WorldWideScience

Sample records for biomolecular mechanisms controlling

  1. A mechanical Turing machine: blueprint for a biomolecular computer.

    Science.gov (United States)

    Shapiro, Ehud

    2012-08-06

    We describe a working mechanical device that embodies the theoretical computing machine of Alan Turing, and as such is a universal programmable computer. The device operates on three-dimensional building blocks by applying mechanical analogues of polymer elongation, cleavage and ligation, movement along a polymer, and control by molecular recognition unleashing allosteric conformational changes. Logically, the device is not more complicated than biomolecular machines of the living cell, and all its operations are part of the standard repertoire of these machines; hence, a biomolecular embodiment of the device is not infeasible. If implemented, such a biomolecular device may operate in vivo, interacting with its biochemical environment in a program-controlled manner. In particular, it may 'compute' synthetic biopolymers and release them into its environment in response to input from the environment, a capability that may have broad pharmaceutical and biological applications.

  2. A statistical mechanical description of biomolecular hydration

    Energy Technology Data Exchange (ETDEWEB)

    NONE

    1996-02-01

    We present an efficient and accurate theoretical description of the structural hydration of biological macromolecules. The hydration of molecules of almost arbitrary size (tRNA, antibody-antigen complexes, photosynthetic reaction centre) can be studied in solution and in the crystal environment. The biomolecular structure obtained from x-ray crystallography, NMR, or modeling is required as input information. The structural arrangement of water molecules near a biomolecular surface is represented by the local water density analogous to the corresponding electron density in an x-ray diffraction experiment. The water-density distribution is approximated in terms of two- and three-particle correlation functions of solute atoms with water using a potentials-of-mean-force expansion.

  3. Biomolecular recognition mechanisms studied by NMR spectroscopy and MD simulations

    NARCIS (Netherlands)

    Hsu, Shang-Te Danny

    2004-01-01

    This thesis describes the use of solution Nuclear Magnetic Resonance (NMR) spectroscopy and Molecular Dynamics (MD) simulations to study the mechanism of biomolecular recognition with two model systems: i) lipid II-binding lantibiotics (lanthionine-containing antibiotics) and ii) the human immunodef

  4. "BreakThrough cancer Pain" biomolecular mechanisms

    Directory of Open Access Journals (Sweden)

    Francesco Amato

    2014-11-01

    Full Text Available The BTcP is a transitory exacerbation of pain of moderate to high intensity, which occurs, either spontaneously or as a result of a trigger factor, in patients with pain basic maintained for most of the day or under control of mild . The pathophysiological mechanisms underlying the development and maintenance of this type of pain seem to depend on several factors including an increase in the activity of the receptors TRPV1, central sensitization, activation of Glia etc. To better manage the disease can interfere with rapid analgesia of short duration that best overlaps the temporal characteristics of BTcP.

  5. Biomolecular mechanisms in varicose veins development.

    Science.gov (United States)

    Segiet, Oliwia Anna; Brzozowa-Zasada, Marlena; Piecuch, Adam; Dudek, Damian; Reichman-Warmusz, Edyta; Wojnicz, Romuald

    2015-02-01

    Varicose veins (VVs) can be described as tortuous and dilated palpable veins, which are more than 3 mm in diameter. They are one of the clinical presentations of chronic venous disorders, which are a significant cause of morbidity. The prevalence of VVs has been estimated at 25-33% in women and 10-20% in men and is still increasing at an alarming rate. Family history, older age, female, pregnancy, obesity, standing occupations, and a history of deep venous thrombosis are the predominant risk factors. A great amount of factors are implicated in the pathogenesis of VVs, including changes in hydrostatic pressure, valvular incompetence, deep venous obstruction, ineffective function of calf muscle pump, biochemical and structural alterations of the vessel wall, extracellular matrix abnormalities, impaired balance between growth factors or cytokines, genetic alterations, and several other mechanisms. Nevertheless, the issue of pathogenesis in VVs is still not completely known, even if a great progress has been made in understanding their molecular basis. This kind of studies appears promising and should be encouraged, and perhaps the new insight in this matter may result in targeted therapy or possibly prevention.

