-Wei

    2012-01-01

    PCR has been a general preferred method for biological research in fish, and previous research have enabled us to extract and purify PCR-quality DNA templates in laboratories[1-4]. The same problem among these procedures is waiting for tissue digesting for a long time. The overabundance time spent on PCR-quality DNA extraction restricts the efficiency of PCR assay, especially in large-scale PCR amplification, such as SSR-based genetic-mapping construction [5,6], identification of germ plasm resource[7,8] and evolution research [9,10], etc. In this study, a stable and rapid PCR-quality DNA extraction method was explored, using a modified alkaline lysis protocol. Extracting DNA for PCR only takes approximately 25 minutes. This stable and rapid DNA extraction method could save much laboratory time and promotes.%PCR has been a general preferred method for biological research in fish,and previous research have enabled us to extract and purify PCR-quality DNA templates in laboratories [1-4].The same problem among these procedures is waiting for tissue digesting for a long time.The overabundance time spent on PCR-quality DNA extraction restricts the efficiency of PCR assay,especially in large-scale PCR amplification,such as SSR-based genetic-mapping construction [5,6],identification of germ plasm resource[7,8] and evolution research [9,10],etc.In this study,a stable and rapid PCR-quality DNA extraction method was explored,using a modified alkaline lysis protocol.Extracting DNA for PCR only takes approximately 25 minutes.This stable and rapid DNA extraction method could save much laboratory time and promotes.

  4. Variability of ribosomal DNA sites in Festuca pratensis, Lolium perenne, and their intergeneric hybrids, revealed by FISH and GISH.

    Science.gov (United States)

    Ksiazczyk, T; Taciak, M; Zwierzykowski, Z

    2010-01-01

    This study focuses on the variability of chromosomal location and number of ribosomal DNA (rDNA) sites in some diploid and autotetraploid Festuca pratensis and Lolium perenne cultivars, as well as on identification of rDNA-bearing chromosomes in their triploid and tetraploid F. pratensis × L. perenne hybrids. The rDNA loci were mapped using fluorescence in situ hybridization (FISH) with 5S and 25S rDNA probes, and the origin of parental genomes was verified by genomic in situ hybridization (GISH) with L. perenne genomic DNA as a probe, and F. pratensis genomic DNA as a block. FISH detected variation in the number and chromosomal location of both 5S and 45S rDNA sites. In F. pratensis mostly additional signals of 5S rDNA loci occurred, as compared with standard F. pratensis karyotypes. Losses of 45S rDNA loci were more frequent in L. perenne cultivars and intergeneric hybrids. Comparison of the F. pratensis and L. perenne genomes approved a higher number of rDNA sites as well as variation in chromosomal rDNA location in L. perenne. A greater instability of F. pratensis-genome-like and L. perenne-genome-like chromosomes in tetraploid hybrids was revealed, indicating gains and losses of rDNA loci, respectively. Our data indicate that the rDNA loci physically mapped on chromosomes 2 and 3 in F. pratensis and on chromosome 3 in L. perenne are useful markers for these chromosomes in intergeneric Festuca × Lolium hybrids.

  5. Hybrid recommendation methods in complex networks

    CERN Document Server

    Fiasconaro, A; Nicosia, V; Latora, V; Mantegna, R N

    2014-01-01

    We propose here two new recommendation methods, based on the appropriate normalization of already existing similarity measures, and on the convex combination of the recommendation scores derived from similarity between users and between objects. We validate the proposed measures on three relevant data sets, and we compare their performance with several recommendation systems recently proposed in the literature. We show that the proposed similarity measures allow to attain an improvement of performances of up to 20\\% with respect to existing non-parametric methods, and that the accuracy of a recommendation can vary widely from one specific bipartite network to another, which suggests that a careful choice of the most suitable method is highly relevant for an effective recommendation on a given system. Finally, we studied how an increasing presence of random links in the network affects the recommendation scores, and we found that one of the two recommendation algorithms introduced here can systematically outpe...

  6. Method of determining of polybrominated diphenyl ethers in fish and fish products by the method of liquid chromatography

    Directory of Open Access Journals (Sweden)

    O.N. Timofeeva

    2016-09-01

    Full Text Available The aim of the work was to develop a methodology for determining of polybrominated diphenyl ethers (PBDE in fish and fish products for the control of impurities content in the food and environmental objects in general. The conditions of chromatography (temperature conditions, the impact of the speed and magnitude of dividing of the gas-carrier stream using a HP-1 capillary columns, the DB-5, HP-50 +, DB-1; and lipids destructive and non-destructive cleaning methods of extract during the determination of PBDEs. The method of determination of 2,2,4,4-Tetrabromodiphenyl ether (BDE-47, 2,2,4,4,5-pentabromodiphenyl ether (BDE-99 and decabromodiphenyl ether (BDE-209 in fish and fish products by the liquid chromatography with electron detector was suggested. The method of PBDE is based on the extraction of samples with hexane-acetone (3:1, purification of the extract with concentrated sulfuric acid (phase ratio hexane-sulfuric acid – 5:1. The second purification step is carried out by using solid phase extraction cartridges «SiOH-H2SO4/SA» and hexane as the eluent. Gas chromatographic analysis of the determination of BDE-47 and BDE-99 is carried out on low-polar capillary column DB-5 (30 m x0.25 mm x0.25 mum with the programming of the column temperature. In determining the BDE-209 a DB-1 nonpolar capillary column was used (15 m x 0.25 mm x 0.1 mum with the column temperature programming. Calculation of the content of BDE-47 and BDE-99 is carried out with the internal standard (2,2, 3,4,4-pentabromodiphenyl ether (BDE-85, BDE-209 by absolute calibration. In determining the BDE-209 the calibration matrix was used. The range of concentrations of the calibration solutions for the determination of BDE-47 and BDE-99 is 0.005–0.05 g/cm 3 , for BDE-209 0.05–0.3 g/cm 3 . The technique allows the measurement of BDE-47 and BDE-99 in the range of 0.0002–0.05 mg/kg of the product concerned; BDE-209 – in the range of 0.002–0.3 mg/kg. The metrological

  7. A HYBRID METHOD FOR EFFICIENT TARGET RECOGNITION

    Institute of Scientific and Technical Information of China (English)

    Zhang Yanning; Zheng Jiangbin; Zhao Rongchun

    2003-01-01

    An efficient target recognition method for remote sensing image is proposed in this paper, which is based on moment invariant and support vector machine. First, seven Hu's invariant moments are extracted as a feature vector. Then, a support vector machine is used to recognize targets of planes and ships on binary remote sensing images. The experimental results show that the new method can obtain better recognition results. Moreover, it is observed that the range of the binary values of image affects directly the performance of recognition.

  8. Recent advances in methods and techniques for freshness quality determination and evaluation of fish and fish fillets: a review.

    Science.gov (United States)

    Cheng, Jun-Hu; Sun, Da-Wen; Zeng, Xin-An; Liu, Dan

    2015-01-01

    The freshness quality of fish plays an important role in human health and the acceptance of consumers as well as in international fishery trade. Recently, with food safety becoming a critical issue of great concern in the world, determination and evaluation of fish freshness is much more significant in research and development. This review renovates and concentrates recent advances of evaluating methods for fish freshness as affected by preharvest and postharvest factors and highlights the determination methods for fish freshness including sensory evaluation, microbial inspection, chemical measurements of moisture content, volatile compounds, protein changes, lipid oxidation, and adenosine triphosphate (ATP) decomposition (K value), physical measurements, and foreign material contamination detection. Moreover, the advantages and disadvantages of these methods and techniques are compared and discussed and some viewpoints about the current work and future trends are also presented.

  9. A Hybrid Method with Deviational Particles for Spatial Inhomogeneous Plasma

    CERN Document Server

    Yan, Bokai

    2015-01-01

    In this work we propose a Hybrid method with Deviational Particles (HDP) for a plasma modeled by the inhomogeneous Vlasov-Poisson-Landau system. We split the distribution into a Maxwellian part evolved by a grid based fluid solver and a deviation part simulated by numerical particles. These particles, named deviational particles, could be both positive and negative. We combine the Monte Carlo method proposed in \\cite{YC15}, a Particle in Cell method and a Macro-Micro decomposition method \\cite{BLM08} to design an efficient hybrid method. Furthermore, coarse particles are employed to accelerate the simulation. A particle resampling technique on both deviational particles and coarse particles is also investigated and improved. The efficiency is significantly improved compared to a PIC-MCC method, especially near the fluid regime.

  10. Hybrid multiple criteria decision-making methods

    DEFF Research Database (Denmark)

    Zavadskas, Edmundas Kazimieras; Govindan, K.; Antucheviciene, Jurgita

    2016-01-01

    Formal decision-making methods can be used to help improve the overall sustainability of industries and organisations. Recently, there has been a great proliferation of works aggregating sustainability criteria by using diverse multiple criteria decision-making (MCDM) techniques. A number of revi...

  11. 21 CFR 866.4700 - Automated fluorescence in situ hybridization (FISH) enumeration systems.

    Science.gov (United States)

    2010-04-01

    ... detection and enumeration of FISH signals in interphase nuclei of formalin-fixed, paraffin-embedded human.... This device is intended for in vitro diagnostic use with FISH assays as an aid in the...

  12. A study of hybrid prediction method for ship parametric rolling

    Institute of Scientific and Technical Information of China (English)

    周耀华; 马宁; 鲁江; 顾民

    2016-01-01

    The parametric rolling (PR) in the head or following waves has been considered as one of the main stability failure modes in the development of the 2nd generation Intact Stability criterion by the International Maritime Organization (IMO). According to previous studies, the estimation methods of the roll damping affect the prediction of the PR significantly, and most of them are based on experiment data or Ikeda’s empirical formula. The accuracy of the estimation method for the roll damping could be a key aspect for the validity of its prediction for the full scale ship. In this research, a hybrid prediction method is developed for the numerical prediction of the parametric rolling when experiment data are not available for the roll damping. Comparison study is also carried out between the hybrid method and a nonlinear dynamics method, where the roll damping is estimated by the simplified Ikeda’s method and the direct CFD prediction method in a direct non-linear simulation based on the 3-D CFD approach in the model scale. It is shown that the results of the hybrid method are in satisfactory agreements with the model experiment results, and the method can be used for analysis especially at the early design stage where experiment data are often not available.

  13. BIOTECHNOLOGY OF THE FISH AQUACULTURE

    Directory of Open Access Journals (Sweden)

    L. P. Buchatsky

    2013-12-01

    Full Text Available The latest progress in biotechnology on fish aquaculture and different modern methods of investigations for increasing of fish productivity in aquaculture are analyzed. Except for the applied aspect, the use of modern biotechnological methods of investigations opens new possibilities for fundamental researches of sex-determining mechanisms, polyploidy, distant hybridization, and developmental biology of bony fishes. Review contains examples of utilizing modern biotechnology methods to obtain transgenic fishes with accelerated growth and for designing surrogate fishes. Methods for receiving unisexual shoals of salmon and sturgeon female fishes with the view of obtaining a large quantity of caviar, as well as receiving sterile (triploid fishes are analyzed. Great attention is given to androgenesis, particularly to disperm one, in connection with the problem of conserving rare and vanishing fish species using only sperm genetic material. Examples how distant hybrids may be obtained with the use of disperm androgenesis and alkylated DNA are given. Methods of obtaining fish primordium germ cells, recent developments in cultivation of fish stem cells and their use in biotechnology, as well as ones of transplantation of oogonium and spermatogonium to obtain surrogate fishes. The examples of successful experiments on spermatogonial xenotransplantation and characteristic of antifreezing fish proteins and also the prospect of their practical usage are given.

  14. Hybrid radical energy storage device and method of making

    Energy Technology Data Exchange (ETDEWEB)

    Gennett, Thomas; Ginley, David S.; Braunecker, Wade; Ban, Chunmei; Owczarczyk, Zbyslaw

    2016-04-26

    Hybrid radical energy storage devices, such as batteries or electrochemical devices, and methods of use and making are disclosed. Also described herein are electrodes and electrolytes useful in energy storage devices, for example, radical polymer cathode materials and electrolytes for use in organic radical batteries.

  15. A COMBINED HYBRID FINITE ELEMENT METHOD FOR PLATE BENDING PROBLEMS

    Institute of Scientific and Technical Information of China (English)

    Tian-xiao Zhou; Xiao-ping Xie

    2003-01-01

    In this paper, a combined hybrid method is applied to finite element discretization ofplate bending problems. It is shown that the resultant schemes are stabilized, i.e., theconvergence of the schemes is independent of inf-sup conditions and any other patch test.Based on this, two new series of plate elements are proposed.

  16. A Novel Method of Utilizing Hybrid Generator as Renewable Source

    Directory of Open Access Journals (Sweden)

    K.Fathima

    2015-12-01

    Full Text Available Energy production and consumption in the future may depend on renewable energy sources and also depends on the efficiency of utilizing it. Here, a hybrid system, a combination of solar cells and thermoelectric generators is controlled by open circuit voltage method which is normally used for linear electrical characteristics. The proposed system is supported by theoretical analysis and simulation. Lead acid battery is used to accumulate the harvested energy. Cuk converters are used here to improve the efficiency and helps in reduction of noises. Hybrid generators are found to be efficient and more stable.

  17. A Hybrid On-line Verification Method of Relay Setting

    Science.gov (United States)

    Gao, Wangyuan; Chen, Qing; Si, Ji; Huang, Xin

    2017-05-01

    Along with the rapid development of the power industry, grid structure gets more sophisticated. The validity and rationality of protective relaying are vital to the security of power systems. To increase the security of power systems, it is essential to verify the setting values of relays online. Traditional verification methods mainly include the comparison of protection range and the comparison of calculated setting value. To realize on-line verification, the verifying speed is the key. The verifying result of comparing protection range is accurate, but the computation burden is heavy, and the verifying speed is slow. Comparing calculated setting value is much faster, but the verifying result is conservative and inaccurate. Taking the overcurrent protection as example, this paper analyses the advantages and disadvantages of the two traditional methods above, and proposes a hybrid method of on-line verification which synthesizes the advantages of the two traditional methods. This hybrid method can meet the requirements of accurate on-line verification.

  18. Hybrid intelligent optimization methods for engineering problems

    Science.gov (United States)

    Pehlivanoglu, Yasin Volkan

    The purpose of optimization is to obtain the best solution under certain conditions. There are numerous optimization methods because different problems need different solution methodologies; therefore, it is difficult to construct patterns. Also mathematical modeling of a natural phenomenon is almost based on differentials. Differential equations are constructed with relative increments among the factors related to yield. Therefore, the gradients of these increments are essential to search the yield space. However, the landscape of yield is not a simple one and mostly multi-modal. Another issue is differentiability. Engineering design problems are usually nonlinear and they sometimes exhibit discontinuous derivatives for the objective and constraint functions. Due to these difficulties, non-gradient-based algorithms have become more popular in recent decades. Genetic algorithms (GA) and particle swarm optimization (PSO) algorithms are popular, non-gradient based algorithms. Both are population-based search algorithms and have multiple points for initiation. A significant difference from a gradient-based method is the nature of the search methodologies. For example, randomness is essential for the search in GA or PSO. Hence, they are also called stochastic optimization methods. These algorithms are simple, robust, and have high fidelity. However, they suffer from similar defects, such as, premature convergence, less accuracy, or large computational time. The premature convergence is sometimes inevitable due to the lack of diversity. As the generations of particles or individuals in the population evolve, they may lose their diversity and become similar to each other. To overcome this issue, we studied the diversity concept in GA and PSO algorithms. Diversity is essential for a healthy search, and mutations are the basic operators to provide the necessary variety within a population. After having a close scrutiny of the diversity concept based on qualification and

  19. A multigrid solution method for mixed hybrid finite elements

    Energy Technology Data Exchange (ETDEWEB)

    Schmid, W. [Universitaet Augsburg (Germany)

    1996-12-31

    We consider the multigrid solution of linear equations arising within the discretization of elliptic second order boundary value problems of the form by mixed hybrid finite elements. Using the equivalence of mixed hybrid finite elements and non-conforming nodal finite elements, we construct a multigrid scheme for the corresponding non-conforming finite elements, and, by this equivalence, for the mixed hybrid finite elements, following guidelines from Arbogast/Chen. For a rectangular triangulation of the computational domain, this non-conforming schemes are the so-called nodal finite elements. We explicitly construct prolongation and restriction operators for this type of non-conforming finite elements. We discuss the use of plain multigrid and the multilevel-preconditioned cg-method and compare their efficiency in numerical tests.

  20. Validation of a hybrid life-cycle inventory analysis method.

    Science.gov (United States)

    Crawford, Robert H

    2008-08-01

    The life-cycle inventory analysis step of a life-cycle assessment (LCA) may currently suffer from several limitations, mainly concerned with the use of incomplete and unreliable data sources and methods of assessment. Many past LCA studies have used traditional inventory analysis methods, namely process analysis and input-output analysis. More recently, hybrid inventory analysis methods have been developed, combining these two traditional methods in an attempt to minimise their limitations. In light of recent improvements, these hybrid methods need to be compared and validated, as these too have been considered to have several limitations. This paper evaluates a recently developed hybrid inventory analysis method which aims to improve the limitations of previous methods. It was found that the truncation associated with process analysis can be up to 87%, reflecting the considerable shortcomings in the quantity of process data currently available. Capital inputs were found to account for up to 22% of the total inputs to a particular product. These findings suggest that current best-practice methods are sufficiently accurate for most typical applications, but this is heavily dependent upon data quality and availability. The use of input-output data assists in improving the system boundary completeness of life-cycle inventories. However, the use of input-output analysis alone does not always provide an accurate model for replacing process data. Further improvements in the quantity of process data currently available are needed to increase the reliability of life-cycle inventories.

  1. Hybrid Vortex Method for the Aerodynamic Analysis of Wind Turbine

    Directory of Open Access Journals (Sweden)

    Hao Hu

    2015-01-01

    Full Text Available The hybrid vortex method, in which vortex panel method is combined with the viscous-vortex particle method (HPVP, was established to model the wind turbine aerodynamic and relevant numerical procedure program was developed to solve flow equations. The panel method was used to calculate the blade surface vortex sheets and the vortex particle method was employed to simulate the blade wake vortices. As a result of numerical calculations on the flow over a wind turbine, the HPVP method shows significant advantages in accuracy and less computation resource consuming. The validation of the aerodynamic parameters against Phase VI wind turbine experimental data is performed, which shows reasonable agreement.

  2. RBFs-MSA Hybrid Method for Mesh Deformation

    Institute of Scientific and Technical Information of China (English)

    LIU Yu; GUO Zheng; LIU Jun

    2012-01-01

    Simulating unsteady flow phenomena involving moving boundaries is a challenging task,one key requirement of which is a reliable and fast algorithm to deform the computational mesh.Radial basis functions (RBFs) interpolation is a very simple and robust method to deform the mesh.However,the number of operations and the requirement of memory storage will be increased rapidly as the number of grid nodes increases,which limits the application of RBFs to three-dimensional (3D) moving mesh.Moving submesh approach (MSA) is an efficient method,but its robustness depends on the method used to deform the background mesh.A hybrid method which combines the benefits of MSA and RBFs interpolation,which is called RBFs-MSA,has been presented.This hybrid method is proved to be robust and efficient via several numerical examples.From the aspect of the quality of deforming meshes,this hybrid method is comparable with the RBFs interpolation; from the aspect of computing efficiency,one test case shows that RBFs-MSA is about two orders of magnitude faster than RBFs interpolation.For these benefits of RBFs-MSA,the new method is suitable for unsteady flow simulation which refers to boundaries movement.

  3. A hybrid splitting method for smoothing Tikhonov regularization problem

    Directory of Open Access Journals (Sweden)

    Yu-Hua Zeng

    2016-02-01

    Full Text Available Abstract In this paper, a hybrid splitting method is proposed for solving a smoothing Tikhonov regularization problem. At each iteration, the proposed method solves three subproblems. First of all, two subproblems are solved in a parallel fashion, and the multiplier associated to these two block variables is updated in a rapid sequence. Then the third subproblem is solved in the sense of an alternative fashion with the former two subproblems. Finally, the multiplier associated to the last two block variables is updated. Global convergence of the proposed method is proven under some suitable conditions. Some numerical experiments on the discrete ill-posed problems (DIPPs show the validity and efficiency of the proposed hybrid splitting method.

  4. Rapid detection of Enterococcus spp. direct from blood culture bottles using Enterococcus QuickFISH method: a multicenter investigation.

    Science.gov (United States)

    Deck, Melissa K; Anderson, Erica S; Buckner, Rebecca J; Colasante, Georgia; Davis, Thomas E; Coull, James M; Crystal, Benjamin; Latta, Phyllis Della; Fuchs, Martin; Fuller, Deanna; Harris, Will; Hazen, Kevin; Klimas, Lisa L; Lindao, Daniel; Meltzer, Michelle C; Morgan, Margie; Shepard, Janeen; Stevens, Sharon; Wu, Fann; Fiandaca, Mark J

    2014-04-01

    The performance of a diagnostic method for detection and identification of Enterococcus spp. directly from positive blood culture was evaluated in a clinical study. The method, Enterococcus QuickFISH BC, is a second-generation peptide nucleic acid (PNA) fluorescence in situ hybridization (FISH) test, which uses a simplified, faster assay procedure. The test uses fluorescently labeled PNA probes targeting 16S rRNA to differentiate Enterococcus faecalis from other Enterococcus spp. by the color of the cellular fluorescence. Three hundred fifty-six routine blood culture samples were tested; only 2 discordant results were recorded. The sensitivities for detection of Enterococcus faecalis and non-faecalis Enterococcus were 100% (106/106) and 97.0% (65/67), respectively, and the combined specificity of the assay was 100%. The combined positive and negative predictive values of the assay were 100% (171/171) and 98.9% (185/187), respectively.

  5. Regularity properties of a class of hybrid methods

    Institute of Scientific and Technical Information of China (English)

    DaxueCHEN; AiguoXIAO

    2000-01-01

    The existence of spurious steady solutions and period-2 solutions in constant timestep is studied. The concepts of Rill-regularity and R-regularity of a class of hybrid methods for dynamical systems of ordinary differential equations are introduced and studied.Some conditions guaranteeing R-regularity and R-regularity of such methods applied to dynamical systems of ordinary differential equations with some important structures are given.

  6. Hybrid Fundamental Solution Based Finite Element Method: Theory and Applications

    OpenAIRE

    Changyong Cao; Qing-Hua Qin

    2015-01-01

    An overview on the development of hybrid fundamental solution based finite element method (HFS-FEM) and its application in engineering problems is presented in this paper. The framework and formulations of HFS-FEM for potential problem, plane elasticity, three-dimensional elasticity, thermoelasticity, anisotropic elasticity, and plane piezoelectricity are presented. In this method, two independent assumed fields (intraelement filed and auxiliary frame field) are employed. The formulations for...

  7. Hybrid Method and Similarity to Recognize Javanese Keris

    OpenAIRE

    Halim Budi Santoso; Ryan Peterzon Hadjon

    2015-01-01

    this paper describes Hybrid method and Similarity for recoginizing Javanese Keris. Javanese Keris is one of traditional javanese weapon. It is one of the Indonesia Cultural Heritage. Keris is famous for its distinctive wavy blade. But some of the keris has straight blades. There are many kinds of Keris and every Keris has its own unique pattern. The algorithm to recognize several types of Javanese Keris is made by using Edge Detection method with Image Segmentation and combine with Similarity...

  8. A method for simultaneously delineating multiple targets in 3D-FISH using limited channels, lasers, and fluorochromes.

    Science.gov (United States)

    Zhao, F Y; Yang, X; Chen, D Y; Ma, W Y; Zheng, J G; Zhang, X M

    2014-01-01

    Many studies have suggested a link between the spatial organization of genomes and fundamental biological processes such as genome reprogramming, gene expression, and differentiation. Multicolor fluorescence in situ hybridization on three-dimensionally preserved nuclei (3D-FISH), in combination with confocal microscopy, has become an effective technique for analyzing 3D genome structure and spatial patterns of defined nucleus targets including entire chromosome territories and single gene loci. This technique usually requires the simultaneous visualization of numerous targets labeled with different colored fluorochromes. Thus, the number of channels and lasers must be sufficient for the commonly used labeling scheme of 3D-FISH, "one probe-one target". However, these channels and lasers are usually restricted by a given microscope system. This paper presents a method for simultaneously delineating multiple targets in 3D-FISH using limited channels, lasers, and fluorochromes. In contrast to other labeling schemes, this method is convenient and simple for multicolor 3D-FISH studies, which may result in widespread adoption of the technique. Lastly, as an application of the method, the nucleus locations of chromosome territory 18/21 and centromere 18/21/13 in normal human lymphocytes were analyzed, which might present evidence of a radial higher order chromatin arrangement.

  9. Identification and characterization of marker chromosomes, de novo rearrangements and microdeletions in 100 cases with fluorescence in situ hybridization (FISH)

    Energy Technology Data Exchange (ETDEWEB)

    Anderson, S.M.; Liu, Y.; Papenhausen, P.R. [Roche Biomedical Labs., Research Triangle Park, NC (United States)

    1994-09-01

    Results of molecular cytogenetic analysis are presented for 100 cases in which fluorescence in situ hybridization (FISH) was used as an adjunct to standard cytogenetics. Commercially available centromeric, telomeric, chromosome painting and unique sequence probes were used. Cases were from a 12-month period (June 1993-May 1994) and included examples of sex chromosome abnormalities (8), duplications (5), de novo translocations (6), satellited (12) and non-satellited (7) markers, and microdeletion syndromes (62). Satellited marker chromosomes were evaluated using a combination of DAPI/Distamycin A staining, hybridization with a classical satellite probe for chromosome 15 and hybridization with alpha-satellite probes for chromosomes 13, 14, 21 and 22. Markers positive for the chromosome 15 probe were further evaluated using unique sequence probes for the Prader-Willi/Angelman region. Microdeletion analysis was performed for Prader-Willi/Angelman (49) and DiGeorge/VCF (13) syndromes. Seven cases evaluated for Prader-Willi/Angelman syndrome demonstrated evidence of a deletion within this region. Uniparental disomy analysis was available in cases where a deletion was not detected by FISH, yet follow-up was clinically indicated. Two cases evaluated for DiGeorge/VCF syndrome demonstrated molecular evidence of a deletion. Included in our analysis is an example of familial DiGeorge syndrome.

  10. A review of sensory and instrumental methods used to evaluate the texture of fish muscle

    DEFF Research Database (Denmark)

    Hyldig, Grethe; Nielsen, Durita

    2001-01-01

    The texture of fish muscle is an important quality attribute that depends on several parameters, both intrinsic and extrinsic. Its evaluation by sensory means is the result of a combination of several parameters that cover every impression from when the fish first comes into contact with a surface...... in the mouth, until it is completely masticated. This makes texture difficult to describe and evaluate. In addition the muscle structure of fish is not homogenous, and this has important implications on texture measurements by instrumental means. Numerous instrumental and sensory methods have been used...... to evaluate the texture of fish and fish fillets, with varying results and there exists no universal recommended method....

  11. Fishing

    Institute of Scientific and Technical Information of China (English)

    姜群山

    2002-01-01

    @@ Last Saturday my cousin (表兄) came to my home. We were very happy to see each other. We decided that the next day we went to fish. We got up very early that day. When we left home,the moon could still be seen in the sky.

  12. A Hybrid Intelligent Method of Predicting Stock Returns

    Directory of Open Access Journals (Sweden)

    Akhter Mohiuddin Rather

    2014-01-01

    Full Text Available This paper proposes a novel method for predicting stock returns by means of a hybrid intelligent model. Initially predictions are obtained by a linear model, and thereby prediction errors are collected and fed into a recurrent neural network which is actually an autoregressive moving reference neural network. Recurrent neural network results in minimized prediction errors because of nonlinear processing and also because of its configuration. These prediction errors are used to obtain final predictions by summation method as well as by multiplication method. The proposed model is thus hybrid of both a linear and a nonlinear model. The model has been tested on stock data obtained from National Stock Exchange of India. The results indicate that the proposed model can be a promising approach in predicting future stock movements.

  13. How reliable are ligand-centric methods for Target Fishing?

    Directory of Open Access Journals (Sweden)

    Antonio ePeon

    2016-04-01

    Full Text Available Computational methods for Target Fishing (TF, also known as Target Prediction or Polypharmacology Prediction, can be used to discover new targets for small-molecule drugs. This may result in repositioning the drug in a new indication or improving our current understanding of its efficacy and side effects. While there is a substantial body of research on TF methods, there is still a need to improve their validation, which is often limited to a small part of the available targets and not easily interpretable by the user. Here we discuss how target-centric TF methods are inherently limited by the number of targets that can possibly predict (this number is by construction much larger in ligand-centric techniques. We also propose a new benchmark to validate TF methods, which is particularly suited to analyse how predictive performance varies with the query molecule. On average over approved drugs, we estimate that only five predicted targets will have to be tested to find two true targets with submicromolar potency (a strong variability in performance is however observed. In addition, we find that an approved drug has currently an average of eight known targets, which reinforces the notion that polypharmacology is a common and strong event. Furthermore, with the assistance of a control group of randomly-selected molecules, we show that the targets of approved drugs are generally harder to predict.

  14. Human disturbance causes the formation of a hybrid swarm between two naturally sympatric fish species.

    Science.gov (United States)

    Hasselman, Daniel J; Argo, Emily E; McBride, Meghan C; Bentzen, Paul; Schultz, Thomas F; Perez-Umphrey, Anna A; Palkovacs, Eric P

    2014-03-01

    Most evidence for hybrid swarm formation stemming from anthropogenic habitat disturbance comes from the breakdown of reproductive isolation between incipient species, or introgression between allopatric species following secondary contact. Human impacts on hybridization between divergent species that naturally occur in sympatry have received considerably less attention. Theory predicts that reinforcement should act to preserve reproductive isolation under such circumstances, potentially making reproductive barriers resistant to human habitat alteration. Using 15 microsatellites, we examined hybridization between sympatric populations of alewife (Alosa pseudoharengus) and blueback herring (A. aestivalis) to test whether the frequency of hybridization and pattern of introgression have been impacted by the construction of a dam that isolated formerly anadromous populations of both species in a landlocked freshwater reservoir. The frequency of hybridization and pattern of introgression differed markedly between anadromous and landlocked populations. The rangewide frequency of hybridization among anadromous populations was generally 0-8%, whereas all landlocked individuals were hybrids. Although neutral introgression was observed among anadromous hybrids, directional introgression leading to increased prevalence of alewife genotypes was detected among landlocked hybrids. We demonstrate that habitat alteration can lead to hybrid swarm formation between divergent species that naturally occur sympatrically, and provide empirical evidence that reinforcement does not always sustain reproductive isolation under such circumstances.

  15. Fabrication of Hybrid Organic Photovoltaic Devices Using Electrostatic Spray Method

    Directory of Open Access Journals (Sweden)

    Zhe-Wei Chiu

    2014-01-01

    Full Text Available Hybrid organic photovoltaic devices (OPVDs are fabricated using the electrostatic spray (e-spray method and their optical and electrical properties are investigated. E-spray is used to deposit a hybrid film (P3HT: PCBM/nanodiamond with morphology and optical characteristics onto OPVDs. The root-mean-square roughness and optical absorption increase with increasing nanodiamond content. The performance of e-spray is comparable to that of the spin-coating method under uniform conditions. The device takes advantage of the high current density, power conversion efficiency, and low cost. Nanodiamond improves the short-circuit current density and power conversion efficiency. The best performance was obtained with 1.5 wt% nanodiamond content, with a current density of 7.28 mA/cm2 and a power conversion efficiency of 2.25%.

  16. On the Translation of Hybridity in the Chinese Version of Saving Fish from Drowning in the Light of Bakhtin’s Theory of Dialogue

    Institute of Scientific and Technical Information of China (English)

    HU Zheng-yan; WANG Ji-ping

    2015-01-01

    In translation, hybridity often poses a big challenge to the translator, especially when the hybrid text is a novel. The au⁃thor of this paper hopes to contribute to the study of the translation of hybridity in English novels by drawing on Bakhtin ’s theory of dialogue. By analyzing the translation of linguistic hybridity in Saving Fish from Drowning, the author of this paper finds that the translation by Caiju is not good enough and tries to provide a new direction by virtue of which translators can choose right transla⁃tion strategies.

  17. A Class of Multiderivative Hybrid One-step Methods

    Institute of Scientific and Technical Information of China (English)

    Feng-jian Yang; Xin-ming Chen; Ai-guo Zhang

    2002-01-01

    This paper presents a class of hybrid one-step methods that are obtained by using Cramer's rule and rational approximations to function exp (q). The algorithms fall into the catalogue of implicit formula, which involves sth order derivative and s+1 free parameters. The order of the algorithms satisfies s+1≤p≤2s+2. The stability of the methods is also studied, necessary and sufficient conditions for A-stability and L-stability are given. In addition, some examples are also given to demonstrate the method presented.

  18. Traditional method of fish treatment, microbial count and palatability studies on spoiled fish

    Directory of Open Access Journals (Sweden)

    Abd Aziz, N. A.

    2013-01-01

    Full Text Available Aims: To evaluate the microbial count and palatability acceptance of spoiled fish after treatment with traditionally used naturalsolution.Methodology and results: To compare microbial count of spoiled fish before and after treatment with natural solution practicedby local people in Malaysia, 10 g of spoiled fish was respectively rinsed with 100 mL of 0.1% of natural solution such as Averrhoabilimbi extract, rice rinsed water, rice vinegar, Citrus aurantifolia extract, salt, flour, and Tamarindus indica extract. Flesh of fishrinsed with rice vinegar was found to be able to reduce microbial count (CFU/mL = 0.37 X 107 more than 4.5 times whencompared to spoiled fish (CFU/mL=1.67x 107. Spoiled fish that was treated with rice vinegar was prepared into a cutlet and fried.The cutlet was subjected to palatability acceptance study by a group of residents in Palm Court Condominium, Brickfields, KualaLumpur. The palatability study from the Cronbach alpha shown that the taste have the reliability of 0.802, the aroma has thereliability of 0.888, colour with the reliability of 0.772, texture or mouth feel have reliability of 0.840 and physical structure of thecutlet is 0.829.Conclusion, significance and impact of study: Treatment of spoiled fish using rice vinegar as practice by local peopletraditionally shown a significant reduction in microbial count and the vinegar-treated fish could be developed into a product that issafe and acceptable by the consumer.

  19. Hybrid Method for 3D Segmentation of Magnetic Resonance Images

    Institute of Scientific and Technical Information of China (English)

    ZHANGXiang; ZHANGDazhi; TIANJinwen; LIUJian

    2003-01-01

    Segmentation of some complex images, especially in magnetic resonance brain images, is often difficult to perform satisfactory results using only single approach of image segmentation. An approach towards the integration of several techniques seems to be the best solution. In this paper a new hybrid method for 3-dimension segmentation of the whole brain is introduced, based on fuzzy region growing, edge detection and mathematical morphology, The gray-level threshold, controlling the process of region growing, is determined by fuzzy technique. The image gradient feature is obtained by the 3-dimension sobel operator considering a 3×3×3 data block with the voxel to be evaluated at the center, while the gradient magnitude threshold is defined by the gradient magnitude histogram of brain magnetic resonance volume. By the combined methods of edge detection and region growing, the white matter volume of human brain is segmented perfectly. By the post-processing using mathematical morphological techniques, the whole brain region is obtained. In order to investigate the validity of the hybrid method, two comparative experiments, the region growing method using only gray-level feature and the thresholding method by combining gray-level and gradient features, are carried out. Experimental results indicate that the proposed method provides much better results than the traditional method using a single technique in the 3-dimension segmentation of human brain magnetic resonance data sets.

  20. Fish predation on a Daphnia hybrid species complex: A factor explaining species coexistence?

    NARCIS (Netherlands)

    Spaak, P.; Hoekstra, J.F.

    1997-01-01

    Recent studies on the life histories of Daphnia hybrids and their parental species have revealed that hybrids can combine an intermediate size with a relatively high reproductive rate, which might explain their success in many European lakes. Based on this information, we formulated the temporal

  1. A separable shadow Hamiltonian hybrid Monte Carlo method.

    Science.gov (United States)

    Sweet, Christopher R; Hampton, Scott S; Skeel, Robert D; Izaguirre, Jesús A

    2009-11-07

    Hybrid Monte Carlo (HMC) is a rigorous sampling method that uses molecular dynamics (MD) as a global Monte Carlo move. The acceptance rate of HMC decays exponentially with system size. The shadow hybrid Monte Carlo (SHMC) was previously introduced to reduce this performance degradation by sampling instead from the shadow Hamiltonian defined for MD when using a symplectic integrator. SHMC's performance is limited by the need to generate momenta for the MD step from a nonseparable shadow Hamiltonian. We introduce the separable shadow Hamiltonian hybrid Monte Carlo (S2HMC) method based on a formulation of the leapfrog/Verlet integrator that corresponds to a separable shadow Hamiltonian, which allows efficient generation of momenta. S2HMC gives the acceptance rate of a fourth order integrator at the cost of a second-order integrator. Through numerical experiments we show that S2HMC consistently gives a speedup greater than two over HMC for systems with more than 4000 atoms for the same variance. By comparison, SHMC gave a maximum speedup of only 1.6 over HMC. S2HMC has the additional advantage of not requiring any user parameters beyond those of HMC. S2HMC is available in the program PROTOMOL 2.1. A Python version, adequate for didactic purposes, is also in MDL (http://mdlab.sourceforge.net/s2hmc).

  2. Hybrid star structure with the Field Correlator Method

    Energy Technology Data Exchange (ETDEWEB)

    Burgio, G.F.; Zappala, D. [INFN, Catania (Italy)

    2016-03-15

    We explore the relevance of the color-flavor locking phase in the equation of state (EoS) built with the Field Correlator Method (FCM) for the description of the quark matter core of hybrid stars. For the hadronic phase, we use the microscopic Brueckner-Hartree-Fock (BHF) many-body theory, and its relativistic counterpart, i.e. the Dirac-Brueckner (DBHF). We find that the main features of the phase transition are directly related to the values of the quark-antiquark potential V{sub 1}, the gluon condensate G{sub 2} and the color-flavor superconducting gap Δ. We confirm that the mapping between the FCM and the CSS (constant speed of sound) parameterization holds true even in the case of paired quark matter. The inclusion of hyperons in the hadronic phase and its effect on the mass-radius relation of hybrid stars is also investigated. (orig.)

  3. Lactobacillus genus identification isolated from gastrointestinal tract of chickens after bee products application using FISH and RTQ PCR methods

    Directory of Open Access Journals (Sweden)

    Miroslava Kačániová

    2013-05-01

    Full Text Available The general objective of this study was to examine the effect of bee products on the lactobacilli colonization of chickens. Bee products were administered to both feed mixtures in various amounts in addition to the control group. First experimental group was with propolis in feed mixture with the addition of 400 mg propolis per 1 kg of compound and second group was with pollen in feed mixture with the addition of 450 mg pollen per 1 kg of compound. In this experiment, quantitative counts of lactobacilli in ceca of 49-day-old chicken (Ross 308 using classical and FISH method were investigated. Counts of lactobacilli on MRS agar were monitored. To check the reliability of traditional methods of cultivation samples were evaluated by fluorescence in situ hybridization (FISH. Lactobacillus cells, isolated from gastrointestinal tract, were detected after hybridization of fluorescently labeled probe with bacterial cells. Counts of CFU of lactobacilli were compared in experimental and control treatments, respectively. The lowest count was detected in the control experimental group. The highest count was detected in the third experimental group where was 450 mg of pollen added to 1 kg of feed mixture. Using Real-time PCR method, we identified the species range of the genera Lactobacillus in the intestinal tract of broiler. Detected species from the genus Lactobacillus were L. crispatus, L. salivarius and L. acidophilus.

  4. Automation of ALK gene rearrangement testing with fluorescence in situ hybridization (FISH): a feasibility study.

    Science.gov (United States)

    Zwaenepoel, Karen; Merkle, Dennis; Cabillic, Florian; Berg, Erica; Belaud-Rotureau, Marc-Antoine; Grazioli, Vittorio; Herelle, Olga; Hummel, Michael; Le Calve, Michele; Lenze, Dido; Mende, Stefanie; Pauwels, Patrick; Quilichini, Benoit; Repetti, Elena

    2015-02-01

    In the past several years we have observed a significant increase in our understanding of molecular mechanisms that drive lung cancer. Specifically in the non-small cell lung cancer sub-types, ALK gene rearrangements represent a sub-group of tumors that are targetable by the tyrosine kinase inhibitor Crizotinib, resulting in significant reductions in tumor burden. Phase II and III clinical trials were performed using an ALK break-apart FISH probe kit, making FISH the gold standard for identifying ALK rearrangements in patients. FISH is often considered a labor and cost intensive molecular technique, and in this study we aimed to demonstrate feasibility for automation of ALK FISH testing, to improve laboratory workflow and ease of testing. This involved automation of the pre-treatment steps of the ALK assay using various protocols on the VP 2000 instrument, and facilitating automated scanning of the fluorescent FISH specimens for simplified enumeration on various backend scanning and analysis systems. The results indicated that ALK FISH can be automated. Significantly, both the Ikoniscope and BioView system of automated FISH scanning and analysis systems provided a robust analysis algorithm to define ALK rearrangements. In addition, the BioView system facilitated consultation of difficult cases via the internet.

  5. A hybrid method for evaluating enterprise architecture implementation.

    Science.gov (United States)

    Nikpay, Fatemeh; Ahmad, Rodina; Yin Kia, Chiam

    2017-02-01

    Enterprise Architecture (EA) implementation evaluation provides a set of methods and practices for evaluating the EA implementation artefacts within an EA implementation project. There are insufficient practices in existing EA evaluation models in terms of considering all EA functions and processes, using structured methods in developing EA implementation, employing matured practices, and using appropriate metrics to achieve proper evaluation. The aim of this research is to develop a hybrid evaluation method that supports achieving the objectives of EA implementation. To attain this aim, the first step is to identify EA implementation evaluation practices. To this end, a Systematic Literature Review (SLR) was conducted. Second, the proposed hybrid method was developed based on the foundation and information extracted from the SLR, semi-structured interviews with EA practitioners, program theory evaluation and Information Systems (ISs) evaluation. Finally, the proposed method was validated by means of a case study and expert reviews. This research provides a suitable foundation for researchers who wish to extend and continue this research topic with further analysis and exploration, and for practitioners who would like to employ an effective and lightweight evaluation method for EA projects.

  6. Action spectrum for melanoma induction in hybrid fish of the genus Xiphophorus

    Energy Technology Data Exchange (ETDEWEB)

    Setlow, R.B.

    1997-03-01

    Cutaneous malignant melanoma (CMM) is a complicated disease that is dependent on a number of factors that influence its incidence in ways that are quantitatively uncertain. The incidence of CMM increases with proximity to the Equator -- an observation in line with the conclusion that sun exposure is the most important etiologic agent. However, the latitude effect does not implicate UVB because the intensities of all spectral regions increase toward the Equator. An understanding of the useful public health measures to lower the incidence of CMM would benefit greatly if the spectral region of sunlight implicated in melanoma incidence were known. Such knowledge requires animal models to evaluate the incidence as a function of wavelength. There are marsupial models, a transgenic mouse model, and a fish model. To date, only the fish model has been employed to obtain an action spectrum. The paper describes a fish model, implications of the fish spectrum, and epidemiological data.

  7. Adaptive Current Control Method for Hybrid Active Power Filter

    Science.gov (United States)

    Chau, Minh Thuyen

    2016-09-01

    This paper proposes an adaptive current control method for Hybrid Active Power Filter (HAPF). It consists of a fuzzy-neural controller, identification and prediction model and cost function. The fuzzy-neural controller parameters are adjusted according to the cost function minimum criteria. For this reason, the proposed control method has a capability on-line control clings to variation of the load harmonic currents. Compared to the single fuzzy logic control method, the proposed control method shows the advantages of better dynamic response, compensation error in steady-state is smaller, able to online control is better and harmonics cancelling is more effective. Simulation and experimental results have demonstrated the effectiveness of the proposed control method.

  8. In vitro formation and thermal transition of novel hybrid fibrils from type I fish scale collagen and type I porcine collagen

    OpenAIRE

    Song Chen, Toshiyuki Ikoma, Nobuhiro Ogawa, Satoshi Migita, Hisatoshi Kobayashi and Nobutaka Hanagata

    2010-01-01

    Novel type I collagen hybrid fibrils were fabricated by neutralizing a mixture of type I fish scale collagen solution and type I porcine collagen solution with a phosphate buffer saline at 28 °C. Their structure was discussed in terms of the volume ratio of fish/porcine collagen solution. Scanning electron and atomic force micrographs showed that the diameter of collagen fibrils derived from the collagen mixture was larger than those derived from each collagen, and all resultant fibrils exhib...

  9. Histological methods in the assessment of different feed effects on liver and intestine of fish

    Directory of Open Access Journals (Sweden)

    Rašković Božidar S.

    2011-01-01

    Full Text Available This manuscript describes the importance of using histological methods to assess the effects of feed on the liver and intestine of fish. Due to the constantly increasing world production of fish and other aquatic organisms, it is necessary to replace fishmeal and fish oil in diets with less expensive raw materials of plant origin. Due to the increased fiber content, increased presence of carbohydrates, antinutritional factors, and inappropriate content of amino acids and new compounds can have negative effects on the digestive system of fish and therefore on fitness, health and production characteristics of cultivated fish. The liver and intestines are the most important organs for the digestion and absorption of nutrients from feed. Therefore, monitoring histological structure of fish liver and intestine is the method of choice in assessing the effects of nutrient mixtures that use raw materials of plant origin. For both of these vital organs the normal histological structure and the most important results obtained by research are discussed. This paper presents a critical review of the histological methods used in research on feed effects. Results related to the negative effects of raw soy-based feed on the occurrence of enteritis in carnivorous fish species are discussed. The results point out that use of modern approach in fish pathology such as improved histochemical, stereological, scoring, and other analytical methods could be a beneficial approach in an accurate assessment of new feed effects on fish.

  10. Prediction of melting temperatures in fluorescence in situ hybridization (FISH) procedures using thermodynamic models

    DEFF Research Database (Denmark)

    Fontenete, Sílvia; Guimarães, Nuno; Wengel, Jesper

    2016-01-01

    Abstract The thermodynamics and kinetics of DNA hybridization, i.e. the process of self-assembly of one, two or more complementary nucleic acid strands, has been studied for many years. The appearance of the nearest-neighbor model led to several theoretical and experimental papers on DNA thermody......Abstract The thermodynamics and kinetics of DNA hybridization, i.e. the process of self-assembly of one, two or more complementary nucleic acid strands, has been studied for many years. The appearance of the nearest-neighbor model led to several theoretical and experimental papers on DNA...... thermodynamics that provide reasonably accurate thermodynamic information on nucleic acid duplexes and allow estimation of the melting temperature. Because there are no thermodynamic models specifically developed to predict the hybridization temperature of a probe used in a fluorescence in situ hybridization...

  11. Compass: A hybrid method for clinical and biobank data mining

    DEFF Research Database (Denmark)

    Krysiak-Baltyn, Konrad; Petersen, Thomas Nordahl; Audouze, Karine Marie Laure

    2014-01-01

    We describe a new method for identification of confident associations within large clinical data sets. The method is a hybrid of two existing methods; Self-Organizing Maps and Association Mining. We utilize Self-Organizing Maps as the initial step to reduce the search space, and then apply...... Association Mining in order to find association rules. We demonstrate that this procedure has a number of advantages compared to traditional Association Mining; it allows for handling numerical variables without a priori binning and is able to generate variable groups which act as “hotspots” for statistically...... significant associations. We showcase the method on infertility-related data from Danish military conscripts. The clinical data we analyzed contained both categorical type questionnaire data and continuous variables generated from biological measurements, including missing values. From this data set, we...

  12. A new hybrid method--combined heat flux method with Monte-Carlo method to analyze thermal radiation

    Institute of Scientific and Technical Information of China (English)

    2006-01-01

    A new hybrid method, Monte-Carlo-Heat-Flux (MCHF) method, was presented to analyze the radiative heat transfer of participating medium in a three-dimensional rectangular enclosure using combined the Monte-Carlo method with the heat flux method. Its accuracy and reliability was proved by comparing the computational results with exact results from classical "Zone Method".

  13. PNA-FISH as a new diagnostic method for the determination of clarithromycin resistance of Helicobacter pylori

    Directory of Open Access Journals (Sweden)

    Figueiredo Céu

    2011-05-01

    Full Text Available Abstract Background Triple therapy is the gold standard treatment for Helicobacter pylori eradication from the human stomach, but increased resistance to clarithromycin became the main factor of treatment failure. Until now, fastidious culturing methods are generally the method of choice to assess resistance status. In this study, a new genotypic method to detect clarithromycin resistance in clinical samples, based on fluorescent in situ hybridization (FISH using a set of peptide nucleic acid probes (PNA, is proposed. Results The set of probes targeting the point mutations responsible for clarithromycin resistance was applied to H. pylori suspensions and showed 100% sensitivity and specificity (95% CI, 79.9-100 and 95% CI, 71.6-100 respectively. This method can also be amenable for application to gastric biopsy samples, as resistance to clarithromycin was also detected when histological slides were tested. Conclusions The optimized PNA-FISH based diagnostic method to detect H. pylori clarithromycin resistance shown to be a very sensitive and specific method for the detection of clarithromycin resistance in the H. pylori smears and also proved to be a reliable method for the diagnosis of this pathogen in clinical samples and an alternative to existing plating methods.

  14. Hybrid methods to represent incomplete and uncertain information

    Energy Technology Data Exchange (ETDEWEB)

    Joslyn, C. [NASA Goddard Space Flight Center, Greenbelt, MD (United States)

    1996-12-31

    Decision making is cast in the semiotic context of perception, decision, and action loops. Towards the goal of properly grounding hybrid representations of information and uncertainty from this semiotic perspective, we consider the roles of and relations among the mathematical components of General Information Theory (GIT), particularly among fuzzy sets, possibility theory, probability theory, and random sets. We do so by using a clear distinction between the syntactic, mathematical formalism and the semantic domains of application of each of these fields, placing the emphasis on available measurement and action methods appropriate for each formalism, to which and from which the decision-making process flows.

  15. Interior Noise Prediction of the Automobile Based on Hybrid FE-SEA Method

    National Research Council Canada - National Science Library

    Chen, S. M; Wang, D. F; Zan, J. M

    2011-01-01

    In order to predict the interior noise of the automobile in the low and middle frequency band in the design and development stage, the hybrid FE-SEA model of an automobile was created using hybrid FE-SEA method...

  16. Assessment of chromosomal abnormalities in sperm of infertile men using sperm karyotyping and multicolour fluorescence in situ hybridization (FISH)

    Energy Technology Data Exchange (ETDEWEB)

    Moosani, N.; Martin, R.H. [Alberta Children`s Hospital and Univ. of Calgary (Canada)

    1994-09-01

    Individuals with male factor infertility resulting from idiopathic oligo-, astheno- or teratozoospermia are frequently offered IVF in an attempt to increase their chances of having a child. A concern remains whether these infertile males have an elevated risk of transmitting chromosomal abnormalities to their offspring. Sperm chromosomal complements from these men were assayed using the human sperm/hamster oocyte fusion system and fluorescence in situ hybridization (FISH) on sperm nuclei. For each of 5 infertile patients, 100 sperm karyotypes were analyzed and multicolour FISH analysis was performed on a minimum of 10,000 sperm nuclei for each chromosome-specific DNA probe for chromosomes 1 (pUC1.77), 12 (D12Z3), X (XC) and Y (DYZ3). As a group, the infertile patients showed increased frequencies of both numerical ({chi}{sup 2}=17.26, {proportional_to} <0.001) and total abnormalities ({chi}{sup 2}=7.78, {proportional_to} <0.01) relative to control donors when assessed by sperm karyotypes. Analysis of sperm nuclei by FISH indicated a significant increase in the frequency of disomy for chromosome 1 in three of the five patients as compared to control donors ({chi}{sup 2}>8.35, {proportional_to} <0.005). In addition, the frequency of XY disomy was significantly higher in four of the five patients studied by FISH ({chi}{sup 2}>10.58, {proportional_to}<0.005), suggesting that mis-segregation caused by the failure of the XY bivalent to pair may play a role in idiopathic male infertility.

  17. Hybrid perturbation methods based on statistical time series models

    Science.gov (United States)

    San-Juan, Juan Félix; San-Martín, Montserrat; Pérez, Iván; López, Rosario

    2016-04-01

    In this work we present a new methodology for orbit propagation, the hybrid perturbation theory, based on the combination of an integration method and a prediction technique. The former, which can be a numerical, analytical or semianalytical theory, generates an initial approximation that contains some inaccuracies derived from the fact that, in order to simplify the expressions and subsequent computations, not all the involved forces are taken into account and only low-order terms are considered, not to mention the fact that mathematical models of perturbations not always reproduce physical phenomena with absolute precision. The prediction technique, which can be based on either statistical time series models or computational intelligence methods, is aimed at modelling and reproducing missing dynamics in the previously integrated approximation. This combination results in the precision improvement of conventional numerical, analytical and semianalytical theories for determining the position and velocity of any artificial satellite or space debris object. In order to validate this methodology, we present a family of three hybrid orbit propagators formed by the combination of three different orders of approximation of an analytical theory and a statistical time series model, and analyse their capability to process the effect produced by the flattening of the Earth. The three considered analytical components are the integration of the Kepler problem, a first-order and a second-order analytical theories, whereas the prediction technique is the same in the three cases, namely an additive Holt-Winters method.

  18. A revised method of examining fish for infection with zoonotic nematode larvae.

    Science.gov (United States)

    Shamsi, Shokoofeh; Suthar, Jaydipbhai

    2016-06-16

    The infection of fish with zoonotic nematodes, particularly anisakid nematodes is of great interest to many researchers who study food safety, human or animal health or who use them as biological tags for stock assessment studies. Accurate examination of fish for infection with anisakid larvae is crucial in making accurate estimates of their occurrence, abundance and prevalence in their fish hosts. Here we describe a new method of examining fish for infection with these parasites. In 2015, a total of 261 fish were purchased from a fish market in New South Wales, Australia. All fish were first examined by routine visual examination for infection with zoonotic nematode larvae and all data were recorded. Subsequently all internal organs were placed in a container and filled with water and incubated in the room temperature overnight. The prevalence, mean intensity and mean abundance of anisakids were significantly higher (p<0.05) when the revised method of examination, i.e., combining visual examination and overnight incubation in room temperature, was employed (63.98, 8.23 and 5.27, respectively) compared to routine visual examination with or without the aid of a microscope (8.81, 3.78 and 0.33, respectively). The proposed method is effective and has several advantages, such as: not using UV or HCl for fish examination, allowing the examination of a larger number of fish in shorter time; larval specimens collected being suitable for both morphological and DNA sequencing; and being simple and inexpensive. The disadvantages would be the odour of the specimens after overnight incubation as well as not being suitable for use with frozen fish. We suggest that results, conclusions or recommendations made in studies that claim no anisakid/ascaridoid larvae were found in a fish should be approached carefully if it is only based on visual examination of the fish.

  19. Detection of EML4-ALK in lung adenocarcinoma using pleural effusion with FISH, IHC, and RT-PCR methods.

    Directory of Open Access Journals (Sweden)

    Leilei Liu

    Full Text Available Anaplastic lymphoma kinase (ALK and echinoderm microtubule-associated protein-like 4 (EML4 gene rearrangements occur in approximately 5% of non-small-cell lung cancers (NSCLC, leading to the overexpression of anaplastic lymphoma kinase and predicting a response to the targeted inhibitor, crizotinib. Malignant pleural effusion occurs in most patients with advanced lung cancer, especially adenocarcinoma, and tissue samples are not always available from these patients. We attempted to clarify the feasibility of detecting the EML4-ALK fusion gene in pleural effusion cells using different methods. We obtained 66 samples of pleural effusion from NSCLC patients. The pleural effusion fluid was centrifuged, and the cellular components obtained were formalin fixed and paraffin embedded. The EML4-ALK fusion gene status was determined with fluorescent in situ hybridization (FISH, reverse transcription-polymerase chain reaction (RT-PCR, and immunohistochemistry (IHC. EML4-ALK was detected in three of 66 patient samples (4.5% with RT-PCR. When the RT-PCR data were used as the standard, one false positive and one false negative samples were identified with IHC; and one false negative sample was identified with FISH. These results suggest that a block of pleural effusion cells can be used to detect the EML4-ALK fusion gene. IHC had good sensitivity, but low specificity. FISH had low sensitivity, but high specificity. RT-PCR is a good candidate method for detecting EML4-ALK in blocks of pleural effusion cells from lung cancer patients.

  20. Mercury monitoring in fish using a non-lethal tissue biopsy method

    Science.gov (United States)

    Ackerson, J; Schmitt, Christopher J.; McKee, J; Brumbaugh, W. G.

    2010-01-01

    The occurrence of mercury in fish is well-known and often occurs at levels that warrant restricted consumption by sensitive human populations. Because of this, local wildlife and health agencies have developed monitoring programs to identify the magnitude of fish contamination and changes through time. Monitoring mercury levels in fish typically requires killing fish for removal of a fillet. Recently, researchers have proposed the use of a non-lethal tissue biopsy plug method as a surrogate for analysis of the entire fillet.

  1. Flux-weakening control methods for hybrid excitation synchronous motor

    Directory of Open Access Journals (Sweden)

    Mingming Huang

    2015-09-01

    Full Text Available The hybrid excitation synchronous motor (HESM, which aim at combining the advantages of permanent magnet motor and wound excitation motor, have the characteristics of low-speed high-torque hill climbing and wide speed range. Firstly, a new kind of HESM is presented in the paper, and its structure and mathematical model are illustrated. Then, based on a space voltage vector control, a novel flux-weakening method for speed adjustment in the high speed region is presented. The unique feature of the proposed control method is that the HESM driving system keeps the q-axis back-EMF components invariable during the flux-weakening operation process. Moreover, a copper loss minimization algorithm is adopted to reduce the copper loss of the HESM in the high speed region. Lastly, the proposed method is validated by the simulation and the experimental results.

  2. Hybrid discretization method for time-delay nonlinear systems

    Energy Technology Data Exchange (ETDEWEB)

    Zhang, Zheng [Xi' an Jiaotong University, Xi' an (China); Zhang, Yuanliang; Kil Chong, To [Chonbuk National University, Jeonju (Korea, Republic of); Kostyukova, Olga [3Institute of Mathematics National Academy of Science of Belarus, Minsk (Belarus)

    2010-03-15

    A hybrid discretization scheme that combines the virtues of the Taylor series and Matrix exponential integration methods is proposed. In the algorithm, each sampling time interval is divided into two subintervals to be considered according to the time delay and sampling period. The algorithm is not too expensive computationally and lends itself to be easily inserted into large simulation packages. The mathematical structure of the new discretization scheme is explored and described in detail. The performance of the proposed discretization procedure is evaluated by employing case studies. Various input signals, sampling rates, and time-delay values are considered to test the proposed method. The results demonstrate that the proposed discretization scheme is better than previous Taylor series method for nonlinear time-delay systems, especially when a large sampling period is inevitable

  3. A hybrid training method for neural energy estimation in calorimetry

    CERN Document Server

    Da Silva, P V M; Seixas, J

    2001-01-01

    A neural mapping is developed to improve the overall performance of Tilecal, which is the hadronic calorimeter of the ATLAS detector. Feeding the input nodes of a multilayer feedforward neural network with the energy values sampled by the calorimeter cells in beam tests, it is shown that the original energy scale of pion beams is reconstructed over a wide energy range and linearity is significantly improved. As it happens for classical methods, a compromise between nonlinearity correction and the optimization of the energy resolution of the detector has to be accomplished. A hybrid training method for the neural mapping is proposed to achieve this design goal. Using the backpropagation algorithm, the method intercalates an epoch of training steps, for which the neural mapping mainly focus on linearity correction, with another block of training steps, in which the original energy resolution obtained by linearly combining the calorimeter cells becomes the main target. (6 refs).

  4. Hybrid method of solution applied to simulation of pulse chromatography

    Directory of Open Access Journals (Sweden)

    M. A. Cremasco

    2009-06-01

    Full Text Available In this communication, the method proposed by Cremasco et al. (2003 is applied to predict single and low concentration pulse chromatography. In previous work, a general rate model was presented to describe the breakthrough curve, where a hybrid solution was proposed for the linear adsorption. The liquid phase concentration inside the particle was found analytically and related with the bed liquid phase through Duhamel's Theorem, while the bulk-phase equation was solved by a numerical method. In this paper, this method is applied to describe pulse chromatography of solutes that present linear adsorption isotherms. The simulated results of pulse chromatography are compared with experimental ones for aromatic amino acid experiments from literature.

  5. Hybrid Steepest-Descent Methods for Triple Hierarchical Variational Inequalities

    Directory of Open Access Journals (Sweden)

    L. C. Ceng

    2015-01-01

    Full Text Available We introduce and analyze a relaxed iterative algorithm by combining Korpelevich’s extragradient method, hybrid steepest-descent method, and Mann’s iteration method. We prove that, under appropriate assumptions, the proposed algorithm converges strongly to a common element of the fixed point set of infinitely many nonexpansive mappings, the solution set of finitely many generalized mixed equilibrium problems (GMEPs, the solution set of finitely many variational inclusions, and the solution set of general system of variational inequalities (GSVI, which is just a unique solution of a triple hierarchical variational inequality (THVI in a real Hilbert space. In addition, we also consider the application of the proposed algorithm for solving a hierarchical variational inequality problem with constraints of finitely many GMEPs, finitely many variational inclusions, and the GSVI. The results obtained in this paper improve and extend the corresponding results announced by many others.

  6. Customer churn prediction using a hybrid method and censored data

    Directory of Open Access Journals (Sweden)

    Reza Tavakkoli-Moghaddam

    2013-05-01

    Full Text Available Customers are believed to be the main part of any organization’s assets and customer retention as well as customer churn management are important responsibilities of organizations. In today’s competitive environment, organization must do their best to retain their existing customers since attracting new customers cost significantly more than taking care of existing ones. In this paper, we present a hybrid method based on neural network and Cox regression analysis where neural network is used for outlier data and Cox regression method is implemented for prediction of future events. The proposed model of this paper has been implemented on some data and the results are compared based on five criteria including prediction accuracy, errors’ type I and II, root mean square error and mean absolute deviation. The preliminary results indicate that the proposed model of this paper performs better than alternative methods.

  7. Harmonizing and Optimizing Fish Testing Methods: The OECD Framework Project

    Science.gov (United States)

    The Organisation for Economic Cooperation and Development (OECD) serves a key role in the international harmonization of testing of a wide variety of chemicals. An integrated fish testing framework project was initiated in mid-2009 through the OECD with the US as the lead country...

  8. A Numerical Method for Lane-Emden Equations Using Hybrid Functions and the Collocation Method

    Directory of Open Access Journals (Sweden)

    Changqing Yang

    2012-01-01

    Full Text Available A numerical method to solve Lane-Emden equations as singular initial value problems is presented in this work. This method is based on the replacement of unknown functions through a truncated series of hybrid of block-pulse functions and Chebyshev polynomials. The collocation method transforms the differential equation into a system of algebraic equations. It also has application in a wide area of differential equations. Corresponding numerical examples are presented to demonstrate the accuracy of the proposed method.

  9. Design of time interval generator based on hybrid counting method

    Energy Technology Data Exchange (ETDEWEB)

    Yao, Yuan [State Key Laboratory of Particle Detection and Electronics, University of Science and Technology of China, Hefei, Anhui 230026 (China); Institute of Plasma Physics, Chinese Academy of Sciences, Hefei 230031 (China); Wang, Zhaoqi [State Key Laboratory of Particle Detection and Electronics, University of Science and Technology of China, Hefei, Anhui 230026 (China); Lu, Houbing [State Key Laboratory of Particle Detection and Electronics, University of Science and Technology of China, Hefei, Anhui 230026 (China); Hefei Electronic Engineering Institute, Hefei 230037 (China); Chen, Lian [State Key Laboratory of Particle Detection and Electronics, University of Science and Technology of China, Hefei, Anhui 230026 (China); Jin, Ge, E-mail: goldjin@ustc.edu.cn [State Key Laboratory of Particle Detection and Electronics, University of Science and Technology of China, Hefei, Anhui 230026 (China)

    2016-10-01

    Time Interval Generators (TIGs) are frequently used for the characterizations or timing operations of instruments in particle physics experiments. Though some “off-the-shelf” TIGs can be employed, the necessity of a custom test system or control system makes the TIGs, being implemented in a programmable device desirable. Nowadays, the feasibility of using Field Programmable Gate Arrays (FPGAs) to implement particle physics instrumentation has been validated in the design of Time-to-Digital Converters (TDCs) for precise time measurement. The FPGA-TDC technique is based on the architectures of Tapped Delay Line (TDL), whose delay cells are down to few tens of picosecond. In this case, FPGA-based TIGs with high delay step are preferable allowing the implementation of customized particle physics instrumentations and other utilities on the same FPGA device. A hybrid counting method for designing TIGs with both high resolution and wide range is presented in this paper. The combination of two different counting methods realizing an integratable TIG is described in detail. A specially designed multiplexer for tap selection is emphatically introduced. The special structure of the multiplexer is devised for minimizing the different additional delays caused by the unpredictable routings from different taps to the output. A Kintex-7 FPGA is used for the hybrid counting-based implementation of a TIG, providing a resolution up to 11 ps and an interval range up to 8 s.

  10. Design of time interval generator based on hybrid counting method

    Science.gov (United States)

    Yao, Yuan; Wang, Zhaoqi; Lu, Houbing; Chen, Lian; Jin, Ge

    2016-10-01

    Time Interval Generators (TIGs) are frequently used for the characterizations or timing operations of instruments in particle physics experiments. Though some "off-the-shelf" TIGs can be employed, the necessity of a custom test system or control system makes the TIGs, being implemented in a programmable device desirable. Nowadays, the feasibility of using Field Programmable Gate Arrays (FPGAs) to implement particle physics instrumentation has been validated in the design of Time-to-Digital Converters (TDCs) for precise time measurement. The FPGA-TDC technique is based on the architectures of Tapped Delay Line (TDL), whose delay cells are down to few tens of picosecond. In this case, FPGA-based TIGs with high delay step are preferable allowing the implementation of customized particle physics instrumentations and other utilities on the same FPGA device. A hybrid counting method for designing TIGs with both high resolution and wide range is presented in this paper. The combination of two different counting methods realizing an integratable TIG is described in detail. A specially designed multiplexer for tap selection is emphatically introduced. The special structure of the multiplexer is devised for minimizing the different additional delays caused by the unpredictable routings from different taps to the output. A Kintex-7 FPGA is used for the hybrid counting-based implementation of a TIG, providing a resolution up to 11 ps and an interval range up to 8 s.

  11. Gill monogeneans of Nile tilapia (Oreochromis niloticus) and red hybrid tilapia (Oreochromis spp.) from the wild and fish farms in Perak, Malaysia: infection dynamics and spatial distribution.

    Science.gov (United States)

    Lim, Shen-Yin; Ooi, Ai-Lin; Wong, Wey-Lim

    2016-01-01

    Tilapia is one of the commercially important fish in Malaysia as well as in other parts of the world. An understanding of monogenean infection dynamics in tilapia fish may assist us in searching for some intervention measures in reducing the loss of fish caused by parasitic diseases. The present study aimed (1) to compare infection level of monogeneans between the wild and cultured Oreochromis niloticus, and between the cultured O. niloticus and cultured red hybrid tilapia, and (2) to examine the spatial distribution of monogenean species over the gills of the different host species. From a total of 75 fish specimens, six species of monogeneans from two genera: Cichlidogyrus (C. halli, C. mbirizei, C. sclerosus, C. thurstonae, C. tilapiae) and Scutogyrus (S. longicornis) were identified. Data showed that the infection level of cultured O. niloticus was higher than that of the wild O. niloticus, however, the former was lower than that of the cultured red hybrid tilapia. Higher species richness of monogeneans was observed in the cultured red hybrid tilapia as compared to the others. Results for spatial distribution showed that the monogeneans have no preference on the left or right sides of the gills. However, C. halli, C. mbirizei, and C. tilapiae showed preferences on specific gill arches in the cultured O. niloticus and red hybrid tilapia. In general, the gill arch IV harboured the least number of monogeneans. The susceptibility of monogenean infection between the different types of tilapia is discussed.

  12. Phylogeny-function analysis of (meta)genomic libraries: screening for expression of ribosomal RNA genes by large-insert library fluorescent in situ hybridization (LIL-FISH)

    NARCIS (Netherlands)

    Leveau, J.H.J.; Gerards, S.; De Boer, W.; Van Veen, J.A.

    2004-01-01

    We assessed the utility of fluorescent in situ hybridization (FISH) in the screening of clone libraries of (meta)genomic or environmental DNA for the presence and expression of bacterial ribosomal RNA (rRNA) genes. To establish proof-of-principle, we constructed a fosmid-based library in Escherichia

  13. Temperature controlling system based on FISH probe hybridization facility%基于FISH探针杂交设备的温度控制系统

    Institute of Scientific and Technical Information of China (English)

    李天庆; 张化; 张婉尧

    2015-01-01

    以玻片为基础的FISH,它的变性杂交过程完全实现自动化.FISH探针杂交仪内置一个ARM7微处理器,以控制不同温度变化,满足变性、杂交和固定温度等不同模式,可预置用按键编程进去的程序(显示屏上能指导编程),方便客户调用,提高工作效率.温度控制系统是FISH探针杂交设备的核心部分,决定了杂交仪的可靠性、稳定性及精准性.%By using FISH based on slide,automation in the degeneration process of hybrid can be achieved.Installed an internal ARM7 microprocessor,the FISH probe hybridization facility can control temperature,meet different modes such as denaturation,hybridization,fixed temperature,and so on.Procedure input by means of push-button can be preset(there are guidance on display screen)to make things easy for user,as a result,work efficiency can be improved.The temperature controlling system,which is the core of FISH probe hybridization facility and ensure its reliability,stability and accuracy.

  14. Hybrid Perturbation methods based on Statistical Time Series models

    CERN Document Server

    San-Juan, Juan Félix; Pérez, Iván; López, Rosario

    2016-01-01

    In this work we present a new methodology for orbit propagation, the hybrid perturbation theory, based on the combination of an integration method and a prediction technique. The former, which can be a numerical, analytical or semianalytical theory, generates an initial approximation that contains some inaccuracies derived from the fact that, in order to simplify the expressions and subsequent computations, not all the involved forces are taken into account and only low-order terms are considered, not to mention the fact that mathematical models of perturbations not always reproduce physical phenomena with absolute precision. The prediction technique, which can be based on either statistical time series models or computational intelligence methods, is aimed at modelling and reproducing missing dynamics in the previously integrated approximation. This combination results in the precision improvement of conventional numerical, analytical and semianalytical theories for determining the position and velocity of a...

  15. A hybrid approach for efficient anomaly detection using metaheuristic methods

    Directory of Open Access Journals (Sweden)

    Tamer F. Ghanem

    2015-07-01

    Full Text Available Network intrusion detection based on anomaly detection techniques has a significant role in protecting networks and systems against harmful activities. Different metaheuristic techniques have been used for anomaly detector generation. Yet, reported literature has not studied the use of the multi-start metaheuristic method for detector generation. This paper proposes a hybrid approach for anomaly detection in large scale datasets using detectors generated based on multi-start metaheuristic method and genetic algorithms. The proposed approach has taken some inspiration of negative selection-based detector generation. The evaluation of this approach is performed using NSL-KDD dataset which is a modified version of the widely used KDD CUP 99 dataset. The results show its effectiveness in generating a suitable number of detectors with an accuracy of 96.1% compared to other competitors of machine learning algorithms.

  16. Hybrid Fundamental Solution Based Finite Element Method: Theory and Applications

    Directory of Open Access Journals (Sweden)

    Changyong Cao

    2015-01-01

    Full Text Available An overview on the development of hybrid fundamental solution based finite element method (HFS-FEM and its application in engineering problems is presented in this paper. The framework and formulations of HFS-FEM for potential problem, plane elasticity, three-dimensional elasticity, thermoelasticity, anisotropic elasticity, and plane piezoelectricity are presented. In this method, two independent assumed fields (intraelement filed and auxiliary frame field are employed. The formulations for all cases are derived from the modified variational functionals and the fundamental solutions to a given problem. Generation of elemental stiffness equations from the modified variational principle is also described. Typical numerical examples are given to demonstrate the validity and performance of the HFS-FEM. Finally, a brief summary of the approach is provided and future trends in this field are identified.

  17. Annual trends in catchability and fish stock assessments

    DEFF Research Database (Denmark)

    Marchal, P.; Ulrich, Clara; Korsbrekke, K.;

    2003-01-01

    A key assumption of many fish stock assessment models is that catchability is constant over time. We assume here that trends in catchability may occur through fishing power creeping. The tuning fleets, which are prone to fishing power development, may be identified using the "Hybrid" method...

  18. Clinical methods for the assessment of the effects of environmental stress on fish health

    Science.gov (United States)

    Wedemeyer, Gary A.; Yasutake, William T.

    1977-01-01

    Clinical methods are presented for biological monitoring of hatchery and native fish populations to assess the effects of environmental stress on fish health. The choice of methods is based on the experience of the authors and the judgment of colleagues at fishery laboratories of the U.S. Fish and Wildlife Service. Detailed analysis methods, together with guidelines for sample collection and for the interpretation of results, are given for tests on blood (cell counts, chloride, cholesterol, clotting time, cortisol, glucose, hematocrit, hemoglobin, lactic acid, methemoglobin, osmolality, and total protein); water (ammonia and nitrite content); and liver and muscle (glycogen content).

  19. Quantum Simulations of Solvated Biomolecules Using Hybrid Methods

    Science.gov (United States)

    Hodak, Miroslav

    2009-03-01

    One of the most important challenges in quantum simulations on biomolecules is efficient and accurate inclusion of the solvent, because the solvent atoms usually outnumber those in the biomolecule of interest. We have developed a hybrid method that allows for explicit quantum-mechanical treatment of the solvent at low computational cost. In this method, Kohn-Sham (KS) density functional theory (DFT) is combined with an orbital-free (OF) DFT. Kohn-Sham (KS) DFT is used to describe the biomolecule and its first solvation shells, while the orbital-free (OF) DFT is employed for the rest of the solvent. The OF part is fully O(N) and capable of handling 10^5 solvent molecules on current parallel supercomputers, while taking only ˜ 10 % of the total time. The compatibility between the KS and OF DFT methods enables seamless integration between the two. In particular, the flow of solvent molecules across the KS/OF interface is allowed and the total energy is conserved. As the first large-scale applications, the hybrid method has been used to investigate the binding of copper ions to proteins involved in prion (PrP) and Parkinson's diseases. Our results for the PrP, which causes mad cow disease when misfolded, resolve a contradiction found in experiments, in which a stronger binding mode is replaced by a weaker one when concentration of copper ions is increased, and show how it can act as a copper buffer. Furthermore, incorporation of copper stabilizes the structure of the full-length PrP, suggesting its protective role in prion diseases. For alpha-synuclein, a Parkinson's disease (PD) protein, we show that Cu binding modifies the protein structurally, making it more susceptible to misfolding -- an initial step in the onset of PD. In collaboration with W. Lu, F. Rose and J. Bernholc.

  20. Divergent Development of Hexaploid Triticale by a Wheat - Rye -Psathyrostachys huashanica Trigeneric Hybrid Method.

    Science.gov (United States)

    Kang, Houyang; Wang, Hao; Huang, Juan; Wang, Yujie; Li, Daiyan; Diao, Chengdou; Zhu, Wei; Tang, Yao; Wang, Yi; Fan, Xing; Zeng, Jian; Xu, Lili; Sha, Lina; Zhang, Haiqin; Zhou, Yonghong

    2016-01-01

    Hexaploid triticale is an important forage crop and a promising energy plant. Some forms were previously reported for developing the hexaploid triticale, such as crossing tetraploid wheat or hexaploid wheat with rye, crossing hexaploid triticale and/or hexaploid wheat with octoploid triticale, and spontaneously appearing in the selfed progenies of octoploid triticale. In the present study, we developed an effective method for production of diverse types of hexaploid triticale via wheat-rye-Psathyrostachys huashanica trigeneric hybrid. Genomic in situ hybridization (GISH) and fluorescence in situ hybridization (FISH) karyotyping revealed that D genome chromosomes were completely eliminated and the whole A, B, and R genome chromosomes were retained in three lines. More interestingly, the composite genome of the line K14-489-2 consisted of complete A and B genomes and chromosomes 1D, 2R, 3R, 4R, 5R, 6R, and 7R, that of line K14-491-2 was 12 A-genome (1A-6A), 14 B-genome (1B-7B), 12 R-genome (1R-3R, 5R-7R), and chromosomes 1D and 3D, and that of the line K14-547-1 had 26A/B and 14R chromosomes, plus one pair of centric 6BL/2DS translocations. This finding implies that some of D genome chromosomes can be spontaneously and stably incorporated into the hexaploid triticale. Additionally, a variety of high-molecular-weight glutenin subunits (HMW-GS) compositions were detected in the six hexaploid triticale lines, respectively. Besides, compared with its recurrent triticale parent Zhongsi828, these lines showed high level of resistance to stripe rust (Puccinia striiformis f. sp. tritici, Pst) pathogens prevalent in China, including V26/Gui 22. These new hexaploid triticales not only enhanced diversification of triticale but also could be utilized as valuable germplasm for wheat improvement.

  1. Divergent Development of Hexaploid Triticale by a Wheat - Rye -Psathyrostachys huashanica Trigeneric Hybrid Method.

    Directory of Open Access Journals (Sweden)

    Houyang Kang

    Full Text Available Hexaploid triticale is an important forage crop and a promising energy plant. Some forms were previously reported for developing the hexaploid triticale, such as crossing tetraploid wheat or hexaploid wheat with rye, crossing hexaploid triticale and/or hexaploid wheat with octoploid triticale, and spontaneously appearing in the selfed progenies of octoploid triticale. In the present study, we developed an effective method for production of diverse types of hexaploid triticale via wheat-rye-Psathyrostachys huashanica trigeneric hybrid. Genomic in situ hybridization (GISH and fluorescence in situ hybridization (FISH karyotyping revealed that D genome chromosomes were completely eliminated and the whole A, B, and R genome chromosomes were retained in three lines. More interestingly, the composite genome of the line K14-489-2 consisted of complete A and B genomes and chromosomes 1D, 2R, 3R, 4R, 5R, 6R, and 7R, that of line K14-491-2 was 12 A-genome (1A-6A, 14 B-genome (1B-7B, 12 R-genome (1R-3R, 5R-7R, and chromosomes 1D and 3D, and that of the line K14-547-1 had 26A/B and 14R chromosomes, plus one pair of centric 6BL/2DS translocations. This finding implies that some of D genome chromosomes can be spontaneously and stably incorporated into the hexaploid triticale. Additionally, a variety of high-molecular-weight glutenin subunits (HMW-GS compositions were detected in the six hexaploid triticale lines, respectively. Besides, compared with its recurrent triticale parent Zhongsi828, these lines showed high level of resistance to stripe rust (Puccinia striiformis f. sp. tritici, Pst pathogens prevalent in China, including V26/Gui 22. These new hexaploid triticales not only enhanced diversification of triticale but also could be utilized as valuable germplasm for wheat improvement.

  2. Hybrid striped bass feeds based on fish oil, beef tallow, and eicosapentaenoic acid/docosahexaenoic acid supplements: Insight regarding fish oil sparing and demand for -3 long-chain polyunsaturated fatty acids.

    Science.gov (United States)

    Bowzer, J; Jackson, C; Trushenski, J

    2016-03-01

    Previous research suggests that saturated (SFA) and monounsaturated fatty acid (MUFA) rich lipids, including beef tallow, can make utilization or diet-to-tissue transfer of long-chain polyunsaturated fatty acids (LC-PUFA) more efficient. We hypothesized that using beef tallow as an alternative to fish oil may effectively reduce the LC-PUFA demand of hybrid striped bass × and allow for greater fish oil sparing. Accordingly, we evaluated growth performance and tissue fatty acid profiles of juvenile fish (23.7 ± 0.3 g) fed diets containing menhaden fish oil (considered an ideal source of LC-PUFA for this taxon), beef tallow (BEEF ONLY), or beef tallow amended with purified sources of eicosapentaenoic acid (EPA) and/or docosahexaenoic acid (DHA) to achieve levels corresponding to 50 or 100% of those observed in the FISH ONLY feed. Diets were randomly assigned to quadruplicate tanks of fish ( = 4; 10 fish/tank), and fish were fed assigned diets to apparent satiation once daily for 10 wk. Survival (98-100%) was equivalent among treatments, but weight gain (117-180%), specific growth rate (1.1-1.5% BW/d), feed intake (1.4-1.8% BW/d), thermal growth coefficient (0.50-0.70), and feed conversion ratio (FCR; 1.1-1.4, DM basis) varied. Except for FCR, no differences were observed between the FISH ONLY and BEEF ONLY treatments, but performance was generally numerically superior among fish fed the diets containing beef tallow supplemented with DHA at the 100% or both EPA and DHA at the 50% or 100% level. Tissue fatty acid composition was significantly distorted in favor among fish fed the beef tallow-based feeds; however, profile distortion was most overt in peripheral tissues. Results suggest that beef tallow may be used as a primary lipid source in practical diets for hybrid striped bass, but performance may be improved by supplementation with LC-PUFA, particularly DHA. Furthermore, our results suggest that -3 LC-PUFA requirements reported for hybrid striped bass may not be

  3. In vitro formation and thermal transition of novel hybrid fibrils from type I fish scale collagen and type I porcine collagen

    Energy Technology Data Exchange (ETDEWEB)

    Chen Song; Ogawa, Nobuhiro; Migita, Satoshi; Kobayashi, Hisatoshi [Biomaterials Center, National Institute for Materials Science, 1-2-1 Sengen, Tsukuba, Ibaraki 305-0047 (Japan); Ikoma, Toshiyuki [Department of Metallurgy and Ceramics Science, Tokyo Institute of Technology, O-okayama 2-12-1, Meguro-ku, Tokyo 152-8550 (Japan); Hanagata, Nobutaka, E-mail: HANAGATA.Nobutaka@nims.go.j [Nanotechnology Innovation Center, National Institute for Materials Science, 1-2-1 Sengen, Tsukuba, Ibaraki 305-0047 (Japan)

    2010-06-15

    Novel type I collagen hybrid fibrils were fabricated by neutralizing a mixture of type I fish scale collagen solution and type I porcine collagen solution with a phosphate buffer saline at 28 {sup 0}C. Their structure was discussed in terms of the volume ratio of fish/porcine collagen solution. Scanning electron and atomic force micrographs showed that the diameter of collagen fibrils derived from the collagen mixture was larger than those derived from each collagen, and all resultant fibrils exhibited a typical D-periodic unit of {approx}67 nm, irrespective of volume ratio of both collagens. Differential scanning calorimetry revealed only one endothermic peak for the fibrils derived from collagen mixture or from each collagen solution, indicating that the resultant collagen fibrils were hybrids of type I fish scale collagen and type I porcine collagen.

  4. In vitro formation and thermal transition of novel hybrid fibrils from type I fish scale collagen and type I porcine collagen

    Science.gov (United States)

    Chen, Song; Ikoma, Toshiyuki; Ogawa, Nobuhiro; Migita, Satoshi; Kobayashi, Hisatoshi; Hanagata, Nobutaka

    2010-06-01

    Novel type I collagen hybrid fibrils were fabricated by neutralizing a mixture of type I fish scale collagen solution and type I porcine collagen solution with a phosphate buffer saline at 28 °C. Their structure was discussed in terms of the volume ratio of fish/porcine collagen solution. Scanning electron and atomic force micrographs showed that the diameter of collagen fibrils derived from the collagen mixture was larger than those derived from each collagen, and all resultant fibrils exhibited a typical D-periodic unit of ~67 nm, irrespective of volume ratio of both collagens. Differential scanning calorimetry revealed only one endothermic peak for the fibrils derived from collagen mixture or from each collagen solution, indicating that the resultant collagen fibrils were hybrids of type I fish scale collagen and type I porcine collagen.

  5. In vitro formation and thermal transition of novel hybrid fibrils from type I fish scale collagen and type I porcine collagen

    Directory of Open Access Journals (Sweden)

    Song Chen, Toshiyuki Ikoma, Nobuhiro Ogawa, Satoshi Migita, Hisatoshi Kobayashi and Nobutaka Hanagata

    2010-01-01

    Full Text Available Novel type I collagen hybrid fibrils were fabricated by neutralizing a mixture of type I fish scale collagen solution and type I porcine collagen solution with a phosphate buffer saline at 28 °C. Their structure was discussed in terms of the volume ratio of fish/porcine collagen solution. Scanning electron and atomic force micrographs showed that the diameter of collagen fibrils derived from the collagen mixture was larger than those derived from each collagen, and all resultant fibrils exhibited a typical D-periodic unit of ~67 nm, irrespective of volume ratio of both collagens. Differential scanning calorimetry revealed only one endothermic peak for the fibrils derived from collagen mixture or from each collagen solution, indicating that the resultant collagen fibrils were hybrids of type I fish scale collagen and type I porcine collagen.

  6. Polarimetric Synthetic Aperture Radar Image Classification by a Hybrid Method

    Institute of Scientific and Technical Information of China (English)

    Kamran Ullah Khan; YANG Jian

    2007-01-01

    Different methods proposed so far for accurate classification of land cover types in polarimetric synthetic aperture radar (SAR) image are data specific and no general method is available. A novel hybrid framework for this classification was developed in this work. A set of effective features derived from the coherence matrix of polarimetric SARdata was proposed.Constituents of the feature set are wavelet,texture,and nonlinear features.The proposed feature set has a strong discrimination power. A neural network was used as the classification engine in a unique way. By exploiting the speed of the conjugate gradient method and the convergence rate of the Levenberg-Marquardt method (near the optimal point), an overall speed up of the classification procedure was achieved. Principal component analysis(PCA)was used to shrink the dimension of the feature vector without sacrificing much of the classification accuracy. The proposed approach is compared with the maximum likelihood estimator (MLE)based on the complex Wishart distribution and the results show the superiority of the proposed method,with the average classification accuracy by the proposed method(95.4%)higher than that of the MLE(93.77%). Use of PCA to reduce the dimensionality of the feature vector helps reduce the memory requirements and computational cost, thereby enhancing the speed of the process.

  7. A hybrid incremental projection method for thermal-hydraulics applications

    Science.gov (United States)

    Christon, Mark A.; Bakosi, Jozsef; Nadiga, Balasubramanya T.; Berndt, Markus; Francois, Marianne M.; Stagg, Alan K.; Xia, Yidong; Luo, Hong

    2016-07-01

    A new second-order accurate, hybrid, incremental projection method for time-dependent incompressible viscous flow is introduced in this paper. The hybrid finite-element/finite-volume discretization circumvents the well-known Ladyzhenskaya-Babuška-Brezzi conditions for stability, and does not require special treatment to filter pressure modes by either Rhie-Chow interpolation or by using a Petrov-Galerkin finite element formulation. The use of a co-velocity with a high-resolution advection method and a linearly consistent edge-based treatment of viscous/diffusive terms yields a robust algorithm for a broad spectrum of incompressible flows. The high-resolution advection method is shown to deliver second-order spatial convergence on mixed element topology meshes, and the implicit advective treatment significantly increases the stable time-step size. The algorithm is robust and extensible, permitting the incorporation of features such as porous media flow, RANS and LES turbulence models, and semi-/fully-implicit time stepping. A series of verification and validation problems are used to illustrate the convergence properties of the algorithm. The temporal stability properties are demonstrated on a range of problems with 2 ≤ CFL ≤ 100. The new flow solver is built using the Hydra multiphysics toolkit. The Hydra toolkit is written in C++ and provides a rich suite of extensible and fully-parallel components that permit rapid application development, supports multiple discretization techniques, provides I/O interfaces, dynamic run-time load balancing and data migration, and interfaces to scalable popular linear solvers, e.g., in open-source packages such as HYPRE, PETSc, and Trilinos.

  8. Evaluation of nitrogenous substrates such as peptones from fish:a new method based on Gompertz modeling of microbial growth.

    Science.gov (United States)

    Dufossé, L; De La Broise, D; Guerard, F

    2001-01-01

    Fish peptones from tuna, cod, salmon, and unspecified fish were compared with a casein one by using a new method based on Gompertz modeling of microbial growth. Cumulative results obtained from six species of bacteria, yeasts, and fungi showed that, in most cases, these fish peptones are very effective. Nevertheless, this study raised some questions about the standardization of fish raw material, the enzymatic hydrolysis of fish proteins, and the composition of the culture medium used for testing the peptones.

  9. Computer-aided diagnosis system: a Bayesian hybrid classification method.

    Science.gov (United States)

    Calle-Alonso, F; Pérez, C J; Arias-Nicolás, J P; Martín, J

    2013-10-01

    A novel method to classify multi-class biomedical objects is presented. The method is based on a hybrid approach which combines pairwise comparison, Bayesian regression and the k-nearest neighbor technique. It can be applied in a fully automatic way or in a relevance feedback framework. In the latter case, the information obtained from both an expert and the automatic classification is iteratively used to improve the results until a certain accuracy level is achieved, then, the learning process is finished and new classifications can be automatically performed. The method has been applied in two biomedical contexts by following the same cross-validation schemes as in the original studies. The first one refers to cancer diagnosis, leading to an accuracy of 77.35% versus 66.37%, originally obtained. The second one considers the diagnosis of pathologies of the vertebral column. The original method achieves accuracies ranging from 76.5% to 96.7%, and from 82.3% to 97.1% in two different cross-validation schemes. Even with no supervision, the proposed method reaches 96.71% and 97.32% in these two cases. By using a supervised framework the achieved accuracy is 97.74%. Furthermore, all abnormal cases were correctly classified.

  10. New DAPI and FISH findings on egg maturation processes in related hybridogenetic and parthenogenetic Bacillus hybrids (Insecta, Phasmatodea).

    Science.gov (United States)

    Marescalchi, O; Scali, V

    2001-10-01

    Bacillus stick insects have proved adequate for studying a wide array of reproductive modes: sexual, parthenogenetic, hybridogenetic, androgenetic. Hybridogenetic strains (B. rossius-grandii) were thought to discard the paternal "grandii" haploset during first meiotic division and keep the "rossius" hemiclone, whereas the clonal B. whitei (=rossius/grandii) would maintain its hybrid structure by fusing back two nonsister nuclei-each derived from previously segregated heterospecific complements-by the end of the 2(nd) meiotic division. New investigations on laid eggs and ovariole squashes, either DAPI stained or FISH labeled, revealed that in hybridogens the "grandii" set is excluded from the germ line prior to meiosis and that a DNA extra-synthesis should occur to produce hemiclonal eggs after two cytologically normal meiotic divisions. On the other hand, in B. whitei eggs no genome segregation appears to occur and an intrameiotic DNA extra-synthesis must take place to produce 2n tetrachromatidic oocytes I; these divide twice and give unreduced clonal eggs. The new findings bring hybridogenetic oogenesis of Bacillus to be coincident with that of the known hemiclonal organisms and point to an independent onset of B. whitei from hemiclonal strains. In addition, B. whitei gains a closer resemblance to B. lynceorum owing to the sharing of a cytologically identical egg maturation mechanism, of the same maternal ancestor and of peculiar chromosomal features. It is here suggested that B. lynceorum originated from the incorporation of an "atticus" genome into a B. whitei egg, according to a pathway of repeated hybridization often occurred with other polyploid hybrids.

  11. Hybrid Neural Network and Support Vector Machine Method for Optimization

    Science.gov (United States)

    Rai, Man Mohan (Inventor)

    2007-01-01

    System and method for optimization of a design associated with a response function, using a hybrid neural net and support vector machine (NN/SVM) analysis to minimize or maximize an objective function, optionally subject to one or more constraints. As a first example, the NN/SVM analysis is applied iteratively to design of an aerodynamic component, such as an airfoil shape, where the objective function measures deviation from a target pressure distribution on the perimeter of the aerodynamic component. As a second example, the NN/SVM analysis is applied to data classification of a sequence of data points in a multidimensional space. The NN/SVM analysis is also applied to data regression.

  12. A Hybrid Dynamic Programming Method for Concave Resource Allocation Problems

    Institute of Scientific and Technical Information of China (English)

    姜计荣; 孙小玲

    2005-01-01

    Concave resource allocation problem is an integer programming problem of minimizing a nonincreasing concave function subject to a convex nondecreasing constraint and bounded integer variables. This class of problems are encountered in optimization models involving economies of scale. In this paper, a new hybrid dynamic programming method was proposed for solving concave resource allocation problems. A convex underestimating function was used to approximate the objective function and the resulting convex subproblem was solved with dynamic programming technique after transforming it into a 0-1 linear knapsack problem. To ensure the convergence, monotonicity and domain cut technique was employed to remove certain integer boxes and partition the revised domain into a union of integer boxes. Computational results were given to show the efficiency of the algorithm.

  13. Revisiting Milgram's Cyranoid Method: Experimenting With Hybrid Human Agents.

    Science.gov (United States)

    Corti, Kevin; Gillespie, Alex

    2015-01-01

    In two studies based on Stanley Milgram's original pilots, we present the first systematic examination of cyranoids as social psychological research tools. A cyranoid is created by cooperatively joining in real-time the body of one person with speech generated by another via covert speech shadowing. The resulting hybrid persona can subsequently interact with third parties face-to-face. We show that naïve interlocutors perceive a cyranoid to be a unified, autonomously communicating person, evidence for a phenomenon Milgram termed the "cyranic illusion." We also show that creating cyranoids composed of contrasting identities (a child speaking adult-generated words and vice versa) can be used to study how stereotyping and person perception are mediated by inner (dispositional) vs. outer (physical) identity. Our results establish the cyranoid method as a unique means of obtaining experimental control over inner and outer identities within social interactions rich in mundane realism.

  14. A New Method to Optimize Semiactive Hybrid Energy Storage System for Hybrid Electrical Vehicle by Using PE Function

    Directory of Open Access Journals (Sweden)

    Cong Zhang

    2015-01-01

    Full Text Available Although both battery and super-capacitor are important power sources for hybrid electric vehicles, there is no accurate configuration theory to match the above two kinds of power sources which have significantly different characteristics on energy and power storage for the goal of making good use of their individual features without size wasting. In this paper, a new performance is presented that is used for analysis and optimal design method of battery and super-capacitor for hybrid energy storage system of a parallel hybrid electrical vehicle. In order to achieve optimal design with less consumption, the power-energy function is applied to establish direct mathematical relationship between demand power and the performance. During matching process, firstly, three typical operating conditions are chosen as the basis of design; secondly, the energy and power capacity evaluation methods for the parameters of battery and super-capacitor in hybrid energy storage system are proposed; thirdly, the mass, volume, and cost of the system are optimized simultaneously by using power-energy function. As a result, there are significant advantages on mass, volume, and cost for the hybrid energy storage system with the matching method. Simulation results fit well with the results of analysis, which confirms that the optimized design can meet the demand of hybrid electric vehicle well.

  15. Fluorescence in situ hybridization and immunohistochemistry as diagnostic methods for ALK positive non-small cell lung cancer patients.

    Directory of Open Access Journals (Sweden)

    Pablo Martinez

    Full Text Available BACKGROUND: Anaplastic Lymphoma Kinase (ALK positivity represents a novel molecular target in a subset of Non-Small Cell Lung Cancers (NSCLC. We explore Fluorescence in situ Hybridization (FISH and Immunohistochemistry (IHC as diagnostic methods for ALK positive patients and to describe its prevalence and outcomes in a population of NSCLC patients. METHODS: NSCLC patients previously screened for Epidermal Growth Factor Receptor (EGFR at our institution were selected. ALK positive patients were identified by FISH and the value of IHC (D5F3 was explored. RESULTS: ninety-nine patients were identified. Median age was 61.5 years (range 35-83, all were caucasians, eighty percent were adenocarcinomas, fifty-one percent were male and thirty-eight percent were current smokers. Seven (7.1% patients were ALK positive by FISH, thirteen (13.1% were EGFR mutant, and 65 (65.6% were negative/Wild Type (WT for both ALK and EGFR. ALK positivity and EGFR mutations were mutually exclusive. ALK positive patients tend to be younger than EGFR mutated or wt patients. ALK positive patients were predominantly never smokers (71.4% and adenocarcinoma (71.4%. ALK positive and EGFR mutant patients have a better outcome than negative/WT. All patients with ALK FISH negative tumours were negative for ALK IHC. Out of 6 patients positive for ALK FISH with more tissue available, 5 were positive for ALK IHC and 1 negative. CONCLUSIONS: ALK positive patients represent 7.1% of a population of selected NSCLC. ALK positive patients have different clinical features and a better outcome than EGFR WT and ALK negative patients. IHC is a promising method for detecting ALK positive NSCLC patients.

  16. Detection of polycyclic aromatic hydrocarbons (PAHs) in raw menhaden fish oil using fluorescence spectroscopy: Method development.