  6. Transient response characteristics in a biomolecular integral controller.

    Science.gov (United States)

    Sen, Shaunak

    2016-04-01

    The cellular behaviour of perfect adaptation is achieved through the use of an integral control element in the underlying biomolecular circuit. It is generally unclear how integral action affects the important aspect of transient response in these biomolecular systems, especially in light of the fact that it typically deteriorates the transient response in engineering contexts. To address this issue, the authors investigated the transient response in a computational model of a simple biomolecular integral control system involved in bacterial signalling. They find that the transient response can actually speed up as the integral gain parameter increases. On further analysis, they find that the underlying dynamics are composed of slow and fast modes and the speed-up of the transient response is because of the speed-up of the slow-mode dynamics. Finally, they note how an increase in the integral gain parameter also leads to a decrease in the amplitude of the transient response, consistent with the overall improvement in the transient response. These results should be useful in understanding the overall effect of integral action on system dynamics, particularly for biomolecular systems.

  7. Insights into cancer severity from biomolecular interaction mechanisms

    Science.gov (United States)

    Raimondi, Francesco; Singh, Gurdeep; Betts, Matthew J.; Apic, Gordana; Vukotic, Ranka; Andreone, Pietro; Stein, Lincoln; Russell, Robert B.

    2016-01-01

    To attain a deeper understanding of diseases like cancer, it is critical to couple genetics with biomolecular mechanisms. High-throughput sequencing has identified thousands of somatic mutations across dozens of cancers, and there is a pressing need to identify the few that are pathologically relevant. Here we use protein structure and interaction data to interrogate nonsynonymous somatic cancer mutations, identifying a set of 213 molecular interfaces (protein-protein, -small molecule or –nucleic acid) most often perturbed in cancer, highlighting several potentially novel cancer genes. Over half of these interfaces involve protein-small-molecule interactions highlighting their overall importance in cancer. We found distinct differences in the predominance of perturbed interfaces between cancers and histological subtypes and presence or absence of certain interfaces appears to correlate with cancer severity. PMID:27698488

  8. Bridging Nano- and Microtribology in Mechanical and Biomolecular Layers

    Science.gov (United States)

    Tomala, Agnieszka; Göçerler, Hakan; Gebeshuber, Ille C.

    The physical and chemical composition of surfaces determine various important properties of solids such as corrosion rates, adhesive properties, frictional properties, catalytic activity, wettability, contact potential and - finally and most importantly - failure mechanisms. Very thin, weak layers (of man-made and biological origin) on much harder substrates that reduce friction are the focus of the micro- and nanotribological investigations presented in this chapter.Biomolecular layers fulfil various functions in organs of the human body. Examples comprise the skin that provides a protective physical barrier between the body and the environment, preventing unwanted inward and outward passage of water and electrolytes, reducing penetration by destructive chemicals, arresting the penetration of microorganisms and external antigens and absorbing radiation from the sun, or the epithelium of the cornea that blocks the passage of foreign material, such as dust, water and bacteria, into the eye and that contributes to the lubrication layer that ensures smooth movement of the eyelids over the eyeballs.Monomolecular thin films, additive-derived reaction layers and hard coatings are widely used to tailor tribological properties of surfaces. Nanotribological investigations on these substrates can reveal novel properties regarding the orientation of chemisorbed additive layers, development of rubbing films with time and the relation of frictional properties to surface characteristics in diamond coatings.Depending on the questions to be answered with the tribological research, various micro- and nanotribological measurement methods are applied, including scanning probe microscopy (AFM, FFM), scanning electron microscopy, microtribometer investigations, angle-resolved photoelectron spectroscopy and optical microscopy. Thoughts on the feasibility of a unified approach to energy-dissipating systems and how it might be reached (touching upon new ways of scientific publishing

  9. Nanoscale Bio-Molecular Control Using EC-OWLS

    Energy Technology Data Exchange (ETDEWEB)

    Bearinger, J P; Voros, J; Hubbell, J A; Textor, M

    2002-11-20

    A recently developed technique termed ''Electrochemical Optical Waveguide Lightmode Spectroscopy'' (EC-OWLS) [1] combines evanescent-field optical sensing with electrochemical control of surface adsorption processes. Initial EC-OWLS investigations efficiently monitored molecular surface adsorption and layer thickness changes of an adsorbed polymer layer examined in situ as a function of potential applied to a waveguide1. A layer of indium tin oxide (ITO) served as both a high refractive index waveguide for optical sensing, and a conductive electrode; an electrochemical flow-through fluid cell incorporated working, reference and counter electrodes. Poly(L-lysine)-grafted-poly(ethylene glycol) (PLL-g-PEG) served as a model, polycation adsorbate. Results indicate that adsorption and desorption of PLL-g-PEG from aqueous buffer are a function of applied potential, and that binding events subsequent to PLL-g-PEG functionalization are dependent on reorganization in the molecular adlayer.

  10. Virological control of groundwater quality using biomolecular tests.

    Science.gov (United States)

    Carducci, A; Casini, B; Bani, A; Rovini, E; Verani, M; Mazzoni, F; Giuntini, A

    2003-01-01

    Deep groundwater, even if generally protected, could be contaminated by surface or rain water infiltration through soil fractures, septic tanks, cesspits, land irrigation, disposal of wastewater and disposal of muds from depuration systems. The sanitary importance of such possible contamination is related to the different uses of the water and it is at the maximum level when it is intended for human use. Routine microbiological analyses do not consider viruses, only bacterial parameters, as contamination indicators. However, it is known that enteric viruses can survive a long time in deep aquifers and that they may not always be associated with bacterial indicators. The virological analysis of waters intended for drinking use is provided only as an occasional control exercised at the discretion of the sanitary authority. Technological difficulties with obtaining data about groundwater viral contamination led to a study to devise rapid and efficient methods for their detection and the application of these methods to samples from different sources. Four acid nucleic extraction techniques have been tested (classic proteinase K- phenol/chloroform, QIAamp Viral RNA Kit (Qiagen), SV Total RNA Isolation System (Promega) and NucleoSpin Virus L (Macherey-Nagel). Sensitivity and specificity of RT-PCR protocols for entero- (EV), hepatitis A (HAV) and small round structured (SRSV) viruses have been verified. Deep groundwater samples (100 L) were concentrated (2-step tangential flow ultrafiltration) and the concentrate contaminated with serial 10-fold dilutions of a known titre of poliovirus type 3. Extracted RNA was concentrated (microcon-100) and analysed by RT-PCR using specific EV primers and visualising amplification products by agarose gel electrophoresis. In addition, two different methods of RT-PCR for non-cultivable viruses have been tested: (a) RT-PCR and nested RT-PCR for HAV and (b) RT-PCR with generic primers and RT-PCR with specific primers for SRSV. Different

  11. Hybrid Quantum Mechanics/Molecular Mechanics/Coarse Grained Modeling: A Triple-Resolution Approach for Biomolecular Systems.

    Science.gov (United States)

    Sokkar, Pandian; Boulanger, Eliot; Thiel, Walter; Sanchez-Garcia, Elsa

    2015-04-14

    We present a hybrid quantum mechanics/molecular mechanics/coarse-grained (QM/MM/CG) multiresolution approach for solvated biomolecular systems. The chemically important active-site region is treated at the QM level. The biomolecular environment is described by an atomistic MM force field, and the solvent is modeled with the CG Martini force field using standard or polarizable (pol-CG) water. Interactions within the QM, MM, and CG regions, and between the QM and MM regions, are treated in the usual manner, whereas the CG-MM and CG-QM interactions are evaluated using the virtual sites approach. The accuracy and efficiency of our implementation is tested for two enzymes, chorismate mutase (CM) and p-hydroxybenzoate hydroxylase (PHBH). In CM, the QM/MM/CG potential energy scans along the reaction coordinate yield reaction energies that are too large, both for the standard and polarizable Martini CG water models, which can be attributed to adverse effects of using large CG water beads. The inclusion of an atomistic MM water layer (10 Å for uncharged CG water and 5 Å for polarizable CG water) around the QM region improves the energy profiles compared to the reference QM/MM calculations. In analogous QM/MM/CG calculations on PHBH, the use of the pol-CG description for the outer water does not affect the stabilization of the highly charged FADHOOH-pOHB transition state compared to the fully atomistic QM/MM calculations. Detailed performance analysis in a glycine-water model system indicates that computation times for QM energy and gradient evaluations at the density functional level are typically reduced by 40-70% for QM/MM/CG relative to fully atomistic QM/MM calculations.