    Science.gov (United States)

    Pena, Edwin A; Ridley, Lauren M; Murphy, Wyatt R; Sowa, John R; Bentivegna, Carolyn S

    2015-09-01

    Raw menhaden fish oil was developed for biomonitoring polycyclic aromatic hydrocarbons (PAHs) using fluorescence spectroscopy. Menhaden (Genus Brevoortia) were collected in 2010 and/or 2011 from Delaware Bay, New Jersey, USA; James River, Virginia, USA; Vermillion Bay, Louisiana, USA (VBLA); and Barataria Bay, Louisiana, USA (BBLA). Barataria Bay, Louisiana received heavy oiling from the Deepwater Horizon oil spill. Method development included determining optimal wavelengths for PAH detection, fish oil matrix interferences, and influence of solvent concentration on extraction. Results showed that some fish oils contained high molecular weight PAH-like compounds in addition to other fluorescent compounds such as albumin and vitamin A and vitamin E. None of these naturally occurring compounds interfered with detection of high molecular weight PAHs. However, data suggested that the lipid component of fish oil was altering fluorescence spectra by supporting the formation of PAH excimers. For example, the most intense excitation wavelength for hydroxypyrene shifted from Ex285/Em430 to Ex340/Em430. Comparison of Deepwater Horizon crude oil and fish oil spectra indicated that some fish oils contained crude oil-like PAHs. Using wavelengths of Ex360/Em430, fish oil concentrations were calculated as 3.92 μg/g, 0.61 μg/g, and 0.14 μg/g for a Delaware Bay sample, BBLA 2011, and VBLA 2011, respectively. Overall, these results supported using menhaden fish oil to track PAH exposures spatially and temporally.

  17. Diagnosis of a constitutional five-chromosome rearrangement by fluorescent in situ hybridization (FISH)

    Energy Technology Data Exchange (ETDEWEB)

    Tsien, F.; Shapira, E. [Tulane Univ. School of Medicine, New Orleans, LA (United States); Carvalho, T. [Hospital Sarah Kubitschek, Brasilia (Brazil)] [and others

    1994-09-01

    Complex chromosomal rearrangements are structural rearrangements involving at least three chromosomes and three or more chromosome breakpoints. Such karyotypes are often acquired during cancer multi-step development and in chromosome instability syndromes. However, extremely rare constitutional forms have been reported, most of which are incompatible with life. We present a 2-year-old female with de novo complex rearrangement consisting of five chromosomes and nine breakpoints. Clinical evaluation at two years of age revealed a weight of 5 kg, length of 66 cm, and had circumference of 38 cm, all below the 5th percentile, microcephaly, trigonocephaly, epicanthal folds, inguinal hernia, left clubfoot, hypertonicity, and developmental delay. The neurological examination revealed chorea-acanthocytosis and psychomotor delay. Cultured lymphocytes and fibroblasts revealed a karyotype consisting of five derivative chromosomes. The metaphases were further analyzed by FISH using chromosome-specific libraries and telomeric probes in order to delineate the composition of the rearranged chromosomes; FISH results demonstrated a karyotype of: 46,XX,1pter{r_arrow}1q25::1q42.1{r_arrow}1qter, 2pter{r_arrow}q32.3::1q32.3{r_arrow}2q41::2q37.3{r_arrow}2qter, 7qter{r_arrow}7q21.2::6q22.3{r_arrow}6qter::1q31{r_arrow}1q32.3::6p23{r_arrow}6q22.3, 7pter{r_arrow}7q21.1::6p23{r_arrow}6pter, 2q33{r_arrow}2q37, 1::9p21{r_arrow}9qter. This analysis demonstrates the usefulness of FISH in characterizing complex chromosome rearrangements otherwise difficult to correctly interpret using classical cytogenetics alone.

  18. Visualization and quantification of archaeal and bacterial metabolically active cells in soil using fluorescence in situ hybridization method

    Science.gov (United States)

    Semenov, Mikhail; Manucharova, Natalia; Stepanov, Alexey

    2015-04-01

    The method of in situ hybridization using fluorescent labeled 16S rRNA-targeted oligonucleotide probes (FISH - fluorescence in situ hybridization) combines identification and quantification of groups of microorganisms at different phylogenetic levels, from domain to species. The FISH method enables to study the soil microbial community in situ, avoiding plating on nutrient media, and allows to identify and quantify living, metabolically active cells of Bacteria and Archaea. The full procedure consists of the following steps: desorption of the cells from the soil particles, fixation of cells, coating a fixed sample on the glass slide, hybridization with the specific probes and, finally, microscopic observation and cell counting. For the FISH analysis of Bacteria and Archaea, the paraformaldehyde-fixed samples were hybridized with Cy3-labeled Archaea-specific probe(Arc915) and 6-carboxyfluorescein (FAM)-labeled Bacteria-specific probe(EUB338). When a molecular probe is incorporated into a cell, it can hybridize solely with a complementary rRNA sequence. The hybridization can be visualized under the fluorescent microscope and counted. The application of FISH will be demonstrated by the abundance of metabolically active cells of Archaea and Bacteria depending on soil properties, depth and land use. The research was carried out at field and natural ecosystems of European part of Russia. Samples were collected within the soil profiles (3-6 horizons) of Chernozem and Kastanozem with distinct land use. Quantification of metabolically active cells in virgin and arable Chernozem revealed that the abundance of Archaea in topsoil of virgin Chernozem was doubled as compared with arable soil, but it leveled off in the deeper horizons. Plowing of Chernozem decreased an amount of archaeal and bacterial active cells simultaneously, however, Bacteria were more resistant to agrogenic impact than Archaea. In Kastanozem, a significant change in the abundance of metabolically active

  19. Investigating Transgenic Corn Hybrids as a Method for Mycotoxin Control

    Science.gov (United States)

    Transgenic Bt corn hybrids have been available for more than 10 years and are known to control specific insects. More recently, so-called “stacked-gene” hybrids, have been released with multiple insect resistance genes and genes for herbicide resistance, resulting in up to 6 traits per plant. Beca...

  20. SIMS: a hybrid method for rapid conformational analysis.

    Directory of Open Access Journals (Sweden)

    Bryant Gipson

    Full Text Available Proteins are at the root of many biological functions, often performing complex tasks as the result of large changes in their structure. Describing the exact details of these conformational changes, however, remains a central challenge for computational biology due the enormous computational requirements of the problem. This has engendered the development of a rich variety of useful methods designed to answer specific questions at different levels of spatial, temporal, and energetic resolution. These methods fall largely into two classes: physically accurate, but computationally demanding methods and fast, approximate methods. We introduce here a new hybrid modeling tool, the Structured Intuitive Move Selector (sims, designed to bridge the divide between these two classes, while allowing the benefits of both to be seamlessly integrated into a single framework. This is achieved by applying a modern motion planning algorithm, borrowed from the field of robotics, in tandem with a well-established protein modeling library. sims can combine precise energy calculations with approximate or specialized conformational sampling routines to produce rapid, yet accurate, analysis of the large-scale conformational variability of protein systems. Several key advancements are shown, including the abstract use of generically defined moves (conformational sampling methods and an expansive probabilistic conformational exploration. We present three example problems that sims is applied to and demonstrate a rapid solution for each. These include the automatic determination of "active" residues for the hinge-based system Cyanovirin-N, exploring conformational changes involving long-range coordinated motion between non-sequential residues in Ribose-Binding Protein, and the rapid discovery of a transient conformational state of Maltose-Binding Protein, previously only determined by Molecular Dynamics. For all cases we provide energetic validations using well

  1. CPGs control method using a new oscillator in robotic fish

    Institute of Scientific and Technical Information of China (English)

    2010-01-01

    A new oscillator is presented in this paper based on our pervious oscillator (Zhang’s oscillator). Using this new oscillator, a bionic neural control system, the central pattern generators (CPGs) control system, is built. This control system has a two-level form. To validate the function of this new oscillator and the control system, simulations and experiments were both carried out, a simple robotic fish was built with three joints, and the results showed that the new oscillator can be used in startup and stop control mode, angle offset control mode and amplitude changing control mode. The new oscillator can be used in bionic CPGs control area with a simple form, and may be a new progress in bionic control.

  2. Design Hybrid Methods for Encoding Prior Knowledge in Feedforward Network with Application in Chemical Engineering

    Institute of Scientific and Technical Information of China (English)

    CHENChongwei; CHENDezhao

    2002-01-01

    Three-layer feedforward networks have been widely used in modeling chemical engineering processes and prior-knowledge-based methods have been introduced to improve their performances.In this paper,we propose the methodology of designing better prior-knowledge-based hybrid methods by combining the existing ones. Then according to this methodology,two hybrid methods,interpolation-optimization (IO) method and interpolation penalty-function (IPF) method,are designed as examples.Finally,both methods are applied to modeling two cases in chemical engineering to investigate their effectiveness.Simulation results show that the performances of the hybrid methods are better than those of their parents.

  3. Identification of intracellular bacteria in adenoid and tonsil tissue specimens: the efficiency of culture versus fluorescent in situ hybridization (FISH).

    Science.gov (United States)

    Stępińska, M; Olszewska-Sosińska, O; Lau-Dworak, M; Zielnik-Jurkiewicz, B; Trafny, E A

    2014-01-01

    Monocyte/macrophage cells from human nasopharyngeal lymphoid tissue can be a source of bacteria responsible for human chronic and recurrent upper respiratory tract infection. Detection and characterization of pathogens surviving intracellularly could be a key element in bacteriological diagnosis of the infections as well as in the study on interactions between bacteria and their host. The present study was undertaken to assess the possibility of isolation of viable bacteria from the cells expressing monocyte/macrophage marker CD14 in nasopharyngeal lymphoid tissue. Overall, 74 adenotonsillectomy specimens (adenoids and tonsils) from 37 children with adenoid hypertrophy and recurrent infections as well as 15 specimens from nine children with adenoid hypertrophy, which do not suffer from upper respiratory tract infections (the control group), were studied. The suitability of immunomagnetic separation for extraction of CD14(+) cells from lymphoid tissue and for further isolation of the intracellular pathogens has been shown. The coexistence of living pathogens including Haemophilus influenzae, Staphylococcus aureus, and Streptococcus pyogenes with the bacteria representing normal nasopharyngeal microbiota inside CD14(+) cells was demonstrated. Twenty-four strains of these pathogens from 32.4 % of the lysates of CD14(+) cells were isolated. Concurrently, the fluorescent in situ hybridization (FISH) with a universal EUB388, and the species-specific probes demonstrated twice more often the persistence of these bacterial species in the lysates of CD14(+) cells than conventional culture. Although the FISH technique appears to be more sensitive than traditional culture in the intracellular bacteria identification, the doubts on whether the bacteria are alive, and therefore, pathogenic would still exist without the strain cultivation.

  4. Distinguishing between incomplete lineage sorting and genomic introgressions: complete fixation of allospecific mitochondrial DNA in a sexually reproducing fish (Cobitis; Teleostei, despite clonal reproduction of hybrids.

    Directory of Open Access Journals (Sweden)

    Lukas Choleva

    Full Text Available Distinguishing between hybrid introgression and incomplete lineage sorting causing incongruence among gene trees in that they exhibit topological differences requires application of statistical approaches that are based on biologically relevant models. Such study is especially challenging in hybrid systems, where usual vectors mediating interspecific gene transfers--hybrids with Mendelian heredity--are absent or unknown. Here we study a complex of hybridizing species, which are known to produce clonal hybrids, to discover how one of the species, Cobitis tanaitica, has achieved a pattern of mito-nuclear mosaic genome over the whole geographic range. We appplied three distinct methods, including the method using solely the information on gene tree topologies, and found that the contrasting mito-nuclear signal might not have resulted from the retention of ancestral polymorphism. Instead, we found two signs of hybridization events related to C. tanaitica; one concerning nuclear gene flow and the other suggested mitochondrial capture. Interestingly, clonal inheritance (gynogenesis of contemporary hybrids prevents genomic introgressions and non-clonal hybrids are either absent or too rare to be detected among European Cobitis. Our analyses therefore suggest that introgressive hybridizations are rather old episodes, mediated by previously existing hybrids whose inheritance was not entirely clonal. Cobitis complex thus supports the view that the type of resulting hybrids depends on a level of genomic divergence between sexual species.

  5. A simple web-based tool to compare freshwater fish data collected using AFS standard methods

    Science.gov (United States)

    Bonar, Scott A.; Mercado-Silva, Norman; Rahr, Matt; Torrey, Yuta T.; Cate, Averill

    2016-01-01

    The American Fisheries Society (AFS) recently published Standard Methods for Sampling North American Freshwater Fishes. Enlisting the expertise of 284 scientists from 107 organizations throughout Canada, Mexico, and the United States, this text was developed to facilitate comparisons of fish data across regions or time. Here we describe a user-friendly web tool that automates among-sample comparisons in individual fish condition, population length-frequency distributions, and catch per unit effort (CPUE) data collected using AFS standard methods. Currently, the web tool (1) provides instantaneous summaries of almost 4,000 data sets of condition, length frequency, and CPUE of common freshwater fishes collected using standard gears in 43 states and provinces; (2) is easily appended with new standardized field data to update subsequent queries and summaries; (3) compares fish data from a particular water body with continent, ecoregion, and state data summaries; and (4) provides additional information about AFS standard fish sampling including benefits, ongoing validation studies, and opportunities to comment on specific methods. The web tool—programmed in a PHP-based Drupal framework—was supported by several AFS Sections, agencies, and universities and is freely available from the AFS website and fisheriesstandardsampling.org. With widespread use, the online tool could become an important resource for fisheries biologists.

  6. STRONG CONVERGENCE OF MONOTONE HYBRID METHOD FOR FIXED POINT ITERATION PROCESSES

    Institute of Scientific and Technical Information of China (English)

    Yongfu SU; Xiaolong QIN

    2008-01-01

    K. Nakajo and W. Takahashi in 2003 proved the strong convergence theorems for nonexpansive mappings, nonexpansive semigroups, and proximal point algorithm for zero point of monotone operators in Hilbert spaces by using the hybrid method in mathematical programming. The purpose of this paper is to modify the hybrid iteration method of K. Nakajo and W. Takahashi through the monotone hybrid method, and to prove strong convergence theorems. The convergence rate of iteration process of the monotone hybrid method is faster than that of the iteration process of the hybrid method of K. Nakajo and W. Takahashi. In the proofs in this article, Cauchy sequence method is used to avoid the use of the demiclosedness principle and Opial's condition.

  7. A finite element method for netting application to fish cages and fishing gear

    CERN Document Server

    Priour, Daniel

    2014-01-01

    This book describes a finite element method for netting that describes the relation between forces and deformation of the netting and takes into account forces due to the twine elasticity, the hydrodynamic forces, the catch effect, the mesh opening stiffness.

  8. Blind Evaluation of Hybrid Protein Structure Analysis Methods based on Cross-Linking.

    Science.gov (United States)

    Belsom, Adam; Schneider, Michael; Brock, Oliver; Rappsilber, Juri

    2016-07-01

    Hybrid methods combine experimental data and computational modeling to analyze protein structures that are elusive to structure determination. To spur the development of hybrid methods, we propose to test them in the context of the CASP experiment and would like to invite experimental groups to participate in this initiative.

  9. Nanoscale lamellar photoconductor hybrids and methods of making same

    Science.gov (United States)

    Stupp, Samuel I; Goldberger, Josh; Sofos, Marina

    2013-02-05

    An article of manufacture and methods of making same. In one embodiment, the article of manufacture has a plurality of zinc oxide layers substantially in parallel, wherein each zinc oxide layer has a thickness d.sub.1, and a plurality of organic molecule layers substantially in parallel, wherein each organic molecule layer has a thickness d.sub.2 and a plurality of molecules with a functional group that is bindable to zinc ions, wherein for every pair of neighboring zinc oxide layers, one of the plurality of organic molecule layers is positioned in between the pair of neighboring zinc oxide layers to allow the functional groups of the plurality of organic molecules to bind to zinc ions in the neighboring zinc oxide layers to form a lamellar hybrid structure with a geometric periodicity d.sub.1+d.sub.2, and wherein d.sub.1 and d.sub.2 satisfy the relationship of d.sub.1.ltoreq.d.sub.2.ltoreq.3d.sub.1.

  10. Optimal traffic light control method for a single intersection based on hybrid systems

    Institute of Scientific and Technical Information of China (English)

    赵晓华; 陈阳舟; 崔平远

    2003-01-01

    A single intersection of two phases is selected as a model to put forward a new optimal time-planning scheme for traffic light based on the model of hybrid automata for single intersection. A method of optimization is proposed for hybrid systems, and the average queue length over all queues is used as an objective function to find an optimal switching scheme for traffic light. It is illustrated that traffic light control for single intersection is a typical hybrid system, and the optimal planning-time scheme can be obtained using the optimal hybrid systems control based on the two stages method.

  11. Hybrid classifiers methods of data, knowledge, and classifier combination

    CERN Document Server

    Wozniak, Michal

    2014-01-01

    This book delivers a definite and compact knowledge on how hybridization can help improving the quality of computer classification systems. In order to make readers clearly realize the knowledge of hybridization, this book primarily focuses on introducing the different levels of hybridization and illuminating what problems we will face with as dealing with such projects. In the first instance the data and knowledge incorporated in hybridization were the action points, and then a still growing up area of classifier systems known as combined classifiers was considered. This book comprises the aforementioned state-of-the-art topics and the latest research results of the author and his team from Department of Systems and Computer Networks, Wroclaw University of Technology, including as classifier based on feature space splitting, one-class classification, imbalance data, and data stream classification.

  12. A benchmarking method to measure dietary absorption efficiency of chemicals by fish.

    Science.gov (United States)

    Xiao, Ruiyang; Adolfsson-Erici, Margaretha; Åkerman, Gun; McLachlan, Michael S; MacLeod, Matthew

    2013-12-01

    Understanding the dietary absorption efficiency of chemicals in the gastrointestinal tract of fish is important from both a scientific and a regulatory point of view. However, reported fish absorption efficiencies for well-studied chemicals are highly variable. In the present study, the authors developed and exploited an internal chemical benchmarking method that has the potential to reduce uncertainty and variability and, thus, to improve the precision of measurements of fish absorption efficiency. The authors applied the benchmarking method to measure the gross absorption efficiency for 15 chemicals with a wide range of physicochemical properties and structures. They selected 2,2',5,6'-tetrachlorobiphenyl (PCB53) and decabromodiphenyl ethane as absorbable and nonabsorbable benchmarks, respectively. Quantities of chemicals determined in fish were benchmarked to the fraction of PCB53 recovered in fish, and quantities of chemicals determined in feces were benchmarked to the fraction of decabromodiphenyl ethane recovered in feces. The performance of the benchmarking procedure was evaluated based on the recovery of the test chemicals and precision of absorption efficiency from repeated tests. Benchmarking did not improve the precision of the measurements; after benchmarking, however, the median recovery for 15 chemicals was 106%, and variability of recoveries was reduced compared with before benchmarking, suggesting that benchmarking could account for incomplete extraction of chemical in fish and incomplete collection of feces from different tests. © 2013 SETAC.

  13. Phylogeny-function analysis of (meta)genomic libraries: screening for expression of ribosomal RNA genes by large-insert library fluorescent in situ hybridization (LIL-FISH).

    Science.gov (United States)

    Leveau, Johan H J; Gerards, Saskia; de Boer, Wietse; van Veen, Johannes A

    2004-09-01

    We assessed the utility of fluorescent in situ hybridization (FISH) in the screening of clone libraries of (meta)genomic or environmental DNA for the presence and expression of bacterial ribosomal RNA (rRNA) genes. To establish proof-of-principle, we constructed a fosmid-based library in Escherichia coli of large-sized genomic DNA fragments of the mycophagous soil bacterium Collimonas fungivorans, and hybridized 768 library clones with the Collimonas-specific fluorescent probe CTE998-1015. Critical to the success of this approach (which we refer to as large-insert library FISH or LIL-FISH) was the ability to induce fosmid copy number, the exponential growth status of library clones in the FISH assay and the use of a simple pooling strategy to reduce the number of hybridizations. Twelve out of 768 E. coli clones were suspected to harbour and express Collimonas 16S rRNA genes based on their hybridization to CTE998-1015. This was confirmed by the finding that all 12 clones were also identified in an independent polymerase chain reaction-based screening of the same 768 clones using a primer set for the specific detection of Collimonas 16S ribosomal DNA (rDNA). Fosmids isolated from these clones were grouped by restriction analysis into two distinct contigs, confirming that C. fungivorans harbours at least two 16S rRNA genes. For one contig, representing 1-2% of the genome, the nucleotide sequence was determined, providing us with a narrow but informative view of Collimonas genome structure and content.

  14. Three sympatric karyomorphs in the fish Astyanax fasciatus (Teleostei, Characidae) do not seem to hybridize in natural populations

    Science.gov (United States)

    Ferreira-Neto, Maressa; Artoni, Roberto Ferreira; Vicari, Marcelo Ricardo; Moreira-Filho, Orlando; Camacho, Juan Pedro Martínez; Bakkali, Mohammed; de Oliveira, Claudio; Foresti, Fausto

    2012-01-01

    Abstract Ninety individuals of the characid fish Astyanax fasciatus (Cuvier, 1819) were collected at Água da Madalena stream (Botucatu, São Paulo, Brazil) and analyzed for diploid chromosome number 2n and karyotype composition as well as for the chromosomal location of the 5S and 18S ribosomal DNA (rDNA). Whereas no chromosome differences were associated with sex, three different karyomorphs with diploid chromosome numbers 2n=46, 2n=48 and 2n=50 were found. No intermediate 2n numbers were discovered. The 2n=50 karyomorph showed some differences in 18S rDNA location compared to the two other karyomorphs. Finally, all specimens with the 2n=46 karyomorph showed the presence of a partly heterochromatic macro supernumerary chromosome, which was absent in all individuals with the two other karyomorphs. All these results suggest that indviduals of the three different karyomorphs are not likely to hybridize in the examined populations. Our findings strongly suggest the presence of three separate species (sensu biological species concept) easily diagnosed on the basis of differences in the diploid chromosome numbers and other chromosomal markers. PMID:24260650

  15. Three sympatric karyomorphs in the fish Astyanax fasciatus (Teleostei, Characidae do not seem to hybridize in natural populations

    Directory of Open Access Journals (Sweden)

    Maressa Ferreira-Neto

    2012-01-01

    Full Text Available Ninety individuals of the characid fish Astyanax fasciatus (Cuvier, 1819 were collected at Água da Madalena stream (Botucatu, São Paulo, Brazil and analyzed for diploid chromosome number 2n and karyotype composition as well as for the chromosomal location of the 5S and 18S ribosomal DNA (rDNA. Whereas no chromosome differences were associated with sex, three different karyomorphs with diploid chromosome numbers 2n=46, 2n=48 and 2n=50 were found. No intermediate 2n numbers were discovered. The 2n=50 karyomorph showed some differences in 18S rDNA location compared to the two other karyomorphs. Finally, all specimens with the 2n=46 karyomorph showed the presence of a partly heterochromatic macro supernumerary chromosome, which was absent in all individuals with the two other karyomorphs. All these results suggest that indviduals of the three different karyomorphs are not likely to hybridize in the examined populations. Our findings strongly suggest the presence of three separate species (sensu biological species concept easily diagnosed on the basis of differences in the diploid chromosome numbers and other chromosomal markers.

  16. Fish Passage though Hydropower Turbines: Simulating Blade Strike using the Discrete Element Method

    Energy Technology Data Exchange (ETDEWEB)

    Richmond, Marshall C.; Romero Gomez, Pedro DJ

    2014-12-08

    mong the hazardous hydraulic conditions affecting anadromous and resident fish during their passage though turbine flows, two are believed to cause considerable injury and mortality: collision on moving blades and decompression. Several methods are currently available to evaluate these stressors in installed turbines, i.e. using live fish or autonomous sensor devices, and in reduced-scale physical models, i.e. registering collisions from plastic beads. However, a priori estimates with computational modeling approaches applied early in the process of turbine design can facilitate the development of fish-friendly turbines. In the present study, we evaluated the frequency of blade strike and nadir pressure environment by modeling potential fish trajectories with the Discrete Element Method (DEM) applied to fish-like composite particles. In the DEM approach, particles are subjected to realistic hydraulic conditions simulated with computational fluid dynamics (CFD), and particle-structure interactions—representing fish collisions with turbine blades—are explicitly recorded and accounted for in the calculation of particle trajectories. We conducted transient CFD simulations by setting the runner in motion and allowing for better turbulence resolution, a modeling improvement over the conventional practice of simulating the system in steady state which was also done here. While both schemes yielded comparable bulk hydraulic performance, transient conditions exhibited a visual improvement in describing flow variability. We released streamtraces (steady flow solution) and DEM particles (transient solution) at the same location from where sensor fish (SF) have been released in field studies of the modeled turbine unit. The streamtrace-based results showed a better agreement with SF data than the DEM-based nadir pressures did because the former accounted for the turbulent dispersion at the intake but the latter did not. However, the DEM-based strike frequency is more

  17. A new method for total mercury and methyl mercury analysis in muscle of seawater fish.

    Science.gov (United States)

    Carbonell, G; Bravo, J C; Fernández, C; Tarazona, J V

    2009-08-01

    In this work we have developed a cost-effective method for the analysis of methyl mercury (MeHg) in seawater fish muscle. The novelty of this method lies in the use of microwave-assisted extraction with acidic solution (HCl), addition of toluene, and subsequent extraction with cysteine acetate solution where only MeHg is present because of its affinity for cysteine groups. MeHg in cysteine phase and total mercury in the homogenate muscle tissue were determined using a direct Hg analyzer (DMA-80). Validation, precision, and accuracy of the method were evaluated and monitored with a tuna fish certified reference material (CRM 463) containing MeHg.

  18. A Method for Measuring Fishing Effort by Small-Scale Fish Aggregating Device (FAD) Fishers from the Commonwealth of Dominica

    Science.gov (United States)

    Alvard, Michael; McGaffey, Ethan; Carlson, David

    2015-01-01

    We used global positioning system (GPS) technology and tracking analysis to measure fishing effort by marine, small-scale, fish aggregating device (FAD) fishers of the Commonwealth of Dominica. FADs are human-made structures designed to float on the surface of the water and attract fish. They are also prone to common pool resource problems. To…

  19. MESHLESS METHOD OF DUAL RECIPROCITY HYBRID RADIAL BOUNDARY NODE METHOD FOR ELASTICITY

    Institute of Scientific and Technical Information of China (English)

    Fei Yan; Xiating Feng; Hui Zhou

    2010-01-01

    Combining the radial point interpolation method(RPIM),thedualreciprocitymethod(DRM)and the hybrid boundary node method(HBNM),a dual reciprocity hybrid radial boundary node method(DHRBNM)is proposed for linear elasticity.Compared to DHBNM,RPIM is exploited to replace the moving least square(MLS)in DHRBNM,and it gets rid of the deficiency of MLS approximation,in which shape functions lack the delta function property,the boundary condition can not be applied easily and directly and it's computational expense is high.Besides,different approximate functions are discussed in DRM to get the interpolation property,in which the accuracy and efficiency for different basis functions are compared.Then RPIM is also applied in DRM to replace the conical function interpolation,which can greatly improve the accuracy of the present method.To demonstrate the effectiveness of the present method,DHBNM is applied for comparison,and some numerical examples of 2-D elasticity problems show that the present method is much more effective than DHBNM.

  20. Novel method for hybrid multiple attribute decision making based on TODIM method

    Institute of Scientific and Technical Information of China (English)

    Fang Wang; Hua Li

    2015-01-01

    The TODIM (an acronym in Portuguese for interac-tive and multiple attribute decision making) method is a valuable tool to solve the multiple attribute decision making (MADM) prob-lems considering the behavior of the decision maker (DM), while it cannot be used to handle the problem with unknown weight information on attributes. In this paper, a novel method based on the classical TODIM method is proposed to solve the hybrid MADM problems with unknown weight information on attributes, in which attribute values are represented in four different formats:crisp numbers, interval numbers, triangular fuzzy numbers and trapezoidal fuzzy numbers. Firstly, the positive-ideal alternative and negative-ideal alternative are determined, and the gain and loss matrices are constructed by calculating the gain and loss of each alternative relatived to the ideal alternatives concerning each attribute based on different distance calculation formulas, which may avoid the information missing or information distortion in the process of unifying multiform attribute values into a certain rep-resentation form. Secondly, an optimization model based on the maximizing deviation (MD) method, by which the attribute weights can be determined, is established for the TODIM method. Fur-ther, the calculation steps to solve the hybrid MADM problems are given. Final y, two numerical examples are presented to il us-trate the usefulness of the proposed method, and the results show that the DM’s psychological behavior, attribute weights and the transformed information would highly affect the ranking orders of alternatives.

  1. [Interphase cytogenetics of the breast tumors with fluorescence in situ hybridization (FISH) on cytologic preparation--its practice and clinical applications].

    Science.gov (United States)

    Shibuya, M; Osamura, R Y

    1996-05-01

    Fluorescence in situ hybridization (FISH) study with the chromosome specific probes is performed in the interphase nuclei of the routinely processed cytologic preparation of the breast tumors. Numerical aberrations on the chromosomes 1, 3, 11 or 17 were detected in more than 80% of the malignant tumors, but not in the benign tumors. Marked heterogeneity of the polysomies is noted in the malignant tumor cells. A few malignant cases revealed monosomy of chromosome 17. No apparent correlation between the numerical abnormalities and the histological features in malignant tumors is identified. These results suggest that the interphase cytogenetics with FISH for the breast tumors may be useful for differential diagnosis of malignancy. The practice and the clinical applications of the FISH study are discussed.

  2. Detection of mycobacteria in aquarium fish in Slovenia by culture and molecular methods.

    Science.gov (United States)

    Pate, M; Jencic, V; Zolnir-Dovc, M; Ocepek, M

    2005-04-06

    Thirty-five aquarium fish were investigated for the presence of mycobacteria by culture and molecular methods. The following species were examined: goldfish Carassius auratus auratus, guppy Poecilia reticulata, 4 three-spot gourami Trichogaster trichopterus, dwarf gourami Colisa lalia, Siamese fighting fish Betta splendens, freshwater angelfish Pterophyllum scalare, African cichlid fish Cichlidae spp., cichlid fish Microgeophagus altispinosus, cichlid fish Pseudotropheus lombardoi, blue streak hap Labidochromis caeruleus, sterlet Acipenser ruthenus, southern platyfish Xiphophorus maculatus, and catfish Corydoras spp. Isolates of mycobacteria were obtained in 29 cases (82.9%). Two specimens were positive using Ziehl-Neelsen (ZN) staining, but the cultivation failed. Four specimens were both ZN- and culture-negative. On the basis of GenoType Mycobacterium assay (Hain Life-science) and restriction enzyme analysis of the amplified products (PCR-RFLP), 23 isolates (79.3%) were identified: 7 as Mycobacterium fortuitum, 6 as M. gordonae, 6 as M. marinum, 3 as M. chelonae, and 1 as M. peregrinum. Five isolates remained unidentified (Mycobacterium spp.). One case probably represented a mixed infection (M. marinum/M. fortuitum). Since M. marinum infections are also detected in humans, the significance of mycobacteria in aquarium fish should not be overlooked.

  3. Modeling, control, and simulation of grid connected intelligent hybrid battery/photovoltaic system using new hybrid fuzzy-neural method.

    Science.gov (United States)

    Rezvani, Alireza; Khalili, Abbas; Mazareie, Alireza; Gandomkar, Majid

    2016-07-01

    Nowadays, photovoltaic (PV) generation is growing increasingly fast as a renewable energy source. Nevertheless, the drawback of the PV system is its dependence on weather conditions. Therefore, battery energy storage (BES) can be considered to assist for a stable and reliable output from PV generation system for loads and improve the dynamic performance of the whole generation system in grid connected mode. In this paper, a novel topology of intelligent hybrid generation systems with PV and BES in a DC-coupled structure is presented. Each photovoltaic cell has a specific point named maximum power point on its operational curve (i.e. current-voltage or power-voltage curve) in which it can generate maximum power. Irradiance and temperature changes affect these operational curves. Therefore, the nonlinear characteristic of maximum power point to environment has caused to development of different maximum power point tracking techniques. In order to capture the maximum power point (MPP), a hybrid fuzzy-neural maximum power point tracking (MPPT) method is applied in the PV system. Obtained results represent the effectiveness and superiority of the proposed method, and the average tracking efficiency of the hybrid fuzzy-neural is incremented by approximately two percentage points in comparison to the conventional methods. It has the advantages of robustness, fast response and good performance. A detailed mathematical model and a control approach of a three-phase grid-connected intelligent hybrid system have been proposed using Matlab/Simulink.

  4. Evaluation of a Method for Quantifying Eugenol Concentrations in the Fillet Tissue from Freshwater Fish Species.

    Science.gov (United States)

    Meinertz, Jeffery R; Schreier, Theresa M; Porcher, Scott T; Smerud, Justin R

    2016-01-01

    AQUI-S 20E(®) (active ingredient, eugenol; AQUI-S New Zealand Ltd, Lower Hutt, New Zealand) is being pursued for approval as an immediate-release sedative in the United States. A validated method to quantify the primary residue (the marker residue) in fillet tissue from AQUI-S 20E-exposed fish was needed. A method was evaluated for determining concentrations of the AQUI-S 20E marker residue, eugenol, in freshwater fish fillet tissue. Method accuracies from fillet tissue fortified at nominal concentrations of 0.15, 1, and 60 μg/g from six fish species ranged from 88-102%. Within-day and between-day method precisions (% CV) from the fortified tissue were ≤8.4% CV. There were no coextracted compounds from the control fillet tissue of seven fish species that interfered with eugenol analyses. Six compounds used as aquaculture drugs did not interfere with eugenol analyses. The lower limit of quantitation (LLOQ) was 0.012 μg/g. The method was robust, i.e., in most cases, minor changes to the method did not impact method performance. Eugenol was stable in acetonitrile-water (3 + 7, v/v) for at least 14 days, in fillet tissue extracts for 4 days, and in fillet tissue stored at ~ -80°C for at least 84 days.

  5. Evaluation of a method for quantifying eugenol concentrations in the fillet tissue from freshwater fish species

    Science.gov (United States)

    Meinertz, Jeffery R.; Schreier, Theresa M.; Porcher, Scott T.; Smerud, Justin R.

    2016-01-01

    AQUI-S 20E® (active ingredient, eugenol; AQUI-S New Zealand Ltd, Lower Hutt, New Zealand) is being pursued for approval as an immediate-release sedative in the United States. A validated method to quantify the primary residue (the marker residue) in fillet tissue from AQUI-S 20E–exposed fish was needed. A method was evaluated for determining concentrations of the AQUI-S 20E marker residue, eugenol, in freshwater fish fillet tissue. Method accuracies from fillet tissue fortified at nominal concentrations of 0.15, 1, and 60 μg/g from six fish species ranged from 88–102%. Within-day and between-day method precisions (% CV) from the fortified tissue were ≤8.4% CV. There were no coextracted compounds from the control fillet tissue of seven fish species that interfered with eugenol analyses. Six compounds used as aquaculture drugs did not interfere with eugenol analyses. The lower limit of quantitation (LLOQ) was 0.012 μg/g. The method was robust, i.e., in most cases, minor changes to the method did not impact method performance. Eugenol was stable in acetonitrile–water (3 + 7, v/v) for at least 14 days, in fillet tissue extracts for 4 days, and in fillet tissue stored at ~ −80°C for at least 84 days.

  6. Label-free detection of hybridization of oligonucleotides by oblique-incidence reflectivity difference method

    Institute of Scientific and Technical Information of China (English)

    2010-01-01

    The microarrays of 20-base oligonucleotide with different concentrations are detected before and after hybridization by the oblique-incidence reflectivity difference (OI-RD) method. The experimental results prove that OI-RD is a label-free method which can not only distinguish the concentration difference of oligonucleotides before and after the hybridization but also detect the hybridization of short oligonucleotides. At present the OI-RD method can detect 0.39 μmol/L 20-base oligonucleotide or less. These results suggest that the OI-RD method is a promising and potential technique for label-free detection of biological microarrays.

  7. APPLICATION OF PENALTY FUNCTION METHOD IN ISOPARAMETRIC HYBRID FINITE ELEMENT ANALYSIS

    Institute of Scientific and Technical Information of China (English)

    CHEN Dao-zheng; JIAO Zhao-ping

    2005-01-01

    By the aid of the penalty function method, the equilibrium restriction conditions were introduced to the isoparametric hybrid finite element analysis, and the concrete application course of the penalty function method in three-dimensional isoparametric hybrid finite element was discussed. The separated penalty parameters method and the optimal hybrid element model with penalty balance were also presented.The penalty balance method can effectively refrain the parasitical stress on the premise of no additional degrees of freedom. The numeric experiment shows that the presented element not only is effective in improving greatly the numeric calculation precision of distorted grids but also has the universality.

  8. Methods for mapping QTLs underlying endosperm traits based on random hybridization design

    Institute of Scientific and Technical Information of China (English)

    WEN Yongxian; WU Weiren

    2006-01-01

    Several methods of interval mapping of QTLs underlying endosperm traits based on random hybridization designs and the triploid genetic model are proposed. The basic idea is: plants (or lines) from a population with known marker genotype information are randomly hybridized to generate a population of hybrid lines for endosperm QTL mapping; a mixture of seeds of each hybrid line is measured for the endosperm trait to get the mean of the line; then endosperm QTL mapping and effect estimation is performed using the endosperm trait means of hybrid lines and the marker genotype information of parental plants (or lines). The feasibility and efficiency of the methods are examined by computer simulations. Results show that the methods can precisely map endosperm QTLs and unbiasedly and efficiently estimate the three effects (additive effect, first dominant effect, second dominant effect) of endosperm QTLs.

  9. Iterative Reconstruction Methods for Hybrid Inverse Problems in Impedance Tomography

    DEFF Research Database (Denmark)

    Hoffmann, Kristoffer; Knudsen, Kim

    2014-01-01

    For a general formulation of hybrid inverse problems in impedance tomography the Picard and Newton iterative schemes are adapted and four iterative reconstruction algorithms are developed. The general problem formulation includes several existing hybrid imaging modalities such as current density...... impedance imaging, magnetic resonance electrical impedance tomography, and ultrasound modulated electrical impedance tomography, and the unified approach to the reconstruction problem encompasses several algorithms suggested in the literature. The four proposed algorithms are implemented numerically in two...... be based on a theoretical analysis of the underlying inverse problem....

  10. GPU-accelerated discontinuous Galerkin methods on hybrid meshes

    Science.gov (United States)

    Chan, Jesse; Wang, Zheng; Modave, Axel; Remacle, Jean-Francois; Warburton, T.

    2016-08-01

    We present a time-explicit discontinuous Galerkin (DG) solver for the time-domain acoustic wave equation on hybrid meshes containing vertex-mapped hexahedral, wedge, pyramidal and tetrahedral elements. Discretely energy-stable formulations are presented for both Gauss-Legendre and Gauss-Legendre-Lobatto (Spectral Element) nodal bases for the hexahedron. Stable timestep restrictions for hybrid meshes are derived by bounding the spectral radius of the DG operator using order-dependent constants in trace and Markov inequalities. Computational efficiency is achieved under a combination of element-specific kernels (including new quadrature-free operators for the pyramid), multi-rate timestepping, and acceleration using Graphics Processing Units.

  11. Sequencing of megabase plus DNA by hybridization: Method development ENT. Final technical progress report

    Energy Technology Data Exchange (ETDEWEB)

    Crkvenjakov, R.; Drmanac, R.

    1991-01-31

    Sequencing by hybridization (SBH) is the only sequencing method based on the experimental determination of the content of oligonucleotide sequences. The data acquisition relies on the natural process of base pairing. It is possible to determine the content of complementary oligosequences in the target DNA by the process of hybridization with oligonucleotide probes of known sequences.

  12. Fish passage through hydropower turbines: Simulating blade strike using the discrete element method

    Science.gov (United States)

    Richmond, M. C.; Romero-Gomez, P.

    2014-03-01

    Among the hazardous hydraulic conditions affecting anadromous and resident fish during their passage though hydro-turbines two common physical processes can lead to injury and mortality: collisions/blade-strike and rapid decompression. Several methods are currently available to evaluate these stressors in installed turbines, e.g. using live fish or autonomous sensor devices, and in reduced-scale physical models, e.g. registering collisions from plastic beads. However, a priori estimates with computational modeling approaches applied early in the process of turbine design can facilitate the development of fish-friendly turbines. In the present study, we evaluated the frequency of blade strike and rapid pressure change by modeling potential fish trajectories with the Discrete Element Method (DEM) applied to fish-like composite particles. In the DEM approach, particles are subjected to realistic hydraulic conditions simulated with computational fluid dynamics (CFD), and particle-structure interactions-representing fish collisions with turbine components such as blades-are explicitly recorded and accounted for in the calculation of particle trajectories. We conducted transient CFD simulations by setting the runner in motion and allowing for unsteady turbulence using detached eddy simulation (DES), as compared to the conventional practice of simulating the system in steady state (which was also done here for comparison). While both schemes yielded comparable bulk hydraulic performance values, transient conditions exhibited an improvement in describing flow temporal and spatial variability. We released streamtraces (in the steady flow solution) and DEM particles (transient solution) at the same locations where sensor fish (SF) were released in previous field studies of the advanced turbine unit. The streamtrace- based results showed a better agreement with SF data than the DEM-based nadir pressures did because the former accounted for the turbulent dispersion at the

  13. A Dynamic Feature-Based Method for Hybrid Blurred/Multiple Object Detection in Manufacturing Processes

    Directory of Open Access Journals (Sweden)

    Tsun-Kuo Lin

    2016-01-01

    Full Text Available Vision-based inspection has been applied for quality control and product sorting in manufacturing processes. Blurred or multiple objects are common causes of poor performance in conventional vision-based inspection systems. Detecting hybrid blurred/multiple objects has long been a challenge in manufacturing. For example, single-feature-based algorithms might fail to exactly extract features when concurrently detecting hybrid blurred/multiple objects. Therefore, to resolve this problem, this study proposes a novel vision-based inspection algorithm that entails selecting a dynamic feature-based method on the basis of a multiclassifier of support vector machines (SVMs for inspecting hybrid blurred/multiple object images. The proposed algorithm dynamically selects suitable inspection schemes for classifying the hybrid images. The inspection schemes include discrete wavelet transform, spherical wavelet transform, moment invariants, and edge-feature-descriptor-based classification methods. The classification methods for single and multiple objects are adaptive region growing- (ARG- based and local adaptive region growing- (LARG- based learning approaches, respectively. The experimental results demonstrate that the proposed algorithm can dynamically select suitable inspection schemes by applying a selection algorithm, which uses SVMs for classifying hybrid blurred/multiple object samples. Moreover, the method applies suitable feature-based schemes on the basis of the classification results for employing the ARG/LARG-based method to inspect the hybrid objects. The method improves conventional methods for inspecting hybrid blurred/multiple objects and achieves high recognition rates for that in manufacturing processes.

  14. Comparison of high resolution chromosome banding and fluorescence in situ hybridization (FISH) for the laboratory evaluation of Prader-Willi syndrome and Angelman syndrome

    Energy Technology Data Exchange (ETDEWEB)

    Delach, J.A.; Rosengren, S.S.; Kaplan, L.; Greenstein, R.M.; Cassidy, S.B.; Benn, P.A.

    1994-08-01

    The development of probes containing segments of DNA from chromosome region 15q11-q13 provides the opportunity to confirm the diagnosis of Prader-Willi syndrome (PWS) and Angelman syndrome (AS) by fluorescence in situ hybridization (FISH). We have evaluated FISH studies and high resolution chromosome banding studies in 14 patients referred to confirm or rule out AS. In four patients (three from the PWS category and 1 from the AS group) chromosome analysis suggested that a deletion was present but FISH failed to confirm the finding. In one AS group patient, FISH identified a deletion not detectable by high resolution banding. Review of the clinical findings in the discrepant cases suggested that FISH results were correct and high resolution findings were erroneous. Studies with a chromosome 15 alpha satellite probe (D15Z) on both normal and abnormal individuals suggested that incorrect interpretation of chromosome banding may occasionally be attributable to alpha satellite polymorphism but other variation of 15q11-q13 chromosome bands also contributes to misinterpretation. We conclude that patients who have been reported to have a cytogenetic deletion of 15q11-q13 and who have clinical findings inconsistent with PWS and AS should be re-evaluated by molecular genetic techniques. 31 refs., 3 figs., 2 tabs.

  15. mRNA-targeted Fluorescent in Situ Hybridization (FISH) of Gram-negative Bacteria Without Template Amplification or Tyramide Signal Amplification

    Energy Technology Data Exchange (ETDEWEB)

    Coleman, James R.; Culley, David E.; Chrisler, William B.; Brockman, Fred J.

    2007-12-01

    Technologies are needed to study gene expression at the level of individual cells within a population or microbial community. Fluorescent in situ hybridization (FISH) supplies high-resolution spatial information and has been widely applied to study microbial communities at the rRNA level. While mRNA-targeted FISH has been popular for studying gene expression in eukaryotic cells, very little success has been achieved with prokaryotes. At present, detection of specific mRNAs in individual prokaryotic cells requires the use of in situ-RT-PCR or tyramide signal amplification (TSA). In this study we used DNA oligonucleotide probes labeled with a single near-infrared dye in FISH assays to detect multicopy plasmid-based and endogenous mRNA molecules in Escherichia coli and Shewanella oneidensis MR-1. We took advantage of the fact there is much less background signal produced by biological materials and support matrices in the near-infrared spectrum and thus long camera exposure times could be used. In addition, we demonstrate that a combination of probes targeting both rRNA and mRNA could be successfully employed within the same FISH assay. These results, as well as ongoing R&D improvements in NIR and infrared dyes, indicate the FISH approach we demonstrated could be applied in certain environmental settings to monitor gene expression in mixed populations.

  16. Preservation of Steamed Fish (Rastrelliger Sp) With Combine Method Using Sodium Acetate, Lactic Acid Bacteria Culture and Vacuum Packaging

    OpenAIRE

    Betty Sri Laksmi Jenie, . Nuratifa, . Suliantari

    2001-01-01

    This study was carried out to improve the safety and shelf life of cooked kembung fish (Rastrelliger sp), a traditional food called pindang fish. Fresh eviscerated fish was fisrt soaked in 2% NaCl solution for 15 minutes, drained, washed with tap water and drained again. Sodium chloride at 12% concentration (w/w) was distributed on the whole surface of the fish. Fish was then laid on a wooden basket inside a clay pot, steamed for 30 minutes, and then cooled. Combine method applied to the stea...

  17. Numbers and locations of native bacteria on field-grown wheat roots quantified by fluorescence in situ hybridization (FISH).

    Science.gov (United States)

    Watt, Michelle; Hugenholtz, Philip; White, Rosemary; Vinall, Kerry

    2006-05-01

    Native bacteria, Pseudomonas and filamentous bacteria were quantified and localized on wheat roots grown in the field using fluorescence in situ hybridization (FISH). Seminal roots were sampled through the season from unploughed soil in a conservation farming system. Such soils are spatially heterogeneous, and many roots grow slowly through hard soil with cracks and pores containing dead roots remnant from previous crops. Root and rhizosphere morphology, and contact with soil particles were preserved, and autofluorescence was avoided by observing sections in the far-red with Cy5 and Cy5.5 fluorochromes. Spatial analyses showed that bacteria were embedded in a stable matrix (biofilm) within 11 microm of the root surface (range 2-30 microm) and were clustered on 40% of roots. Half the clusters co-located with axial grooves between epidermal cells, soil particles, cap cells or root hairs; the other half were not associated with visible features. Across all wheat roots, although variable, bacteria averaged 15.4 x 10(5) cells per mm(3) rhizosphere, and of these, Pseudomonas and filaments comprised 10% and 4%, respectively, with minor effects of sample time, and no effect of plant age. Root caps were most heavily colonized by bacteria along roots, and elongation zones least heavily colonized. Pseudomonas varied little with root development and were 17% of bacteria on the elongation zone. Filamentous bacteria were not found on the elongation zone. The most significant factor to rhizosphere populations along a wheat root, however, was contact with dead root remnants, where Pseudomonas were reduced but filaments increased to 57% of bacteria (P < 0.001). This corresponded with analyses of root remnants showing they were heavily colonized by bacteria, with 48% filaments (P < 0.001) and 1.4%Pseudomonas (P = 0.014). Efforts to manage rhizosphere bacteria for sustainable agricultural systems should continue to focus on root cap and mucilage chemistry, and remnant roots as

  18. Comparison of individual and pooled sampling methods for detecting bacterial pathogens of fish

    Science.gov (United States)

    Mumford, Sonia; Patterson, Chris; Evered, J.; Brunson, Ray; Levine, J.; Winton, J.

    2005-01-01

    Examination of finfish populations for viral and bacterial pathogens is an important component of fish disease control programs worldwide. Two methods are commonly used for collecting tissue samples for bacteriological culture, the currently accepted standards for detection of bacterial fish pathogens. The method specified in the Office International des Epizooties Manual of Diagnostic Tests for Aquatic Animals permits combining renal and splenic tissues from as many as 5 fish into pooled samples. The American Fisheries Society (AFS) Blue Book/US Fish and Wildlife Service (USFWS) Inspection Manual specifies the use of a bacteriological loop for collecting samples from the kidney of individual fish. An alternative would be to more fully utilize the pooled samples taken for virology. If implemented, this approach would provide substantial savings in labor and materials. To compare the relative performance of the AFS/USFWS method and this alternative approach, cultures of Yersinia ruckeri were used to establish low-level infections in groups of rainbow trout (Oncorhynchus mykiss) that were sampled by both methods. Yersinia ruckeri was cultured from 22 of 37 groups by at least 1 method. The loop method yielded 18 positive groups, with 1 group positive in the loop samples but negative in the pooled samples. The pooled samples produced 21 positive groups, with 4 groups positive in the pooled samples but negative in the loop samples. There was statistically significant agreement (Spearman coefficient 0.80, P < 0.001) in the relative ability of the 2 sampling methods to permit detection of low-level bacterial infections of rainbow trout.

  19. Application of asymptotic waveform approximation technique to hybrid FE/BI method for 3D scattering

    Institute of Scientific and Technical Information of China (English)

    PENG Zhen; SHENG XinQing

    2007-01-01

    The asymptotic waveform evaluation (AWE) technique is a rational function approximation method in computational mathematics, which is used in many applications in computational electromagnetics. In this paper, the performance of the AWE technique in conjunction with hybrid finite element/boundary integral (FE/BI) method is firstly investigated. The formulation of the AWE applied in hybrid FE/BI method is given in detail. The characteristic implementation of the application of the AWE to the hybrid FE/BI method is discussed. Numerical results demonstrate that the AWE technique can greatly speed up the hybrid FE/BI method to acquire wide-band and wide-angle backscatter radar-cross-section (RCS) by complex targets.

  20. A hybrid semi-automatic method for liver segmentation based on level-set methods using multiple seed points.

    Science.gov (United States)

    Yang, Xiaopeng; Yu, Hee Chul; Choi, Younggeun; Lee, Wonsup; Wang, Baojian; Yang, Jaedo; Hwang, Hongpil; Kim, Ji Hyun; Song, Jisoo; Cho, Baik Hwan; You, Heecheon

    2014-01-01

    The present study developed a hybrid semi-automatic method to extract the liver from abdominal computerized tomography (CT) images. The proposed hybrid method consists of a customized fast-marching level-set method for detection of an optimal initial liver region from multiple seed points selected by the user and a threshold-based level-set method for extraction of the actual liver region based on the initial liver region. The performance of the hybrid method was compared with those of the 2D region growing method implemented in OsiriX using abdominal CT datasets of 15 patients. The hybrid method showed a significantly higher accuracy in liver extraction (similarity index, SI=97.6 ± 0.5%; false positive error, FPE = 2.2 ± 0.7%; false negative error, FNE=2.5 ± 0.8%; average symmetric surface distance, ASD=1.4 ± 0.5mm) than the 2D (SI=94.0 ± 1.9%; FPE = 5.3 ± 1.1%; FNE=6.5 ± 3.7%; ASD=6.7 ± 3.8mm) region growing method. The total liver extraction time per CT dataset of the hybrid method (77 ± 10 s) is significantly less than the 2D region growing method (575 ± 136 s). The interaction time per CT dataset between the user and a computer of the hybrid method (28 ± 4 s) is significantly shorter than the 2D region growing method (484 ± 126 s). The proposed hybrid method was found preferred for liver segmentation in preoperative virtual liver surgery planning.

  1. Comparison of chemical, electrophoretic and in vitro digestion methods for predicting fish meal nutritive quality

    DEFF Research Database (Denmark)

    Bassompierre, M.; Larsen, K.L.; Zimmermann, W.

    1998-01-01

    Chemical, electrophoretic and in vitro digestion methods were compared with respect to predictions given regarding fish meal (FM) quality. FMs were manufactured by mixing a press-cake, with spray dried stickwater concentrate from the identical raw material, thereby providing samples containing...

  2. Conductance method for quantitative determination of Photobacterium phosphoreum in fish products

    DEFF Research Database (Denmark)

    Dalgaard, Paw; Mejlholm, Ole; Huss, Hans Henrik

    1996-01-01

    This paper presents the development of a sensitive and selective conductance method for quantitative determination of Photobacterium phosphoreum in fresh fish. A calibration curve with a correlation coefficient of -0.981 was established from conductance detection times (DT) for estimation of cell...... organisms tested. In naturally contaminated fresh fish, P. phosphoreum was specifically enumerated when it made up 0.1% of the total level of micro-organisms. The repeatability (S.D.%) of the conductance assay ranged from 2.9% to 7.3%...

  3. A Stiffness-Adjusting Method to Improve Thrust Efficiency of a Two-Joint Robotic Fish

    Directory of Open Access Journals (Sweden)

    Dong Xu

    2014-04-01

    Full Text Available Fish are very efficient swimmers. In this paper, we studied a two degree-of-freedom (DOF propeller that mimic fish caudal fin like locomotion. Kinematics modelling and hydrodynamic CFD analyses of the two DOF propellers were conducted. According to the CFD simulation, we show that negative power was generated within the flapping cycle, and wake flow at different instant was demonstrated. Based on the dynamic model, we compared the thrust efficiency under different stiffness control method. The results show that the thrust efficiency was enhanced under moderate stiffness control strategy.

  4. Isolation and characterization of 5S rDNA sequences in catfishes genome (Heptapteridae and Pseudopimelodidae): perspectives for rDNA studies in fish by C0t method.

    Science.gov (United States)

    Gouveia, Juceli Gonzalez; Wolf, Ivan Rodrigo; de Moraes-Manécolo, Vivian Patrícia Oliveira; Bardella, Vanessa Belline; Ferracin, Lara Munique; Giuliano-Caetano, Lucia; da Rosa, Renata; Dias, Ana Lúcia

    2016-12-01

    Sequences of 5S ribosomal RNA (rRNA) are extensively used in fish cytogenomic studies, once they have a flexible organization at the chromosomal level, showing inter- and intra-specific variation in number and position in karyotypes. Sequences from the genome of Imparfinis schubarti (Heptapteridae) were isolated, aiming to understand the organization of 5S rDNA families in the fish genome. The isolation of 5S rDNA from the genome of I. schubarti was carried out by reassociation kinetics (C0t) and PCR amplification. The obtained sequences were cloned for the construction of a micro-library. The obtained clones were sequenced and hybridized in I. schubarti and Microglanis cottoides (Pseudopimelodidae) for chromosome mapping. An analysis of the sequence alignments with other fish groups was accomplished. Both methods were effective when using 5S rDNA for hybridization in I. schubarti genome. However, the C0t method enabled the use of a complete 5S rRNA gene, which was also successful in the hybridization of M. cottoides. Nevertheless, this gene was obtained only partially by PCR. The hybridization results and sequence analyses showed that intact 5S regions are more appropriate for the probe operation, due to conserved structure and motifs. This study contributes to a better understanding of the organization of multigene families in catfish's genomes.

  5. [Evaluation of PNA-FISH method for direct identification of Candida species in blood culture samples and its potential impact on guidance of antifungal therapy].

    Science.gov (United States)

    Doğan, Özlem; İnkaya, Ahmet Çağkan; Gülmez, Dolunay; Uzun, Ömrüm; Akova, Murat; Arıkan Akdağlı, Sevtap

    2016-10-01

    Early antifungal therapy has a major influence on survival in candidemia. Rapid identification of the species has importance for the treatment, prediction of the species-specific primary resistance and variable antifungal susceptibility. Recently, molecular-based methods attempt to reduce the time between the positive signal of a blood culture and identification of the fungus. PNA-FISH (Peptide nucleic acid fluorescence in situ hybridization) assay distinguishes a number of frequently isolated Candida species in groups following the growth in blood culture. The aim of this study was to investigate the correlation of the species identified by PNA-FISH with conventional identification methods in yeast positive blood cultures and its influence on the selection of antifungal therapy. Specimens of adult patients diagnosed as yeast with Gram stain in signal-positive blood cultures between August to December 2013, were included in the study. The strains were concomitantly cultivated by subculturing from the blood culture bottles onto solid media and identified by conventional methods (germ tube test, ID32C and morphology on cornmeal Tween 80 agar). Rapid species identification was performed by Yeast Traffic Light PNA-FISH, which generates green flourescence for Candida albicans and Candida parapsilosis, yellow for Candida tropicalis, and red for Candida krusei and Candida glabrata. C.tropicalis was identified as a single species whereas the others were identified in pairs. The time points when the yeast positive blood culture bottle was received by the mycology laboratory and reporting of the species identification results by PNA-FISH and the conventional methods were recorded. Seven C.albicans, six C.glabrata, three C.parapsilosis, one C.tropicalis, one C.krusei, one Cryptococcus neoformans, one Saprochaete capitata (Blastoschizomyces capitatus), one C.albicans and Candida dubliniensis, one C.krusei and C.dubliniensis, and one C.glabrata and C.parapsilosis were

  6. Fitting method for hybrid temperature control in smart home environment

    OpenAIRE

    CHENG, Zhuo; TAN, Yasuo; Lim, Azman Osman

    2014-01-01

    The design of control system is crucial for improving the comfort level of home environment. Cyber-Physical Systems (CPSs) can offer numerous opportunities to design high efficient control systems. In this paper, we focus on the design of temperature control systems. By using the idea of CPS, a hybrid temperature control (HTC) system is proposed. It combines supervisory and proportional-integral-derivative (PID) controllers. Through an energy efficient temperature control (EETC) algorithm, HT...

  7. 5-bp Classical Satellite DNA Loci from Chromosome-1 Instability in Cervical Neoplasia Detected by DNA Breakage Detection/Fluorescence in Situ Hybridization (DBD-FISH).

    Science.gov (United States)

    Cortés-Gutiérrez, Elva I; Ortíz-Hernández, Brenda L; Dávila-Rodríguez, Martha I; Cerda-Flores, Ricardo M; Fernández, José Luis; López-Fernández, Carmen; Gosálvez, Jaime

    2013-02-19

    We aimed to evaluate the association between the progressive stages of cervical neoplasia and DNA damage in 5-bp classical satellite DNA sequences from chromosome-1 in cervical epithelium and in peripheral blood lymphocytes using DNA breakage detection/fluorescence in situ hybridization (DBD-FISH). A hospital-based unmatched case-control study was conducted in 2011 with a sample of 30 women grouped according to disease stage and selected according to histological diagnosis; 10 with low-grade squamous intraepithelial lesions (LG-SIL), 10 with high-grade SIL (HG-SIL), and 10 with no cervical lesions, from the Unidad Medica de Alta Especialidad of The Mexican Social Security Institute, IMSS, Mexico. Specific chromosome damage levels in 5-bp classical satellite DNA sequences from chromosome-1 were evaluated in cervical epithelium and peripheral blood lymphocytes using the DBD-FISH technique. Whole-genome DNA hybridization was used as a reference for the level of damage. Results of Kruskal-Wallis test showed a significant increase according to neoplastic development in both tissues. The instability of 5-bp classical satellite DNA sequences from chromosome-1 was evidenced using chromosome-orientation FISH. In conclusion, we suggest that the progression to malignant transformation involves an increase in the instability of 5-bp classical satellite DNA sequences from chromosome-1.

  8. Fluorescence in situ hybridization and sequential catalysed reporter deposition (2C-FISH for the flow cytometric sorting of freshwater ultramicrobacteria

    Directory of Open Access Journals (Sweden)

    Stefan M Neuenschwander

    2015-03-01

    Full Text Available Flow cytometric sorting is a powerful tool to physically separate cells within mixed microbial communities. If combined with phylogenetic staining (fluorescence in situ hybridization, FISH it allows to specifically sort defined genotypic microbial populations from complex natural samples. However, the targeted enrichment of freshwater ultramicrobacteria, such as members of the LD12 clade of Alphaproteobacteria (SAR11-IIIb, is still challenging. Current FISH protocols, even in combination with signal amplification by catalysed reporter deposition (CARD, are not sufficiently sensitive for the distinction of these bacteria from background noise by flow cytometry, presumably due to their low ribosome content and small cell sizes. We, therefore, modified a CARD based flow sorting protocol with the aim of increasing its sensitivity to a level sufficient for ultramicrobacteria. This was achieved by a second signal amplification step mediated by horseradish peroxidase labelled antibodies targeted to the fluorophores that were previously deposited by CARD-FISH staining. The protocol was tested on samples from an oligo-mesotrophic lake. Ultramicrobacteria affiliated with LD12 Alphaproteobacteria could be successfully sorted to high purity by flow cytometry. The ratios of median fluorescence signal to background ranged around 20, and hybridization rates determined by flow cytometry were comparable to those obtained by fluorescence microscopy. Potential downstream applications of our modified cell staining approach range from the analysis of microdiversity within 16S rRNA-defined populations to that of functional properties, such as the taxon-specific incorporation rates of organic substrates.

  9. 5-bp Classical Satellite DNA Loci from Chromosome-1 Instability in Cervical Neoplasia Detected by DNA Breakage Detection/Fluorescence in Situ Hybridization (DBD-FISH)

    Science.gov (United States)

    Cortés-Gutiérrez, Elva I.; Ortíz-Hernández, Brenda L.; Dávila-Rodríguez, Martha I.; Cerda-Flores, Ricardo M; Fernández, José Luis; López-Fernández, Carmen; Gosálvez, Jaime

    2013-01-01

    We aimed to evaluate the association between the progressive stages of cervical neoplasia and DNA damage in 5-bp classical satellite DNA sequences from chromosome-1 in cervical epithelium and in peripheral blood lymphocytes using DNA breakage detection/fluorescence in situ hybridization (DBD-FISH). A hospital-based unmatched case-control study was conducted in 2011 with a sample of 30 women grouped according to disease stage and selected according to histological diagnosis; 10 with low-grade squamous intraepithelial lesions (LG-SIL), 10 with high-grade SIL (HG-SIL), and 10 with no cervical lesions, from the Unidad Medica de Alta Especialidad of The Mexican Social Security Institute, IMSS, Mexico. Specific chromosome damage levels in 5-bp classical satellite DNA sequences from chromosome-1 were evaluated in cervical epithelium and peripheral blood lymphocytes using the DBD-FISH technique. Whole-genome DNA hybridization was used as a reference for the level of damage. Results of Kruskal-Wallis test showed a significant increase according to neoplastic development in both tissues. The instability of 5-bp classical satellite DNA sequences from chromosome-1 was evidenced using chromosome-orientation FISH. In conclusion, we suggest that the progression to malignant transformation involves an increase in the instability of 5-bp classical satellite DNA sequences from chromosome-1. PMID:23429197

  10. 5-bp Classical Satellite DNA Loci from Chromosome-1 Instability in Cervical Neoplasia Detected by DNA Breakage Detection/Fluorescence in Situ Hybridization (DBD-FISH

    Directory of Open Access Journals (Sweden)

    Jaime Gosálvez

    2013-02-01

    Full Text Available We aimed to evaluate the association between the progressive stages of cervical neoplasia and DNA damage in 5-bp classical satellite DNA sequences from chromosome-1 in cervical epithelium and in peripheral blood lymphocytes using DNA breakage detection/fluorescence in situ hybridization (DBD-FISH. A hospital-based unmatched case-control study was conducted in 2011 with a sample of 30 women grouped according to disease stage and selected according to histological diagnosis; 10 with low-grade squamous intraepithelial lesions (LG-SIL, 10 with high-grade SIL (HG-SIL, and 10 with no cervical lesions, from the Unidad Medica de Alta Especialidad of The Mexican Social Security Institute, IMSS, Mexico. Specific chromosome damage levels in 5-bp classical satellite DNA sequences from chromosome-1 were evaluated in cervical epithelium and peripheral blood lymphocytes using the DBD-FISH technique. Whole-genome DNA hybridization was used as a reference for the level of damage. Results of Kruskal-Wallis test showed a significant increase according to neoplastic development in both tissues. The instability of 5-bp classical satellite DNA sequences from chromosome-1 was evidenced using chromosome-orientation FISH. In conclusion, we suggest that the progression to malignant transformation involves an increase in the instability of 5-bp classical satellite DNA sequences from chromosome-1.

  11. Asexual Reproduction Does Not Apparently Increase the Rate of Chromosomal Evolution: Karyotype Stability in Diploid and Triploid Clonal Hybrid Fish (Cobitis, Cypriniformes, Teleostei).

    Science.gov (United States)

    Majtánová, Zuzana; Choleva, Lukáš; Symonová, Radka; Ráb, Petr; Kotusz, Jan; Pekárik, Ladislav; Janko, Karel

    2016-01-01

    Interspecific hybridization, polyploidization and transitions from sexuality to asexuality considerably affect organismal genomes. Especially the last mentioned process has been assumed to play a significant role in the initiation of chromosomal rearrangements, causing increased rates of karyotype evolution. We used cytogenetic analysis and molecular dating of cladogenetic events to compare the rate of changes of chromosome morphology and karyotype in asexually and sexually reproducing counterparts in European spined loach fish (Cobitis). We studied metaphases of three sexually reproducing species and their diploid and polyploid hybrid clones of different age of origin. The material includes artificial F1 hybrid strains, representatives of lineage originated in Holocene epoch, and also individuals of an oldest known age to date (roughly 0.37 MYA). Thereafter we applied GISH technique as a marker to differentiate parental chromosomal sets in hybrids. Although the sexual species accumulated remarkable chromosomal rearrangements after their speciation, we observed no differences in chromosome numbers and/or morphology among karyotypes of asexual hybrids. These hybrids possess chromosome sets originating from respective parental species with no cytogenetically detectable recombinations, suggesting their integrity even in a long term. The switch to asexual reproduction thus did not provoke any significant acceleration of the rate of chromosomal evolution in Cobitis. Asexual animals described in other case studies reproduce ameiotically, while Cobitis hybrids described here produce eggs likely through modified meiosis. Therefore, our findings indicate that the effect of asexuality on the rate of chromosomal change may be context-dependent rather than universal and related to particular type of asexual reproduction.

  12. NEURAL NETWORKS CONTROL OF THE HYBRID POWER UNIT BASED ON THE METHOD OF ADAPTIVE CRITICS

    Directory of Open Access Journals (Sweden)

    S. Serikov

    2012-01-01

    Full Text Available The formal statement of the optimization problem of hybrid vehicle power unit control is given. Its solving by neural networks method application on the basis of adaptive critic is considered.

  13. THE STRESS SUBSPACE OF HYBRID STRESS ELEMENT AND THE DIAGONALIZATION METHOD FOR FLEXIBILITY MATRIX H

    Institute of Scientific and Technical Information of China (English)

    张灿辉; 冯伟; 黄黔

    2002-01-01

    The following is proved: 1 ) The linear independence of assumed stress modes is the necessary and sufficient condition for the nonsingular fiexibility matrix; 2) The equivalent assumed stress modes lead to the identical hybrid element. The Hilbert stress subspace of the assumed stress modes is established. So, it is easy to derive the equivalent orthogonal normal stress modes by Schmidt 's method. Because of the resulting diagonal fiexibility matrix, the identical hybrid element is free from the complex matrix inversion so that the hybrid efficiency is improved greatly. The numerical examples show that the method is effective.

  14. Magnetic Fe3O4/Ag Hybrid Nanoparticles as Surface-Enhanced Raman Scattering Substrate for Trace Analysis of Furazolidone in Fish Feeds

    Directory of Open Access Journals (Sweden)

    Wansong Yu

    2014-01-01

    Full Text Available Nanoparticles (NPs composed of ferromagnetic and noble metal materials show dual functions of magnetic activity and local surface plasmon response and have great potential as substrates for surface-enhanced Raman scattering (SERS in trace analysis. Easy-to-prepare superparamagnetic Fe3O4/Ag hybrid NPs were synthesized and optimized by adjusting the ratio of silver particles aggregated with APTMS-modified Fe3O4 NPs. The hybrid NPs were assembled under an external magnetic field before being used as substrate for SERS analysis. The SERS spectral features of furazolidone standard solution were clearly identified at concentrations as low as 40 ng mL−1, and furazolidone in fish feeds could be detected at 500 ng g−1. The results indicated that the Fe3O4/Ag hybrid NPs as SERS substrates had a great potential for detection of trace amount of furazolidone and other prohibited or restricted antibiotics in the animal and fish feeds.

  15. A Rough Set GA-based Hybrid Method for Robot Path Planning

    Institute of Scientific and Technical Information of China (English)

    Cheng-Dong Wu; Ying Zhang; Meng-Xin Li; Yong Yue

    2006-01-01

    In this paper, a hybrid method based on rough sets and genetic algorithms, is proposed to improve the speed of robot path planning. Decision rules are obtained using rough set theory. A series of available paths are produced by training obtained minimal decision rules. Path populations are optimised by using genetic algorithms until the best path is obtained. Experiment results show that this hybrid method is capable of improving robot path planning speed.

  16. speciation through asexuality in fish: postzygotic reproductive isolation may be completed in spite of fertility of hybrids

    Directory of Open Access Journals (Sweden)

    Karel Janko

    2015-12-01

    Altogether, it appears that initiation of hybrid asexuality and the completion of speciation process through formation of postRIMs are interconnected phenomena. Both processes are linked to the genetic divergence of hybridizing taxa: initially, hybridization between little diverged species leads to recombinant and fertile hybrids allowing intensive gene flow. As the hybridizing taxa continue to diverge, clonally reproducing hybrid females and sterile males become dominant and the gene flow ceases. The speciation may therefore be completed through asexuality of hybrids The work was supported by grant no. 13-12580S provided by the Czech Science Foundation (www.gacr.cz. Further support was provided by the Academy of Sciences of the Czech Republic (www.cas.cz by the grant no. RVO 67985904

  17. Hybrid statistics-simulations based method for atom-counting from ADF STEM images.

    Science.gov (United States)

    De Wael, Annelies; De Backer, Annick; Jones, Lewys; Nellist, Peter D; Van Aert, Sandra

    2017-01-25

    A hybrid statistics-simulations based method for atom-counting from annular dark field scanning transmission electron microscopy (ADF STEM) images of monotype crystalline nanostructures is presented. Different atom-counting methods already exist for model-like systems. However, the increasing relevance of radiation damage in the study of nanostructures demands a method that allows atom-counting from low dose images with a low signal-to-noise ratio. Therefore, the hybrid method directly includes prior knowledge from image simulations into the existing statistics-based method for atom-counting, and accounts in this manner for possible discrepancies between actual and simulated experimental conditions. It is shown by means of simulations and experiments that this hybrid method outperforms the statistics-based method, especially for low electron doses and small nanoparticles. The analysis of a simulated low dose image of a small nanoparticle suggests that this method allows for far more reliable quantitative analysis of beam-sensitive materials.

  18. 荧光原位杂交法(FISH)快速检测尿液中金黄色葡萄球菌%Fluorescence in Situ Hybridization Rapidly Detects Staphylococcus Aureus in Urinary Tract Infection Samples

    Institute of Scientific and Technical Information of China (English)

    吴青; 李艳; 汪明; 顾剑; 胡慧霞; 徐万洲; 韦传东; 吴泽刚

    2011-01-01

    目的 利用荧光原位杂交法快速检测尿液中的金黄色葡萄球菌,筛查金黄色葡萄球菌所致的尿路感染.方法 针对金黄色葡萄球菌16sRNA设计荧光标记的核苷酸探针,利用荧光原位杂交技术(FISH)对132例疑似尿路感染患者中段尿标本进行检测;同时进行中段尿培养.结果 荧光原位杂交法检测阳性的有9例,与中段尿培养比较,其敏感度为100.0%,特异度为99.2%,阳性预期值为90.0%,阴性预期值为100.0%.结论 荧光原位杂交能快速检测尿液中的金黄色葡萄球菌,对金黄色葡萄球菌所致的尿路感染进行快速诊断.%Objective The rapid detection of Staphylococcus aureus in urine by fluorescence in situ hybridization (FISH)method. Screening urinary tract infection (UTIs) caused by Staphylococcus aureus. Methods Probes that were specific for Staphylococcus aureus were designed based on the conserved 16 s RNA sequences. Detected a total of 132 urine samples using FISH method. And all of tbese samples tested via traditional culturing techniques. Results 9 of these samples tested positive for a UTI via FISH analysis. Compared to conventional methods of bacterial identification,the FISH method had a sensitivity of 100.0% ,specificity of 99. 2%,positive expected value of 90. 0% and negative expected value of 100. 0%. Conclusion FISH had the potential to become an extremely useful diagnostic tool for UTIs because it has a quick turnaround time and high accuracy.

  19. DUAL RECIPROCITY HYBRID BOUNDARY NODE METHOD FOR THREE-DIMENSIONAL ELASTICITY WITH BODY FORCE

    Institute of Scientific and Technical Information of China (English)

    Fei Yan; Yuanhan Wang; Yu Miao; Fei Tan

    2008-01-01

    Combining Dual Reciprocity Method (DRM) with Hybrid Bòundary Node Method(HBNM),the Dual Reciprocity Hybrid Boundary Node Method (DRHBNM) is developed for three-dimensional linear elasticity problems with body force.This method can be used to solve the elasticity problems with body force without domain integral,which is inevitable by HBNM.To demonstrate the versatility and the fast convergence of this method,some numerical examples of 3-D elasticity problems with body forces are examined.The computational results show that the present method is effective and can be widely applied in solving practical engineering problems.

  20. An Accurate Block Hybrid Collocation Method for Third Order Ordinary Differential Equations

    Directory of Open Access Journals (Sweden)

    Lee Ken Yap

    2014-01-01

    Full Text Available The block hybrid collocation method with two off-step points is proposed for the direct solution of general third order ordinary differential equations. Both the main and additional methods are derived via interpolation and collocation of the basic polynomial. These methods are applied in block form to provide the approximation at five points concurrently. The stability properties of the block method are investigated. Some numerical examples are tested to illustrate the efficiency of the method. The block hybrid collocation method is also implemented to solve the nonlinear Genesio equation and the problem in thin film flow.

  1. [Determination of histamine content in canned fish products determined by the colorimetry method of Hardy and Smith].

    Science.gov (United States)

    Windyga, B; Grochowska, A; Sciezyńska, H; Górecka, K; Fonberg-Broczek, M

    1992-01-01

    The content of histamine in 79 samples of imported canned fish products (sardines, mackerel) was determined. Histamine was assayed by colorimetric method of Hardy and Smith. In 18% of tested products (sardines) levels of histamine were exceeded 20 mg/100 of product. Usefulness of this method in routine quantitative determination of histamine content in canned fish products was documented.

  2. Numerical Investigations on Hybrid Fuzzy Fractional Differential Equations by Improved Fractional Euler Method

    Directory of Open Access Journals (Sweden)

    D. Vivek

    2016-11-01

    Full Text Available In this paper, the improved Euler method is used for solving hybrid fuzzy fractional differential equations (HFFDE of order $q \\in (0, 1 $ under Caputo-type fuzzy fractional derivatives. This method is based on the fractional Euler method and generalized Taylor's formula. The accuracy and efficiency of the proposed method is demonstrated by solving numerical examples.

  3. Hybrid molecular–continuum methods: From prototypes to coupling software

    KAUST Repository

    Neumann, Philipp

    2014-02-01

    In this contribution, we review software requirements in hybrid molecular-continuum simulations. For this purpose, we analyze a prototype implementation which combines two frameworks-the Molecular Dynamics framework MarDyn and the framework Peano for spatially adaptive mesh-based simulations-and point out particular challenges of a general coupling software. Based on this analysis, we discuss the software design of our recently published coupling tool. We explain details on its overall structure and show how the challenges that arise in respective couplings are resolved by the software. © 2013 Elsevier Ltd. All rights reserved.

  4. A populational survey of 45S rDNA polymorphism in the Jefferson salamander Ambystoma jeffersonianum revealed by fluorescence in situ hybridization (FISH)

    Institute of Scientific and Technical Information of China (English)

    Ke BI; James P.BOGART; Jinzhong FU

    2009-01-01

    The chromosomal localization of 45S ribosomal RNA genes in Ambystoma jeffersonianum was determined by fluorescence in situ hybridization with 18S rDNA fragment as a probe (FISH-rDNA). Our results revealed the presence of rDNA polymorphism among A.jeffersonianum populations in terms of number, location and FISH signal intensity on the chromosomes. Nine rDNA cytotypes were found in ten geographically isolated populations and most of them contained derivative rDNA sites. Our preliminary study provides strong indication of karyotypic diversification of A.jeffersonianum that is demonstrated by intraspecific variation of 45S rDNA cytotypes. rDNA cytotype polymorphism has been described in many other caudate amphibians. We predict that habitat isolation, low dispersal ability and decline of effective population size could facilitate the fixation and accumulation of variable rDNA cytotypes during their chromosome evolution [Current Zoology 55(2):145-149,2009].

  5. A populational survey of 45S rDNA polymorphism in the Jefferson salamander Ambystoma jeffersonianum revealed by fluorescence in situ hybridization (FISH

    Directory of Open Access Journals (Sweden)

    Jinzhong FU

    2009-04-01

    Full Text Available The chromosomal localization of 45S ribosomal RNA genes in Ambystoma jeffersonianum was determined by fluorescence in situ hybridization with 18S rDNA fragment as a probe (FISH-rDNA. Our results revealed the presence of rDNA polymorphism among A.jeffersonianum populations in terms of number, location and FISH signal intensity on the chromosomes. Nine rDNA cytotypes were found in ten geographically isolated populations and most of them contained derivative rDNA sites. Our preliminary study provides strong indication of karyotypic diversification of A.jeffersonianum that is demonstrated by intraspecific variation of 45S rDNA cytotypes. rDNA cytotype polymorphism has been described in many other caudate amphibians. We predict that habitat isolation, low dispersal ability and decline of effective population size could facilitate the fixation and accumulation of variable rDNA cytotypes during their chromosome evolution.

  6. Effects of the acute exposition to glyphosate-based herbicide on oxidative stress parameters and antioxidant responses in a hybrid Amazon fish surubim (Pseudoplatystoma sp).

    Science.gov (United States)

    Sinhorin, Valéria Dornelles Gindri; Sinhorin, Adilson Paulo; Teixeira, Jhonnes Marcos dos Santos; Miléski, Kelly Márcia Lazarotto; Hansen, Paula Carine; Moreira, Paula Sueli Andrade; Kawashita, Nair Honda; Baviera, Amanda Martins; Loro, Vania Lúcia

    2014-08-01

    The aim of this study was to investigate the effects of acute glyphosate (active ingredient) exposure on the oxidative stress biomarkers and antioxidant defenses of a hybrid surubim (Pseudoplatystoma sp). The fish were exposed to different herbicide concentrations for 96 h. The thiobarbituric acid-reactive substances (TBARS), protein carbonyls and antioxidant responses were verified. The 15 mg a.pL(-1) of herbicide resulted in the death of 50% of the fish after 96 h. An increase in liver and muscle TBARS levels was observed when fish were exposed to the herbicide. The protein carbonyl content was also increased in the liver (4.5mg a.pL(-1) concentration) and brain (2.25 mg a.pL(-1) concentration). The antioxidant activities decreased in the liver and brain after exposure to herbicide. Levels of ascorbic acid in the liver (2.25 mg a.pL(-1) and 4.5 mg a.pL(-1) concentrations) and brain (2.25 mg a.pL(-1) concentration) were increased post-treatment. Levels of total thiols were increased in the liver and brain (2.25 mg L(-1) and 7.5mg a.pL(-1), respectively). Glyphosate exposure, at the tested concentrations affects surubim health by promoting changes that can affect their survival in natural environment. Some parameters as TBARS and protein carbonyl could be early biomarkers for Roundup exposure in this fish species.

  7. Detection and Analysis of DNA Hybridization Characteristics by using Thermodynamic Method

    Energy Technology Data Exchange (ETDEWEB)

    Kim, D.K.; Kwon, Y.S. [Donga University, Pusan (Korea)

    2002-06-01

    The determination of DNA hybridization reaction can apply the molecular biology research, clinic diagnostics, bioengineering, environment monitoring, food science and application area. So, the improvement of DNA hybridization detection method is very important for the determination of this hybridization reaction. Several molecular biological techniques require accurate predictions of matched versus mismatched hybridization thermodynamics, such as PCR, sequencing by hybridization, gene diagnostics and antisense oligonucleotide probes. In addition, recent developments of oligonucleotide chip arrays as means for biochemical assays and DNA sequencing requires accurate knowledge of hybridization thermodynamics and population ratios at matched and mismatched target sites. In this study, we report the characteristics of the probe and matched, mismatched target oligonucleotide hybridization reaction using thermodynamic method. Thermodynamic of 5 oligonucleotides with central and terminal mismatch sequences were obtained by measured UV-absorbance as a function of temperature. The data show that the nearest-neighbor base-pair model is adequate for predicting thermodynamics of oligonucleotides with average deviations for {delta}H{sup O}, {delta}S{sup O}, {delta}G{sub 37}{sup O} and T{sub m}, respectively. (author). 6 refs., 4 figs., 5 tabs.

  8. Fluorescence in situ hybridization (FISH screening for the 22q11.2 deletion in patients with clinical features of velocardiofacial syndrome but without cardiac anomalies

    Directory of Open Access Journals (Sweden)

    Paula Sandrin-Garcia

    2007-01-01

    Full Text Available The velocardiofacial syndrome (VCFS, a condition associated with 22q11.2 deletions, is characterized by a typical facies, palatal anomalies, learning disabilities, behavioral disturbances and cardiac defects. We investigated the frequency of these chromosomal deletions in 16 individuals with VCFS features who presented no cardiac anomalies, one of the main characteristics of VCFS. Fluorescent in situ hybridization (FISH with the N25 (D22S75; 22q11.2 probe revealed deletions in ten individuals (62%. Therefore, even in the absence of cardiac anomalies testing for the 22q11.2 microdeletions in individuals showing other clinical features of this syndrome is recommended.

  9. Topology optimization of bounded acoustic problems using the hybrid finite element-wave based method

    DEFF Research Database (Denmark)

    Goo, Seongyeol; Wang, Semyung; Kook, Junghwan

    2017-01-01

    This paper presents an alternative topology optimization method for bounded acoustic problems that uses the hybrid finite element-wave based method (FE-WBM). The conventional method for the topology optimization of bounded acoustic problems is based on the finite element method (FEM), which...... is limited to low frequency applications due to considerable computational efforts. To this end, we propose a gradient-based topology optimization method that uses the hybrid FE-WBM whereby the entire domain of a problem is partitioned into design and non-design domains. In this respect, the FEM is used...... as a design domain of topology optimization, and the WBM is used as a non-design domain to increase computational efficiency. The adjoint variable method based on the hybrid FE-WBM is also proposed as a means of computing design sensitivities. Numerical examples are presented to demonstrate the effectiveness...

  10. Otolith chemistry of fishes from Kosi Bay, South Africa: A preliminary multiple analytical methods approach to reconstruct fish migrations

    Science.gov (United States)

    Holbach, Andreas; Cowley, Paul D.; Kramar, Utz; Neumann, Thomas

    2012-08-01

    Over exploitation of fish stocks in coastal areas is a subject of global concern. Increasing numbers of traditional fish traps, recreational fishing effort and unknown extents of illegal gillnetting are blamed for the declining abundance of estuarine-dependent fish species in the Kosi Bay estuarine lake system in KwaZulu-Natal, South Africa. Otoliths from four important fishery species (Lutjanus argentimaculatus, Pomadasys commersonnii, Acanthopagrus vagus, and Rhabdosargus sarba) and water samples collected from throughout the Kosi Bay system were analyzed for trace element constituents and δ18O values, in an attempt to reconstruct fish movements. The applied microscopic X-ray fluorescence analysis proved valuable in detecting μm-scale spatially resolved Sr/Ca ratio distributions across otolith thin sections. Sr/Ca ratios and δ18O in otoliths correlated well with ambient water conditions and, thus, enabled us to reconstruct migratory histories of individual fish in the estuarine lake system. The findings are representative of the known biology of these species, although exact spatial and temporal ranges of migrations remain unclear. Interestingly, samples of two species (L. argentimaculatus and R. sarba) did not show any clue of migrations back to sea, which would be necessary for successful spawning. Further laboratory and field investigations with larger sample sizes are necessary to detect fishery impacts on migratory behavior at a population level.

  11. Estimates of metabolic rate and major constituents of metabolic demand in fishes under field conditions: Methods, proxies, and new perspectives.

    Science.gov (United States)

    Treberg, Jason R; Killen, Shaun S; MacCormack, Tyson J; Lamarre, Simon G; Enders, Eva C

    2016-12-01

    Metabolic costs are central to individual energy budgets, making estimates of metabolic rate vital to understanding how an organism interacts with its environment as well as the role of species in their ecosystem. Despite the ecological and commercial importance of fishes, there are currently no widely adopted means of measuring field metabolic rate in fishes. The lack of recognized methods is in part due to the logistical difficulties of measuring metabolic rates in free swimming fishes. However, further development and refinement of techniques applicable for field-based studies on free swimming animals would greatly enhance the capacity to study fish under environmentally relevant conditions. In an effort to foster discussion in this area, from field ecologists to biochemists alike, we review aspects of energy metabolism and give details on approaches that have been used to estimate energetic parameters in fishes. In some cases, the techniques have been applied to field conditions; while in others, the methods have been primarily used on laboratory held fishes but should be applicable, with validation, to fishes in their natural environment. Limitations, experimental considerations and caveats of these measurements and the study of metabolism in wild fishes in general are also discussed. Potential novel approaches to FMR estimates are also presented for consideration. The innovation of methods for measuring field metabolic rate in free-ranging wild fish would revolutionize the study of physiological ecology. Copyright © 2016 Elsevier Inc. All rights reserved.

  12. "Fish-in-net", a novel method for cell immobilization of Zymomonas mobilis.

    Directory of Open Access Journals (Sweden)

    Xuedun Niu

    Full Text Available BACKGROUND: Inorganic mesoporous materials exhibit good biocompatibility and hydrothermal stability for cell immobilization. However, it is difficult to encapsulate living cells under mild conditions, and new strategies for cell immobilization are needed. We designed a "fish-in-net" approach for encapsulation of enzymes in ordered mesoporous silica under mild conditions. The main objective of this study is to demonstrate the potential of this approach in immobilization of living cells. METHODOLOGY/PRINCIPAL FINDINGS: Zymomonas mobilis cells were encapsulated in mesoporous silica-based materials under mild conditions by using a "fish-in-net" approach. During the encapsulation process, polyethyleneglycol was used as an additive to improve the immobilization efficiency. After encapsulation, the pore size, morphology and other features were characterized by various methods, including scanning electron microscopy, nitrogen adsorption-desorption analysis, transmission electron microscopy, fourier transform infrared spectroscopy, and elemental analysis. Furthermore, the capacity of ethanol production by immobilized Zymomonas mobilis and free Zymomonas mobilis was compared. CONCLUSIONS/SIGNIFICANCE: In this study, Zymomonas mobilis cells were successfully encapsulated in mesoporous silica-based materials under mild conditions by the "fish-in-net" approach. Encapsulated cells could perform normal metabolism and exhibited excellent reusability. The results presented here illustrate the enormous potential of the "fish-in-net" approach for immobilization of living cells.

  13. Comparison of analytical methods for the determination of histamine in reference canned fish samples

    Science.gov (United States)

    Jakšić, S.; Baloš, M. Ž.; Mihaljev, Ž.; Prodanov Radulović, J.; Nešić, K.

    2017-09-01

    Two screening methods for histamine in canned fish, an enzymatic test and a competitive direct enzyme-linked immunosorbent assay (CD-ELISA), were compared with the reversed-phase liquid chromatography (RP-HPLC) standard method. For enzymatic and CD-ELISA methods, determination was conducted according to producers’ manuals. For RP-HPLC, histamine was derivatized with dansyl-chloride, followed by RP-HPLC and diode array detection. Results of analysis of canned fish, supplied as reference samples for proficiency testing, showed good agreement when histamine was present at higher concentrations (above 100 mg kg‑1). At a lower level (16.95 mg kg‑1), the enzymatic test produced some higher results. Generally, analysis of four reference samples according to CD-ELISA and RP-HPLC showed good agreement for histamine determination (r=0.977 in concentration range 16.95–216 mg kg‑1) The results show that the applied enzymatic test and CD-ELISA appeared to be suitable screening methods for the determination of histamine in canned fish.

  14. Handling Diagnosis of Schizophrenia by a Hybrid Method

    Directory of Open Access Journals (Sweden)

    Luciano Comin Nunes

    2015-01-01

    Full Text Available Psychotics disorders, most commonly known as schizophrenia, have incapacitated professionals in different sectors of activities. Those disorders have caused damage in a microlevel to the individual and his/her family and in a macrolevel to the economic and production system of the country. The lack of early and sometimes very late diagnosis has provided reactive measures, when the professional is already showing psychological signs of incapacity to work. This study aims to help the early diagnosis of psychotics’ disorders with a hybrid proposal of an expert system that is integrated to structured methodologies in decision support (multicriteria decision analysis: MCDA and knowledge structured representations into production rules and probabilities (artificial intelligence: AI.

  15. A Hybrid Circular Queue Method for Iterative Stencil Computations on GPUs

    Institute of Scientific and Technical Information of China (English)

    Yang Yang; Hui-Min Cui; Xiao-Bing Feng; Jing-Ling Xue

    2012-01-01

    In this paper,we present a hybrid circular queue method that can significantly boost the performance of stencil computations on GPU by carefully balancing usage of registers and shared-memory.Unlike earlier methods that rely on circular queues predominantly implemented using indirectly addressable shared memory,our hybrid method exploits a new reuse pattern spanning across the multiple time steps in stencil computations so that circular queues can be implemented by both shared memory and registers effectively in a balanced manner.We describe a framework that automatically finds the best placement of data in registers and shared memory in order to maximize the performance of stencil computations.Validation using four different types of stencils on three different GPU platforms shows that our hybrid method achieves speedups up to 2.93X over methods that use circular queues implemented with shared-memory only.

  16. A hybrid method for optimal load shedding and improving voltage stability

    Directory of Open Access Journals (Sweden)

    V. Tamilselvan

    2016-03-01

    Full Text Available In this paper, a hybrid method is proposed for reducing the amount of load shedding and voltage collapse. The hybrid method is the combination of Genetic Algorithm (GA and Neural Network (NN. The GA is used by two stages, one is to frame the optimization model and other stage is to generate data set for developing the NN based intelligent load shedding model. The appropriate buses for load shedding are selected based on the sensitivity of minimum eigenvalue of load flow Jacobian with respect to the load shed. The proposed method is implemented in MATLAB working platform and the performance is tested with 6 bus and IEEE 14 bus bench mark system. The result of the proposed hybrid method is compared with the GA based optimization algorithm. The comparison shows that, the proposed method ensures voltage stability with minimum loading shedding.

  17. A scale to measure the attitude towards improved fish processing methods

    OpenAIRE

    Thiagarajan, R.; Mohan, B.; Kandoran, M.K.

    1989-01-01

    An attitude scale was constructed to measure the attitude of fisherwomen towards improved fish processing methods. To construct the attitude scale, 'scale' and ‘Q’ values (the interquartile ranges) were calculated for 31 statements selected, based on the opinion of 34 judges. Based on the 'scale' and ‘Q’ values 16 statements were selected with eight favorable statements and eight unfavorable statements. The weightages given were 3, 2 and 1 for favorable statements and 1, 2 and 3 for unfavorab...

  18. New Intelligent Method of Forecasting Control for Fishing Boat Security in the Coastal Area of Fujian

    Directory of Open Access Journals (Sweden)

    Wei He

    2012-12-01

    Full Text Available To ensure the fishing boat security in the coastal area of Fujian, it is imperative to develop efficient forecasting control system to manage the boats operation in a safe and orderly process. The core issue of establishing the forecasting control system is to predict the relationship of the real time traffic flow and the boat security condition. However, literature review shows that limited reports have addressed on this problem. Hence, a new intelligent forecasting control method base on the Chaos-Particle Swarm Optimization (PSO and Fuzzy Neural Network (FNN is proposed for the short time traffic flow prediction in this paper. The Empirical Mode Decomposition (EMD was first used to denoise the original ship traffic flow observation and then the Chaos-PSO-FNN was applied to the forecasting of the ship traffic flow and hence established the relationship of the real time traffic flow and the boat security condition. The advantage of the proposed approach is that the Chaos-PSO is employed to optimize the FNN parameters to overcome the premature problem of the FNN. As a result, the forecasting control performance is enhanced greatly. In the experiment analysis, the fishing boat traffic information provided by the Fujian marine bureau has been used to evaluate the newly proposed method. The analysis results demonstrate that the proposed Chaos-PSO-FNN method can extract distinct features of the traffic data and the prediction rate is beyond 93.7%. In addition, it found that the fishing boats is supposed to be safe when their travel time avoids the rush time of the traffic flow. This result agrees well with the real data. Thus, the new intelligent forecasting control method for fishing boat security can be used in practice.

  19. Determination of total arsenic in fish by hydride-generation atomic absorption spectrometry: method validation, traceability and uncertainty evaluation

    Science.gov (United States)

    Nugraha, W. C.; Elishian, C.; Ketrin, R.

    2017-03-01

    Fish containing arsenic compound is one of the important indicators of arsenic contamination in water monitoring. The high level of arsenic in fish is due to absorption through food chain and accumulated in their habitat. Hydride generation (HG) coupled with atomic absorption spectrometric (AAS) detection is one of the most popular techniques employed for arsenic determination in a variety of matrices including fish. This study aimed to develop a method for the determination of total arsenic in fish by HG-AAS. The method for sample preparation from American of Analytical Chemistry (AOAC) Method 999.10-2005 was adopted for acid digestion using microwave digestion system and AOAC Method 986.15 - 2005 for dry ashing. The method was developed and validated using Certified Reference Material DORM 3 Fish Protein for trace metals for ensuring the accuracy and the traceability of the results. The sources of uncertainty of the method were also evaluated. By using the method, it was found that the total arsenic concentration in the fish was 45.6 ± 1.22 mg.Kg-1 with a coverage factor of equal to 2 at 95% of confidence level. Evaluation of uncertainty was highly influenced by the calibration curve. This result was also traceable to International Standard System through analysis of Certified Reference Material DORM 3 with 97.5% of recovery. In summary, it showed that method of preparation and HG-AAS technique for total arsenic determination in fish were valid and reliable.

  20. "How" and "what" matters: Sampling method affects biodiversity estimates of reef fishes.

    Science.gov (United States)

    Bosch, Néstor E; Gonçalves, Jorge M S; Erzini, Karim; Tuya, Fernando

    2017-07-01

    Understanding changes in biodiversity requires the implementation of monitoring programs encompassing different dimensions of biodiversity through varying sampling techniques. In this work, fish assemblages associated with the "outer" and "inner" sides of four marinas, two at the Canary Islands and two at southern Portugal, were investigated using three complementary sampling techniques: underwater visual censuses (UVCs), baited cameras (BCs), and fish traps (FTs). We firstly investigated the complementarity of these sampling methods to describe species composition. Then, we investigated differences in taxonomic (TD), phylogenetic (PD) and functional diversity (FD) between sides of the marinas according to each sampling method. Finally, we explored the applicability/reproducibility of each sampling technique to characterize fish assemblages according to these metrics of diversity. UVCs and BCs provided complementary information, in terms of the number and abundances of species, while FTs sampled a particular assemblage. Patterns of TD, PD, and FD between sides of the marinas varied depending on the sampling method. UVC was the most cost-efficient technique, in terms of personnel hours, and it is recommended for local studies. However, for large-scale studies, BCs are recommended, as it covers greater spatio-temporal scales by a lower cost. Our study highlights the need to implement complementary sampling techniques to monitor ecological change, at various dimensions of biodiversity. The results presented here will be useful for optimizing future monitoring programs.

  1. Hybridization leads to sensory repertoire expansion in a gynogenetic fish, the Amazon molly (poecilia formosa): a test of the hybrid-sensory expansion hypothesis.