  12. Single-Molecule Pull-down FRET (SiMPull-FRET) to dissect the mechanisms of biomolecular machines

    Science.gov (United States)

    Kahlscheuer, Matthew L.; Widom, Julia; Walter, Nils G.

    2016-01-01

    Spliceosomes are multi-megadalton RNA-protein complexes responsible for the faithful removal of non-coding segments (introns) from pre-messenger RNAs (pre-mRNAs), a process critical for the maturation of eukaryotic mRNAs for subsequent translation by the ribosome. Both the spliceosome and ribosome, as well as many other RNA and DNA processing machineries, contain central RNA components that endow biomolecular complexes with precise, sequence-specific nucleic acid recognition and versatile structural dynamics. Single molecule fluorescence (or Förster) resonance energy transfer (smFRET) microscopy is a powerful tool for the study of local and global conformational changes of both simple and complex biomolecular systems involving RNA. The integration of biochemical tools such as immunoprecipitation with advanced methods in smFRET microscopy and data analysis has opened up entirely new avenues towards studying the mechanisms of biomolecular machines isolated directly from complex biological specimens such as cell extracts. Here we detail the general steps for using prism-based total internal reflection fluorescence (TIRF) microscopy in exemplary single molecule pull-down FRET (SiMPull-FRET) studies of the yeast spliceosome and discuss the broad application potential of this technique. PMID:26068753

  13. Computational methods to study the structure and dynamics of biomolecules and biomolecular processes from bioinformatics to molecular quantum mechanics

    CERN Document Server

    2014-01-01

    Since the second half of the 20th century machine computations have played a critical role in science and engineering. Computer-based techniques have become especially important in molecular biology, since they often represent the only viable way to gain insights into the behavior of a biological system as a whole. The complexity of biological systems, which usually needs to be analyzed on different time- and size-scales and with different levels of accuracy, requires the application of different approaches, ranging from comparative analysis of sequences and structural databases, to the analysis of networks of interdependence between cell components and processes, through coarse-grained modeling to atomically detailed simulations, and finally to molecular quantum mechanics. This book provides a comprehensive overview of modern computer-based techniques for computing the structure, properties and dynamics of biomolecules and biomolecular processes. The twenty-two chapters, written by scientists from all over t...

  14. The breakup mechanism of biomolecular and colloidal aggregates in a shear flow

    Science.gov (United States)

    Ó Conchúir, Breanndán; Zaccone, Alessio

    2014-03-01

    The theory of self-assembly of colloidal particles in shear flow is incomplete. Previous analytical approaches have failed to capture the microscopic interplay between diffusion, shear and intermolecular interactions which controls the aggregates fate in shear. In this work we analytically solved the drift-diffusion equation for the breakup rate of a dimer in flow. Then applying rigidity percolation theory, we found that the lifetime of a generic cluster formed under shear is controlled by the typical lifetime of a single bond in its interior, which in turn depends on the efficiency of the stress transmitted from other bonds in the cluster. We showed that aggregate breakup is a thermally-activated process where the activation energy is controlled by the interplay between intermolecular forces and the shear drift, and where structural parameters determine whether cluster fragmentation or surface erosion prevails. In our latest work, we analyzed floppy modes and nonaffine deformations to derive a lower bound on the fractal dimension df below which aggregates are mechanically unstable, ie. for large aggregates df ~= 2.4. This theoretical framework is in quantitative agreement with experiments and can be used for population balance modeling of colloidal and protein aggregation.

  15. Stable isotope applications in biomolecular structure and mechanisms. A meeting to bring together producers and users of stable-isotope-labeled compounds to assess current and future needs

    Energy Technology Data Exchange (ETDEWEB)

    Trewhella, J.; Cross, T.A.; Unkefer, C.J. [eds.