    Science.gov (United States)

    Sandkam, Benjamin A; Joy, Jeffrey B; Watson, Corey T; Gonzalez-Bendiksen, Pablo; Gabor, Caitlin R; Breden, Felix

    2013-01-01

    Expansions in sensory systems usually require processes such as gene duplication and divergence, and thus evolve slowly. We evaluate a novel mechanism leading to rapid sensory repertoire expansion: hybrid-sensory expansion (HSE). HSE occurs when two species with differently tuned sensory systems form a hybrid, bringing together alleles from each of the parental species. In one generation, a sensory repertoire is created that is the sum of the variance between parental species. The Amazon molly presents a unique opportunity to test the HSE hypothesis in a "frozen" hybrid. We compared opsin sequences of the Amazon molly, Poecilia formosa, to those of the parental species. Both parental species are homozygous at the RH2-1 locus and each of the four long wavelength sensitive loci, while P. formosa possess two different alleles at these loci; one matching each parental allele. Gene expression analysis showed P. formosa use the expanded opsin repertoire that was the result of HSE. Additionally, behavioral tests revealed P. formosa respond to colored stimuli in a manner similar or intermediate to the parental species P. mexicana and P. latipinna. Together these results strongly support the HSE hypothesis. Hybrid-sensory repertoire expansion is likely important in other hybrid species and in other sensory systems.

  2. Evaluating genetic traceability methods for captive-bred marine fish and their applications in fisheries management and wildlife forensics

    DEFF Research Database (Denmark)

    Bylemans, Jonas; Maes, Gregory E.; Diopere, Eveline

    2016-01-01

    Growing demands for marine fish products is leading to increased pressure on already depleted wild populations and a rise in aquaculture production. Consequently, more captive-bred fish are released into the wild through accidental escape or deliberate releases. The increased mixing of captive...... the implementation of a case-by-case strategy when choosing the best method....

  3. A non-destructive ammonium detection method as indicator for freshness for packed fish: Application on cod

    NARCIS (Netherlands)

    Heising, J.K.; Dekker, M.; Bartels, P.V.; Boekel, van M.A.J.S.

    2012-01-01

    This paper introduces a non-destructive method for monitoring headspace ammonium as an indicator for changes in the freshness status of packed fish. Electrodes in an aqueous phase in the package monitor changes in the concentration of ammonia produced in/on the packed fish and released in the

  4. Protocol for assessing brain function in fish and the effectiveness of methods used to stun and kill them

    NARCIS (Netherlands)

    Kestin, S.C.; Vis, van de J.W.; Robb, D.H.F.

    2002-01-01

    A method for the evaluation of brain function in fish has been developed which is based on assessments of self-initiated behaviours, responses to stimulation, and reflexes. These assessments were validated in several freshwater and marine species and applied to evaluate the brain function of fish wh

  5. Fluorescence in situ hybridization for the tissue detection of bacterial pathogens associated with porcine infections

    DEFF Research Database (Denmark)

    Jensen, Henrik Elvang; Jensen, Louise Kruse; Barington, Kristiane

    2015-01-01

    sequences within intact cells. FISH allows direct histological localization of the bacteria in the tissue and thereby a correlation between the infection and the histopathological changes present. This chapter presents protocols for FISH identification of bacterial pathogens in fixed deparaffinized tissue......Fluorescence in situ hybridization (FISH) is an efficient technique for the identification of specific bacteria in tissue of both experimental and spontaneous infections. The method detects specific sequences of nucleic acids by hybridization of fluorescently labeled probes to complementary target...

  6. Fluorescence In Situ Hybridization for the Tissue Detection of Bacterial Pathogens Associated with Porcine Infections

    DEFF Research Database (Denmark)

    Elvang Jensen, Henrik; Jensen, Louise Kruse; Barington, Kristiane

    2015-01-01

    sequences within intact cells. FISH allows direct histological localization of the bacteria in the tissue and thereby a correlation between the infection and the histopathological changes present. This chapter presents protocols for FISH identification of bacterial pathogens in fixed deparaffinized tissue......Fluorescence in situ hybridization (FISH) is an efficient technique for the identification of specific bacteria in tissue of both experimental and spontaneous infections. The method detects specific sequences of nucleic acids by hybridization of fluorescently labeled probes to complementary target...

  7. Development and Evaluation of a Hybrid Dynamical-Statistical Downscaling Method

    Science.gov (United States)

    Walton, Daniel Burton

    Regional climate change studies usually rely on downscaling of global climate model (GCM) output in order to resolve important fine-scale features and processes that govern local climate. Previous efforts have used one of two techniques: (1) dynamical downscaling, in which a regional climate model is forced at the boundaries by GCM output, or (2) statistical downscaling, which employs historical empirical relationships to go from coarse to fine resolution. Studies using these methods have been criticized because they either dynamical downscaled only a few GCMs, or used statistical downscaling on an ensemble of GCMs, but missed important dynamical effects in the climate change signal. This study describes the development and evaluation of a hybrid dynamical-statstical downscaling method that utilizes aspects of both dynamical and statistical downscaling to address these concerns. The first step of the hybrid method is to use dynamical downscaling to understand the most important physical processes that contribute to the climate change signal in the region of interest. Then a statistical model is built based on the patterns and relationships identified from dynamical downscaling. This statistical model can be used to downscale an entire ensemble of GCMs quickly and efficiently. The hybrid method is first applied to a domain covering Los Angeles Region to generate projections of temperature change between the 2041-2060 and 1981-2000 periods for 32 CMIP5 GCMs. The hybrid method is also applied to a larger region covering all of California and the adjacent ocean. The hybrid method works well in both areas, primarily because a single feature, the land-sea contrast in the warming, controls the overwhelming majority of the spatial detail. Finally, the dynamically downscaled temperature change patterns are compared to those produced by two commonly-used statistical methods, BCSD and BCCA. Results show that dynamical downscaling recovers important spatial features that the

  8. Simultaneous 16S and 18S rRNA fluorescence in situ hybridization (FISH) on LR White sections demonstrated in Vestimentifera (Siboglinidae) tubeworms.

    Science.gov (United States)

    Schimak, Mario P; Toenshoff, Elena R; Bright, Monika

    2012-02-01

    Traditional morphological identification of invertebrate marine species is limited in early life history stages for many taxa. In this study, we demonstrate, by example of Vestimentiferan tubeworms (Siboglinidae, Polychaeta), that the simultaneous fluorescence in situ hybridization (FISH) of both eukaryotic host and bacterial symbiont cells is possible on a single semi-thin (1 μm) section. This allows the identification of host specimens to species level as well as offering visualization of bacteria distributed within the host tissue. Previously published 18S rRNA host-specific oligonucleotide probes for Riftia pachyptila, Tevnia jerichonana and a newly designed Oasisia alvinae probe, as well as a 16S rRNA probe targeting symbionts found in all host species, were applied. A number of standard fixation and hybridization parameters were tested and optimized for the best possible signal intensity and cellular resolution. Ethanol conserved samples embedded in LR White low viscosity resin yielded the best results with regard to both signal intensity and resolution. We show that extended storage times of specimens does not affect the quality of signals attained by FISH and use our protocol to identify morphologically unidentifiable tubeworm individuals from a small data set, conforming to previous findings in succession studies of the Siboglinidae family.

  9. Validation of microsatellite multiplexes for parentage analysis and species discrimination in two hybridizing species of coral reef fish (Plectropomus spp., Serranidae).

    Science.gov (United States)

    Harrison, Hugo B; Feldheim, Kevin A; Jones, Geoffrey P; Ma, Kayan; Mansour, Hicham; Perumal, Sadhasivam; Williamson, David H; Berumen, Michael L

    2014-06-01

    Microsatellites are often considered ideal markers to investigate ecological processes in animal populations. They are regularly used as genetic barcodes to identify species, individuals, and infer familial relationships. However, such applications are highly sensitive the number and diversity of microsatellite markers, which are also prone to error. Here, we propose a novel framework to assess the suitability of microsatellite datasets for parentage analysis and species discrimination in two closely related species of coral reef fish, Plectropomus leopardus and P. maculatus (Serranidae). Coral trout are important fisheries species throughout the Indo-Pacific region and have been shown to hybridize in parts of the Great Barrier Reef, Australia. We first describe the development of 25 microsatellite loci and their integration to three multiplex PCRs that co-amplify in both species. Using simulations, we demonstrate that the complete suite of markers provides appropriate power to discriminate between species, detect hybrid individuals, and resolve parent-offspring relationships in natural populations, with over 99.6% accuracy in parent-offspring assignments. The markers were also tested on seven additional species within the Plectropomus genus with polymorphism in 28-96% of loci. The multiplex PCRs developed here provide a reliable and cost-effective strategy to investigate evolutionary and ecological dynamics and will be broadly applicable in studies of wild populations and aquaculture brood stocks for these closely related fish species.

  10. Validation of microsatellite multiplexes for parentage analysis and species discrimination in two hybridizing species of coral reef fish (Plectropomus spp., Serranidae)

    KAUST Repository

    Harrison, H.B.

    2014-04-24

    Microsatellites are often considered ideal markers to investigate ecological processes in animal populations. They are regularly used as genetic barcodes to identify species, individuals, and infer familial relationships. However, such applications are highly sensitive the number and diversity of microsatellite markers, which are also prone to error. Here, we propose a novel framework to assess the suitability of microsatellite datasets for parentage analysis and species discrimination in two closely related species of coral reef fish, Plectropomus leopardus and P. maculatus (Serranidae). Coral trout are important fisheries species throughout the Indo-Pacific region and have been shown to hybridize in parts of the Great Barrier Reef, Australia. We first describe the development of 25 microsatellite loci and their integration to three multiplex PCRs that co-amplify in both species. Using simulations, we demonstrate that the complete suite of markers provides appropriate power to discriminate between species, detect hybrid individuals, and resolve parent-offspring relationships in natural populations, with over 99.6% accuracy in parent-offspring assignments. The markers were also tested on seven additional species within the Plectropomus genus with polymorphism in 28-96% of loci. The multiplex PCRs developed here provide a reliable and cost-effective strategy to investigate evolutionary and ecological dynamics and will be broadly applicable in studies of wild populations and aquaculture brood stocks for these closely related fish species. 2014 The Authors. Ecology and Evolution published by John Wiley & Sons Ltd.

  11. 辐射诱导染色体畸变的快速FISH方法的建立%Establishment of a rapid FISH method to analyze chromosome aberrations induced by Establishment of a rapid FISH method to analyze chromosome aberrations induced by irradiation irradiation

    Institute of Scientific and Technical Information of China (English)

    李爽; 陆雪; 赵骅; 封江彬; 刘青杰

    2014-01-01

    目的:建立一种检测辐射诱导染色体畸变的快速荧光原位杂交(FISH)方法。方法:两步简并引物PCR法扩增人α-卫60星DNA,制备荧光基团直接标记的泛着丝粒探针;对 Coγ射线照射后的人外周血淋巴细胞染色体标本进行FISH分析,荧光显微镜下检测着丝粒及染色体形态。结果:直接标记泛着丝粒探针杂交后显示所有染色体着丝粒均有较强的信号;应用制备的FISH探针检测到γ射线照射诱导的双着丝粒、着丝粒环和易位染色体畸变,37℃杂交5-12 h后经过简单的洗涤即可在荧光显微镜下检测到较好的信号。结论:本研究制备的直接标记泛着丝粒探针,可用于FISH快速检测辐射诱导的染色体双着丝粒体、着丝粒环和易位畸变。目的:建立一种检测辐射诱导染色体畸变的快速荧光原位杂交(FISH)方法。方法:两步简并引物PCR法扩增人α-卫60星DNA,制备荧光基团直接标记的泛着丝粒探针;对 Coγ射线照射后的人外周血淋巴细胞染色体标本进行FISH分析,荧光显微镜下检测着丝粒及染色体形态。结果:直接标记泛着丝粒探针杂交后显示所有染色体着丝粒均有较强的信号;应用制备的FISH探针检测到γ射线照射诱导的双着丝粒、着丝粒环和易位染色体畸变,37℃杂交5-12 h后经过简单的洗涤即可在荧光显微镜下检测到较好的信号。结论:本研究制备的直接标记泛着丝粒探针,可用于FISH快速检测辐射诱导的染色体双着丝粒体、着丝粒环和易位畸变。%OBJECTIVE: To establish a rapid fluorescence in situ hybridization (FISH) method and to analyze the chromosome aberrations induced by irradiation.METHODS:Human centromeric alpha satellite DNA was amplified and directly labeled with Cy3-dUTP or Fluorescein-12-dUTP by degenerate oligonucleotide priming-PCR (DOP-PCR) to prepare two pan-centromeric probes. Chromosome

  12. Rapid determination of methyl mercury in fish and shellfish: method development.

    Science.gov (United States)

    Hight, S C; Corcoran, M T

    1987-01-01

    The AOAC official first action method for methyl mercury in fish and shellfish was modified to provide more rapid determination. Methyl mercury is isolated from homogenized, acetone-washed tissue by addition of HCl and extraction by toluene of the methyl mercuric chloride produced. The extract is analyzed by electron capture gas chromatography (GC) on 5% DEGS-PS treated with mercuric chloride solution. The quantitation limit of the method is 0.25 micrograms Hg/g. Swordfish, shark, tuna, shrimp, clams, oysters, and NBS Research Material-50 (tuna) were analyzed for methyl mercury by the AOAC official first action method. All products also were analyzed by the modified method and the AOAC official method for total Hg. In addition, selected extracts obtained with the modified method were analyzed by GC with Hg-selective, microwave-induced helium plasma detection. There was no significant difference between the results for the various methods. Essentially all the Hg present (determined as total Hg) was in the organic form. Coefficients of variation from analyses by the modified method ranged from 1 to 7% for fish and shellfish containing methyl mercury at levels of 0.50-2.30 micrograms Hg/g. The overall average recovery was 100.5%.

  13. Hybrid 3D-2D printing of bone scaffolds Hybrid 3D-2D printing methods for bone scaffolds fabrication.

    Science.gov (United States)

    Prinz, V Ya; Seleznev, Vladimir

    2016-12-13

    It is a well-known fact that bone scaffold topography on micro- and nanometer scale influences the cellular behavior. Nano-scale surface modification of scaffolds allows the modulation of biological activity for enhanced cell differentiation. To date, there has been only a limited success in printing scaffolds with micro- and nano-scale features exposed on the surface. To improve on the currently available imperfect technologies, in our paper we introduce new hybrid technologies based on a combination of 2D (nano imprint) and 3D printing methods. The first method is based on using light projection 3D printing and simultaneous 2D nanostructuring of each of the layers during the formation of the 3D structure. The second method is based on the sequential integration of preliminarily created 2D nanostructured films into a 3D printed structure. The capabilities of the developed hybrid technologies are demonstrated with the example of forming 3D bone scaffolds. The proposed technologies can be used to fabricate complex 3D micro- and nanostructured products for various fields. Copyright 2016 IOP Publishing Ltd.

  14. Hierarchical hybrid testability modeling and evaluation method based on information fusion

    Institute of Scientific and Technical Information of China (English)

    Xishan Zhang; Kaoli Huang; Pengcheng Yan; Guangyao Lian

    2015-01-01

    In order to meet the demand of testability analysis and evaluation for complex equipment under a smal sample test in the equipment life cycle, the hierarchical hybrid testability model-ing and evaluation method (HHTME), which combines the testabi-lity structure model (TSM) with the testability Bayesian networks model (TBNM), is presented. Firstly, the testability network topo-logy of complex equipment is built by using the hierarchical hybrid testability modeling method. Secondly, the prior conditional prob-ability distribution between network nodes is determined through expert experience. Then the Bayesian method is used to update the conditional probability distribution, according to history test information, virtual simulation information and similar product in-formation. Final y, the learned hierarchical hybrid testability model (HHTM) is used to estimate the testability of equipment. Compared with the results of other modeling methods, the relative deviation of the HHTM is only 0.52%, and the evaluation result is the most accurate.

  15. A novel method for rapid hybridization of DNA to a solid support.

    Directory of Open Access Journals (Sweden)

    Erik Pettersson

    Full Text Available Here we present a novel approach entitled Magnetic Forced Hybridization (MFH that provides the means for efficient and direct hybridization of target nucleic acids to complementary probes immobilized on a glass surface in less than 15 seconds at ambient temperature. In addition, detection is carried out instantly since the beads become visible on the surface. The concept of MFH was tested for quality control of array manufacturing, and was combined with a multiplex competitive hybridization (MUCH approach for typing of Human Papilloma Virus (HPV. Magnetic Forced Hybridization of bead-DNA constructs to a surface achieves a significant reduction in diagnostic testing time. In addition, readout of results by visual inspection of the unassisted eye eliminates the need for additional expensive instrumentation. The method uses the same set of beads throughout the whole process of manipulating and washing DNA constructs prior to detection, as in the actual detection step itself.

  16. A Novel Method for Rapid Hybridization of DNA to a Solid Support

    Science.gov (United States)

    Pettersson, Erik; Ahmadian, Afshin; Ståhl, Patrik L.

    2013-01-01

    Here we present a novel approach entitled Magnetic Forced Hybridization (MFH) that provides the means for efficient and direct hybridization of target nucleic acids to complementary probes immobilized on a glass surface in less than 15 seconds at ambient temperature. In addition, detection is carried out instantly since the beads become visible on the surface. The concept of MFH was tested for quality control of array manufacturing, and was combined with a multiplex competitive hybridization (MUCH) approach for typing of Human Papilloma Virus (HPV). Magnetic Forced Hybridization of bead-DNA constructs to a surface achieves a significant reduction in diagnostic testing time. In addition, readout of results by visual inspection of the unassisted eye eliminates the need for additional expensive instrumentation. The method uses the same set of beads throughout the whole process of manipulating and washing DNA constructs prior to detection, as in the actual detection step itself. PMID:23950946

  17. Comparison of conventional culture method and fluorescent in situ hybridization technique for detection of Listeria spp. in ground beef, turkey, and chicken breast fillets in İzmir, Turkey.

    Science.gov (United States)

    Baysal, Ayse Handan

    2014-12-01

    The occurrence of Listeria species in refrigerated fresh chicken breast fillet, turkey breast fillet, and ground beef was evaluated, comparing the conventional culture method and fluorescent in situ hybridization (FISH). FISH uses hybridization of a nucleic acid sequence target of a microorganism with a specific DNA probe labeled with a fluorochrome and imaging by a fluorescence microscope. First, Listeria was inoculated in chicken breast fillet, turkey breast fillet, or ground beef, and the applicability of the FISH method was evaluated. Second, Listeria was detected in fresh chicken breast fillet, turkey breast fillet, and ground beef by culture and FISH methods. Listeria was isolated from 27 (37.4%) of 216 samples by the standard culture method, whereas FISH detected 25 (24.7%) preenriched samples. Of these isolates, 17 (63%) were L. innocua, 6 (22%) L. welshimeri, and 4 (14.8%) L. seeligeri. Overall, the prevalences of Listeria spp. found with the conventional culture method in chicken breast fillet, turkey breast fillet, and ground beef were 9.7, 6.9, and 20.8%, whereas with the FISH technique these values were 11.1, 6.9, and 16.7%, respectively. The molecular FISH technique appears to be a cheap, sensitive, and time-efficient procedure that could be used for routine detection of Listeria spp. in meat. This study showed that retail raw meats are potentially contaminated with Listeria spp. and are, thus, vehicles for transmitting diseases caused by foodborne pathogens, underlining the need for increased precautions, such as implementation of hazard analysis and critical control points and consumer food safety education.

  18. Two Hybrid Methods for Solving Two-Dimensional Linear Time-Fractional Partial Differential Equations

    Directory of Open Access Journals (Sweden)

    B. A. Jacobs

    2014-01-01

    Full Text Available A computationally efficient hybridization of the Laplace transform with two spatial discretization techniques is investigated for numerical solutions of time-fractional linear partial differential equations in two space variables. The Chebyshev collocation method is compared with the standard finite difference spatial discretization and the absolute error is obtained for several test problems. Accurate numerical solutions are achieved in the Chebyshev collocation method subject to both Dirichlet and Neumann boundary conditions. The solution obtained by these hybrid methods allows for the evaluation at any point in time without the need for time-marching to a particular point in time.

  19. Block Hybrid Collocation Method with Application to Fourth Order Differential Equations

    Directory of Open Access Journals (Sweden)

    Lee Ken Yap

    2015-01-01

    Full Text Available The block hybrid collocation method with three off-step points is proposed for the direct solution of fourth order ordinary differential equations. The interpolation and collocation techniques are applied on basic polynomial to generate the main and additional methods. These methods are implemented in block form to obtain the approximation at seven points simultaneously. Numerical experiments are conducted to illustrate the efficiency of the method. The method is also applied to solve the fourth order problem from ship dynamics.

  20. Accuracy improvement of a hybrid robot for ITER application using POE modeling method

    Energy Technology Data Exchange (ETDEWEB)

    Wang, Yongbo, E-mail: yongbo.wang@hotmail.com [Laboratory of Intelligent Machines, Lappeenranta University of Technology, FIN-53851 Lappeenranta (Finland); Wu, Huapeng; Handroos, Heikki [Laboratory of Intelligent Machines, Lappeenranta University of Technology, FIN-53851 Lappeenranta (Finland)

    2013-10-15

    Highlights: ► The product of exponential (POE) formula for error modeling of hybrid robot. ► Differential Evolution (DE) algorithm for parameter identification. ► Simulation results are given to verify the effectiveness of the method. -- Abstract: This paper focuses on the kinematic calibration of a 10 degree-of-freedom (DOF) redundant serial–parallel hybrid robot to improve its accuracy. The robot was designed to perform the assembling and repairing tasks of the vacuum vessel (VV) of the international thermonuclear experimental reactor (ITER). By employing the product of exponentials (POEs) formula, we extended the POE-based calibration method from serial robot to redundant serial–parallel hybrid robot. The proposed method combines the forward and inverse kinematics together to formulate a hybrid calibration method for serial–parallel hybrid robot. Because of the high nonlinear characteristics of the error model and too many error parameters need to be identified, the traditional iterative linear least-square algorithms cannot be used to identify the parameter errors. This paper employs a global optimization algorithm, Differential Evolution (DE), to identify parameter errors by solving the inverse kinematics of the hybrid robot. Furthermore, after the parameter errors were identified, the DE algorithm was adopted to numerically solve the forward kinematics of the hybrid robot to demonstrate the accuracy improvement of the end-effector. Numerical simulations were carried out by generating random parameter errors at the allowed tolerance limit and generating a number of configuration poses in the robot workspace. Simulation of the real experimental conditions shows that the accuracy of the end-effector can be improved to the same precision level of the given external measurement device.

  1. A Hybrid Method for Modeling and Solving Supply Chain Optimization Problems with Soft and Logical Constraints

    Directory of Open Access Journals (Sweden)

    Paweł Sitek

    2016-01-01

    Full Text Available This paper presents a hybrid method for modeling and solving supply chain optimization problems with soft, hard, and logical constraints. Ability to implement soft and logical constraints is a very important functionality for supply chain optimization models. Such constraints are particularly useful for modeling problems resulting from commercial agreements, contracts, competition, technology, safety, and environmental conditions. Two programming and solving environments, mathematical programming (MP and constraint logic programming (CLP, were combined in the hybrid method. This integration, hybridization, and the adequate multidimensional transformation of the problem (as a presolving method helped to substantially reduce the search space of combinatorial models for supply chain optimization problems. The operation research MP and declarative CLP, where constraints are modeled in different ways and different solving procedures are implemented, were linked together to use the strengths of both. This approach is particularly important for the decision and combinatorial optimization models with the objective function and constraints, there are many decision variables, and these are summed (common in manufacturing, supply chain management, project management, and logistic problems. The ECLiPSe system with Eplex library was proposed to implement a hybrid method. Additionally, the proposed hybrid transformed model is compared with the MILP-Mixed Integer Linear Programming model on the same data instances. For illustrative models, its use allowed finding optimal solutions eight to one hundred times faster and reducing the size of the combinatorial problem to a significant extent.

  2. Application and analysis of LNG cold energy for hybrid fishing vessel%混合动力渔船LNG冷量的应用分析

    Institute of Scientific and Technical Information of China (English)

    魏鹏威; 张建一; 詹鋆

    2012-01-01

    液化天然气(LNC)是清洁能源,同时又蕴含大量冷量,我国已经提出渔船推广使用LNG作为动力燃料.目前,渔船制冷能耗占全船能耗30%-40%.为了确定混合动力渔船中LNG的应用优势,本文结合实际生产中的50m型围网渔船进行了计算分析.结果显示,在该型渔船上采用柴油/天然气混合动力,替油率80%时每年可节省燃料费用61万元.将LNG冷量用于冷海水系统,每天可制取0℃冷海水10.4t,减少冷海水制冷系统工作时长1.6h,部分冷量用于系统的过冷循环,可使系统COP提高5.2%.分析表明,利用混合动力渔船的LNG冷能可显著节能,降低营运成本.%Liquified Natural Gas (LNG) is a clean energy with a lot of cold energy.Its use as engine fuel for fishing vessel is promoted currently in China.The energy consumption of refrigeration system in fishing vessels has accounted for 30% to 40% in total energy consumption.In order to determine the advantage of LNG applications in hybrid fishing vessel,some calculation and analysis are conducted based on 50 m model purse seine vessel.The results show that 610 thousands yuan can be saved annually if 80% of diesel oil is replaced by LNG on this type of fishing vessels.Meanwhile,10.4 t cold seawater in 0℃ can be produced and 1.6 hour of the system's working time can be reduced each day by use of the LNG cold energy.The COP can be improved by 5.2% when the surplus LNG cold energy is used for subcooled cycle of the refrigeration system.Energy cost can be significantly reduced by use of LNG cold energy in the hybrid fishing vessels based on the analysis.

  3. Fluorescence In Situ Hybridization (FISH-Based Karyotyping Reveals Rapid Evolution of Centromeric and Subtelomeric Repeats in Common Bean (Phaseolus vulgaris and Relatives

    Directory of Open Access Journals (Sweden)

    Aiko Iwata-Otsubo

    2016-04-01

    Full Text Available Fluorescence in situ hybridization (FISH-based karyotyping is a powerful cytogenetics tool to study chromosome organization, behavior, and chromosome evolution. Here, we developed a FISH-based karyotyping system using a probe mixture comprised of centromeric and subtelomeric satellite repeats, 5S rDNA, and chromosome-specific BAC clones in common bean, which enables one to unambiguously distinguish all 11 chromosome pairs. Furthermore, we applied the karyotyping system to several wild relatives and landraces of common bean from two distinct gene pools, as well as other related Phaseolus species, to investigate repeat evolution in the genus Phaseolus. Comparison of karyotype maps within common bean indicates that chromosomal distribution of the centromeric and subtelomeric satellite repeats is stable, whereas the copy number of the repeats was variable, indicating rapid amplification/reduction of the repeats in specific genomic regions. In Phaseolus species that diverged approximately 2–4 million yr ago, copy numbers of centromeric repeats were largely reduced or diverged, and chromosomal distributions have changed, suggesting rapid evolution of centromeric repeats. We also detected variation in the distribution pattern of subtelomeric repeats in Phaseolus species. The FISH-based karyotyping system revealed that satellite repeats are actively and rapidly evolving, forming genomic features unique to individual common bean accessions and Phaseolus species.

  4. A scalable hybrid multi-robot SLAM method for highly detailed maps

    NARCIS (Netherlands)

    M. Pfingsthorn; B. Slamet; A. Visser

    2007-01-01

    Recent successful SLAM methods employ hybrid map representations combining the strengths of topological maps and occupancy grids. Such representations often facilitate multi-agent mapping. In this paper, a successful SLAM method is presented, which is inspired by the manifold data structure by Howar

  5. Three-step relaxed hybrid steepest-descent methods for variational inequalities

    Institute of Scientific and Technical Information of China (English)

    2007-01-01

    The classical variational inequality problem with a Lipschitzian and strongly monotone operator on a nonempty closed convex subset in a real Hilbert space is studied.A new three-step relaxed hybrid steepest-descent method for this class of variational inequalities is introduced. Strong convergence of this method is establishe d under suitable assumptions imposed on the algorithm parameters.

  6. A scalable hybrid multi-robot SLAM method for highly detailed maps

    NARCIS (Netherlands)

    Pfingsthorn, M.; Slamet, B.; Visser, A.

    2008-01-01

    Recent successful SLAM methods employ hybrid map representations combining the strengths of topological maps and occupancy grids. Such representations often facilitate multi-agent mapping. In this paper, a successful SLAM method is presented, which is inspired by the manifold data structure by Howar

  7. On the Hybrid Method with Three Off-Step Points for Initial Value Problems

    Science.gov (United States)

    Jator, S. N.

    2010-01-01

    A continuous representation of a hybrid method with three "off-step" points is developed via interpolation and collocation procedures, and used to obtain initial value methods (IVMs) for solving initial value problems. The IVMs are assembled into a single block matrix equation which is convergent and A-stable. We note that accuracy is improved by…

  8. Method for Load Sharing and Power Management in a Hybrid PV/Battery Source Islanded Microgrid

    DEFF Research Database (Denmark)

    Karimi, Yaser; Oraee, Hashem; Guerrero, Josep M.

    2016-01-01

    This paper presents a decentralized load sharing and power management method for an islanded microgrid composed of PV units, battery units and hybrid PV/battery units. The proposed method performs all the necessary tasks such as load sharing among the units, battery charging and discharging and PV...

  9. A Hybrid Nodal Method for Time-Dependent Incompressible Flow in Two-Dimensional Arbitrary Geometries

    Energy Technology Data Exchange (ETDEWEB)

    Toreja, A J; Uddin, R

    2002-10-21

    A hybrid nodal-integral/finite-analytic method (NI-FAM) is developed for time-dependent, incompressible flow in two-dimensional arbitrary geometries. In this hybrid approach, the computational domain is divided into parallelepiped and wedge-shaped space-time nodes (cells). The conventional nodal integral method (NIM) is applied to the interfaces between adjacent parallelepiped nodes (cells), while a finite analytic approach is applied to the interfaces between parallelepiped and wedge-shaped nodes (cells). In this paper, the hybrid method is formally developed and an application of the NI-FAM to fluid flow in an enclosed cavity is presented. Results are compared with those obtained using a commercial computational fluid dynamics code.

  10. Fluorescence in situ hybridization(FISH) technique combined with karyotyping analysis in prenatal diagnosis%FISH技术在产前诊断中的应用价值研究

    Institute of Scientific and Technical Information of China (English)

    沈国松; 张甦; 何平亚; 方嵘

    2011-01-01

    目的 使用荧光原位杂交(FISH)技术对常见胎儿染色体数目异常进行快速诊断,结合羊水细胞培养染色体核型分析技术形成产前诊断体系,并对其临床应用价值进行评价.方法 应用诊断最常见染色体病的5种染色体(13、18、21、X和Y)特异性FISH探针对480例未经培养羊水细胞进行产前诊断,并和同时进行的羊水培养染色体核型分析相比较.结果 480例未经培养羊水细胞FISH实验全部获得检测结果,并发现21-三体综合征2例,18-三体综合征1例,克氏综合征1例,特纳综合征 1例,与羊水培养染色体分析结果一致,但报告时间(2至3d)与羊水染色体分析报告时间(2~3周)相比大为缩短.受固有技术限制有6例结构异常未能检出,但应用FISH技术对其中1例与性染色体有关的结构异常进行辅助诊断,获得了成功.结论 FISH技术在常见染色体数目异常产前诊断中应用行之有效,与羊水染色体核型分析技术相结合,将使产前诊断更加高效和安全.%To evaluate the clinical application of the combination of fluorescence in situ hybridization (FISH)technique and karyotyping analysis in prenatal diagnosis.MethodsFISH technology with the centromeric probes of chromo-some 13, 18, 21 ,X and Y was applied in 480 amniotic fluid specimens, the results were compared with those of the G banding karyotypes from standard cytogenetic analysis in cultured amniotic fluid cells.ResultsTotal 480 uncultured amniotic fluid speci-mens were successfully tested by FISH and two Down' s syndrome, one Edwards syndrome, one Klinefelter syndrome and one Turner syndrome were detected. The results obtained by FISH were consistent with those from karyotyping analysis. FISH (2-3 days) was faster than karyotyping(2-3 weeks) to get results. Karyotypes analysis detected 6 cases of chromosome structural abnormalities which were not detected by FISH, however, one of them with a sex chromosome-related structural

  11. A New Color-based Lawn Weed Detection Method and Its Integration with Texture-based Methods: A Hybrid Approach

    Science.gov (United States)

    Watchareeruetai, Ukrit; Ohnishi, Noboru

    We propose a color-based weed detection method specifically designed for detecting lawn weeds in winter. The proposed method exploits fuzzy logic to make inference from color information. Genetic algorithm is adopted to search for the optimal combination of color information, fuzzy membership functions, as well as fuzzy rules used in the method. Experimental results show that the proposed color-based method outperforms the conventional texture-based methods when testing with a winter dataset. In addition, we propose a hybrid system that incorporates both texture-based and color-based weed detection methods. It can automatically select a better method to perform weed detection, depending on an input image. The results show that the use of the hybrid system can significantly improve weed control performances for the overall datasets.

  12. Hybrid Adaptive Ray-Moment Method (HARM2): A highly parallel method for radiation hydrodynamics on adaptive grids

    Science.gov (United States)

    Rosen, A. L.; Krumholz, M. R.; Oishi, J. S.; Lee, A. T.; Klein, R. I.

    2017-02-01

    We present a highly-parallel multi-frequency hybrid radiation hydrodynamics algorithm that combines a spatially-adaptive long characteristics method for the radiation field from point sources with a moment method that handles the diffuse radiation field produced by a volume-filling fluid. Our Hybrid Adaptive Ray-Moment Method (HARM2) operates on patch-based adaptive grids, is compatible with asynchronous time stepping, and works with any moment method. In comparison to previous long characteristics methods, we have greatly improved the parallel performance of the adaptive long-characteristics method by developing a new completely asynchronous and non-blocking communication algorithm. As a result of this improvement, our implementation achieves near-perfect scaling up to O (103) processors on distributed memory machines. We present a series of tests to demonstrate the accuracy and performance of the method.

  13. Hybrid Adaptive Ray-Moment Method (HARM$^2$): A Highly Parallel Method for Radiation Hydrodynamics on Adaptive Grids

    CERN Document Server

    Rosen, Anna L; Oishi, Jeffrey S; Lee, Aaron T; Klein, Richard I

    2016-01-01

    We present a highly-parallel multi-frequency hybrid radiation hydrodynamics algorithm that combines a spatially-adaptive long characteristics method for the radiation field from point sources with a moment method that handles the diffuse radiation field produced by a volume-filling fluid. Our Hybrid Adaptive Ray-Moment Method (HARM$^2$) operates on patch-based adaptive grids, is compatible with asynchronous time stepping, and works with any moment method. In comparison to previous long characteristics methods, we have greatly improved the parallel performance of the adaptive long-characteristics method by developing a new completely asynchronous and non-blocking communication algorithm. As a result of this improvement, our implementation achieves near-perfect scaling up to $\\mathcal{O}(10^3)$ processors on distributed memory machines. We present a series of tests to demonstrate the accuracy and performance of the method.

  14. Resolving colocalization of bacteria and metal(loid)s on plant root surfaces by combining fluorescence in situ hybridization (FISH) with multiple-energy micro-focused X-ray fluorescence (ME μXRF).

    Science.gov (United States)

    Honeker, Linnea K; Root, Robert A; Chorover, Jon; Maier, Raina M

    2016-12-01

    Metal(loid)-contamination of the environment due to anthropogenic activities is a global problem. Understanding the fate of contaminants requires elucidation of biotic and abiotic factors that influence metal(loid) speciation from molecular to field scales. Improved methods are needed to assess micro-scale processes, such as those occurring at biogeochemical interfaces between plant tissues, microbial cells, and metal(loid)s. Here we present an advanced method that combines fluorescence in situ hybridization (FISH) with synchrotron-based multiple-energy micro-focused X-ray fluorescence microprobe imaging (ME μXRF) to examine colocalization of bacteria and metal(loid)s on root surfaces of plants used to phytostabilize metalliferous mine tailings. Bacteria were visualized on a small root section using SytoBC nucleic acid stain and FISH probes targeting the domain Bacteria and a specific group (Alphaproteobacteria, Gammaproteobacteria, or Actinobacteria). The same root region was then analyzed for elemental distribution and metal(loid) speciation of As and Fe using ME μXRF. The FISH and ME μXRF images were aligned using ImageJ software to correlate microbiological and geochemical results. Results from quantitative analysis of colocalization show a significantly higher fraction of As colocalized with Fe-oxide plaques on the root surfaces (fraction of overlap 0.49±0.19) than to bacteria (0.072±0.052) (pbacteria that colocalized with metal(loid)s, Actinobacteria, known for their metal tolerance, had a higher correlation with both As and Fe than Alphaproteobacteria or Gammaproteobacteria. This method demonstrates how coupling these micro-techniques can expand our understanding of micro-scale interactions between roots, metal(loid)s and microbes, information that should lead to improved mechanistic models of metal(loid) speciation and fate. Copyright © 2016 Elsevier B.V. All rights reserved.

  15. A hybrid method based upon nonlinear Lamb wave response for locating a delamination in composite laminates.

    Science.gov (United States)

    Yelve, Nitesh P; Mitra, Mira; Mujumdar, P M; Ramadas, C

    2016-08-01

    A new hybrid method based upon nonlinear Lamb wave response in time and frequency domains is introduced to locate a delamination in composite laminates. In Lamb wave based nonlinear method, the presence of damage is shown by the appearance of higher harmonics in the Lamb wave response. The proposed method not only uses this spectral information but also the corresponding temporal response data, for locating the delamination. Thus, the method is termed as a hybrid method. The paper includes formulation of the method and its application to locate a Barely Visible Impact Damage (BVID) induced delamination in a Carbon Fiber Reinforced Polymer (CFRP) laminate. The method gives the damage location fairly well. It is a baseline free method, as it does not need data from the pristine specimen.

  16. Hybridization of the probability perturbation method with gradient information

    DEFF Research Database (Denmark)

    Johansen, Kent; Caers, J.; Suzuki, S.

    2007-01-01

    Geostatistically based history-matching methods make it possible to devise history-matching strategies that will honor geologic knowledge about the reservoir. However, the performance of these methods is known to be impeded by slow convergence rates resulting from the stochastic nature of the alg......Geostatistically based history-matching methods make it possible to devise history-matching strategies that will honor geologic knowledge about the reservoir. However, the performance of these methods is known to be impeded by slow convergence rates resulting from the stochastic nature...

  17. Preservation of Steamed Fish (Rastrelliger Sp With Combine Method Using Sodium Acetate, Lactic Acid Bacteria Culture and Vacuum Packaging

    Directory of Open Access Journals (Sweden)

    Betty Sri Laksmi Jenie, . Nuratifa, . Suliantari

    2001-04-01

    Full Text Available This study was carried out to improve the safety and shelf life of cooked kembung fish (Rastrelliger sp, a traditional food called pindang fish. Fresh eviscerated fish was fisrt soaked in 2% NaCl solution for 15 minutes, drained, washed with tap water and drained again. Sodium chloride at 12% concentration (w/w was distributed on the whole surface of the fish. Fish was then laid on a wooden basket inside a clay pot, steamed for 30 minutes, and then cooled. Combine method applied to the steamed fish (pindang was soaking in a mixed culture of Lactobacillus plantarum kik and Lactococcus lactis subsp. cremoris in the ratio of 2 : 1 (v/v containing 4% Na-acetate for 2 hrs and after draining, the product was vacuum packed. The result showed that the combine method using mixed culture of lactic acid bacteria containing 4% Na-acetate could reduce the growth of Staphylococcus aureus by 3-6 log units, decrease the TMA (Trimethylamine content and maintain the organoleptic properties (texture, appearance and odor of pindang fish during 6 days storage at room temperature. Control treatment without 4% Na-acetate could only keep the pindang fish for 4 days. Vacuum and nonvacuum packaging did not show any significant difference.

  18. Adjoint method for hybrid guidance loop state-space models

    NARCIS (Netherlands)

    Weiss, M.; Bucco, D.

    2015-01-01

    A framework is introduced to develop the theory of the adjoint method for models including both continuous and discrete dynamics. The basis of this framework consists of the class of impulsive linear dynamic systems. It allows extension of the adjoint method to more general models that include multi

  19. A Hybrid Positioning Method Based on Hypothesis Testing

    DEFF Research Database (Denmark)

    Amiot, Nicolas; Pedersen, Troels; Laaraiedh, Mohamed

    2012-01-01

    maxima. We propose to first estimate the support region of the two peaks of the likelihood function using a set membership method, and then decide between the two regions using a rule based on the less reliable observations. Monte Carlo simulations show that the performance of the proposed method...

  20. Development of a hybrid deterministic/stochastic method for 1D nuclear reactor kinetics

    Science.gov (United States)

    Terlizzi, Stefano; Rahnema, Farzad; Zhang, Dingkang; Dulla, Sandra; Ravetto, Piero

    2015-12-01

    A new method has been implemented for solving the time-dependent neutron transport equation efficiently and accurately. This is accomplished by coupling the hybrid stochastic-deterministic steady-state coarse-mesh radiation transport (COMET) method [1,2] with the new predictor-corrector quasi-static method (PCQM) developed at Politecnico di Torino [3]. In this paper, the coupled method is implemented and tested in 1D slab geometry.

  1. Development of a hybrid deterministic/stochastic method for 1D nuclear reactor kinetics

    Energy Technology Data Exchange (ETDEWEB)

    Terlizzi, Stefano; Dulla, Sandra; Ravetto, Piero [Politecnico di Torino, Corso Duca degli Abruzzi, 24 10129, Torino (Italy); Rahnema, Farzad, E-mail: farzad@gatech.edu [Nuclear & Radiological Engineering and Medical Physics Programs, Georgia Institute of Technology, 770 State Street NW, Atlanta, Ga, 30332-0745 (United States); Nuclear & Radiological Engineering and Medical Physics Programs, Georgia Institute of Technology, 770 State Street NW, Atlanta, Ga, 30332-0745 (United States); Zhang, Dingkang [Nuclear & Radiological Engineering and Medical Physics Programs, Georgia Institute of Technology, 770 State Street NW, Atlanta, Ga, 30332-0745 (United States)

    2015-12-31

    A new method has been implemented for solving the time-dependent neutron transport equation efficiently and accurately. This is accomplished by coupling the hybrid stochastic-deterministic steady-state coarse-mesh radiation transport (COMET) method [1,2] with the new predictor-corrector quasi-static method (PCQM) developed at Politecnico di Torino [3]. In this paper, the coupled method is implemented and tested in 1D slab geometry.

  2. Application of Computational Intelligence in Order to Develop Hybrid Orbit Propagation Methods

    Directory of Open Access Journals (Sweden)

    Iván Pérez

    2013-01-01

    Full Text Available We present a new approach in astrodynamics and celestial mechanics fields, called hybrid perturbation theory. A hybrid perturbation theory combines an integrating technique, general perturbation theory or special perturbation theory or semianalytical method, with a forecasting technique, statistical time series model or computational intelligence method. This combination permits an increase in the accuracy of the integrating technique, through the modeling of higher-order terms and other external forces not considered in the integrating technique. In this paper, neural networks have been used as time series forecasters in order to help two economic general perturbation theories describe the motion of an orbiter only perturbed by the Earth’s oblateness.

  3. Fluorescence in situ hybridization-flow cytometry-cell sorting-based method for separation and enrichment of type I and type II methanotroph populations.

    Science.gov (United States)

    Kalyuzhnaya, Marina G; Zabinsky, Rebecca; Bowerman, Sarah; Baker, David R; Lidstrom, Mary E; Chistoserdova, Ludmila

    2006-06-01

    A fluorescence in situ hybridization-flow cytometry (FISH/FC)-based method was optimized using artificial mixtures of pure cultures of methanotrophic bacteria. Traditional oligonucleotide probes targeting 16S rRNAs of type I (MG84/705 probe) and type II (MA450 probe) methanotrophs were labeled with fluorescein or Alexa fluor and used for FISH, followed by fluorescence-activated FC analysis and cell sorting (FACS). The method resulted in efficient separation of target cells (type I or type II methanotrophs) from the artificial mixtures. The method was then applied for detection and enrichment of type I and type II methanotroph populations from a natural sample, Lake Washington sediment. Cells were extracted from the sediment, fixed, and subjected to FISH/FC/FACS. The resulting subpopulations were analyzed by reverse transcriptase PCR surveys of 16S rRNA, pmoA (encoding a subunit of particulate methane monooxygenase), and fae (encoding formaldehyde-activating enzyme) genes. The functional gene analysis indicated specific separation of the type I and type II methanotroph populations. 16S rRNA gene analysis revealed that type I methanotrophs comprised 59% of the subpopulation separated using the type I-specific probe and that type II methanotrophs comprised 47.5% of the subpopulation separated using the type II-specific probe. Our data indicate that the FISH/FC/FACS protocol described can provide significant enrichment of microbial populations of interest from complex natural communities and that these can be used for genetic tests. We further tested the possibility of direct whole-genome amplification (WGA) from limited numbers of sorted cells, using artificial mixtures of microbes whose genome sequences are known. We demonstrated that efficient WGA can be achieved using 10(4) or more cells separated by 16S rRNA-specific FISH/FC/FACS, while fewer cells resulted in less specific WGA.

  4. Rapid and Efficient Method for the Detection of Microplastic in the Gastrointestinal Tract of Fishes.

    Science.gov (United States)

    Roch, Samuel; Brinker, Alexander

    2017-04-07

    The rising evidence of microplastic pollution impacts on aquatic organisms in both marine and freshwater ecosystems highlights a pressing need for adequate and comparable detection methods. Available tissue digestion protocols are time-consuming (>10 h) and/or require several procedural steps, during which materials can be lost and contaminants introduced. This novel approach comprises an accelerated digestion step using sodium hydroxide and nitric acid in combination to digest all organic material within 1 h plus an additional separation step using sodium iodide which can be used to reduce mineral residues in samples where necessary. This method yielded a microplastic recovery rate of ≥95%, and all tested polymer types were recovered with only minor changes in weight, size, and color with the exception of polyamide. The method was also shown to be effective on field samples from two benthic freshwater fish species, revealing a microplastic burden comparable to that indicated in the literature. As a consequence, the present method saves time, minimizes the loss of material and the risk of contamination, and facilitates the identification of plastic particles and fibers, thus providing an efficient method to detect and quantify microplastics in the gastrointestinal tract of fishes.

  5. Hybrid airfoil design methods for full-scale ice accretion simulation

    Science.gov (United States)

    Saeed, Farooq

    The objective of this thesis is to develop a design method together with a design philosophy that allows the design of "subscale" or "hybrid" airfoils that simulate fullscale ice accretions. These subscale or hybrid airfoils have full-scale leading edges and redesigned aft-sections. A preliminary study to help develop a design philosophy for the design of hybrid airfoils showed that hybrid airfoils could be designed to simulate full-scale airfoil droplet-impingement characteristics and, therefore, ice accretion. The study showed that the primary objective in such a design should be to determine the aft section profile that provides the circulation necessary for simulating full-scale airfoil droplet-impingement characteristics. The outcome of the study, therefore, reveals circulation control as the main design variable. To best utilize this fact, this thesis describes two innovative airfoil design methods for the design of hybrid airfoils. Of the two design methods, one uses a conventional flap system while the other only suggests the use of boundary-layer control through slot-suction on the airfoil upper surface as a possible alternative for circulation control. The formulation of each of the two design methods is described in detail, and the results from each method are validated using wind-tunnel test data. The thesis demonstrates the capabilities of each method with the help of specific design examples highlighting their application potential. In particular, the flap-system based hybrid airfoil design method is used to demonstrate the design of a half-scale hybrid model of a full-scale airfoil that simulates full-scale ice accretion at both the design and off-design conditions. The full-scale airfoil used is representative of a scaled modern business-jet main wing section. The study suggests some useful advantages of using hybrid airfoils as opposed to full-scale airfoils for a better understanding of the ice accretion process and the related issues. Results

  6. Fish stock assessment under data limitations developing a new method based on a size-structured theoretical ecology framework

    DEFF Research Database (Denmark)

    Kokkalis, Alexandros

    -series. The method provides estimates of fishing mortality and the FMSY reference point, it is tested and validated, and is implemented as software package making it easy to use by stakeholders of different levels. The basis of the method is a size-based theoretical ecology framework that describes exploited fish...... for fish stocks that are not assessed. The goal of the thesis is to develop a new data-limited stock assessment method that is: rooted in theoretical ecology, requires only information about the size composition of the catch or surveys (i.e. aging is not required), and does not require time......-likelihood optimisation framework to estimate model parameters. The data-limited method estimates at the same time the fishing mortality rate and the biological reference point FMSY . Minimum data requirements consist of a single size frequency distribution fromthe commercial catch or a scientific survey. If the total...

  7. Distinguishing enzymes using metabolome data for the hybrid dynamic/static method

    Directory of Open Access Journals (Sweden)

    Nakayama Yoichi

    2007-05-01

    Full Text Available Abstract Background In the process of constructing a dynamic model of a metabolic pathway, a large number of parameters such as kinetic constants and initial metabolite concentrations are required. However, in many cases, experimental determination of these parameters is time-consuming. Therefore, for large-scale modelling, it is essential to develop a method that requires few experimental parameters. The hybrid dynamic/static (HDS method is a combination of the conventional kinetic representation and metabolic flux analysis (MFA. Since no kinetic information is required in the static module, which consists of MFA, the HDS method may dramatically reduce the number of required parameters. However, no adequate method for developing a hybrid model from experimental data has been proposed. Results In this study, we develop a method for constructing hybrid models based on metabolome data. The method discriminates enzymes into static modules and dynamic modules using metabolite concentration time series data. Enzyme reaction rate time series were estimated from the metabolite concentration time series data and used to distinguish enzymes optimally for the dynamic and static modules. The method was applied to build hybrid models of two microbial central-carbon metabolism systems using simulation results from their dynamic models. Conclusion A protocol to build a hybrid model using metabolome data and a minimal number of kinetic parameters has been developed. The proposed method was successfully applied to the strictly regulated central-carbon metabolism system, demonstrating the practical use of the HDS method, which is designed for computer modelling of metabolic systems.

  8. Hybrid Prediction Method for Aircraft Interior Noise Project

    Data.gov (United States)

    National Aeronautics and Space Administration — This proposal discusses the development and application of new methods of structural-acoustic analysis in order to address existing problems in aircraft interior...

  9. HYBRID METHOD FOR ANALYSE DISCONTINUITIES IN SHIELDED MICROSTRIP

    Directory of Open Access Journals (Sweden)

    MOHAMMED EL AMINE EL GOUZI

    2010-07-01

    Full Text Available A rigorous full-wave analysis is employed to analyze discontinuity in shielded Microstrip (open end, uniform bend. An accurate and efficient method of moments solution combined with the source method(SM formulation is proposed in order to achieve a full-wave characterization of the analyzed structures. A wavelet matrix transform(WMT, operated by wavelet-like transform (WLT allows a significant reduction of the central processing unit time and the memory storage.

  10. A direct hybrid S{sub N} method for slab-geometry lattice calculations

    Energy Technology Data Exchange (ETDEWEB)

    Silva, Davi J.M.; Barros, Ricardo C., E-mail: rcbarros@pq.cnpq.b [Universidade do Estado do Rio de Janeiro (IPRJ/UERJ), Nova Friburgo, RJ (Brazil). Programa de Pos-graduacao em Modelagem Computacional; Zani, Jose H. [Fundacao Educacional Serra dos Orgaos, Teresopolis, RJ (Brazil). Ciencia da Computacao

    2011-07-01

    In this work we describe a hybrid direct method for calculating the thermal disadvantage factor and the neutron flux distribution in fuel-moderator lattices. For the mathematical model, we use the one-speed slab-geometry discrete ordinates (S{sub N}) transport equation with linearly anisotropic scattering. The basic idea is to use higher order angular quadrature set in the highly absorbing fuel region (S{sub NF}) and lower order angular quadrature set in the diffusive moderator region (S{sub NM}) , i.e., N{sub F} > N{sub M}. We apply special continuity conditions based on the equivalence of the S{sub N} and P{sub N-1} equations, which characterize the hybrid model. Numerical results to a typical model problem are given to illustrate the accuracy and the efficiency of the offered hybrid method. (author)

  11. GeoNeoLogical novel and other hybrimedia experiments: or how to use hybrid methods such as Hybrid Discourse Analysis (HDA within a knowledge base

    Directory of Open Access Journals (Sweden)

    Andrade, Pedro

    2016-07-01

    Full Text Available In this essay I will present some results of the project Public Communication of Art, which developed a seminal theory and methodology intended to cope with hybridity and new media literacy in our globalized and inter/transcultural world. Some of the methods used blend vision with touch and are called ‘hybrid methods’ or ‘hybrimethods’. Examples of these are, for instance, a Multitouch Interactive Table, a Multitouch Questionnaire, Trichotomies Game and GeoNeoLogic Novel, this last one being a hybrid novel activated by fusion of vision, touch and GPS coordinates. Another hybrimethod is a sort of discursive analysis, named Hybrid Discourse Analysis (HDA, which uses ‘semantic-logical networks’ organized by concepts and ‘relation-concepts’. HDA is here articulated with Critical Sociology and applied to the analysis of a text on Magic Realism, which is also a hybrid genre within the social field of literature.

  12. Behavior of meiotic chromosomes in Pinus wallichiana, P. strobus and their hybrid and nrDNA localization in pollen mother cells of the hybrid by using FISH.

    Science.gov (United States)

    Deng, Hui-Sheng; Zhang, Da-Ming; Fu, Cheng-Xin; Hong, De-Yuan

    2008-03-01

    The complete process of meiosis was investigated in Pinus wallichiana, P. strobus and their artificial hybrid (F1) using microsporocytes. It is revealed that there were slightly lower chiasma frequency, lower ring bivalent frequency, lower meiotic index and distinctly higher frequency of aberrance (chromosomal bridges, fragments or micronuclei) in pollen mother cells (PMCs) of the hybrid (F1) than those of the parental species, which showed a certain degree of differentiation between homologous chromosomes of the two parents. However, relatively higher frequency of ring bivalents and higher meiotic index in all the three entities indicate the great stability of genomes of parental species, and the differentiation of genomes between the two parents must have been slight. Total nineteen signal loci of 18S rDNA were observed in nine bivalents of the hybrid (F1), among which one bivalent bears two loci, while the others have only one. It is suggested that distinct differentiation at genetic level existed in homologous chromosomes of the two parental species, whereas only slight differentiation at karyotypic and genomic levels take place between the parent species.

  13. Behavior of Meiotic Chromosomes in Pinus wallichiana, P. strobus and Their Hybrid and nrDNA Localization in Pollen Mother Cells of the Hybrid by Using FISH

    Institute of Scientific and Technical Information of China (English)

    Hui-Sheng Deng; Da-Ming Zhang; Cheng-Xin Fu; De-Yuan Hong

    2008-01-01

    The complete process of meiosis was investigated in Pinus wallichiana, P. strobus and their artificial hybrid (F1) using microsporocytes. It is revealed that there were slightly lower chiasma frequency, lower ring bivalent frequency, lower meiotic Index and distinctly higher frequency of aberrance (chromosomal bridges, fragments or micronuclei) in pollen mother cells (PMCs) of the hybrid (F1) than those of the parental species, which showed a certain degree of differentiation between homologous chromosomes of the two parents. However, relatively higher frequency of ring bivalents and higher meiotic index in all the three entities indicate the great stability of genomes of parental species, and the differentiation of genomes between the two parents must have been slight. Total nineteen signal loci of 18S rDNA were observed in nine bivalents of the hybrid (F1), among which one bivalent bears two loci, while the others have only one. It is suggested that distinct differentiation at genetic level existed in homologous chromosomes of the two parental species, whereas only slight differentiation at karyotypic and genomic levels take place between the parent species.

  14. A Bayesian hybrid method for context-sensitive spelling correction

    CERN Document Server

    Golding, A R

    1996-01-01

    Two classes of methods have been shown to be useful for resolving lexical ambiguity. The first relies on the presence of particular words within some distance of the ambiguous target word; the second uses the pattern of words and part-of-speech tags around the target word. These methods have complementary coverage: the former captures the lexical ``atmosphere'' (discourse topic, tense, etc.), while the latter captures local syntax. Yarowsky has exploited this complementarity by combining the two methods using decision lists. The idea is to pool the evidence provided by the component methods, and to then solve a target problem by applying the single strongest piece of evidence, whatever type it happens to be. This paper takes Yarowsky's work as a starting point, applying decision lists to the problem of context-sensitive spelling correction. Decision lists are found, by and large, to outperform either component method. However, it is found that further improvements can be obtained by taking into account not ju...

  15. Hybrid function method for solving Fredholm and Volterra integral equations of the second kind

    Science.gov (United States)

    Hsiao, Chun-Hui

    2009-08-01

    Numerical solutions of Fredholm and Volterra integral equations of the second kind via hybrid functions, are proposed in this paper. Based upon some useful properties of hybrid functions, integration of the cross product, a special product matrix and a related coefficient matrix with optimal order, are applied to solve these integral equations. The main characteristic of this technique is to convert an integral equation into an algebraic; hence, the solution procedures are either reduced or simplified accordingly. The advantages of hybrid functions are that the values of n and m are adjustable as well as being able to yield more accurate numerical solutions than the piecewise constant orthogonal function, for the solutions of integral equations. We propose that the available optimal values of n and m can minimize the relative errors of the numerical solutions. The high accuracy and the wide applicability of the hybrid function approach will be demonstrated with numerical examples. The hybrid function method is superior to other piecewise constant orthogonal functions [W.F. Blyth, R.L. May, P. Widyaningsih, Volterra integral equations solved in Fredholm form using Walsh functions, Anziam J. 45 (E) (2004) C269-C282; M.H. Reihani, Z. Abadi, Rationalized Haar functions method for solving Fredholm and Volterra integral equations, J. Comp. Appl. Math. 200 (2007) 12-20] for these problems.

  16. Methods for assessing DNA hybridization of PNA-TiO2 nanoconjugates

    Science.gov (United States)

    Brown, Eric M. B.; Paunesku, Tatjana; Wu, AiGuo; Thurn, K. Ted; Haley, Benjamin; Clark, Jimmy; Priester, Taisa; Woloschak, Gayle E.

    2008-01-01

    We describe the synthesis of peptide nucleic acid (PNA)-titanium dioxide (TiO2) nanoconjugates and the several novel methods developed to investigate the DNA hybridization behaviors of these constructs. PNAs are synthetic DNA analogs resistant to degradation by cellular enzymes, which hybridize to single strand DNA (ssDNA) with higher affinity than DNA oligonucleotides, invade double strand DNA (dsDNA), and form different PNA-DNA complexes. Previously, we developed a DNA-TiO2 nanoconjugate capable of hybridizing to target DNA intracellularly in a sequence-specific manner, with the ability to cleave DNA when excited by electromagnetic radiation, but susceptible to degradation which may lower its intracellular targeting efficiency and retention time. PNA-TiO2 nanoconjugates described herein hybridize to target ssDNA, oligonucleotide dsDNA, and supercoiled plasmid DNA under physiological-like ionic and temperature conditions, enabling rapid and inexpensive, sequence-specific precipitation of nucleic acids in vitro. When modified by the addition of imaging agents or peptides, hybridization capabilities of PNA-TiO2 nanoconjugates are enhanced which provides essential benefits for numerous in vitro and in vivo applications. The series of experiments shown here could not be done with either TiO2-DNA nanoconjugates or PNAs alone, and the novel methods developed will benefit studies of numerous other nanoconjugate systems. PMID:18786502

  17. A hybrid optimization method for biplanar transverse gradient coil design

    Energy Technology Data Exchange (ETDEWEB)

    Qi Feng [Key Laboratory for Quantum Information and Measurements, Ministry of Education, School of Electronics Engineering and Computer Science, Peking University, Beijing 100871 (China); Tang Xin [Beijing Key Laboratory of Medical Physics and Engineering, Institute of Heavy Ion Physics, School of Physics, Peking University, Beijing 100871 (China); Jin Zhe [Key Laboratory for Quantum Information and Measurements, Ministry of Education, School of Electronics Engineering and Computer Science, Peking University, Beijing 100871 (China); Jiang Zhongde [Beijing Key Laboratory of Medical Physics and Engineering, Institute of Heavy Ion Physics, School of Physics, Peking University, Beijing 100871 (China); Shen Yifei [Key Laboratory for Quantum Information and Measurements, Ministry of Education, School of Electronics Engineering and Computer Science, Peking University, Beijing 100871 (China); Meng Bin [Key Laboratory for Quantum Information and Measurements, Ministry of Education, School of Electronics Engineering and Computer Science, Peking University, Beijing 100871 (China); Zu Donglin [Beijing Key Laboratory of Medical Physics and Engineering, Institute of Heavy Ion Physics, School of Physics, Peking University, Beijing 100871 (China); Wang Weimin [Key Laboratory for Quantum Information and Measurements, Ministry of Education, School of Electronics Engineering and Computer Science, Peking University, Beijing 100871 (China)

    2007-05-07

    The optimization of transverse gradient coils is one of the fundamental problems in designing magnetic resonance imaging gradient systems. A new approach is presented in this paper to optimize the transverse gradient coils' performance. First, in the traditional spherical harmonic target field method, high order coefficients, which are commonly ignored, are used in the first stage of the optimization process to give better homogeneity. Then, some cosine terms are introduced into the series expansion of stream function. These new terms provide simulated annealing optimization with new freedoms. Comparison between the traditional method and the optimized method shows that the inhomogeneity in the region of interest can be reduced from 5.03% to 1.39%, the coil efficiency increased from 3.83 to 6.31 mT m{sup -1} A{sup -1} and the minimum distance of these discrete coils raised from 1.54 to 3.16 mm.

  18. Hybrid inverse design method for nonlifting bodies in incompressible flow

    CSIR Research Space (South Africa)

    Broughton, BA

    2006-11-01

    Full Text Available is needed. The possible applications of a general inverse design method also extend beyond fuselage design: work done by Lutz and Wagner [18] on shape optimization of airship bodies demonstrated the usefulness of a custom inverse design method...�uence of a second component in the �ow�eld is shown. In this last example, a constant- chord symmetrical keel at zero angle of attack is added to the body to simulate the bulb and keel of a competition sailing yacht. Design of an Airship Body The goal...

  19. Monitoring rationale, strategy, issues, and methods: UMRR-EMP LTRMP fish component

    Science.gov (United States)

    Ickes, Brian S.; Sauer, Jennifer S.; Rogala, James T.

    2014-01-01

    The Long Term Resource Monitoring Program (LTRMP), an element of the multiagency partnership Upper Mississippi River Restoration-Environmental Management Program, has been monitoring fishes in the Upper Mississippi River System (UMRS) for over two decades, using scientific and highly standardized methods. Today, the LTRMP’s data assets represent one of the world’s largest and most extensive datasets on a great river. Methods and procedures used over the past two decades have been documented and have proven a key tool towards gaining data that are (a) scientifically valid, (b) comparable over time, and (c) comparable over space. These procedures manuals coordinate and standardize methods, procedures, and field behaviors in the execution of long-term monitoring, permitting the informed management and control of important sources of error actually under program control. As LTRMP databases have matured in scope and accumulated more years' worth of data, their utility in research and management in the UMRS basin has increased notably. To maximize their utility, data users need not only be aware of “how the data were collected,” as portrayed in the procedures manuals, but also “why the data were collected in the way they were, at the scales they were, and in the manner that they were.” Whereas the procedures manuals contribute information as to the “how” the data were gained, this document seeks to contribute information as to the “why.” As such, this document is intended to be a companion document to the procedures manuals. Herein, we present information on the rationale for monitoring nearly one-fifth of the entire North American freshwater fish fauna (representing the greatest freshwater fish diversity on the planet at temperate latitudes); strategies employed and their reasoning; and discussions on issues associated with the sampling design itself, data arising therefrom, and uses of those data in different contexts.

  20. Comparison of thiaminase activity in fish using the radiometric and 4-nitrothiophenol colorimetric methods

    Science.gov (United States)

    Honeyfield, D.C.; Hanes, J.W.; Brown, L.; Kraft, C.E.; Begley, T.P.

    2010-01-01

    Thiaminase induced thiamine deficiency occurs in fish, humans, livestock and wild animals. A non-radioactive thiaminase assay was described in 2007, but a direct comparison with the radioactive 14C-thiamine method which has been in use for more than 30years has not been reported. The objective was to measure thiaminase activity in forage fish (alewife Alosa pseudoharengus, rainbow smelt Osmerus mordax, and slimy sculpin Cottus cognatus) consumed by predators that manifest thiamine deficiency using both methods. Modifications were made to the colorimetric assay to improve repeatability. Modification included a change in assay pH, enhanced sample clean-up, constant assay temperature (37??C), increase in the concentration of 4-nitrothiophenol (4NTP) and use of a spectrophotometer fitted with a 0.2cm cell. A strong relationship between the two assays was found for 51 alewife (R2=0.85), 36 smelt (R2=0.87) and 20 sculpin (R2=0.82). Thiaminase activity in the colorimetric assay was about 1000 times higher than activity measured by the radioactive method. Application of the assay to fish species from which no thiaminase activity has previously been reported resulted in no 4NTP thiaminase activity being found in bloater Coregonus hoyi, lake trout Salvelinus namaycusch, steelhead trout Oncorhynchus mykiss or Chinook salmon Oncorhynchus tshawytscha. In species previously reported to contain thiaminase, 4NTP thiaminase activity was measured in bacteria Paenibacillus thiaminolyticus, gizzard shad Dorosoma cepedianum, bracken fern Pteridium aquilinum, quagga mussel Dreissena bugensis and zebra mussels D. polymorpha. ?? 2010.

  1. [Development of a Dual Detection Method with Fluorescence In Situ Hybridization and Immunostaining on Formalin-Fixed Paraffin-Embedded Tissue Sections--Molecular Pathological Detection Techniques and Their Applications to Pathological Diagnosis].

    Science.gov (United States)

    Ikeda, Satoshi

    2015-06-01

    Fluorescence in situ hybridization (FISH) has recently become important for pathological diagnosis. However, its practical applications is not widespread because FISH protocol with FFPE specimens is complicated. We report a dual detection method by overlapping FISH with fluorescent immunostaining on FFPE sections. This method is characterized by changing buffers for heat treatment without proteolytic enzyme treatment. Subsequent proteolytic enzyme treatment can be omitted using an antigen activation solution, pH9 (Nichirei Corporation), for heat treatment. After the pretreatment, dual detection was achieved by DNA FISH following RNA FISH and fluorescent immunostaining. This protocol visualized gene abnormalities and protein overexpression on the same sections. Of note, in poorly differentiated tumors containing both normal and tumor cells, the tumor cells were clearly identified on the sections, and FISH signals could be counted in these cells. In addition, HER2 mRNA overexpression and gene amplification were simultaneously detected in HER2-positive gastric cancer. Thus, this method should be widely applicable in clinical settings.

  2. A hybrid method for the parallel computation of Green's functions

    DEFF Research Database (Denmark)

    Petersen, Dan Erik; Li, Song; Stokbro, Kurt;

    2009-01-01

    Quantum transport models for nanodevices using the non-equilibrium Green's function method require the repeated calculation of the block tridiagonal part of the Green's and lesser Green's function matrices. This problem is related to the calculation of the inverse of a sparse matrix. Because...

  3. Blind testing of cross-linking/mass spectrometry hybrid methods in CASP11.

    Science.gov (United States)

    Schneider, Michael; Belsom, Adam; Rappsilber, Juri; Brock, Oliver

    2016-09-01

    Hybrid approaches combine computational methods with experimental data. The information contained in the experimental data can be leveraged to probe the structure of proteins otherwise elusive to computational methods. Compared with computational methods, the structures produced by hybrid methods exhibit some degree of experimental validation. In spite of these advantages, most hybrid methods have not yet been validated in blind tests, hampering their development. Here, we describe the first blind test of a specific cross-link based hybrid method in CASP. This blind test was coordinated by the CASP organizers and utilized a novel, high-density cross-linking/mass-spectrometry (CLMS) approach that is able to collect high-density CLMS data in a matter of days. This experimental protocol was developed in the Rappsilber laboratory. This approach exploits the chemistry of a highly reactive, photoactivatable cross-linker to produce an order of magnitude more cross-links than homobifunctional cross-linkers. The Rappsilber laboratory generated experimental CLMS data based on this protocol, submitted the data to the CASP organizers which then released this data to the CASP11 prediction groups in a separate, CLMS assisted modeling experiment. We did not observe a clear improvement of assisted models, presumably because the properties of the CLMS data-uncertainty in cross-link identification and residue-residue assignment, and uneven distribution over the protein-were largely unknown to the prediction groups and their approaches were not yet tailored to this kind of data. We also suggest modifications to the CLMS-CASP experiment and discuss the importance of rigorous blind testing in the development of hybrid methods. Proteins 2016; 84(Suppl 1):152-163. © 2016 The Authors Proteins: Structure, Function, and Bioinformatics Published by Wiley Periodicals, Inc.

  4. METHOD FOR OBSERVATION OF DEEMBEDDED SECTIONS OF FISH GONAD BY SCANNING ELECTRON MICROSCOPY

    Institute of Scientific and Technical Information of China (English)

    2000-01-01

    This article reports a method for examining the intracellular structure of fish gonads using a scanning electron microscope(SEM). The specimen preparation procedure is similar to that for transmission electron microscopy wherein samples cut into semi-thin sections are fixed and embedded in plastic. The embedment matrix was removed by solvents. Risen-free specimens could be observed by SEM. The morphology of matured sperms in the gonad was very clear, and the oocyte internal structures appeared in three-dimensional images. Spheroidal nucleoli and yolk vesicles and several bundles of filaments adhered on the nucleoli could be viewed by SEM for the first time.

  5. A Hybrid Natural Transform Homotopy Perturbation Method for Solving Fractional Partial Differential Equations

    Directory of Open Access Journals (Sweden)

    Shehu Maitama

    2016-01-01

    Full Text Available A hybrid analytical method for solving linear and nonlinear fractional partial differential equations is presented. The proposed analytical approach is an elegant combination of the Natural Transform Method (NTM and a well-known method, Homotopy Perturbation Method (HPM. In this analytical method, the fractional derivative is computed in Caputo sense and the nonlinear term is calculated using He’s polynomial. The proposed analytical method reduces the computational size and avoids round-off errors. Exact solution of linear and nonlinear fractional partial differential equations is successfully obtained using the analytical method.

  6. A HYBRID METHOD FOR AUTOMATIC COUNTING OF MICROORGANISMS IN MICROSCOPIC IMAGES

    OpenAIRE

    2016-01-01

    Microscopic image analysis is an essential process to enable the automatic enumeration and quantitative analysis of microbial images. There are several system are available for numerating microbial growth. Some of the existing method may be inefficient to accurately count the overlapped microorganisms. Therefore, in this paper we proposed an efficient method for automatic segmentation and counting of microorganisms in microscopic images. This method uses a hybrid approach based on...

  7. Multicenter Evaluation of the Staphylococcus QuickFISH Method for Simultaneous Identification of Staphylococcus aureus and Coagulase-Negative Staphylococci Directly from Blood Culture Bottles in Less than 30 Minutes

    Science.gov (United States)

    Deck, Melissa K.; Anderson, Erica S.; Buckner, Rebecca J.; Colasante, Georgia; Coull, James M.; Crystal, Benjamin; Latta, Phyllis Della; Fuchs, Martin; Fuller, Deanna; Harris, Will; Hazen, Kevin; Klimas, Lisa L.; Lindao, Daniel; Meltzer, Michelle C.; Morgan, Margie; Shepard, Janeen; Stevens, Sharon; Wu, Fann

    2012-01-01

    A novel rapid peptide nucleic acid fluorescence in situ hybridization (FISH) method, Staphylococcus QuickFISH, for the direct detection of Staphylococcus species from positive blood culture bottles was evaluated in a multicenter clinical study. The method utilizes a microscope slide with predeposited positive- and negative-control organisms and a self-reporting 15-min hybridization step, which eliminates the need for a wash step. Five clinical laboratories tested 722 positive blood culture bottles containing Gram-positive cocci in clusters. The sensitivities for detection of Staphylococcus aureus and coagulase-negative staphylococci (CoNS) were 99.5% (217/218) and 98.8% (487/493), respectively, and the combined specificity of the assay was 89.5% (17/19). The combined positive and negative predictive values of the assay were 99.7% (696/698) and 70.8% (17/24), respectively. Studies were also performed on spiked cultures to establish the specificity and performance sensitivity of the method. Staphylococcus QuickFISH has a turnaround time (TAT) of <30 min and a hands-on time (HOT) of <5 min. The ease and speed of the method have the potential to improve the accuracy of therapeutic intervention by providing S. aureus/CoNS identification simultaneously with Gram stain results. PMID:22493336

  8. Multicenter evaluation of the Staphylococcus QuickFISH method for simultaneous identification of Staphylococcus aureus and coagulase-negative staphylococci directly from blood culture bottles in less than 30 minutes.

    Science.gov (United States)

    Deck, Melissa K; Anderson, Erica S; Buckner, Rebecca J; Colasante, Georgia; Coull, James M; Crystal, Benjamin; Della Latta, Phyllis; Fuchs, Martin; Fuller, Deanna; Harris, Will; Hazen, Kevin; Klimas, Lisa L; Lindao, Daniel; Meltzer, Michelle C; Morgan, Margie; Shepard, Janeen; Stevens, Sharon; Wu, Fann; Fiandaca, Mark J

    2012-06-01

    A novel rapid peptide nucleic acid fluorescence in situ hybridization (FISH) method, Staphylococcus QuickFISH, for the direct detection of Staphylococcus species from positive blood culture bottles was evaluated in a multicenter clinical study. The method utilizes a microscope slide with predeposited positive- and negative-control organisms and a self-reporting 15-min hybridization step, which eliminates the need for a wash step. Five clinical laboratories tested 722 positive blood culture bottles containing gram-positive cocci in clusters. The sensitivities for detection of Staphylococcus aureus and coagulase-negative staphylococci (CoNS) were 99.5% (217/218) and 98.8% (487/493), respectively, and the combined specificity of the assay was 89.5% (17/19). The combined positive and negative predictive values of the assay were 99.7% (696/698) and 70.8% (17/24), respectively. Studies were also performed on spiked cultures to establish the specificity and performance sensitivity of the method. Staphylococcus QuickFISH has a turnaround time (TAT) of <30 min and a hands-on time (HOT) of <5 min. The ease and speed of the method have the potential to improve the accuracy of therapeutic intervention by providing S. aureus/CoNS identification simultaneously with Gram stain results.

  9. Developing energy forecasting model using hybrid artificial intelligence method

    Institute of Scientific and Technical Information of China (English)

    Shahram Mollaiy-Berneti

    2015-01-01

    An important problem in demand planning for energy consumption is developing an accurate energy forecasting model. In fact, it is not possible to allocate the energy resources in an optimal manner without having accurate demand value. A new energy forecasting model was proposed based on the back-propagation (BP) type neural network and imperialist competitive algorithm. The proposed method offers the advantage of local search ability of BP technique and global search ability of imperialist competitive algorithm. Two types of empirical data regarding the energy demand (gross domestic product (GDP), population, import, export and energy demand) in Turkey from 1979 to 2005 and electricity demand (population, GDP, total revenue from exporting industrial products and electricity consumption) in Thailand from 1986 to 2010 were investigated to demonstrate the applicability and merits of the present method. The performance of the proposed model is found to be better than that of conventional back-propagation neural network with low mean absolute error.

  10. Hybrid Particle-Continuum Numerical Methods for Aerospace Applications

    Science.gov (United States)

    2011-01-01

    Numerical Methods for Aerospace Applications 6 - 2 RTO-EN-AVT-194 2.1 Micro-Scale Flows Recently, an increase in the development of micro- and nano ...equations predict a separation bubble that forms along the surface that is signicantly larger than experimental measurements. In general, DSMC...and Rockets, Vol. 31, No. 6, 1994, pp. 971979. [3] McNeely, M., Microturbine Designed for Mechanical Drive Applications, Diesel Progress North

  11. A Hybrid Method to Predict Success of Dental Implants

    OpenAIRE

    Reyhaneh Sadat Moayeri; Mehdi Khalili; Mahsa Nazari

    2016-01-01

    Background/Objectives: The market demand for dental implants is growing at a significant pace. Results obtained from real cases shows that some dental implants do not lead to success. Hence, the main problem is whether machine learning techniques can be successful in prediction of success of dental implants. Methods/Statistical Analysis: This paper presents a combined predictive model to evaluate the success of dental implants. The classifiers used in this model are W-J48, SVM, Neural Network...

  12. Small RNA Detection by in Situ Hybridization Methods

    OpenAIRE

    Urbanek, Martyna O.; Nawrocka, Anna U.; Krzyzosiak, Wlodzimierz J.

    2015-01-01

    Small noncoding RNAs perform multiple regulatory functions in cells, and their exogenous mimics are widely used in research and experimental therapies to interfere with target gene expression. MicroRNAs (miRNAs) are the most thoroughly investigated representatives of the small RNA family, which includes short interfering RNAs (siRNAs), PIWI-associated RNA (piRNAs), and others. Numerous methods have been adopted for the detection and characterization of small RNAs, which is challenging due to...

  13. A Universal Method for Fishing Target Proteins from Mixtures of Biomolecules using Isothermal Titration Calorimetry

    Energy Technology Data Exchange (ETDEWEB)

    Zhou, X.; Sun, Q; Kini, R; Sivaraman, J

    2008-01-01

    The most challenging tasks in biology include the identification of (1) the orphan receptor for a ligand, (2) the ligand for an orphan receptor protein, and (3) the target protein(s) for a given drug or a lead compound that are critical for the pharmacological or side effects. At present, several approaches are available, including cell- or animal-based assays, affinity labeling, solid-phase binding assays, surface plasmon resonance, and nuclear magnetic resonance. Most of these techniques are not easy to apply when the target protein is unknown and the compound is not amenable to labeling, chemical modification, or immobilization. Here we demonstrate a new universal method for fishing orphan target proteins from a complex mixture of biomolecules using isothermal titration calorimetry (ITC) as a tracking tool. We took snake venom, a crude mixture of several hundred proteins/peptides, as a model to demonstrate our proposed ITC method in tracking the isolation and purification of two distinct target proteins, a major component and a minor component. Identities of fished out target proteins were confirmed by amino acid sequencing and inhibition assays. This method has the potential to make a significant advancement in the area of identifying orphan target proteins and inhibitor screening in drug discovery and characterization.

  14. A universal method for fishing target proteins from mixtures of biomolecules using isothermal titration calorimetry

    Science.gov (United States)

    Zhou, Xingding; Sun, Qingxiang; Kini, R. Manjunatha; Sivaraman, J.

    2008-01-01

    The most challenging tasks in biology include the identification of (1) the orphan receptor for a ligand, (2) the ligand for an orphan receptor protein, and (3) the target protein(s) for a given drug or a lead compound that are critical for the pharmacological or side effects. At present, several approaches are available, including cell- or animal-based assays, affinity labeling, solid-phase binding assays, surface plasmon resonance, and nuclear magnetic resonance. Most of these techniques are not easy to apply when the target protein is unknown and the compound is not amenable to labeling, chemical modification, or immobilization. Here we demonstrate a new universal method for fishing orphan target proteins from a complex mixture of biomolecules using isothermal titration calorimetry (ITC) as a tracking tool. We took snake venom, a crude mixture of several hundred proteins/peptides, as a model to demonstrate our proposed ITC method in tracking the isolation and purification of two distinct target proteins, a major component and a minor component. Identities of fished out target proteins were confirmed by amino acid sequencing and inhibition assays. This method has the potential to make a significant advancement in the area of identifying orphan target proteins and inhibitor screening in drug discovery and characterization. PMID:18621915

  15. Potential contribution of fish restocking to the recovery of deteriorated coral reefs: an alternative restoration method?

    Directory of Open Access Journals (Sweden)

    Uri Obolski

    2016-02-01

    Full Text Available Counteracting the worldwide trend of coral reef degeneration is a major challenge for the scientific community. A crucial management approach to minimizing stress effects on healthy reefs and helping the recovery of disturbed reefs is reef protection. However, the current rapid decline of the world’s reefs suggests that protection might be insufficient as a viable stand-alone management approach for some reefs. We thus suggest that the ecological restoration of coral reefs (CRR should be considered as a valid component of coral reef management, in addition to protection, if the applied method is economically applicable and scalable. This theoretical study examines the potential applicability and outcomes of restocking grazers as a restoration tool for coral reef recovery—a tool that has not been applied so far in reef restoration projects. We studied the effect of restocking grazing fish as a restoration method using a mathematical model of degrading reefs, and analyzed the financial outcomes of the restocking intervention. The results suggest that applying this restoration method, in addition to protection, can facilitate reef recovery. Moreover, our analysis suggests that the restocking approach almost always becomes profitable within several years. Considering the relatively low cost of this restoration approach and the feasibility of mass production of herbivorous fish, we suggest that this approach should be considered and examined as an additional viable restoration tool for coral reefs.

  16. Motion segmentation method for hybrid characteristic on human motion.

    Science.gov (United States)

    Lau, Newman; Wong, Ben; Chow, Daniel

    2009-03-11

    Motion segmentation and analysis are used to improve the process of classification of motion and information gathered on repetitive or periodic characteristic. The classification result is useful for ergonomic and postural safety analysis, since repetitive motion is known to be related to certain musculoskeletal disorders. Past studies mainly focused on motion segmentation on particular motion characteristic with certain prior knowledge on static or periodic property of motion, which narrowed method's applicability. This paper attempts to introduce a method to tackle human joint motion without having prior knowledge. The motion is segmented by a two-pass algorithm. Recursive least square (RLS) is firstly used to estimate possible segments on the input human-motion set. Further, period identification and extra segmentation process are applied to produce meaningful segments. Each of the result segments is modeled by a damped harmonic model, with frequency, amplitude and duration produced as parameters for ergonomic evaluation and other human factor studies such as task safety evaluation and sport analysis. Experiments show that the method can handle periodic, random and mixed characteristics on human motion, which can also be extended to the usage in repetitive motion in workflow and irregular periodic motion like sport movement.

  17. Hybrid Intrusion Detection Using Ensemble of Classification Methods

    Directory of Open Access Journals (Sweden)

    M.Govindarajan

    2014-01-01

    Full Text Available One of the major developments in machine learning in the past decade is the ensemble method, which finds highly accurate classifier by combining many moderately accurate component classifiers. In this research work, new ensemble classification methods are proposed for homogeneous ensemble classifiers using bagging and heterogeneous ensemble classifiers using arcing classifier and their performances are analyzed in terms of accuracy. A Classifier ensemble is designed using Radial Basis Function (RBF and Support Vector Machine (SVM as base classifiers. The feasibility and the benefits of the proposed approaches are demonstrated by the means of real and benchmark data sets of intrusion detection. The main originality of the proposed approach is based on three main parts: preprocessing phase, classification phase and combining phase. A wide range of comparative experiments are conducted for real and benchmark data sets of intrusion detection. The accuracy of base classifiers is compared with homogeneous and heterogeneous models for data mining problem. The proposed ensemble methods provide significant improvement of accuracy compared to individual classifiers and also heterogeneous models exhibit better results than homogeneous models for real and benchmark data sets of intrusion detection.

  18. Short-Term Wind Power Forecasting Using the Enhanced Particle Swarm Optimization Based Hybrid Method

    Directory of Open Access Journals (Sweden)

    Wen-Yeau Chang

    2013-09-01

    Full Text Available High penetration of wind power in the electricity system provides many challenges to power system operators, mainly due to the unpredictability and variability of wind power generation. Although wind energy may not be dispatched, an accurate forecasting method of wind speed and power generation can help power system operators reduce the risk of an unreliable electricity supply. This paper proposes an enhanced particle swarm optimization (EPSO based hybrid forecasting method for short-term wind power forecasting. The hybrid forecasting method combines the persistence method, the back propagation neural network, and the radial basis function (RBF neural network. The EPSO algorithm is employed to optimize the weight coefficients in the hybrid forecasting method. To demonstrate the effectiveness of the proposed method, the method is tested on the practical information of wind power generation of a wind energy conversion system (WECS installed on the Taichung coast of Taiwan. Comparisons of forecasting performance are made with the individual forecasting methods. Good agreements between the realistic values and forecasting values are obtained; the test results show the proposed forecasting method is accurate and reliable.

  19. On determination of microphone response and other parameters by a hybrid experimental and numerical method

    DEFF Research Database (Denmark)

    Barrera Figueroa, Salvador; Jacobsen, Finn; Rasmussen, Knud

    2008-01-01

    such as the acoustic centres. In this work, a hybrid method is presented. The velocity distributions of condenser Laboratory Standard microphones were measured using a laser vibrometer. This measured velocity distribution was used for estimating the microphone responses and parameters. The agreement with experimental...

  20. A Hybrid Optimization Method for Reactive Power and Voltage Control Considering Power Loss Minimization

    DEFF Research Database (Denmark)

    Liu, Chengxi; Qin, Nan; Bak, Claus Leth;

    2015-01-01

    This paper proposes a hybrid optimization method to optimally control the voltage and reactive power with minimum power loss in transmission grid. This approach is used for the Danish automatic voltage control (AVC) system which is typically a non-linear non-convex problem mixed with both continu...

  1. A hybrid method for flood simulation in small catchments combining hydrodynamic and hydrological techniques

    Science.gov (United States)

    Bellos, Vasilis; Tsakiris, George

    2016-09-01

    The study presents a new hybrid method for the simulation of flood events in small catchments. It combines a physically-based two-dimensional hydrodynamic model and the hydrological unit hydrograph theory. Unit hydrographs are derived using the FLOW-R2D model which is based on the full form of two-dimensional Shallow Water Equations, solved by a modified McCormack numerical scheme. The method is tested at a small catchment in a suburb of Athens-Greece for a storm event which occurred in February 2013. The catchment is divided into three friction zones and unit hydrographs of 15 and 30 min are produced. The infiltration process is simulated by the empirical Kostiakov equation and the Green-Ampt model. The results from the implementation of the proposed hybrid method are compared with recorded data at the hydrometric station at the outlet of the catchment and the results derived from the fully hydrodynamic model FLOW-R2D. It is concluded that for the case studied, the proposed hybrid method produces results close to those of the fully hydrodynamic simulation at substantially shorter computational time. This finding, if further verified in a variety of case studies, can be useful in devising effective hybrid tools for the two-dimensional flood simulations, which are lead to accurate and considerably faster results than those achieved by the fully hydrodynamic simulations.

  2. 3D magnetospheric parallel hybrid multi-grid method applied to planet–plasma interactions

    Energy Technology Data Exchange (ETDEWEB)

    Leclercq, L., E-mail: ludivine.leclercq@latmos.ipsl.fr [LATMOS/IPSL, UVSQ Université Paris-Saclay, UPMC Univ. Paris 06, CNRS, Guyancourt (France); Modolo, R., E-mail: ronan.modolo@latmos.ipsl.fr [LATMOS/IPSL, UVSQ Université Paris-Saclay, UPMC Univ. Paris 06, CNRS, Guyancourt (France); Leblanc, F. [LATMOS/IPSL, UPMC Univ. Paris 06 Sorbonne Universités, UVSQ, CNRS, Paris (France); Hess, S. [ONERA, Toulouse (France); Mancini, M. [LUTH, Observatoire Paris-Meudon (France)

    2016-03-15

    We present a new method to exploit multiple refinement levels within a 3D parallel hybrid model, developed to study planet–plasma interactions. This model is based on the hybrid formalism: ions are kinetically treated whereas electrons are considered as a inertia-less fluid. Generally, ions are represented by numerical particles whose size equals the volume of the cells. Particles that leave a coarse grid subsequently entering a refined region are split into particles whose volume corresponds to the volume of the refined cells. The number of refined particles created from a coarse particle depends on the grid refinement rate. In order to conserve velocity distribution functions and to avoid calculations of average velocities, particles are not coalesced. Moreover, to ensure the constancy of particles' shape function sizes, the hybrid method is adapted to allow refined particles to move within a coarse region. Another innovation of this approach is the method developed to compute grid moments at interfaces between two refinement levels. Indeed, the hybrid method is adapted to accurately account for the special grid structure at the interfaces, avoiding any overlapping grid considerations. Some fundamental test runs were performed to validate our approach (e.g. quiet plasma flow, Alfven wave propagation). Lastly, we also show a planetary application of the model, simulating the interaction between Jupiter's moon Ganymede and the Jovian plasma.

  3. Outcome of the First wwPDB Hybrid/Integrative Methods Task Force Workshop

    NARCIS (Netherlands)

    Sali, Andrej; Berman, Helen M.; Schwede, Torsten; Trewhella, Jill; Kleywegt, Gerard; Burley, Stephen K.; Markley, John; Nakamura, Haruki; Adams, Paul; Bonvin, Alexandre M J J|info:eu-repo/dai/nl/113691238; Chiu, Wah; Peraro, Matteo Dal; Di Maio, Frank; Ferrin, Thomas E.; Grünewald, Kay; Gutmanas, Aleksandras; Henderson, Richard; Hummer, Gerhard; Iwasaki, Kenji; Johnson, Graham; Lawson, Catherine L.; Meiler, Jens; Marti-Renom, Marc A.; Montelione, Gaetano T.; Nilges, Michael; Nussinov, Ruth; Patwardhan, Ardan; Rappsilber, Juri; Read, Randy J.; Saibil, Helen; Schröder, Gunnar F.; Schwieters, Charles D.; Seidel, Claus A M; Svergun, Dmitri; Topf, Maya; Ulrich, Eldon L.; Velankar, Sameer; Westbrook, John D.

    2015-01-01

    Structures of biomolecular systems are increasingly computed by integrative modeling that relies on varied types of experimental data and theoretical information. We describe here the proceedings and conclusions from the first wwPDB Hybrid/Integrative Methods Task Force Workshop held at the European

  4. Hybrid Control Method for a Single Phase PFC using a Low Cost Microcontroller

    DEFF Research Database (Denmark)

    Jakobsen, Lars Tønnes; Nielsen, Nils; Wolf, Christian

    2005-01-01

    This paper presents a hybrid control method for single phase boost PFCs. The high bandwidth current loop is analog while the voltage loop is implemented in an 8-bit microcontroller. The design focuses on minimizing the number of calculations done in the microcontroller. A 1kW prototype has been...

  5. Hybrid analytic-numeric calculation method for light through a bounded planar dielectric

    NARCIS (Netherlands)

    Nicolau, J.B.; Groesen, van E.

    2005-01-01

    We present a hybrid analytic-numeric method to calculate the transmission and reflection of light that is fluxed into a bounded complicated optical structure surrounded by air. The solution is obtained by numerical calculations inside a square containing the structure and by analytical calculations

  6. Price forecasting of day-ahead electricity markets using a hybrid forecast method

    Energy Technology Data Exchange (ETDEWEB)

    Shafie-khah, M., E-mail: miadreza@gmail.co [Tarbiat Modares University, Tehran (Iran, Islamic Republic of); Moghaddam, M. Parsa, E-mail: parsa@modares.ac.i [Tarbiat Modares University, Tehran (Iran, Islamic Republic of); Sheikh-El-Eslami, M.K., E-mail: aleslam@modares.ac.i [Tarbiat Modares University, Tehran (Iran, Islamic Republic of)

    2011-05-15

    Research highlights: {yields} A hybrid method is proposed to forecast the day-ahead prices in electricity market. {yields} The method combines Wavelet-ARIMA and RBFN network models. {yields} PSO method is applied to obtain optimum RBFN structure for avoiding over fitting. {yields} One of the merits of the proposed method is lower need to the input data. {yields} The proposed method has more accurate behavior in compare with previous methods. -- Abstract: Energy price forecasting in a competitive electricity market is crucial for the market participants in planning their operations and managing their risk, and it is also the key information in the economic optimization of the electric power industry. However, price series usually have a complex behavior due to their nonlinearity, nonstationarity, and time variancy. In this paper, a novel hybrid method to forecast day-ahead electricity price is proposed. This hybrid method is based on wavelet transform, Auto-Regressive Integrated Moving Average (ARIMA) models and Radial Basis Function Neural Networks (RBFN). The wavelet transform provides a set of better-behaved constitutive series than price series for prediction. ARIMA model is used to generate a linear forecast, and then RBFN is developed as a tool for nonlinear pattern recognition to correct the estimation error in wavelet-ARIMA forecast. Particle Swarm Optimization (PSO) is used to optimize the network structure which makes the RBFN be adapted to the specified training set, reducing computation complexity and avoiding overfitting. The proposed method is examined on the electricity market of mainland Spain and the results are compared with some of the most recent price forecast methods. The results show that the proposed hybrid method could provide a considerable improvement for the forecasting accuracy.

  7. AN IMPROVED HYBRID BOUNDARY NODE METHOD IN TWO-DIMENSIONAL SOLIDS

    Institute of Scientific and Technical Information of China (English)

    Miao Yu; Wang Yuanhan; Jiang Heyang

    2005-01-01

    The hybrid boundary node method (HBNM) is a promising method for solving boundary value problems with the hybrid displacement variational formulation and shape functions from the moving least squares(MLS) approximation. The main idea is to reduce the dimensionality of the former and keep the meshless advantage of the latter. Following its application in solving potential problems, it is further developed and numerically implemented for 2D solids in this paper. The rigid movement method is employed to solve the hyper-singular integrations. Numerical examples for some 2D solids have been given to show the characteristics. The computation results obtained by the present method are in excellent agreement with the analytical solution.The parameters that influence the performance of this method are studied through numerical examples.

  8. A modeling method of semiconductor fabrication flows with extended knowledge hybrid Petri nets

    Institute of Scientific and Technical Information of China (English)

    Zhou Binghai; Jiang Shuyu; Wang Shijin; Wu bin

    2008-01-01

    A modeling method of extended knowledge hybrid Petri nets (EKHPNs), incorporating object-oriented methods into hybrid Petri nets (HPNs), was presented and used for the representation and modeling of semiconductor wafer fabrication flows. To model the discrete and continuous parts of a complex semiconductor wafer fabrication flow, the HPNs were introduced into the EKHPNs. Object-oriented methods were combined into the EKHPNs for coping with the complexity of the fabrication flow. Knowledge annotations were introduced to solve input and output conflicts of the EKHPNs.Finally, to demonstrate the validity of the EKHPN method, a real semiconductor wafer fabrication case was used to illustrate the modeling procedure. The modeling results indicate that the proposed method can be used to model a complex semiconductor wafer fabrication flow expediently.

  9. An Object Detection Method Using Wavelet Optical Flow and Hybrid Linear-Nonlinear Classifier

    Directory of Open Access Journals (Sweden)

    Pengcheng Han

    2013-01-01

    Full Text Available We propose a new computational intelligence method using wavelet optical flow and hybrid linear-nonlinear classifier for object detection. With the existing optical flow methods, it is difficult to accurately estimate moving objects with diverse speeds. We propose a wavelet-based optical flow method, which uses wavelet decomposition in optical flow motion estimation. The algorithm can accurately detect moving objects with variable speeds in a scene. In addition, we use the hybrid linear-nonlinear classifier (HLNLC to classify moving objects and static background. HLNLC transforms a nonoptimal scalar variable into its likelihood ratio and uses a scalar quantity as the decision variable. This approach is appropriate for the classification of optical flow feature vectors with unequal variance matrices. The experimental results confirm that our proposed object detection method has an improved accuracy and computation efficiency over other state-of-the-art methods.

  10. Full Wave Simulation of Integrated Circuits Using Hybrid Numerical Methods

    Science.gov (United States)

    Tan, Jilin

    Transmission lines play an important role in digital electronics, and in microwave and millimeter-wave circuits. Analysis, modeling, and design of transmission lines are critical to the development of the circuitry in the chip, subsystem, and system levels. In the past several decays, at the EM modeling level, the quasi-static approximation has been widely used due to its great simplicity. As the clock rates increase, the inter-connect effects such as signal delay, distortion, dispersion, reflection, and crosstalk, limit the performance of microwave systems. Meanwhile, the quasi-static approach loses its validity for some complex system structures. Since the successful system design of the PCB, MCM, and the chip packaging, rely very much on the computer aided EM level modeling and simulation, many new methods have been developed, such as the full wave approach, to guarantee the successful design. Many difficulties exist in the rigorous EM level analysis. Some of these include the difficulties in describing the behavior of the conductors with finite thickness and finite conductivity, the field singularity, and the arbitrary multilayered multi-transmission lines structures. This dissertation concentrates on the full wave study of the multi-conductor transmission lines with finite conductivity and finite thickness buried in an arbitrary lossy multilayered environment. Two general approaches have been developed. The first one is the integral equation method in which the dyadic Green's function for arbitrary layered media has been correctly formulated and has been tested both analytically and numerically. By applying this method, the double layered high dielectric permitivitty problem and the heavy dielectrical lossy problem in multilayered media in the CMOS circuit design have been solved. The second approach is the edge element method. In this study, the correct functional for the two dimensional propagation problem has been successfully constructed in a rigorous way

  11. Magnetostatic solution by hybrid technique and fast multipole method

    Energy Technology Data Exchange (ETDEWEB)

    Gruosso, G. [Politecnico di Milano, Dipartimento di Elettronica e Informazione, I-20133 Milan (Italy); Repetto, M. [Politecnico di Torino, Dipartimento di Ingegneria Elettrica, C.so Duca Abruzzi 24, I-10129 Turin (Italy)], E-mail: maurizio.repetto@polito.it

    2008-02-01

    The use of fast multipole method (FMM) in the solution of a magnetostatic problem is presented. The magnetostatic solution strategy is based on finite formulation of electromagnetic field coupled with an integral formulation for the definition of boundary conditions on the external surface of the unstructured mesh. Due to the hypothesis of micromagnetic problem, the resulting matrix structure is sparse and integral terms are only on the RHS. Magnetic surface charge is used as source of these integral terms and is localized on the faces between tetrahedra. The computation of the integral terms can be performed by analytical formulas for the near field contributes and by FMM for far field ones.