    1994-12-01

    Knowledge of biomolecular structure is a prerequisite for understanding biomolecular function, and stable isotopes play an increasingly important role in structure determination of biological molecules. The first Conference on Stable Isotope Applications in Biomolecular Structure and Mechanisms was held in Santa Fe, New Mexico, March 27--31, 1994. More than 120 participants from 8 countries and 44 institutions reviewed significant developments, discussed the most promising applications for stable isotopes, and addressed future needs and challenges. Participants focused on applications of stable isotopes for studies of the structure and function of proteins, peptides, RNA, and DNA. Recent advances in NMR techniques neutron scattering, EPR, and vibrational spectroscopy were highlighted in addition to the production and synthesis of labeled compounds. This volume includes invited speaker and poster presentations as well as a set of reports from discussion panels that focused on the needs of the scientific community and the potential roles of private industry, the National Stable Isotope Resource, and the National High Magnetic Field Laboratory in serving those needs. This is the leading abstract. Individual papers are processed separately for the database.

  16. Biomolecular Mechanism, Cloning, Sequencing and Analysis of Adaptive Reflection cDNAs and Proteins from Squid

    Science.gov (United States)

    2010-05-03

    Mechanism, Adaptive Reflectance, Adaptive Optics, Reflectin, Bragg Reflectors, cDNA, Protien, Squid, Cephalopod, Octopus Daniel E. Morse University of...Tunable Biophotonics: Camouflage and Communication in Squid Inspire New Approaches to Tunable Optical Materials" MCDB Seminar, UCSB 10/09 Invited...Adaptive Camouflage ”, Alison Sweeney, Daniel DeMartini, Michi Izumi, Amanda Holt, and Daniel E. Morse, presented by Alison Sweeney Reliance 21 Materials

  17. Biomolecular Mechanisms of Mercury Transfers and Transformations by Proteins of the Mer Operon

    Science.gov (United States)

    Miller, S. M.; Hong, B.; Nauss, R.; Momany, C.; Summers, A. O.; Feng, X.; Harwood, I.; Stroud, R.

    2008-12-01

    Aerobic bacteria exhibiting resistance to the toxic effects of Hg(II) and organomercurials [RHg(I), e.g. MeHg(I)] and are widely found in both pristine and mercury contaminated environments. Resistance, afforded by a plasmid- or transposon-associated mer operon, involves an unusual pathway where Hg(II) and organomercurials [RHg(I)] undergo facilitated entry into the bacterial cytoplasm via an integral membrane transport protein (MerT) and are then "detoxified" by the concerted effort of two enzymes, organomercurial lyase (MerB), which catalyzes dealkylation (i.e., demethylation) of RHg(I) to Hg(II) and a hydrocarbon, and mercuric ion reductase (MerA), which catalyzes reduction of Hg(II) to Hg(0) as the ultimate detoxification for the organism. With a widespread distribution, these bacterial transformations play a significant role in the fate of mercury in the environment. Our focus is on elucidation of the molecular mechanisms for the transport and catalytic transformations of RHg(I) and Hg(II) by these proteins and the factors that influence the overall efficiency of the process. Current efforts are focused primarily on elucidating details of RHg(I) binding and dealkylation by MerB as well as the mechanism for transfer of the Hg(II) product to MerA. Key findings include the demonstration of a non-cysteine residue as essential for the catalytic activity and demonstration that direct transfer of Hg(II) to MerA proceeds more rapidly and more completely than transfer to small MW thiols such as cysteines or glutathione. Reuslts of these studies as well as an overview of our current understanding of the whole system will be presented.

  18. Quantum mechanical calculation of aqueuous uranium complexes: carbonate, phosphate, organic and biomolecular species

    Directory of Open Access Journals (Sweden)

    Jha Prashant

    2009-08-01

    Full Text Available Abstract Background Quantum mechanical calculations were performed on a variety of uranium species representing U(VI, U(V, U(IV, U-carbonates, U-phosphates, U-oxalates, U-catecholates, U-phosphodiesters, U-phosphorylated N-acetyl-glucosamine (NAG, and U-2-Keto-3-doxyoctanoate (KDO with explicit solvation by H2O molecules. These models represent major U species in natural waters and complexes on bacterial surfaces. The model results are compared to observed EXAFS, IR, Raman and NMR spectra. Results Agreement between experiment and theory is acceptable in most cases, and the reasons for discrepancies are discussed. Calculated Gibbs free energies are used to constrain which configurations are most likely to be stable under circumneutral pH conditions. Reduction of U(VI to U(IV is examined for the U-carbonate and U-catechol complexes. Conclusion Results on the potential energy differences between U(V- and U(IV-carbonate complexes suggest that the cause of slower disproportionation in this system is electrostatic repulsion between UO2 [CO3]35- ions that must approach one another to form U(VI and U(IV rather than a change in thermodynamic stability. Calculations on U-catechol species are consistent with the observation that UO22+ can oxidize catechol and form quinone-like species. In addition, outer-sphere complexation is predicted to be the most stable for U-catechol interactions based on calculated energies and comparison to 13C NMR spectra. Outer-sphere complexes (i.e., ion pairs bridged by water molecules are predicted to be comparable in Gibbs free energy to inner-sphere complexes for a model carboxylic acid. Complexation of uranyl to phosphorus-containing groups in extracellular polymeric substances is predicted to favor phosphonate groups, such as that found in phosphorylated NAG, rather than phosphodiesters, such as those in nucleic acids.

  19. [Advances in biomolecular machine: methane monooxygenases].

    Science.gov (United States)

    Lu, Jixue; Wang, Shizhen; Fang, Baishan

    2015-07-01

    Methane monooxygenases (MMO), regarded as "an amazing biomolecular machine", catalyze the oxidation of methane to methanol under aerobic conditions. MMO catalyze the oxidation of methane elaborately, which is a novel way to catalyze methane to methanol. Furthermore, MMO can inspire the biomolecular machine design. In this review, we introduced MMO including structure, gene and catalytic mechanism. The history and the taxonomy of MMO were also introduced.

  20. Temperature-responsive self-assembled monolayers of oligo(ethylene glycol): control of biomolecular recognition.

    Science.gov (United States)

    Zareie, Hadi M; Boyer, Cyrille; Bulmus, Volga; Nateghi, Ebrahim; Davis, Thomas P

    2008-04-01

    Self-assembled monolayers (SAMs) of oligo(ethylene glycol) (OEG)-tethered molecules on gold are important for various biorelevant applications ranging from biomaterials to bioanalytical devices, where surface resistance to nonspecific protein adsorption is needed. Incorporation of a stimuli-responsive character to the OEG SAMs enables the creation of nonfouling surfaces with switchable functionality. Here we present an OEG-derived structure that is highly responsive to temperature changes in the vicinity of the physiological temperature, 37 degrees C. The temperature-responsive solution behavior of this new compound was demonstrated by UV-vis and nuclear magnetic resonance spectroscopy. Its chemisorption onto gold(111), and the retention of responsive behavior after chemisorption have been demonstrated by surface plasmon resonance (SPR), X-ray photoelectron spectroscopy (XPS), and atomic force and scanning tunneling microscopy. The OEG-derived SAMs have been shown to reversibly switch the wettability of the surface, as determined by contact angle measurements. More importantly, SPR and AFM studies showed that the OEG SAMs can be utilized to control the affinity binding of streptavidin to the biotin-tethered surface in a temperature-dependent manner while still offering the nonspecific protein-resistance to the surface.

  1. Report on result 1998. Research and development on fusion area. Part 3 (biomolecular mechanism and design); 1998 nendo seika hokokusho. Yugo ryoiki kenkyu kaihatsu daisan bunsatsu (bimolecular mechanism and design)

    Energy Technology Data Exchange (ETDEWEB)

    NONE

    1999-03-01

    An organism is a molecular mechanical system consisting of nucleic acid, peptide and protein having a self-forming and a self-repairing function. For the purpose of creating cells, tissues and molecular mechanism alternating these biological functions, their basic technology was developed. Concretely, studies were made on three-dimensional cellular structural module engineering and biomolecular mechanism and design. Studies on biological soft tissue resulted in success by giving atmospheric glow discharge treatment to the inner surface of a tubular PVC. An artificial vitreous body was created using PVA hydrogels. In addition, liver cells were successfully cultured for the first time in the world. Studies on biological hard tissue revealed that osteopontin plays a role of a trigger for the initial differentiation of the osteoblast cell. Further, a basic experiment was carried out on the initial response of the cartilage cell. In the research on the molecular mechanism, examination was made on the mechanism of a double-head molecular motor. Examination was also made on the adjustment of the hydrogenase LB film as an electricity/hydrogen energy conversion element and on the biomolecular mechanism and design. (NEDO)