  12. Apparent digestibility of Asian carp and common carp-derived fish meals in feeds for hybrid striped bass Morone saxatilis female x M. chrysops male and rainbow trout Oncorhynchus mykiss

    Science.gov (United States)

    Apparent digestibility coefficients (ADCs) of nutrients (crude protein, amino acids, crude lipid, fatty acids, and minerals) were determined for fish meals derived from menhaden, Asian carp (combination of silver and bighead carps), and common carp in feeds for hybrid striped bass and rainbow trout....

  13. A Hybrid Method to Predict Success of Dental Implants

    Directory of Open Access Journals (Sweden)

    Reyhaneh Sadat Moayeri

    2016-05-01

    Full Text Available Background/Objectives: The market demand for dental implants is growing at a significant pace. Results obtained from real cases shows that some dental implants do not lead to success. Hence, the main problem is whether machine learning techniques can be successful in prediction of success of dental implants. Methods/Statistical Analysis: This paper presents a combined predictive model to evaluate the success of dental implants. The classifiers used in this model are W-J48, SVM, Neural Network, K-NN and Naïve Bayes. All internal parameters of each classifier are optimized. These classifiers are combined in a way that results in the highest possible accuracies. Results: The performance of the proposed method is compared with single classifiers. Results of our study show that the combinative approach can achieve higher performance than the best of the single classifiers. Using the combinative approach improves the sensitivity indicator by up to 13.3%. Conclusion/Application: Since diagnosis of patients whose implant does not lead to success is very important in implant surgery, the presented model can help surgeons to make a more reliable decision on level of success of implant operation prior to surgery.

  14. A hybrid method for identification of structural domains

    Science.gov (United States)

    Hua, Yongpan; Zhu, Min; Wang, Yuelong; Xie, Zhaoyang; Li, Menglong

    2014-12-01

    Structural domains in proteins are the basic units to form various proteins. In the protein's evolution and functioning, domains play important roles. But the definition of domain is not yet precisely given, and the update cycle of structural domain databases is long. The automatic algorithms identify domains slowly, while protein entities with great structural complexity are on the rise. Here, we present a method which recognizes the compact and modular segments of polypeptide chains to identify structural domains, and contrast some data sets to illuminate their effect. The method combines support vector machine (SVM) with K-means algorithm. It is faster and more stable than most current algorithms and performs better. It also indicates that when proteins are presented as some Alpha-carbon atoms in 3D space, it is feasible to identify structural domains by the spatially structural properties. We have developed a web-server, which would be helpful in identification of structural domains (http://vis.sculab.org/~huayongpan/cgi-bin/domainAssignment.cgi).

  15. Evaluation of methods for extraction of the volitional EMG in dynamic hybrid muscle activation

    Directory of Open Access Journals (Sweden)

    Mizrahi Joseph

    2006-11-01

    Full Text Available Abstract Background Hybrid muscle activation is a modality used for muscle force enhancement, in which muscle contraction is generated from two different excitation sources: volitional and external, by means of electrical stimulation (ES. Under hybrid activation, the overall EMG signal is the combination of the volitional and ES-induced components. In this study, we developed a computational scheme to extract the volitional EMG envelope from the overall dynamic EMG signal, to serve as an input signal for control purposes, and for evaluation of muscle forces. Methods A "synthetic" database was created from in-vivo experiments on the Tibialis Anterior of the right foot to emulate hybrid EMG signals, including the volitional and induced components. The database was used to evaluate the results obtained from six signal processing schemes, including seven different modules for filtration, rectification and ES component removal. The schemes differed from each other by their module combinations, as follows: blocking window only, comb filter only, blocking window and comb filter, blocking window and peak envelope, comb filter and peak envelope and, finally, blocking window, comb filter and peak envelope. Results and conclusion The results showed that the scheme including all the modules led to an excellent approximation of the volitional EMG envelope, as extracted from the hybrid signal, and underlined the importance of the artifact blocking window module in the process. The results of this work have direct implications on the development of hybrid muscle activation rehabilitation systems for the enhancement of weakened muscles.

  16. SFC Optimization for Aero Engine Based on Hybrid GA-SQP Method

    Science.gov (United States)

    Li, Jie; Fan, Ding; Sreeram, Victor

    2013-12-01

    This study focuses on on-line specific fuel consumption (SFC) optimization of aero engines. For solving this optimization problem, a nonlinear pneumatic and thermodynamics model of the aero engine is built and a hybrid optimization technique which is formed by combining the genetic algorithm (GA) and the sequential quadratic programming (SQP) is presented. The ability of standard GA and standard SQP in solving this type of problem is investigated. It has been found that, although the SQP is fast, very little SFC reductions can be obtained. The GA is able to solve the problem well but a lot of computational time is needed. The presented hybrid GA-SQP gives a good SFC optimization effect and saves 76.6% computational time when compared to the standard GA. It has been shown that the hybrid GA-SQP is a more effective and higher real-time method for SFC on-line optimization of the aero engine.

  17. ASSESSMENT OF THE PRODUCTIBILITY OF HYBRID NODES USING THE MULTI-CRITERIA METHOD

    Directory of Open Access Journals (Sweden)

    Tomasz Urbański

    2014-06-01

    Full Text Available The article presents an assessment of the productibility of hybrid nodes. The hybrid node is a new structural element the implementation of which causes numerous (especially technological problems that need to be solved. The most important element of the hybrid node is the so-called connector, the choice of which is a complex and difficult problem. It involves taking into account many aspects (constructional, strength-related, technological, economic in order to make sure that the choice is as objective as possible. Therefore, an attempt to acquire a comprehensive view at the problem requires that a set of accurate criteria be used for assessment. In this paper, the author undertakes such an attempt. The expert method presented herein allows for choosing the right connector.

  18. Dopamine/TiO{sub 2} hybrid thin films prepared by the liquid phase deposition method

    Energy Technology Data Exchange (ETDEWEB)

    Gutierrez-Tauste, David [Departament de Quimica, Universitat Autonoma de Barcelona, Campus UAB, Edifici Cn, 08290 Cerdanyola del Valles, Barcelona (Spain)], E-mail: davidg@qf.uab.es; Domenech, Xavier [Departament de Quimica, Universitat Autonoma de Barcelona, Campus UAB, Edifici Cn, 08290 Cerdanyola del Valles, Barcelona (Spain); Domingo, Concepcion [Instituto de Ciencia de Materiales (CSIC), Campus UAB, 08290 Cerdanyola del Valles, Barcelona (Spain); Ayllon, Jose A. [Departament de Quimica, Universitat Autonoma de Barcelona, Campus UAB, Edifici Cn, 08290 Cerdanyola del Valles, Barcelona (Spain)

    2008-04-30

    Liquid phase deposition method is applied to one-step production of a hybrid material composed by dopamine(DA) and TiO{sub 2} anatase. An optimized amount of the enediol derivative is added to a fluoride titania precursor aqueous solution in order to entrap this modifier within the growing TiO{sub 2}, yielding a DA/TiO{sub 2} nanocomposite material. Uniform, well-adhered and brown-colored thin films are deposited on indium tin oxide covered glass substrate. The DA/TiO{sub 2} hybrid material has been characterized by infrared spectroscopy, electronic microscopy, X-ray diffraction and UV-vis spectroscopy. The formation of the hybrid material seems to be reasonably explained by linkage of different TiO{sub 2} nanocrystallites taking advantage of both enediol and amine groups of DA.

  19. Study on Polyimide/Silica Hybrid Films via Directly Intermingle Method

    Institute of Scientific and Technical Information of China (English)

    Bin ZHAO; Bao-Lin RAO

    2005-01-01

    @@ 1Introduction In recent years, polyimide hybrid materials have received considerable attention due to the dramatic improvements over their pristine state in thermal stabilities, mechanical properties and other special features by introducing only small fraction inorganic additives[1]. Polyimide/silica hybrid materials were studied mostly by sol-gel route[2]. However the storage stability of the sol resin is a practical problem and has not researched on it so far. On the other hand, nano-sized silica has been produced on a large scale and industrialized. In this paper, polyimide/siliea hybrid films were prepared via directly intermingle method. The storage stability of the sol resin, the thermal and mechanical properties of the resulting films were investigated.

  20. A hybrid Pseudo-spectral Immersed-Boundary Method for Applications to Aquatic Locomotion

    Science.gov (United States)

    Ren, Zheng; Hall, David; Mohseni, Kamran

    2011-11-01

    A hybrid pseudo-spectral immersed boundary method is developed for application in marine locomotion. Spatial derivatives are calculated using pseudo-spectral method while a 2nd-order Runge-Kutta scheme is used for time integration. The singular force applied on the immersed boundary is obtained using a direct forcing method. To avoid Gibb's phenomenon in the spectral method, we regularize the force by smoothing it over several grid cells. This method has the advantage of spectral accuracy and the flexibility to model irregular, moving boundaries on a Cartesian coordinate without complex mesh generation. The method is applied to examine locomotion of jellyfish for both jetting and paddling jellyfish.

  1. Hybrid Bernstein Block-Pulse Functions Method for Second Kind Integral Equations with Convergence Analysis

    Directory of Open Access Journals (Sweden)

    Mohsen Alipour

    2014-01-01

    Full Text Available We introduce a new combination of Bernstein polynomials (BPs and Block-Pulse functions (BPFs on the interval [0, 1]. These functions are suitable for finding an approximate solution of the second kind integral equation. We call this method Hybrid Bernstein Block-Pulse Functions Method (HBBPFM. This method is very simple such that an integral equation is reduced to a system of linear equations. On the other hand, convergence analysis for this method is discussed. The method is computationally very simple and attractive so that numerical examples illustrate the efficiency and accuracy of this method.

  2. Kekuatan transversa resin akrilik hybrid setelah penambahan glass fiber dengan metode berbeda (The transverse strength of the hybrid acrylic resin after glass fiber reinforcement with different method

    Directory of Open Access Journals (Sweden)

    Intan Nirwana

    2006-03-01

    Full Text Available Different types of fibers have been added to acrylic resin materials to improve their mechanical properties. The purpose of this study was to know the transverse strength of the hybrid acrylic resins after glass fiber reinforcement with difference method. This study used rectangular specimens of 65 mm in length, 10 mm in width and 2.5 mm in thickness. There were 3 groups consisting of 6 specimens each, hybrid acrylic resin without glass fiber (control, glass fibers dipped in methyl methacrylate monomer for 15 minutes before being reinforced into hybrid acrylic resin (first method, glass fibers reinforced into a mixture of polymer powder and monomer liquid after the hybrid acrylic resin was mixed directly (second method. All of the specimens were cured for 20 minutes at 100° C. Transverse strength was measured using Autograph. The statistical analyses using one way ANOVA and LSD test showed that there were significant differences in transverse strength (p < 0.05 among the groups. The means of transverse strength were 94,94; 118,27; and 116,34 MPa. It meant that glass fibers reinforcement into hybrid acrylic resin enhanced their transverse strength compared with control. Glass fiber reinforcement into hybrid acrylic resin with differenciate method didn’t enhance their transverse strength.

  3. A hybrid TOPSIS-BSC method for strategic planning

    Directory of Open Access Journals (Sweden)

    Mohammad Reza Shojaee

    2012-09-01

    Full Text Available For years, tangible assets used to be the most important precious wealth of organizations. However, the recent advances in technology has changed this concept and today, intangible assets such as human resources, customers, processes are playing essential roles on making strategies. In this paper, we present a study to setup appropriate strategies using the implementation of balanced score card in four perspectives of customers, processes, learning and financial. The proposed study of this paper gathers important factors through three different brainstorming sessions and prioritize them using TOPSIS method. Based on the results of MCDM technique, selecting appropriate target market for penetration is the number one priority followed by having good accounting system and preparing for more diversified production. These are the most important items influencing strategic planning. Therefore, the study uses BSC for the first two important strategies and discusses possible actions for productivity improvement.

  4. Efficient Hybrid Optimal Design Method for Power Electronics Converters

    CERN Document Server

    AUTHOR|(SzGeCERN)697719; Aguglia, Davide; Viarouge, Philippe; Cros, Jérôme

    2015-01-01

    This paper presents a novel design methodology for dimensioning optimal power-electronic converters, which is able to achieve the precision of numerical simulation-based optimization procedures, however minimizing the overall computation time. The approach is based on the utilization of analytical and frequency-domain design models for a numerical optimization process, a validation with numerical simulations of the intermediate optimal solutions, and the correction of the analytical design models precision from the numerical simulation results. This method allows using the numerical simulation in an efficient way, where typically less than ten correction iterations are required. In order to demonstrate the performances of the proposed methodology, the calculation of the control parameters for an H-bridge DC-DC converter and the optimal dimensioning of a damped output filter for a buck converter using the proposed approach is presented.

  5. A New Hybrid Method for Risk Management in Expert Systems

    Directory of Open Access Journals (Sweden)

    Fereshteh Mohammadi

    2014-06-01

    Full Text Available Information security management is a part of information management, whose main task is to determine information goals and remove obstacles on the way of achieving such goals with providing necessary strategies. Information management is responsible to implement and control the performance of the organization`s security system while tries to keep it up to date. The purpose of information security management in an organization is maintaining different sorts of resources as software, hardware, information, communication and human resources. The organization needs an integrated program against threats such as unauthorized access to information, environmental risks and dangers caused by users. In the present paper, the IT risk in an organization was assessed through an intelligent system benefiting from fuzzy analysis and certainty factors. As most of ambiguity samples have a level of belie, so doubt and the degree of membership were calculated as a part of output in the system and a better result achieved compared to previous methods.

  6. Fully Automated Fluorescent in situ Hybridization (FISH) Staining and Digital Analysis of HER2 in Breast Cancer : A Validation Study

    NARCIS (Netherlands)

    van der Logt, Elise M. J.; Kuperus, Deborah A. J.; van Setten, Jan W.; van den Heuvel, Marius C.; Boers, James. E.; Schuuring, Ed; Kibbelaar, Robby E.

    2015-01-01

    HER2 assessment is routinely used to select patients with invasive breast cancer that might benefit from HER2-targeted therapy. The aim of this study was to validate a fully automated in situ hybridization (ISH) procedure that combines the automated Leica HER2 fluorescent ISH system for Bond with su

  7. Success and failure assessing gonad maturity in sequentially hermaphroditic fishes: comparisons between macroscopic and microscopic methods.

    Science.gov (United States)

    Klibansky, N; Scharf, F S

    2015-10-01

    For two protogynous hermaphrodite fish species, the performance of visual gonad analysis techniques was evaluated to determine when the use of macroscopic methods was sufficient and when microscopic techniques were necessary. Simple macroscopic gonad analysis was found to be a powerful tool for distinguishing sex and whether or not females were spawning capable or ripe for black sea bass Centropristis striata (n = 1443) and red porgy Pagrus pagrus (n = 980), often producing results that were in close agreement with more complex and expensive microscopic techniques. Estimates of key reproductive variables, such as size-dependent sex-change ogives, spawning season duration, spawning fraction and batch number, were also very similar or equal between methods. Apparent seasonal spawning activity was also predicted similarly by each method and the patterns were highly correlated with seasonal patterns in gonado-somatic indices. In contrast, distinguishing between immature females and those that were mature, but inactive, proved difficult when using macroscopic methods and, in these cases, predictions often differed from those produced microscopically. In turn, maturity ogives differed significantly between methods for C. striata (maturity ogives could not be generated for P. pagrus as nearly all fish encountered were mature). Agreement rates among male phases were also very low. Macroscopic methods were able to identify signs of sex transition in very advanced specimens, but early signs were only evident microscopically. While much more detail is visible microscopically, here several population-scale parameters important for fisheries management were estimated equally well with the unaided eye for C. striata and P. pagrus. For comprehensive, fishery-independent surveys and long-term research programmes in particular, determining when microscopic techniques are and are not necessary can greatly improve efficiency and reduce costs without compromising data quality.

  8. Hybrid MCDA Methods to Integrate Multiple Ecosystem Services in Forest Management Planning: A Critical Review

    Science.gov (United States)

    Uhde, Britta; Andreas Hahn, W.; Griess, Verena C.; Knoke, Thomas

    2015-08-01

    Multi-criteria decision analysis (MCDA) is a decision aid frequently used in the field of forest management planning. It includes the evaluation of multiple criteria such as the production of timber and non-timber forest products and tangible as well as intangible values of ecosystem services (ES). Hence, it is beneficial compared to those methods that take a purely financial perspective. Accordingly, MCDA methods are increasingly popular in the wide field of sustainability assessment. Hybrid approaches allow aggregating MCDA and, potentially, other decision-making techniques to make use of their individual benefits and leading to a more holistic view of the actual consequences that come with certain decisions. This review is providing a comprehensive overview of hybrid approaches that are used in forest management planning. Today, the scientific world is facing increasing challenges regarding the evaluation of ES and the trade-offs between them, for example between provisioning and regulating services. As the preferences of multiple stakeholders are essential to improve the decision process in multi-purpose forestry, participatory and hybrid approaches turn out to be of particular importance. Accordingly, hybrid methods show great potential for becoming most relevant in future decision making. Based on the review presented here, the development of models for the use in planning processes should focus on participatory modeling and the consideration of uncertainty regarding available information.

  9. Fuzzy Shannon Entropy: A Hybrid GIS-Based Landslide Susceptibility Mapping Method

    Directory of Open Access Journals (Sweden)

    Majid Shadman Roodposhti

    2016-09-01

    Full Text Available Assessing Landslide Susceptibility Mapping (LSM contributes to reducing the risk of living with landslides. Handling the vagueness associated with LSM is a challenging task. Here we show the application of hybrid GIS-based LSM. The hybrid approach embraces fuzzy membership functions (FMFs in combination with Shannon entropy, a well-known information theory-based method. Nine landslide-related criteria, along with an inventory of landslides containing 108 recent and historic landslide points, are used to prepare a susceptibility map. A random split into training (≈70% and testing (≈30% samples are used for training and validation of the LSM model. The study area—Izeh—is located in the Khuzestan province of Iran, a highly susceptible landslide zone. The performance of the hybrid method is evaluated using receiver operating characteristics (ROC curves in combination with area under the curve (AUC. The performance of the proposed hybrid method with AUC of 0.934 is superior to multi-criteria evaluation approaches using a subjective scheme in this research in comparison with a previous study using the same dataset through extended fuzzy multi-criteria evaluation with AUC value of 0.894, and was built on the basis of decision makers’ evaluation in the same study area.

  10. Method for isolating chromosomal DNA in preparation for hybridization in suspension

    Science.gov (United States)

    Lucas, Joe N.

    2000-01-01

    A method is provided for detecting nucleic acid sequence aberrations using two immobilization steps. According to the method, a nucleic acid sequence aberration is detected by detecting nucleic acid sequences having both a first nucleic acid sequence type (e.g., from a first chromosome) and a second nucleic acid sequence type (e.g., from a second chromosome), the presence of the first and the second nucleic acid sequence type on the same nucleic acid sequence indicating the presence of a nucleic acid sequence aberration. In the method, immobilization of a first hybridization probe is used to isolate a first set of nucleic acids in the sample which contain the first nucleic acid sequence type. Immobilization of a second hybridization probe is then used to isolate a second set of nucleic acids from within the first set of nucleic acids which contain the second nucleic acid sequence type. The second set of nucleic acids are then detected, their presence indicating the presence of a nucleic acid sequence aberration. Chromosomal DNA in a sample containing cell debris is prepared for hybridization in suspension by treating the mixture with RNase. The treated DNA can also be fixed prior to hybridization.

  11. Lime application methods, water and bottom soil acidity in fresh water fish ponds

    Directory of Open Access Journals (Sweden)

    Queiroz Julio Ferraz de

    2004-01-01

    Full Text Available Although some methods for determining lime requirement of pond soils are available and commonly used, there is still no consensus on whether it is more effective to apply liming materials to the bottoms of empty ponds or to wait and apply them over the water surface after ponds are filled. There is also little information on how deep lime reacts in pond sediment over time, and whether the depth of reaction is different when liming materials are applied to the water or to the soil. Therefore, three techniques for treating fish ponds with agricultural limestone were evaluated in ponds with clayey soils at a commercial fish farm. Amounts of agricultural limestone equal to the lime requirement of bottom soils were applied to each of three ponds by: direct application over the pond water surface; spread uniformly over the bottom of the empty pond; spread uniformly over the bottom of the empty pond followed by tilling of the bottom. Effectiveness of agricultural limestone applications did not differ among treatment methods. Agricultural limestone also reacted quickly to increase total alkalinity and total hardness of pond water to acceptable concentrations within 2 weeks after application. The reaction of lime to increase soil pH was essentially complete after one to two months, and lime had no effect below a soil depth of 8 cm. Tilling of pond bottoms to incorporate liming materials is unnecessary, and tilling consumes time and is an expensive practice; filled ponds can be limed effectively.

  12. Application of DVC-FISH method in tracking Escherichia coli in drinking water distribution networks

    Directory of Open Access Journals (Sweden)

    L. Mezule

    2013-04-01

    Full Text Available Sporadic detection of live (viable Escherichia coli in drinking water and biofilm with molecular methods but not with standard plate counts has raised concerns about the reliability of this indicator in the surveillance of drinking water safety. The aim of this study was to determine spatial distribution of different viability forms of E. coli in a drinking water distribution system which complies with European Drinking Water Directive (98/83/EC. For two years coupons (two week old and pre-concentrated (100 times with ultrafilters water samples were collected after treatment plants and from four sites in the distribution network at several distances. The samples were analyzed for total, viable (able to divide as DVC-FISH positive and cultivable E. coli. The results showed that low numbers of E. coli enters the distribution sytem from the treatment plants and tend to accumulate in the biofilm of water distribution system. Almost all of the samples contained metabolically active E. coli in the range of 1 to 50 cells per litre or cm2 which represented approximately 53% of all E. coli detected. The amount of viable E. coli significantly increased into the network irrespective of the season. The study has shown that DVC-FISH method in combination with water pre-concentration and biofilm sampling allows to better understand the behaviour of E. coli in water distribution networks, thus, it provides new evidences for water safety control.

  13. Reconstruction and analysis of hybrid composite shells using meshless methods

    Science.gov (United States)

    Bernardo, G. M. S.; Loja, M. A. R.

    2017-02-01

    The importance of focusing on the research of viable models to predict the behaviour of structures which may possess in some cases complex geometries is an issue that is growing in different scientific areas, ranging from the civil and mechanical engineering to the architecture or biomedical devices fields. In these cases, the research effort to find an efficient approach to fit laser scanning point clouds, to the desired surface, has been increasing, leading to the possibility of modelling as-built/as-is structures and components' features. However, combining the task of surface reconstruction and the implementation of a structural analysis model is not a trivial task. Although there are works focusing those different phases in separate, there is still an effective need to find approaches able to interconnect them in an efficient way. Therefore, achieving a representative geometric model able to be subsequently submitted to a structural analysis in a similar based platform is a fundamental step to establish an effective expeditious processing workflow. With the present work, one presents an integrated methodology based on the use of meshless approaches, to reconstruct shells described by points' clouds, and to subsequently predict their static behaviour. These methods are highly appropriate on dealing with unstructured points clouds, as they do not need to have any specific spatial or geometric requirement when implemented, depending only on the distance between the points. Details on the formulation, and a set of illustrative examples focusing the reconstruction of cylindrical and double-curvature shells, and its further analysis, are presented.

  14. Reconstruction and analysis of hybrid composite shells using meshless methods

    Science.gov (United States)

    Bernardo, G. M. S.; Loja, M. A. R.

    2017-06-01

    The importance of focusing on the research of viable models to predict the behaviour of structures which may possess in some cases complex geometries is an issue that is growing in different scientific areas, ranging from the civil and mechanical engineering to the architecture or biomedical devices fields. In these cases, the research effort to find an efficient approach to fit laser scanning point clouds, to the desired surface, has been increasing, leading to the possibility of modelling as-built/as-is structures and components' features. However, combining the task of surface reconstruction and the implementation of a structural analysis model is not a trivial task. Although there are works focusing those different phases in separate, there is still an effective need to find approaches able to interconnect them in an efficient way. Therefore, achieving a representative geometric model able to be subsequently submitted to a structural analysis in a similar based platform is a fundamental step to establish an effective expeditious processing workflow. With the present work, one presents an integrated methodology based on the use of meshless approaches, to reconstruct shells described by points' clouds, and to subsequently predict their static behaviour. These methods are highly appropriate on dealing with unstructured points clouds, as they do not need to have any specific spatial or geometric requirement when implemented, depending only on the distance between the points. Details on the formulation, and a set of illustrative examples focusing the reconstruction of cylindrical and double-curvature shells, and its further analysis, are presented.

  15. A hybrid method for optimization of the adaptive Goldstein filter

    Science.gov (United States)

    Jiang, Mi; Ding, Xiaoli; Tian, Xin; Malhotra, Rakesh; Kong, Weixue

    2014-12-01

    The Goldstein filter is a well-known filter for interferometric filtering in the frequency domain. The main parameter of this filter, alpha, is set as a power of the filtering function. Depending on it, considered areas are strongly or weakly filtered. Several variants have been developed to adaptively determine alpha using different indicators such as the coherence, and phase standard deviation. The common objective of these methods is to prevent areas with low noise from being over filtered while simultaneously allowing stronger filtering over areas with high noise. However, the estimators of these indicators are biased in the real world and the optimal model to accurately determine the functional relationship between the indicators and alpha is also not clear. As a result, the filter always under- or over-filters and is rarely correct. The study presented in this paper aims to achieve accurate alpha estimation by correcting the biased estimator using homogeneous pixel selection and bootstrapping algorithms, and by developing an optimal nonlinear model to determine alpha. In addition, an iteration is also merged into the filtering procedure to suppress the high noise over incoherent areas. The experimental results from synthetic and real data show that the new filter works well under a variety of conditions and offers better and more reliable performance when compared to existing approaches.

  16. A FISH-based method for assessment of HER-2 amplification status in breast cancer circulating tumor cells following CellSearch isolation

    Directory of Open Access Journals (Sweden)

    Frithiof H

    2016-11-01

    Full Text Available Henrik Frithiof,1 Kristina Aaltonen,1 Lisa Rydén2,3 1Division of Oncology and Pathology, 2Division of Surgery, Department of Clinical Sciences Lund, Lund University, Lund, 3Department of Surgery, Skåne University Hospital, Malmö, Sweden Introduction: Amplification of the HER-2/neu (HER-2 proto-oncogene occurs in 10%–15% of primary breast cancer, leading to an activated HER-2 receptor, augmenting growth of cancer cells. Tumor classification is determined in primary tumor tissue and metastatic biopsies. However, malignant cells tend to alter their phenotype during disease progression. Circulating tumor cell (CTC analysis may serve as an alternative to repeated biopsies. The Food and Drug Administration-approved CellSearch system allows determination of the HER-2 protein, but not of the HER-2 gene. The aim of this study was to optimize a fluorescence in situ hybridization (FISH-based method to quantitatively determine HER-2 amplification in breast cancer CTCs following CellSearch-based isolation and verify the method in patient samples. Methods: Using healthy donor blood spiked with human epidermal growth factor receptor 2 (HER-2-positive breast cancer cell lines, SKBr-3 and BT-474, and a corresponding negative control (the HER-2-negative MCF-7 cell line, an in vitro CTC model system was designed. Following isolation in the CellSearch system, CTC samples were further enriched and fixed on microscope slides. Immunocytochemical staining with cytokeratin and 4',6-diamidino-2'-phenylindole dihydrochloride identified CTCs under a fluorescence microscope. A FISH-based procedure was optimized by applying the HER2 IQFISH pharmDx assay for assessment of HER-2 amplification status in breast cancer CTCs. Results: A method for defining the presence of HER-2 amplification in single breast cancer CTCs after CellSearch isolation was established using cell lines as positive and negative controls. The method was validated in blood from breast cancer patients

  17. Broadband ground motion simulation using a paralleled hybrid approach of Frequency Wavenumber and Finite Difference method

    Science.gov (United States)

    Chen, M.; Wei, S.

    2016-12-01

    The serious damage of Mexico City caused by the 1985 Michoacan earthquake 400 km away indicates that urban areas may be affected by remote earthquakes. To asses earthquake risk of urban areas imposed by distant earthquakes, we developed a hybrid Frequency Wavenumber (FK) and Finite Difference (FD) code implemented with MPI, since the computation of seismic wave propagation from a distant earthquake using a single numerical method (e.g. Finite Difference, Finite Element or Spectral Element) is very expensive. In our approach, we compute the incident wave field (ud) at the boundaries of the excitation box, which surrounding the local structure, using a paralleled FK method (Zhu and Rivera, 2002), and compute the total wave field (u) within the excitation box using a parallelled 2D FD method. We apply perfectly matched layer (PML) absorbing condition to the diffracted wave field (u-ud). Compared to previous Generalized Ray Theory and Finite Difference (Wen and Helmberger, 1998), Frequency Wavenumber and Spectral Element (Tong et al., 2014), and Direct Solution Method and Spectral Element hybrid method (Monteiller et al., 2013), our absorbing boundary condition dramatically suppress the numerical noise. The MPI implementation of our method can greatly speed up the calculation. Besides, our hybrid method also has a potential use in high resolution array imaging similar to Tong et al. (2014).

  18. A novel hybrid Neumann expansion method for stochastic analysis of mistuned bladed discs

    Science.gov (United States)

    Yuan, Jie; Allegri, Giuliano; Scarpa, Fabrizio; Patsias, Sophoclis; Rajasekaran, Ramesh

    2016-05-01

    The paper presents a novel hybrid method to enhance the computational efficiency of matrix inversions during the stochastic analysis of mistuned bladed disc systems. The method is based on the use of stochastic Neumann expansion in the frequency domain, coupled with a matrix factorization in the neighbourhood of the resonant frequencies. The number of the expansion terms is used as an indicator to select the matrix inversion technique to be used, without introducing any additional computational cost. The proposed method is validated using two case studies, where the dynamics an aero-engine bladed disc is modelled first using a lumped parameter approach and then with high-fidelity finite element analysis. The frequency responses of the blades are evaluated according to different mistuning patterns via stiffness or mass perturbations under the excitation provided by the engine orders. Results from standard matrix factorization methods are used to benchmark the responses obtained from the proposed hybrid method. Unlike classic Neumann expansion methods, the new technique can effectively update the inversion of an uncertain matrix with no convergence problems during Monte Carlo simulations. The novel hybrid method is more computationally efficient than standard techniques, with no accuracy loss.

  19. A hybrid Tabu search-simulated annealing method to solve quadratic assignment problem

    Directory of Open Access Journals (Sweden)

    Mohamad Amin Kaviani

    2014-06-01

    Full Text Available Quadratic assignment problem (QAP has been considered as one of the most complicated problems. The problem is NP-Hard and the optimal solutions are not available for large-scale problems. This paper presents a hybrid method using tabu search and simulated annealing technique to solve QAP called TABUSA. Using some well-known problems from QAPLIB generated by Burkard et al. (1997 [Burkard, R. E., Karisch, S. E., & Rendl, F. (1997. QAPLIB–a quadratic assignment problem library. Journal of Global Optimization, 10(4, 391-403.], two methods of TABUSA and TS are both coded on MATLAB and they are compared in terms of relative percentage deviation (RPD for all instances. The performance of the proposed method is examined against Tabu search and the preliminary results indicate that the hybrid method is capable of solving real-world problems, efficiently.

  20. An Efficient Hybrid Conjugate Gradient Method with the Strong Wolfe-Powell Line Search

    Directory of Open Access Journals (Sweden)

    Ahmad Alhawarat

    2015-01-01

    Full Text Available Conjugate gradient (CG method is an interesting tool to solve optimization problems in many fields, such as design, economics, physics, and engineering. In this paper, we depict a new hybrid of CG method which relates to the famous Polak-Ribière-Polyak (PRP formula. It reveals a solution for the PRP case which is not globally convergent with the strong Wolfe-Powell (SWP line search. The new formula possesses the sufficient descent condition and the global convergent properties. In addition, we further explained about the cases where PRP method failed with SWP line search. Furthermore, we provide numerical computations for the new hybrid CG method which is almost better than other related PRP formulas in both the number of iterations and the CPU time under some standard test functions.

  1. A Heuristic and Hybrid Method for the Tank Allocation Problem in Maritime Bulk Shipping

    DEFF Research Database (Denmark)

    Vilhelmsen, Charlotte; Larsen, Jesper; Lusby, Richard Martin

    and strength as well as other operational constraints. The problem of finding a feasible solution to this tank allocation problem has been shown to be NP-Complete. We approach the problem on a tactical level where requirements for computation time are strict while solution quality is less important than simply...... have created a hybrid method that first runs the heuristic and if the heuristic fails to solve the problem, then runs the modified optimality based method on the parts of the problem that the heuristic did not solve. This hybrid method cuts between 90% and 94% of the average running times compared...... finding a feasible solution. We have developed a heuristic that can efficiently find feasible cargo allocations. Computational results show that it can solve 99% of the considered instances within 0.4 seconds and all of them if allowed longer time. We have also modified an optimality based method from...

  2. Hybrid Decomposition Method in Parallel Molecular Dynamics Simulation Based on SMP Cluster Architecture

    Institute of Scientific and Technical Information of China (English)

    WANG Bing; SHU Jiwu; ZHENG Weimin; WANG Jinzhao; CHEN Min

    2005-01-01

    A hybrid decomposition method for molecular dynamics simulations was presented, using simultaneously spatial decomposition and force decomposition to fit the architecture of a cluster of symmetric multi-processor (SMP) nodes. The method distributes particles between nodes based on the spatial decomposition strategy to reduce inter-node communication costs. The method also partitions particle pairs within each node using the force decomposition strategy to improve the load balance for each node. Simulation results for a nucleation process with 4 000 000 particles show that the hybrid method achieves better parallel performance than either spatial or force decomposition alone, especially when applied to a large scale particle system with non-uniform spatial density.

  3. Comparison of IHC, FISH and RT-PCR methods for detection of ALK rearrangements in 312 non-small cell lung cancer patients in Taiwan.

    Directory of Open Access Journals (Sweden)

    Yi-Cheng Wu

    Full Text Available BACKGROUND: Recently Echinoderm microtubule-associated protein-like 4- anaplastic lymphoma kinase (EML4-ALK fusion gene has become an important biomarker for ALK tyrosine kinase inhibitor (crizotinib treatment in NSCLC. However, the best detection method and the significance of EML4-ALK variant types remain uncertain. METHODS: Reverse transcriptase-polymerase chain reaction (RT-PCR, fluorescence in Situ hybridization (FISH and Immunohistochemical (IHC stain were performed on tumor tissues of 312 NSCLC patients for detection of ALK rearrangements. Mutation analyses for EGFR and KRAS genes were also performed. RESULTS: Thirteen of the 312 patients (4.17% had ALK rearrangements detected by RT-PCR. If RT-PCR data was used as the gold standard, FISH tests had a low sensitivity (58.33%, but very good specificity (99.32%. IHC stain had better sensitivity (91.67% than FISH, but lower specificity (79.52%, when the cut off was IHC2+. All of the 8 patients with high abundance of EML4-ALK positive cells in tumor tissues (assessed by the signal intensities of the RT-PCR product, were also have high expression of ALK protein (IHC3+, and positive for FISH, except one failed in FISH. Variants 3a+3b (4/5, 80% of EML4-ALK fusion gene were more common to have high abundance of EML4-ALK positive cells in tumor tissues than variant 1 (1/3, 33.3%. Meta-analysis of the published data of 2273 NSCLC patients revealed that variant 3 (23/44, 52.3% was the most common type in Chinese population, while variant 1 (28/37, 75.7% was most common in Caucasian. CONCLUSIONS: Among the three detection methods, RT-PCR could detect not only the presence of EML4-ALK fusion gene and their variant types, but also the abundance of EML4-ALK positive cells in NSCLC tumor tissues. The latter two factors might affect the treatment response to anti-ALK inhibitor. Including RT-PCR as a diagnostic test for ALK inhibitor treatment in the prospective clinical trials is recommended.

  4. An Approximate Analytical Method for the Evaluation of the Concentrations and Current for Hybrid Enzyme Biosensor

    OpenAIRE

    2013-01-01

    Mathematical modeling of amperometric biosensor with cyclic reaction is discussed. Analytical expressions pertaining to the concentration of substrate, cosubstrate, reducing agent and medial product and current for hybrid enzyme biosensor are obtained in terms of Thiele module and saturation parameters. In this paper, a powerful analytical method, called homotopy analysis method (HAM) is used to solve the system of nonlinear differential equations. Furthermore, in this work the numerical simu...

  5. Grid impedance estimation based hybrid islanding detection method for AC microgrids

    DEFF Research Database (Denmark)

    Ghzaiel, Walid; Jebali-Ben Ghorbal, Manel; Slama-Belkhodja, Ilhem;

    2017-01-01

    This paper focuses on a hybrid islanding detection algorithm for parallel-inverters-based microgrids. The proposed algorithm is implemented on the unit ensuring the control of the intelligent bypass switch connecting or disconnecting the microgrid from the utility. This method employs a grid impe...... that the resonance excitation is canceled and the resistive and inductive grid impedance parts are estimated. Simulation results are carried out to illustrate the effectiveness of the proposed method....

  6. Hybrid constraint programming and metaheuristic methods for large scale optimization problems

    OpenAIRE

    2011-01-01

    This work presents hybrid Constraint Programming (CP) and metaheuristic methods for the solution of Large Scale Optimization Problems; it aims at integrating concepts and mechanisms from the metaheuristic methods to a CP-based tree search environment in order to exploit the advantages of both approaches. The modeling and solution of large scale combinatorial optimization problem is a topic which has arisen the interest of many researcherers in the Operations Research field; combinatori...

  7. Method of reliability tolerance design based on EDA technology and its application on DC hybrid contactor

    Institute of Scientific and Technical Information of China (English)

    WANG Shu-juan; SHA You-tao; ZHANG Hui; ZHAI Guo-fu

    2007-01-01

    Tolerance design, including tolerance analysis and distribution, is an important part of the electronic system's reliability design. The traditional design needs to construct mathematic model of material circuit, which involves large amount of workload and lacks of practicability. This paper discusses the basic theory of electronic system's reliability tolerance design and presents a new design method based on EDA (Electronic Design Automatic) software. This method has been validated through the application research on reliability tolerance design of the DC hybrid contactor's control circuit.

  8. Progress on hybrid finite element methods for scattering by bodies of revolution

    Science.gov (United States)

    Collins, Jeffery D.; Volakis, John L.

    1992-01-01

    Progress on the development and implementation of hybrid finite element methods for scattering by bodies of revolution are described. It was found that earlier finite element-boundary integral formulations suffered from convergence difficulties when applied to large and thin bodies of revolution. An alternative implementation is described where the finite element method is terminated with an absorbing termination boundary. In addition, an alternative finite element-boundary integral implementation is discussed for improving the convergence of the original code.

  9. Recent Work in Hybrid Radiation Transport Methods with Applications to Commercial Nuclear Power

    Energy Technology Data Exchange (ETDEWEB)

    Kulesza, Joel A. [Los Alamos National Lab. (LANL), Los Alamos, NM (United States)

    2017-03-20

    This talk will begin with an overview of hybrid radiation transport methods followed by a discussion of the author’s work to advance current capabilities. The talk will then describe applications for these methods in commercial nuclear power reactor analyses and techniques for experimental validation. When discussing these analytical and experimental activities, the importance of technical standards such as those created and maintained by ASTM International will be demonstrated.

  10. Design a light pattern of multiple concentric circles for LED fishing lamps using Fourier series and an energy mapping method.

    Science.gov (United States)

    Shen, S C; Li, J S; Huang, M C

    2014-06-02

    Fourier series and an energy mapping method were used in this study to design a lens that produces a light pattern of multiple concentric circles (LPMCC) for a light-emitting diode (LED) fishing lamp. Fourier series were used to represent the light intensity distribution curve (LIDC) of the LPMCC light pattern. Energy mapping involves performing angular energy mapping based on the LIDCs of an LED light source and LPMCC to design a freeform lens. Type I and Type II LPMCC lenses were designed according to the phototaxis behavior of fish to create a LPMCC light pattern of interleaving light-dark zones that attracts fish shoals to stay in an area for a long period. The experimental results indicated that, in comparing the LIDCs of the Type I and II lenses with the respective simulation values, the normalized cross-correlation (NCC) value reached 96%. According to a 24-hour observation of the phototaxis of Poecilia reticulata to evaluate the effectiveness of the proposed light pattern to attract fish, when a fish shoal was habituated to a light source that emitted constant illumination light, it gradually moved away from the intense light zone and hovered around the junction of the light and dark zones. In the future, the design used in this study can be applied to LED fishing lamps to replace traditional fishing lamps.

  11. Comprehensive meiotic segregation analysis of a 4-breakpoint t(1;3;6) complex chromosome rearrangement using single sperm array comparative genomic hybridization and FISH.

    Science.gov (United States)

    Hornak, Miroslav; Vozdova, Miluse; Musilova, Petra; Prinosilova, Petra; Oracova, Eva; Linkova, Vlasta; Vesela, Katerina; Rubes, Jiri

    2014-10-01

    Complex chromosomal rearrangements (CCR) represent rare structural chromosome abnormalities frequently associated with infertility. In this study, meiotic segregation in spermatozoa of an infertile normospermic carrier of a 4-breakpoint t(1;3;6) CCR was analysed. A newly developed array comparative genomic hybridization protocol was used, and all chromosomes in 50 single sperm cells were simultaneously examined. Three-colour FISH was used to analyse chromosome segregation in 1557 other single sperm cells. It was also used to measure an interchromosomal effect; sperm chromatin structure assay was used to measure chromatin integrity. A high-frequency of unbalanced spermatozoa (84%) was observed, mostly arising from the 3:3 symmetrical segregation mode. Array comparative genomic hybridization was used to detect additional aneuploidies in two out of 50 spermatozoa (4%) in chromosomes not involved in the complex chromosome rearrangement. Significantly increased rates of diploidy and XY disomy were found in the CCR carrier compared with the control group (P < 0.001). Defective condensation of sperm chromatin was also found in 22.7% of spermatozoa by sperm chromatin structure assay. The results indicate that the infertility in the man with CCR and normal spermatozoa was caused by a production of chromosomally unbalanced, XY disomic and diploid spermatozoa and spermatozoa with defective chromatin condensation.

  12. A novel method to obtain accurate length estimates of carnivorous reef fishes from a single video camera

    Directory of Open Access Journals (Sweden)

    Gastón A. Trobbiani

    Full Text Available In the last years, technological advances enhanced the utilization of baited underwater video (BUV to monitor the diversity, abundance, and size composition of fish assemblages. However, attempts to use static single-camera devices to estimate fish length were limited due to high errors, originated from the variable distance between the fishes and the reference scale included in the scene. In this work, we present a novel simple method to obtain accurate length estimates of carnivorous fishes by using a single downward-facing camera baited video station. The distinctive feature is the inclusion of a mirrored surface at the base of the stand that allows for correcting the apparent or "naive" length of the fish by the distance between the fish and the reference scale. We describe the calibration procedure and compare the performance (accuracy and precision of this new technique with that of other single static camera methods. Overall, estimates were highly accurate (mean relative error = -0.6% and precise (mean coefficient of variation = 3.3%, even in the range of those obtained with stereo-video methods.

  13. A HYBRID METHOD FOR AUTOMATIC COUNTING OF MICROORGANISMS IN MICROSCOPIC IMAGES

    Directory of Open Access Journals (Sweden)

    P.Kalavathi

    2016-03-01

    Full Text Available Microscopic image analysis is an essential process to enable the automatic enumeration and quantitative analysis of microbial images. There are several system are available for numerating microbial growth. Some of the existing method may be inefficient to accurately count the overlapped microorganisms. Therefore, in this paper we proposed an efficient method for automatic segmentation and counting of microorganisms in microscopic images. This method uses a hybrid approach based on morphological operation, active contour model and counting by region labelling process. The colony count value obtained by this proposed method is compared with the manual count and the count value obtained from the existing method

  14. Evaluation of methods to estimate the essential amino acids requirements of fish from the muscle amino acid profile

    Directory of Open Access Journals (Sweden)

    Álvaro José de Almeida Bicudo

    2014-03-01

    Full Text Available Many methods to estimate amino acid requirement based on amino acid profile of fish have been proposed. This study evaluates the methodology proposed by Meyer & Fracalossi (2005 and by Tacon (1989 to estimate amino acids requirement of fish, which do exempt knowledge on previous nutritional requirement of reference amino acid. Data on amino acid requirement of pacu, Piaractus mesopotamicus, were used to validate de accuracy of those methods. Meyer & Fracalossi's and Tacon's methodology estimated the lysine requirement of pacu, respectively, at 13 and 23% above requirement determined using dose-response method. The values estimated by both methods lie within the range of requirements determined for other omnivorous fish species, the Meyer & Fracalossi (2005 method showing better accuracy.

  15. Irrigation method does not affect wild bee pollinators of hybrid sunflower

    Directory of Open Access Journals (Sweden)

    Hillary Sardiñas

    2016-09-01

    Full Text Available Irrigation method has the potential to directly or indirectly influence populations of wild bee crop pollinators nesting and foraging in irrigated crop fields. The majority of wild bee species nest in the ground, and their nests may be susceptible to flooding. In addition, their pollination of crops can be influenced by nectar quality and quantity, which are related to water availability. To determine whether different irrigation methods affect crop pollinators, we compared the number of ground-nesting bees nesting and foraging in drip- and furrow-irrigated hybrid sunflower fields in the Sacramento Valley. We found that irrigation method did not impact wild bee nesting rates or foraging bee abundance or bee species richness. These findings suggest that changing from furrow irrigation to drip irrigation to conserve water likely will not alter hybrid sunflower crop pollination.

  16. Uniform convergence and a posteriori error estimation for assumed stress hybrid finite element methods

    CERN Document Server

    Yu, Guozhu; Carstensen, Carsten

    2011-01-01

    Assumed stress hybrid methods are known to improve the performance of standard displacement-based finite elements and are widely used in computational mechanics. The methods are based on the Hellinger-Reissner variational principle for the displacement and stress variables. This work analyzes two existing 4-node hybrid stress quadrilateral elements due to Pian and Sumihara [Int. J. Numer. Meth. Engng, 1984] and due to Xie and Zhou [Int. J. Numer. Meth. Engng, 2004], which behave robustly in numerical benchmark tests. For the finite elements, the isoparametric bilinear interpolation is used for the displacement approximation, while different piecewise-independent 5-parameter modes are employed for the stress approximation. We show that the two schemes are free from Poisson-locking, in the sense that the error bound in the a priori estimate is independent of the relevant Lame constant $\\lambda$. We also establish the equivalence of the methods to two assumed enhanced strain schemes. Finally, we derive reliable ...

  17. Empirical evaluation of a practical indoor mobile robot navigation method using hybrid maps

    DEFF Research Database (Denmark)

    Özkil, Ali Gürcan; Fan, Zhun; Xiao, Jizhong

    2010-01-01

    This video presents a practical navigation scheme for indoor mobile robots using hybrid maps. The method makes use of metric maps for local navigation and a topological map for global path planning. Metric maps are generated as occupancy grids by a laser range finder to represent local information...... that the method is implemented successfully on physical robot in a hospital environment, which provides a practical solution for indoor navigation........ The navigation scheme based on the hybrid metric-topologica maps saves memory space and is also scalable and adaptable since new local maps can be easily added to the global topology, and the method can be deployed with minimum amount of modification if new areas are to be explored. The video demonstrated...

  18. Effect of different cooking methods on proximate and mineral composition of striped snakehead fish (Channa striatus, Bloch).

    Science.gov (United States)

    Marimuthu, K; Thilaga, M; Kathiresan, S; Xavier, R; Mas, R H M H

    2012-06-01

    The effects of different cooking methods (boiling, baking, frying and grilling) on proximate and mineral composition of snakehead fish were investigated. The mean content of moisture, protein, fat and ash of raw fish was found to be 77.2 ± 2.39, 13.9 ± 2.89, 5.9 ± 0.45 and 0.77 ± 0.12% respectively. The changes in the amount of protein and fat were found to be significantly higher in frying and grilling fish. The ash content increased significantly whereas that of the minerals (Na, K, Ca, Mg, Fe, Zn and Mn) was not affected in all cooking methods. Increased in Cu contents and decreased in P contents were observed in all cooking methods except grilling. In the present study, the grilling method of cooking is found to be the best for healthy eating.