  2. Nonholonomic mechanics and control

    CERN Document Server

    Murray, RM

    2015-01-01

    This book explores some of the connections between control theory and geometric mechanics; that is, control theory is linked with a geometric view of classical mechanics in both its Lagrangian and Hamiltonian formulations and in particular with the theory of mechanical systems subject to motion constraints. The synthesis of the topic is appropriate as there is a particularly rich connection between mechanics and nonlinear control theory. The book provides a unified treatment of nonlinear control theory and constrained mechanical systems and illustrates the elegant mathematics behind many simple, interesting, and useful mechanical examples. It is intended for graduate students who wish to learn this subject and researchers in the area who want to enhance their techniques. The book contains sections focusing on physical examples and elementary terms, as well as theoretical sections that use sophisticated analysis and geometry. The first four chapters offer preliminaries and background information, while the...

  3. Programming in biomolecular computation

    DEFF Research Database (Denmark)

    Hartmann, Lars Røeboe; Jones, Neil; Simonsen, Jakob Grue

    2011-01-01

    Our goal is to provide a top-down approach to biomolecular computation. In spite of widespread discussion about connections between biology and computation, one question seems notable by its absence: Where are the programs? We identify a number of common features in programming that seem conspicu...

  4. Origin of organic molecules and biomolecular homochirality.

    Science.gov (United States)

    Podlech, J

    2001-01-01

    Theories about the origin of biomolecular homochirality, which seems to be a prerequisite for the creation of life, are discussed. First, possible terrestrial and extraterrestrial sources of organic molecules are outlined. Then, mechanisms for the formation of enantiomerically enriched compounds and for the amplification of their chirality are described.

  5. Biomolecular EPR spectroscopy

    CERN Document Server

    Hagen, Wilfred Raymond

    2008-01-01

    Comprehensive, Up-to-Date Coverage of Spectroscopy Theory and its Applications to Biological SystemsAlthough a multitude of books have been published about spectroscopy, most of them only occasionally refer to biological systems and the specific problems of biomolecular EPR (bioEPR). Biomolecular EPR Spectroscopy provides a practical introduction to bioEPR and demonstrates how this remarkable tool allows researchers to delve into the structural, functional, and analytical analysis of paramagnetic molecules found in the biochemistry of all species on the planet. A Must-Have Reference in an Intrinsically Multidisciplinary FieldThis authoritative reference seamlessly covers all important bioEPR applications, including low-spin and high-spin metalloproteins, spin traps and spin lables, interaction between active sites, and redox systems. It is loaded with practical tricks as well as do's and don'ts that are based on the author's 30 years of experience in the field. The book also comes with an unprecedented set of...

  6. Programming in biomolecular computation

    DEFF Research Database (Denmark)

    Hartmann, Lars Røeboe; Jones, Neil; Simonsen, Jakob Grue

    2010-01-01

    executable, but are also compilable and interpretable. It is universal: all computable functions can be computed (in natural ways and without arcane encodings of data and algorithm); it is also uniform: new “hardware” is not needed to solve new problems; and (last but not least) it is Turing complete......Our goal is to provide a top-down approach to biomolecular computation. In spite of widespread discussion about connections between biology and computation, one question seems notable by its absence: Where are the programs? We introduce a model of computation that is evidently programmable......, by programs reminiscent of low-level computer machine code; and at the same time biologically plausible: its functioning is defined by a single and relatively small set of chemical-like reaction rules. Further properties: the model is stored-program: programs are the same as data, so programs are not only...