  19. Computationally efficient double hybrid density functional theory using dual basis methods

    CERN Document Server

    Byrd, Jason N

    2015-01-01

    We examine the application of the recently developed dual basis methods of Head-Gordon and co-workers to double hybrid density functional computations. Using the B2-PLYP, B2GP-PLYP, DSD-BLYP and DSD-PBEP86 density functionals, we assess the performance of dual basis methods for the calculation of conformational energy changes in C$_4$-C$_7$ alkanes and for the S22 set of noncovalent interaction energies. The dual basis methods, combined with resolution-of-the-identity second-order M{\\o}ller-Plesset theory, are shown to give results in excellent agreement with conventional methods at a much reduced computational cost.

  20. Efficient Mooring Line Fatigue Analysis Using a Hybrid Method Time Domain Simulation Scheme

    DEFF Research Database (Denmark)

    Christiansen, Niels Hørbye; Voie, Per Erlend Torbergsen; Høgsberg, Jan Becker;

    2013-01-01

    Dynamic analyses of mooring line systems are computationally expensive. Over the last decades an extensive variety of methods to reduce this computational cost have been suggested. One method that has shown promising preliminary results is a hybrid method which combines finite element analysis...... and slow drift motion. The method is tested on a mooring line system of a floating offshore platform. After training a full fatigue analysis is carried out. The results show that the ANN with high precision provides top tension force histories two orders of magnitude faster than a full dynamic analysis...

  1. The fish embryo toxicity test as an animal alternative method in hazard and risk assessment and scientific research

    Energy Technology Data Exchange (ETDEWEB)

    Embry, Michelle R., E-mail: membry@ilsi.org [ILSI Health and Environmental Sciences Institute, 1156 15th Street, NW, Suite 200, Washington, DC 20005 (United States); Belanger, Scott E., E-mail: belanger.se@pg.com [Procter and Gamble, Central Product Safety, PO Box 538707, Miami Valley Innovation Center, Cincinnati, OH 45253-8707 (United States); Braunbeck, Thomas A., E-mail: braunbeck@zoo.uni-heidelberg.de [University of Heidelberg, Im Neuenheimer Feld 230, Heidelberg D -69120 (Germany); Galay-Burgos, Malyka, E-mail: malyka.galay-burgos@ecetoc.org [European Centre for Ecotoxicology and Toxicology of Chemicals (ECETOC), 4 Avenue E. Van Nieuwenhuyse B-1160, Brussels (Belgium); Halder, Marlies, E-mail: marlies.halder@jrc.ec.europa.eu [European Commission, Joint Research Centre, Institute for Health and Consumer Protection, In-Vitro Methods Unit TP-580 Ispra 21027 (Italy); Hinton, David E., E-mail: dhinton@duke.edu [Duke University, Nicholas School of the Environment, PO Box 90328, Durham, NC 27708, Unites States (United States); Leonard, Marc A., E-mail: mleonard@rd.loreal.com [L' Oreal Recherche Avancee, Unite d' Ecotoxicologie, 1 av. E. Schueller, 93601 Aulnay sous bois (France); Lillicrap, Adam, E-mail: Adam.lillicrap@niva.no [AstraZeneca, Freshwater Quarry, Brixham TQ5 8BA (United Kingdom); Norberg-King, Teresa, E-mail: norberg-king.teresa@epa.gov [U.S. EPA, Mid-Continent Ecology Division, 6201 Congdon Boulevard, Duluth, MN 55804-1636 (United States); Whale, Graham, E-mail: graham.whale@shell.com [Shell Global Solutions, Analytical Technology, P.O. Box 1, Chester CH1 3SH (United Kingdom)

    2010-04-15

    Animal alternatives research has historically focused on human safety assessments and has only recently been extended to environmental testing. This is particularly for those assays that involve the use of fish. A number of alternatives are being pursued by the scientific community including the fish embryo toxicity (FET) test, a proposed replacement alternative to the acute fish test. Discussion of the FET methodology and its application in environmental assessments on a global level was needed. With this emerging issue in mind, the ILSI Health and Environmental Sciences Institute (HESI) and the European Centre for Ecotoxicology and Toxicology of Chemicals (ECETOC) held an International Workshop on the Application of the Fish Embryo Test as an Animal Alternative Method in Hazard and Risk Assessment and Scientific Research in March, 2008. The workshop included approximately 40 scientists and regulators representing government, industry, academia, and non-governmental organizations from North America, Europe, and Asia. The goal was to review the state of the science regarding the investigation of fish embryonic tests, pain and distress in fish, emerging approaches utilizing fish embryos, and the use of fish embryo toxicity test data in various types of environmental assessments (e.g., hazard, risk, effluent, and classification and labeling of chemicals). Some specific key outcomes included agreement that risk assessors need fish data for decision-making, that extending the FET to include eluethereombryos was desirable, that relevant endpoints are being used, and that additional endpoints could facilitate additional uses beyond acute toxicity testing. The FET was, however, not yet considered validated sensu OECD. An important action step will be to provide guidance on how all fish tests can be used to assess chemical hazard and to harmonize the diverse terminology used in test guidelines adopted over the past decades. Use of the FET in context of effluent assessments

  2. The fish embryo toxicity test as an animal alternative method in hazard and risk assessment and scientific research.

    Science.gov (United States)

    Embry, Michelle R; Belanger, Scott E; Braunbeck, Thomas A; Galay-Burgos, Malyka; Halder, Marlies; Hinton, David E; Léonard, Marc A; Lillicrap, Adam; Norberg-King, Teresa; Whale, Graham

    2010-04-15

    Animal alternatives research has historically focused on human safety assessments and has only recently been extended to environmental testing. This is particularly for those assays that involve the use of fish. A number of alternatives are being pursued by the scientific community including the fish embryo toxicity (FET) test, a proposed replacement alternative to the acute fish test. Discussion of the FET methodology and its application in environmental assessments on a global level was needed. With this emerging issue in mind, the ILSI Health and Environmental Sciences Institute (HESI) and the European Centre for Ecotoxicology and Toxicology of Chemicals (ECETOC) held an International Workshop on the Application of the Fish Embryo Test as an Animal Alternative Method in Hazard and Risk Assessment and Scientific Research in March, 2008. The workshop included approximately 40 scientists and regulators representing government, industry, academia, and non-governmental organizations from North America, Europe, and Asia. The goal was to review the state of the science regarding the investigation of fish embryonic tests, pain and distress in fish, emerging approaches utilizing fish embryos, and the use of fish embryo toxicity test data in various types of environmental assessments (e.g., hazard, risk, effluent, and classification and labeling of chemicals). Some specific key outcomes included agreement that risk assessors need fish data for decision-making, that extending the FET to include eluethereombryos was desirable, that relevant endpoints are being used, and that additional endpoints could facilitate additional uses beyond acute toxicity testing. The FET was, however, not yet considered validated sensu OECD. An important action step will be to provide guidance on how all fish tests can be used to assess chemical hazard and to harmonize the diverse terminology used in test guidelines adopted over the past decades. Use of the FET in context of effluent assessments

  3. Prenatal diagnosis of gonosomal anomalies: limitations of the FISH method and genetic counseling difficulties in 15 cases.

    Science.gov (United States)

    Braha, Elena; Martiniuc, Violeta; Panzaru, Monica; Caba, Lavinia; Butnariu, Lăcrămioara; Onofriescu, M; Socolov, Demetra; Grigore, Mihaela; Nemescu, D; Mihălceanu, Elena; Iliev, G; Gorduza, E V

    2013-01-01

    Prenatal diagnosis (PD) by FISH or cell culture is today an important tool for the prevention of chromosomal anomalies. A difficult issue is prenatal detection of gonosomal anomalies. Most gonosomal anomalies neither affect life expectancy nor cause psychomotor retardation, but sexualization disorders and the lack of reproductive potential are a constant finding. This study aimed at identifying the medical problems the specialists and the parental couple are faced with at the time of the diagnosis of fetal gonosomal anomalies. This retrospective study (2004-2012) was conducted in the Prenatal Genetic Diagnosis Department of "CuzaVoda" Maternity by FISH technique in 1685 pregnancies. The AneuVysion probes were used for identifying and enumerating chromosomes 13, 18, 21, X, and Y via fluorescence in situ hybridization (FISH) in interphase nuclei obtained from amniotic fluid. Fifteen fetuses were selected in which we were faced with difficulties interpreting the number of gonosomes: monosomy X (5 cases), pseudomosaicism XX/XY (3), trisomy XXY (3 cases), trisomy XYY (1 case), 45,X/46.XX mosaicism (1 case) and triploidy XXX (2 cases). Later, by repeating the analysis, 2 cases with pseudomosaicism XX/XY were excluded. A case highlighting the limitations of the FISH test was that of a fetus in which the FISH test revealed trisomy XXY, while postnatal karyotyping showed a six cell line mosaicism (marker and ring X chromosomes). All parental couples received nondirective genetic counseling, respecting the individuals' dignity and rights of self-determination. Parents received information on the natural course of the disease, treatment options, and psychological support and were involved in their child's recovery.

  4. #JeSuisCharlie: Towards a Multi-Method Study of Hybrid Media Events

    Directory of Open Access Journals (Sweden)

    Johanna Sumiala

    2016-10-01

    Full Text Available This article suggests a new methodological model for the study of hybrid media events with global appeal. This model, developed in the project on the 2015 Charlie Hebdo attacks in Paris, was created specifically for researching digital media—and in particular, Twitter. The article is structured as follows. Firstly, the methodological scope is discussed against the theoretical context, e.g. the theory of media events. In the theoretical discussion, special emphasis is given to i disruptive, upsetting, or disintegrative media events and hybrid media events and ii the conditions of today’s heterogeneous and globalised media communication landscape. Secondly, the article introduces a multi-method approach developed for the analysis of hybrid media events. In this model, computational social science—namely, automated content analysis (ACA and social network analytics (SNA—are combined with a qualitative approach—specifically, digital ethnography. The article outlines three key phases for research in which the interplay between quantitative and qualitative approaches is played out. In the first phase, preliminary digital ethnography is applied to provide the outline of the event. In the second phase, quantitative social network analytics are applied to construct the digital field for research. In this phase, it is necessary to map a what is circulating on the websites and b where this circulation takes place. The third and final phase applies a qualitative approach and digital ethnography to provide a more nuanced, in-depth interpretation of what (substance/content is circulating and how this material connects with the ‘where’ in the digital landscape, hence constituting links and connections in the hybrid media landscape. In conclusion, the article reflects on how this multi-method approach contributes to understanding the workings of today’s hybrid media events: how they create and maintain symbolic battles over certain imagined

  5. Phenotypic consequences of a mosaic marker chromosome identified by fluorescence in situ hybridization (FISH) as being derived from chromosome 16

    Energy Technology Data Exchange (ETDEWEB)

    Ray, J.H.; Zhou, X.; Pletcher, B.A. [Cornell Univ. Medical College, Manhasset, NY (United States)] [and others

    1994-09-01

    De novo marker chromosomes are detected in 1 in 2500 amniotic fluid samples and are associated with a 10-15% risk for phenotypic abnormality. FISH can be utilized as a research tool to identify the origins of marker chromosomes. The phenotypic consequences of a marker chromosome derived from the short arm of chromosome 16 are described. A 26-year-old woman underwent amniocentesis at 28 weeks gestation because of a prenatally diagnosed tetralogy of Fallot. Follow-up ultrasounds also showed ventriculomegaly and cleft lip and palate. 32 of 45 cells had the karyotype 47,XY,+mar; the remaining cells were 46,XY. The de novo marker chromosome was C-band positive and non-satellited and failed to stain with distamycin A/DAPI. At birth the ultrasound findings were confirmed and dysmorphic features and cryptorchidism were noted. Although a newborn blood sample contained only normal cells, mosaicism was confirmed in 2 skin biopsies. FISH using whole-chromosome painting and alpha-satellite DNA probes showed that the marker chromosome had originated from chromosome 16. As proximal 16q is distamycin A/DAPI positive, the marker is apparently derived from proximal 16p. At 15 months of age, this child is hypotonic, globally delayed and is gavage-fed. His physical examination is significant for microbrachycephaly, a round face, sparse scalp hair, ocular hypertelorism, exotropia, a flat, wide nasal bridge and tip, mild micrognathia, and tapered fingers with lymphedema of hands and feet. Inguinal hernias have been repaired. His features are consistent with those described for patients trisomic for most or all of the short arm of chromosome 16. Marker chromosomes derived from the short arm of chromosome 16 appear to have phenotypic consequences. As the origin of more marker chromosomes are identified using FISH, their karyotype/phenotype correlations will become more apparent, which will permit more accurate genetic counseling.

  6. A Hybrid Numerical Method for Turbulent Mixing Layers. Degree awarded by Case Western Reserve Univ.

    Science.gov (United States)

    Georgiadis, Nicholas J.

    2001-01-01

    A hybrid method has been developed for simulations of compressible turbulent mixing layers. Such mixing layers dominate the flows in exhaust systems of modern day aircraft and also those of hypersonic vehicles currently under development. The method configurations in which a dominant structural feature provides an unsteady mechanism to drive the turbulent development in the mixing layer. The hybrid method uses a Reynolds-averaged Navier-Stokes (RANS) procedure to calculate wall bounded regions entering a mixing section, and a Large Eddy Simulation (LES) procedure to calculate the mixing dominated regions. A numerical technique was developed to enable the use of the hybrid RANS-LES method on stretched, non-Cartesian grids. Closure for the RANS equations was obtained using the Cebeci-Smith algebraic turbulence model in conjunction with the wall-function approach of Ota and Goldberg. The wall-function approach enabled a continuous computational grid from the RANS regions to the LES region. The LES equations were closed using the Smagorinsky subgrid scale model. The hybrid RANS-LES method is applied to a benchmark compressible mixing layer experiment. Preliminary two dimensional calculations are used to investigate the effects of axial grid density and boundary conditions. Vortex shedding from the base region of a splitter plate separating the upstream flows was observed to eventually transition to turbulence. The location of the transition, however, was much further downstream than indicated by experiments. Actual LES calculations, performed in three spatial directions, also indicated vortex shedding, but the transition to turbulence was found to occur much closer to the beginning of the mixing section. which is in agreement with experimental observations. These calculations demonstrated that LES simulations must be performed in three dimensions. Comparisons of time-averaged axial velocities and turbulence intensities indicated reasonable agreement with experimental

  7. Hybrid design method for air-core solenoid with axial homogeneity

    Energy Technology Data Exchange (ETDEWEB)

    Huang, Li; Lee, Sang Jin [Uiduk University, Gyeongju (Korea, Republic of); Choi, Suk Jin [Institute for Basic Science, Daejeon (Korea, Republic of)

    2016-03-15

    In this paper, a hybrid method is proposed to design an air-core superconducting solenoid system for 6 T axial uniform magnetic field using Niobium Titanium (NbTi) superconducting wire. In order to minimize the volume of conductor, the hybrid optimization method including a linear programming and a nonlinear programming was adopted. The feasible space of solenoid is divided by several grids and the magnetic field at target point is approximated by the sum of magnetic field generated by an ideal current loop at the center of each grid. Using the linear programming, a global optimal current distribution in the feasible space can be indicated by non-zero current grids. Furthermore the clusters of the non-zero current grids also give the information of probable solenoids in the feasible space, such as the number, the shape, and so on. Applying these probable solenoids as the initial model, the final practical configuration of solenoids with integer layers can be obtained by the nonlinear programming. The design result illustrates the efficiency and the flexibility of the hybrid method. And this method can also be used for the magnet design which is required the high homogeneity within several ppm (parts per million)

  8. Autonomous Navigation Motion Control of Mobile Robots using Hybrid System Control Method

    Energy Technology Data Exchange (ETDEWEB)

    Lee, Y.M. [Samsung Electronics Co., Ltd., Seoul (Korea); Lim, M.S. [Kyonggi Institute of Technology, Shihung (Korea); Lim, J.H. [Hanyang University, Seoul (Korea)

    2002-05-01

    This paper presents a framework of hybrid dynamic control systems for the motion control of wheeled mobile robot systems with nonholonomic constraints. The hybrid control system has the 3-layered hierarchical structure: digital automata for the higher process, mobile robot system for the lower process, and the interface as the interaction process between the continuous dynamics and the discrete dynamics. In the hybrid control architecture of mobile robot, the continuous dynamics of mobile robots are modeled by the switched systems. The abstract model and digital automata for the motion control are developed. In high level, the discrete states are defined by using the sensor-based search windows and the reference motions of a mobile robot in low level are specified in the abstracted motions. The mobile robots can perform both the motion planning and autonomous maneuvering with obstacle avoidance in indoor navigation problem. Simulation and experimental results show that hybrid system approach is an effective method for the autonomous maneuvering in indoor environments. (author). 13 refs., 13 figs., 1 tab.

  9. Development of Intelligent Suits for Disuse Atrophy of Musculoskeletal System Using Hybrid Exercise Method

    Science.gov (United States)

    Shiba, Naoto; Yoshimitsu, Kazuhiro; Matsugaki, Tohru; Narita, Arata; Maeda, Takashi; Inada, Tomohisa; Tagawa, Yoshihiko; Numada, Kiyoshi; Nishi, Tetsuya

    We developed ‘Hybrid exercise’ method that was designed to maintain the musculoskeletal system by using electrically stimulated antagonist muscles to resist volitional contraction of agonist muscles. This approach also produces a minimum of inertial reaction forces and has the advantage that it may minimize the need for external stabilization that is currently necessary during exercise in a weightlessness environment. The purpose of this study was to develop the intelligent suits with virtual reality (VR) system that had function of preventing disuse atrophy of musculoskeletal system using hybrid exercise system. Installing of the hybrid exercise system to the subject became easy by the intelligent suits. VR system realized the sense of sight by computer graphics animation synchronized with subjects' motion, and sense of force induced by electrical stimulation. By using VR system, the management of the exercise accomplishment degree was enabled easily because the device could record the exercise history. Intelligent suits with VR hybrid exercise system might become one of the useful countermeasures for the disuse musculoskeletal system in the space.

  10. A paired-laser photogrammetric method for in situ length measurement of benthic fishes

    Science.gov (United States)

    Rizzo, Austin A.; Welsh, Stuart A.; Thompson, Patricia A.

    2017-01-01

    Photogrammetry, a technique to obtain measurements from photographs, may be a valid method for measuring lengths of rare, threatened, or endangered species. Photogrammetric methods of measurement are nonintrusive and reduce the possibility of physical damage or physiological stress associated with the capture and handling of individuals. We evaluated precision and accuracy of photogrammetric length measurements relative to board measurements of Greenside Darters Etheostoma blennioides and Variegate Darters E. variatum in an aquarium and applied photogrammetry in a field study of the Diamond Darter Crystallaria cincotta, a federally listed endangered species. Digital photographs were taken of each individual using a waterproof camera equipped with two parallel lasers. Photogrammetric length measurements were digitized with ImageJ software. Agreement between board and photogrammetric measurements were high for Greenside and Variegate darters. The magnitude of differences was small between direct and photogrammetric measurements, ranging from 0.6% to 3.1%, depending on the species measured and the type of measurement taken. These results support photogrammetry as a useful method for obtaining length measurements of benthic stream fishes. Photogrammetric methods allowed for length measurements and an assessment of length frequency of 199 Diamond Darters, informative data for management that could not be collected with conventional measuring-board methods.

  11. Methods for reducing lipid oxidation in fish-oil-enriched energy bars

    DEFF Research Database (Denmark)

    Nielsen, Nina Skall; Jacobsen, Charlotte

    2009-01-01

    P>Fish oil (FO) enrichment of foods is relevant owing to the beneficial effects of omega-3 polyunsaturated fatty acids on human health. However, the susceptibility of FO to oxidation necessitates careful control to avoid this oxidation. In this study, energy bars were successfully supplemented...... similar protection towards oxidation as packaging the energy bars in modified atmosphere. These protection methods were although not as efficient as addition of FO as micro-encapsulated powder. Addition of the metal chelator ethylene diamine tetra-acetic acid (EDTA) (100-2000 ppm) to emulsified FO...... with 5% FO. Heating of bars during baking did, apparently, not increase oxidation. Energy bars produced with neat FO were oxidatively unstable as measured by peroxide value, secondary volatile oxidation products and sensory analysis. Pre-emulsification of the FO with sodium caseinate in water offered...

  12. Use of Modern Family Planning Methods in Fishing Communities of Lake Victoria, Uganda.

    Directory of Open Access Journals (Sweden)

    Annet Nanvubya

    Full Text Available Fishing communities (FCs in Uganda have high HIV infection rates but poor access to health services including family planning (FP. Although FP is a cost-effective public health intervention, there is a paucity of data on knowledge and use of modern FP in FCs. This study determined knowledge and use of modern FP methods in FCs of Uganda.Data were accrued from a 12-month follow up of 1,688 HIV-uninfected individuals, 18-49 years from 8 FCs along Lake Victoria, between September 2011 and March 2013. Data on knowledge and use of modern FP were collected through a semi-structured questionnaire. Prevalence Risk Ratios with corresponding 95% CIs were used to determine factors associated with Modern FP knowledge and use.The mean age was 31.4 years, with nearly half (48.8% being females while more than half (58.6% had attained up to primary education level. Knowledge of modern FP was high, 87.5% (1477/1688; significantly higher among females [adj. PRR = 4.84 (95% CI; 3.08, 7.61], among older respondents (25-29 years [adj. PRR = 1.83 (95% CI; 1.12, 2.99] compared to younger ones (18-24 years and among those conducting business [adj. PRR = 2.42(95% CI; 1.02, 5.74] relative to those primarily in fishing. Just over a third (35.2%, 595/1688 reported use of at least one modern FP method. Use of modern FP methods was significantly higher among females [adj. PRR = 2.04 (95% CI; 1.56, 2.65, and among those reporting multiple sexual partnerships [adj. PRR = 2.12, 95% CI; 1.63, 2.76]. Nonuse of modern methods was mostly due to desire for more children (30.6%, fear of side effects (12.2% and partner refusal (5.2%.Despite their high knowledge of FP, FCs have low use of modern FP methods. Key barriers to use of modern FP methods were high fertility desires, fear of perceived side effects and partner refusal of methods.

  13. PERFORMANCE EVALUATION METHOD FOR BUSINESS PROCESS OF MACHINERY MANUFACTURER BASED ON DEA/AHP HYBRID MODEL

    Institute of Scientific and Technical Information of China (English)

    WANG Ting; YI Shuping; YANG Yuanzhao

    2007-01-01

    A set of indices for performance evaluation for business processes with multiple inputs and multiple outputs is proposed, which are found in machinery manufacturers. Based on the traditional methods of data envelopment analysis (DEA) and analytical hierarchical process (AHP), a hybrid model called DEA/AHP model is proposed to deal with the evaluation of business process performance. With the proposed method, the DEA is firstly used to develop a pairwise comparison matrix, and then the AHP is applied to evaluate the performance of business process using the pairwise comparison matrix. The significant advantage of this hybrid model is the use of objective data instead of subjective human judgment for performance evaluation. In the case study, a project of business process reengineering (BPR) with a hydraulic machinery manufacturer is used to demonstrate the effectiveness of the DEA/AHP model.

  14. A hybrid analysis method for linear dynamic soil-structure interaction in time and frequency domain

    Institute of Scientific and Technical Information of China (English)

    丁海平; 廖振鹏

    2001-01-01

    A hybrid analysis method in time and frequency domains for linear soil-structure interaction is presented. First, the time domain solution of the system with Rayleigh damping excited by a short time impulse is obtained by the decoupling numerical simulation technique of near-field wave motion. Then, the corresponding frequency domain solution can be got by Fourier transform. According to the relationship between damping value and dynamic re-sponse of a system, the solution of the system with complex damping can be got by Taylor expansion. The hybrid method makes the best of decoupling and explicit algorithm in time domain, and increases the calculation efficien-cy for linear soil-structure interaction analysis.

  15. Multiscale modeling of rapid granular flow with a hybrid discrete-continuum method

    CERN Document Server

    Chen, Xizhong; Li, Jinghai

    2015-01-01

    Both discrete and continuum models have been widely used to study rapid granular flow, discrete model is accurate but computationally expensive, whereas continuum model is computationally efficient but its accuracy is doubtful in many situations. Here we propose a hybrid discrete-continuum method to profit from the merits but discard the drawbacks of both discrete and continuum models. Continuum model is used in the regions where it is valid and discrete model is used in the regions where continuum description fails, they are coupled via dynamical exchange of parameters in the overlap regions. Simulation of granular channel flow demonstrates that the proposed hybrid discrete-continuum method is nearly as accurate as discrete model, with much less computational cost.

  16. SVC Planning in Large–scale Power Systems via a Hybrid Optimization Method

    DEFF Research Database (Denmark)

    Yang, Guang ya; Majumder, Rajat; Xu, Zhao

    2009-01-01

    The research on allocation of FACTS devices has attracted quite a lot interests from various aspects. In this paper, a hybrid model is proposed to optimise the number, location as well as the parameter settings of static Var compensator (SVC) deployed in large–scale power systems. The model utili...... a candidate solution pool. Then in the second stage, the candidates are presented to a linear planning model to investigate the system optimal loadability, hence the optimal solution for SVC planning can be achieved. The method is presented to IEEE 300–bus system....... utilises the result of vulnerability assessment for determining the candidate locations. A hybrid optimisation method including two stages is proposed to find out the optimal solution of SVC in large– scale planning problem. In the first stage, a conventional genetic algorithm (GA) is exploited to generate...

  17. Paraxial Wentzel-Kramers-Brillouin method applied to the lower hybrid wave propagation

    Energy Technology Data Exchange (ETDEWEB)

    Bertelli, N.; Phillips, C. K.; Valeo, E.; Wilson, J. R. [Princeton Plasma Physics Laboratory, Princeton, New Jersey 08543 (United States); Maj, O.; Poli, E. [Max Planck Institute for Plasma Physics, EURATOM Association, Boltzmannstr. 2, 85748, Garching (Germany); Harvey, R. [CompX, Del Mar, California 92014 (United States); Wright, J. C.; Bonoli, P. T. [MIT Plasma Science and Fusion Center, Cambridge, Massachusetts 02139 (United States); Smirnov, A. P. [Lomonosov Moscow State University, Moscow (Russian Federation)

    2012-08-15

    The paraxial Wentzel-Kramers-Brillouin (pWKB) approximation, also called beam tracing method, has been employed in order to study the propagation of lower hybrid waves in a tokamak plasma. Analogous to the well-know ray tracing method, this approach reduces Maxwell's equations to a set of ordinary differential equations, while, in addition, retains the effects of the finite beam cross-section, and, thus, the effects of diffraction. A new code, LHBEAM (lower hybrid BEAM tracing), is presented, which solves the pWKB equations in tokamak geometry for arbitrary launching conditions and for analytic and experimental plasma equilibria. In addition, LHBEAM includes linear electron Landau damping for the evaluation of the absorbed power density and the reconstruction of the wave electric field in both the physical and Fourier space. Illustrative LHBEAM calculations are presented along with a comparison with the ray tracing code GENRAY and the full wave solver TORIC-LH.

  18. Optimal design of structures for earthquake loads by a hybrid RBF-BPSO method

    Institute of Scientific and Technical Information of China (English)

    Eysa Salajegheh; Saeed Gholizadeh; Mohsen Khatibina

    2008-01-01

    The optimal seismic design of structures requires that time history analyses (THA) be carried out repeatedly. This makes the optimal design process inefficient, in particular, if an evolutionary algorithm is used. To reduce the overall time required for structural optimization, two artificial intelligence strategies are employed. In the first strategy, radial basis function (RBF) neural networks are used to predict the time history responses of structures in the optimization flow. In the second strategy, a binary particle swarm optimization (BPSO) is used to find the optimum design. Combining the RBF and BPSO, a hybrid RBF-BPSO optimization method is proposed in this paper, which achieves fast optimization with high computational performance. Two examples are presented and compared to determine the optimal weight of structures under earthquake loadings using both exact and approximate analyses. The numerical results demonstrate the computational advantages and effectiveness of the proposed hybrid RBF-BPSO optimization method for the seismic design of structures.

  19. Screening methods for linear-scaling short-range hybrid calculations on CPU and GPU architectures

    Science.gov (United States)

    Beuerle, Matthias; Kussmann, Jörg; Ochsenfeld, Christian

    2017-04-01

    We present screening schemes that allow for efficient, linear-scaling short-range exchange calculations employing Gaussian basis sets for both CPU and GPU architectures. They are based on the LinK [C. Ochsenfeld et al., J. Chem. Phys. 109, 1663 (1998)] and PreLinK [J. Kussmann and C. Ochsenfeld, J. Chem. Phys. 138, 134114 (2013)] methods, but account for the decay introduced by the attenuated Coulomb operator in short-range hybrid density functionals. Furthermore, we discuss the implementation of short-range electron repulsion integrals on GPUs. The introduction of our screening methods allows for speedups of up to a factor 7.8 as compared to the underlying linear-scaling algorithm, while retaining full numerical control over the accuracy. With the increasing number of short-range hybrid functionals, our new schemes will allow for significant computational savings on CPU and GPU architectures.

  20. Extended Mixture of MLP Experts by Hybrid of Conjugate Gradient Method and Modified Cuckoo Search

    CERN Document Server

    Salimi, Hamid; Soltanshahi, Mohammad Ali; Hatami, Javad

    2012-01-01

    This paper investigates a new method for improving the learning algorithm of Mixture of Experts (ME) model using a hybrid of Modified Cuckoo Search (MCS) and Conjugate Gradient (CG) as a second order optimization technique. The CG technique is combined with Back-Propagation (BP) algorithm to yield a much more efficient learning algorithm for ME structure. In addition, the experts and gating networks in enhanced model are replaced by CG based Multi-Layer Perceptrons (MLPs) to provide faster and more accurate learning. The CG is considerably depends on initial weights of connections of Artificial Neural Network (ANN), so, a metaheuristic algorithm, the so-called Modified Cuckoo Search is applied in order to select the optimal weights. The performance of proposed method is compared with Gradient Decent Based ME (GDME) and Conjugate Gradient Based ME (CGME) in classification and regression problems. The experimental results show that hybrid MSC and CG based ME (MCS-CGME) has faster convergence and better performa...

  1. New Method of Selecting Efficient Project Portfolios in the Presence of Hybrid Uncertainty

    Directory of Open Access Journals (Sweden)

    Bogdan Rębiasz

    2016-01-01

    Full Text Available A new methods of selecting efficient project portfolios in the presence of hybrid uncertainty has been presented. Pareto optimal solutions have been defined by an algorithm for generating project portfolios. The method presented allows us to select efficient project portfolios taking into account statistical and economic dependencies between projects when some of the parameters used in the calculation of effectiveness can be expressed in the form of an interactive possibility distribution and some in the form of a probability distribution. The procedure for processing such hybrid data combines stochastic simulation with nonlinear programming. The interaction between data are modeled by correlation matrices and the interval regression. Economic dependences are taken into account by the equations balancing the production capacity of the company. The practical example presented indicates that an interaction between projects has a significant impact on the results of calculations. (original abstract

  2. A hybrid time-domain discontinuous galerkin-boundary integral method for electromagnetic scattering analysis

    KAUST Repository

    Li, Ping

    2014-05-01

    A scheme hybridizing discontinuous Galerkin time-domain (DGTD) and time-domain boundary integral (TDBI) methods for accurately analyzing transient electromagnetic scattering is proposed. Radiation condition is enforced using the numerical flux on the truncation boundary. The fields required by the flux are computed using the TDBI from equivalent currents introduced on a Huygens\\' surface enclosing the scatterer. The hybrid DGTDBI ensures that the radiation condition is mathematically exact and the resulting computation domain is as small as possible since the truncation boundary conforms to scatterer\\'s shape and is located very close to its surface. Locally truncated domains can also be defined around each disconnected scatterer additionally reducing the size of the overall computation domain. Numerical examples demonstrating the accuracy and versatility of the proposed method are presented. © 2014 IEEE.

  3. Validation of high-performance liquid chromatography (HPLC method for quantitative analysis of histamine in fish and fishery products

    Directory of Open Access Journals (Sweden)

    B.K.K.K. Jinadasa

    2016-12-01

    Full Text Available A high-performance liquid chromatography method is described for quantitative determination and validation of histamine in fish and fishery product samples. Histamine is extracted from fish/fishery products by homogenizing with tri-chloro acetic acid, separated with Amberlite CG-50 resin and C18-ODS Hypersil reversed phase column at ambient temperature (25°C. Linear standard curves with high correlation coefficients were obtained. An isocratic elution program was used; the total elution time was 10 min. The method was validated by assessing the following aspects; specificity, repeatability, reproducibility, linearity, recovery, limits of detection, limit of quantification and uncertainty. The validated parameters are in good agreement with method and it is a useful tool for determining histamine in fish and fishery products.

  4. New hybrid frequency reuse method for packet loss minimization in LTE network.

    Science.gov (United States)

    Ali, Nora A; El-Dakroury, Mohamed A; El-Soudani, Magdi; ElSayed, Hany M; Daoud, Ramez M; Amer, Hassanein H

    2015-11-01

    This paper investigates the problem of inter-cell interference (ICI) in Long Term Evolution (LTE) mobile systems, which is one of the main problems that causes loss of packets between the base station and the mobile station. Recently, different frequency reuse methods, such as soft and fractional frequency reuse, have been introduced in order to mitigate this type of interference. In this paper, minimizing the packet loss between the base station and the mobile station is the main concern. Soft Frequency Reuse (SFR), which is the most popular frequency reuse method, is examined and the amount of packet loss is measured. In order to reduce packet loss, a new hybrid frequency reuse method is implemented. In this method, each cell occupies the same bandwidth of the SFR, but the total system bandwidth is greater than in SFR. This will provide the new method with a lot of new sub-carriers from the neighboring cells to reduce the ICI which represents a big problem in many applications and causes a lot of packets loss. It is found that the new hybrid frequency reuse method has noticeable improvement in the amount of packet loss compared to SFR method in the different frequency bands. Traffic congestion management in Intelligent Transportation system (ITS) is one of the important applications that is affected by the packet loss due to the large amount of traffic that is exchanged between the base station and the mobile node. Therefore, it is used as a studied application for the proposed frequency reuse method and the improvement in the amount of packet loss reached 49.4% in some frequency bands using the new hybrid frequency reuse method.

  5. Hybrid method to resolve the neutrino mass hierarchy by supernova (anti)neutrino induced reactions

    CERN Document Server

    Vale, D; Paar, N

    2015-01-01

    We introduce a hybrid method to determine the neutrino mass hierarchy by simultaneous measurements of responses of at least two detectors to antineutrino and neutrino fluxes from accretion and cooling phases of core-collapse supernovae. The (anti)neutrino-nucleus cross sections for $^{56}$Fe and $^{208}$Pb are calculated in the framework of the relativistic nuclear energy density functional and weak interaction Hamiltonian, while the cross sections for inelastic scattering on free protons $\\mathrm{p}(\\bar{\

  6. Stability analysis for impulsive fractional hybrid systems via variational Lyapunov method

    Science.gov (United States)

    Yang, Ying; He, Yong; Wang, Yong; Wu, Min

    2017-04-01

    This paper investigates the stability properties for a class of impulsive Caputo fractional-order hybrid systems with impulse effects at fixed moments. By utilizing the variational Lyapunov method, a fractional variational comparison principle is established. Some stability and instability criteria in terms of two measures are obtained. These results generalize the known ones, extending the corresponding theory of impulsive fractional differential systems. An example is given to demonstrate their effectiveness.

  7. A Simple Method for Forming Hybrid Core-Shell Nanoparticles Suspended in Water

    Directory of Open Access Journals (Sweden)

    Jean-Christophe Daigle

    2008-01-01

    addition fragmentation chain transfer (RAFT polymerization as dispersant. Then, the resulting dispersion is engaged in a radical emulsion polymerization process whereby a hydrophobic organic monomer (styrene and butyl acrylate is polymerized to form the shell of the hybrid nanoparticle. This method is extremely versatile, allowing the preparation of a variety of nanocomposites with metal oxides (alumina, rutile, anatase, barium titanate, zirconia, copper oxide, metals (Mo, Zn, and even inorganic nitrides (Si3N4.

  8. A new method for identification of Trichomonas vaginalis by fluorescent DNA in situ hybridization.

    OpenAIRE

    Muresu, R; Rubino, S.; Rizzu, P.; Baldini, A.; Colombo, M; Cappuccinelli, P.

    1994-01-01

    The protozoan flagellate Trichomonas vaginalis is responsible for human trichomoniasis, one of the most widespread sexually transmitted diseases in the world. Several methods are currently used for laboratory diagnosis, including direct microscopic observation, cell culture, immunological techniques, and more recently, DNA probing and gene amplification. This report describes an in situ hybridization technique with specific DNA probes labeled with either biotin, rhodamine, or fluorescein for ...

  9. Hybrid Method for Inverse Electromagnetic Coil Optimization Using Multi-transition and Hopfield Neural Networks

    OpenAIRE

    Yamamoto, Takeyoshi; Cingoski, Vlatko; Kaneda, Kazufumi; Yamashita, Hideo

    1996-01-01

    In this paper, a hybrid method for inverse optimization of electromagnetic coils utilizing the multi-transition neural network and the Hopfield neural network is proposed. Due to the discrete character of the neural network, an optimization problem is transformed into a discrete problem through the division of the entire coil area into elemental coils with constant current density. The minimization of the objective function is performed by the multi-transition neural network and the Hopfield ...

  10. Acoustic characterization of seafloor sediment employing a hybrid method of neural network architecture and fuzzy algorithm

    Digital Repository Service at National Institute of Oceanography (India)

    De, C.; Chakraborty, B.

    IEEE GEOSCIENCE AND REMOTE SENSING LETTERS, VOL. 6, NO. 4, OCTOBER 2009 743 Acoustic Characterization of Seafloor Sediment Employing a Hybrid Method of Neural Network Architecture and Fuzzy Algorithm Chanchal De and Bishwajit Chakraborty Abstract... backscatter data [11]–[13] and side-scan sonar images [14]–[16] have been demonstrated for seafloor classification. In this letter, seafloor sediment is characterized using an unsupervised architecture called Kohonen’s self-organizing Manuscript received...

  11. A microsatellite-based method for genotyping diploid and triploid water frogs of the Rana esculenta hybrid complex

    DEFF Research Database (Denmark)

    Christiansen, Ditte Guldager

    2005-01-01

    Rana esculenta is a hybrid between Rana lessonae (LL) and Rana ridibunda (RR), and hybrids may be diploid (LR) or triploid (LLR or LRR). Genotypes can be roughly determined from erythrocyte size and morphometry in adult frogs, but accurate genotyping requires more labourious methods. Here I...

  12. A hybrid passive localization method under strong interference with a preliminary experimental demonstration

    Science.gov (United States)

    Lei, Bo; Yang, Yixin; Yang, Kunde; Wang, Yong; Shi, Yang

    2016-12-01

    Strong interference exists in many passive localization problems and may lead to the inefficacy of traditional localization methods. In this study, a hybrid passive localization method is proposed to address strong interference. This method combines generalized cross-correlation and interference cancellation for time-difference-of-arrival (TDOA) measurement, followed by a time-delay-based iterative localization method. The proposed method is applied to a preliminary experiment using three hydrophones. The TDOAs estimated by the proposed method are compared with those obtained by the particle filtering method. Results show that the positions are in agreement when the TDOAs are accurately obtained. Furthermore, the proposed method is more capable of localization in the presence of a strong moving jamming source.

  13. Extraction of handwritten areas from colored image of bank checks by an hybrid method

    CERN Document Server

    Haboubi, Sofiene

    2011-01-01

    One of the first step in the realization of an automatic system of check recognition is the extraction of the handwritten area. We propose in this paper an hybrid method to extract these areas. This method is based on digit recognition by Fourier descriptors and different steps of colored image processing . It requires the bank recognition of its code which is located in the check marking band as well as the handwritten color recognition by the method of difference of histograms. The areas extraction is then carried out by the use of some mathematical morphology tools.

  14. An hybrid finite volume finite element method for variable density incompressible flows

    Science.gov (United States)

    Calgaro, Caterina; Creusé, Emmanuel; Goudon, Thierry

    2008-04-01

    This paper is devoted to the numerical simulation of variable density incompressible flows, modeled by the Navier-Stokes system. We introduce an hybrid scheme which combines a finite volume approach for treating the mass conservation equation and a finite element method to deal with the momentum equation and the divergence free constraint. The breakthrough relies on the definition of a suitable footbridge between the two methods, through the design of compatibility condition. In turn, the method is very flexible and allows to deal with unstructured meshes. Several numerical tests are performed to show the scheme capabilities. In particular, the viscous Rayleigh-Taylor instability evolution is carefully investigated.

  15. PHOTOPROBER® Biotin: An Alternative Method for Labeling Archival DNA for Comparative Genomic Hybridization

    Directory of Open Access Journals (Sweden)

    Dirk Korinth

    2004-01-01

    Full Text Available Comparative genomic hybridization (CGH represents a powerful method for screening the entire genome of solid tumors for chromosomal imbalances. Particularly it enabled the molecular cytogenetic analysis of archival, formalin‐fixed, paraffin‐embedded (FFPE tissue. A well‐known dilemma, however, is the poor DNA quality of this material with fragment sizes below 1000 bp. Nick translation, the conventionally used enzymatic DNA labeling method in CGH, leads to even shorter fragments often below a critical limit for successful analysis. In this study we report the alternative application of non‐enzymatic, PHOTOPROBE® biotin labeling for conjugation of the hapten to the DNA prior to in situ hybridization and fluorescence detection. We analyzed 51 FFPE tumor samples mainly from the upper respiratory tract by both labeling methods. In 19 cases, both approaches were successful. The comparison of hybridized metaphases showed a distinct higher fluorescence signal of the PHOTOPROBE® samples sometimes with a discrete cytoplasm background which however did not interfere with specificity and sensitivity of the detected chromosomal imbalances. For further 32 cases characterized by an average DNA fragment size below 1000 bp, PHOTOPROBE® biotin was the only successful labeling technique thus offering a new option for CGH analysis of highly degraded DNA from archival material.

  16. A hybrid fuzzy weight of evidence method in landslide susceptibility analysis on the Wuyuan area, China

    Science.gov (United States)

    Hong, Haoyuan; Ilia, Ioanna; Tsangaratos, Paraskevas; Chen, Wei; Xu, Chong

    2017-08-01

    The present study proposed a hybrid fuzzy weight of evidence model for constructing a landslide susceptibility map in the Wuyuan area, China, where disastrous landslide events have occurred. The model combines the knowledge of experts obtained through a fuzzy logic approach and a hybrid weight of evidence method. The estimated knowledge-based fuzzy membership value of each environmental variable is combined with data-based conditional probabilities to derive fuzzy posterior probabilities and landslide susceptibility. The developed model was compared with a landslide susceptibility map produced using the data-driven weight of evidence method, based on 510 landslide and non-landslide sites. The sites were identified by analyzing airborne imagery, field investigation and previous studies. Landside susceptibility for these sites was analyzed using 10 geo-environmental variables: slope, aspect, lithology, soil, rainfall, plan curvature, the normalized difference vegetation index, distance to roads, distance to rivers and distance to faults. The resultant hybrid fuzzy weight of evidence method showed high predictive power, with the area under the success and predictive curves being 0.770 and 0.746, respectively. Additional analyses showed that the developed model could work effectively even with limited data.

  17. Higher-order brick-tetrahedron hybrid method for Maxwell's equations in time domain

    Science.gov (United States)

    Winges, Johan; Rylander, Thomas

    2016-09-01

    We present a higher-order brick-tetrahedron hybrid method for Maxwell's equations in time domain. Brick-shaped elements are used for large homogeneous parts of the computational domain, where we exploit mass-lumping and explicit time-stepping. In regions with complex geometry, we use an unstructured mesh of tetrahedrons that share an interface with the brick-shaped elements and, at the interface, tangential continuity of the electric field is imposed in the weak sense by means of Nitsche's method. Implicit time-stepping is used for the tetrahedrons together with the interface. For cavity resonators, the hybrid method reproduces the lowest non-zero eigenvalues with correct multiplicity and, for geometries without field singularities from sharp corners or edges, the numerical eigenvalues converge towards the analytical result with an error that is approximately proportional to h2p, where h is the cell size and p is the polynomial order of the elements. For a rectangular waveguide, a layer of tetrahedrons embedded in a grid of brick-shaped elements yields a low reflection coefficient that scales approximately as h2p. Finally, we demonstrate hybrid time-stepping for a lossless closed cavity resonator, where the time-domain response is computed for 300,000 time steps without any signs of instabilities.

  18. A Hybrid Maximum Power Point Tracking Method for Automobile Exhaust Thermoelectric Generator

    Science.gov (United States)

    Quan, Rui; Zhou, Wei; Yang, Guangyou; Quan, Shuhai

    2016-08-01

    To make full use of the maximum output power of automobile exhaust thermoelectric generator (AETEG) based on Bi2Te3 thermoelectric modules (TEMs), taking into account the advantages and disadvantages of existing maximum power point tracking methods, and according to the output characteristics of TEMs, a hybrid maximum power point tracking method combining perturb and observe (P&O) algorithm, quadratic interpolation and constant voltage tracking method was put forward in this paper. Firstly, it searched the maximum power point with P&O algorithms and a quadratic interpolation method, then, it forced the AETEG to work at its maximum power point with constant voltage tracking. A synchronous buck converter and controller were implemented in the electric bus of the AETEG applied in a military sports utility vehicle, and the whole system was modeled and simulated with a MATLAB/Simulink environment. Simulation results demonstrate that the maximum output power of the AETEG based on the proposed hybrid method is increased by about 3.0% and 3.7% compared with that using only the P&O algorithm and the quadratic interpolation method, respectively. The shorter tracking time is only 1.4 s, which is reduced by half compared with that of the P&O algorithm and quadratic interpolation method, respectively. The experimental results demonstrate that the tracked maximum power is approximately equal to the real value using the proposed hybrid method,and it can preferentially deal with the voltage fluctuation of the AETEG with only P&O algorithm, and resolve the issue that its working point can barely be adjusted only with constant voltage tracking when the operation conditions change.

  19. A Hybrid Maximum Power Point Tracking Method for Automobile Exhaust Thermoelectric Generator

    Science.gov (United States)

    Quan, Rui; Zhou, Wei; Yang, Guangyou; Quan, Shuhai

    2017-05-01

    To make full use of the maximum output power of automobile exhaust thermoelectric generator (AETEG) based on Bi2Te3 thermoelectric modules (TEMs), taking into account the advantages and disadvantages of existing maximum power point tracking methods, and according to the output characteristics of TEMs, a hybrid maximum power point tracking method combining perturb and observe (P&O) algorithm, quadratic interpolation and constant voltage tracking method was put forward in this paper. Firstly, it searched the maximum power point with P&O algorithms and a quadratic interpolation method, then, it forced the AETEG to work at its maximum power point with constant voltage tracking. A synchronous buck converter and controller were implemented in the electric bus of the AETEG applied in a military sports utility vehicle, and the whole system was modeled and simulated with a MATLAB/Simulink environment. Simulation results demonstrate that the maximum output power of the AETEG based on the proposed hybrid method is increased by about 3.0% and 3.7% compared with that using only the P&O algorithm and the quadratic interpolation method, respectively. The shorter tracking time is only 1.4 s, which is reduced by half compared with that of the P&O algorithm and quadratic interpolation method, respectively. The experimental results demonstrate that the tracked maximum power is approximately equal to the real value using the proposed hybrid method,and it can preferentially deal with the voltage fluctuation of the AETEG with only P&O algorithm, and resolve the issue that its working point can barely be adjusted only with constant voltage tracking when the operation conditions change.

  20. Time-domain hybrid method for simulating large amplitude motions of ships advancing in waves

    Directory of Open Access Journals (Sweden)

    Shukui Liu

    2011-03-01

    Full Text Available Typical results obtained by a newly developed, nonlinear time domain hybrid method for simulating large amplitude motions of ships advancing with constant forward speed in waves are presented. The method is hybrid in the way of combining a time-domain transient Green function method and a Rankine source method. The present approach employs a simple double integration algorithm with respect to time to simulate the free-surface boundary condition. During the simulation, the diffraction and radiation forces are computed by pressure integration over the mean wetted surface, whereas the incident wave and hydrostatic restoring forces/moments are calculated on the instantaneously wetted surface of the hull. Typical numerical results of application of the method to the seakeeping performance of a standard containership, namely the ITTC S175, are herein presented. Comparisons have been made between the results from the present method, the frequency domain 3D panel method (NEWDRIFT of NTUA-SDL and available experimental data and good agreement has been observed for all studied cases between the results of the present method and comparable other data.