  7. Programming in Biomolecular Computation

    DEFF Research Database (Denmark)

    Hartmann, Lars; Jones, Neil; Simonsen, Jakob Grue

    2010-01-01

    Our goal is to provide a top-down approach to biomolecular computation. In spite of widespread discussion about connections between biology and computation, one question seems notable by its absence: Where are the programs? We introduce a model of computation that is evidently programmable......, by programs reminiscent of low-level computer machine code; and at the same time biologically plausible: its functioning is defined by a single and relatively small set of chemical-like reaction rules. Further properties: the model is stored-program: programs are the same as data, so programs are not only...... in a strong sense: a universal algorithm exists, that is able to execute any program, and is not asymptotically inefficient. A prototype model has been implemented (for now in silico on a conventional computer). This work opens new perspectives on just how computation may be specified at the biological level....

  8. Genetically designed biomolecular capping system for mesoporous silica nanoparticles enables receptor-mediated cell uptake and controlled drug release

    CERN Document Server

    Datz, Stefan; Gattner, Michael; Weiss, Veronika; Brunner, Korbinian; Bretzler, Johanna; von Schirnding, Constantin; Spada, Fabio; Engelke, Hanna; Vrabel, Milan; Bräuchle, Christoph; Carell, Thomas; Bein, Thomas

    2015-01-01

    Effective and controlled drug delivery systems with on-demand release and targeting abilities have received enormous attention for biomedical applications. Here, we describe a novel enzyme-based cap system for mesoporous silica nanoparticles (MSNs) that is directly combined with a targeting ligand via bio-orthogonal click chemistry. The capping system is based on the pH-responsive binding of an aryl-sulfonamide-functionalized MSN and the enzyme carbonic anhydrase (CA). An unnatural amino acid (UAA) containing a norbornene moiety was genetically incorporated into CA. This UAA allowed for the site-specific bio-orthogonal attachment of even very sensitive targeting ligands such as folic acid and anandamide. This leads to specific receptor-mediated cell and stem cell uptake. We demonstrate the successful delivery and release of the chemotherapeutic agent Actinomycin D to KB cells. This novel nanocarrier concept provides a promising platform for the development of precisely controllable and highly modular theranos...

  9. Genetically designed biomolecular capping system for mesoporous silica nanoparticles enables receptor-mediated cell uptake and controlled drug release

    Science.gov (United States)

    Datz, Stefan; Argyo, Christian; Gattner, Michael; Weiss, Veronika; Brunner, Korbinian; Bretzler, Johanna; von Schirnding, Constantin; Torrano, Adriano A.; Spada, Fabio; Vrabel, Milan; Engelke, Hanna; Bräuchle, Christoph; Carell, Thomas; Bein, Thomas

    2016-04-01

    Effective and controlled drug delivery systems with on-demand release and targeting abilities have received enormous attention for biomedical applications. Here, we describe a novel enzyme-based cap system for mesoporous silica nanoparticles (MSNs) that is directly combined with a targeting ligand via bio-orthogonal click chemistry. The capping system is based on the pH-responsive binding of an aryl-sulfonamide-functionalized MSN and the enzyme carbonic anhydrase (CA). An unnatural amino acid (UAA) containing a norbornene moiety was genetically incorporated into CA. This UAA allowed for the site-specific bio-orthogonal attachment of even very sensitive targeting ligands such as folic acid and anandamide. This leads to specific receptor-mediated cell and stem cell uptake. We demonstrate the successful delivery and release of the chemotherapeutic agent Actinomycin D to KB cells. This novel nanocarrier concept provides a promising platform for the development of precisely controllable and highly modular theranostic systems.Effective and controlled drug delivery systems with on-demand release and targeting abilities have received enormous attention for biomedical applications. Here, we describe a novel enzyme-based cap system for mesoporous silica nanoparticles (MSNs) that is directly combined with a targeting ligand via bio-orthogonal click chemistry. The capping system is based on the pH-responsive binding of an aryl-sulfonamide-functionalized MSN and the enzyme carbonic anhydrase (CA). An unnatural amino acid (UAA) containing a norbornene moiety was genetically incorporated into CA. This UAA allowed for the site-specific bio-orthogonal attachment of even very sensitive targeting ligands such as folic acid and anandamide. This leads to specific receptor-mediated cell and stem cell uptake. We demonstrate the successful delivery and release of the chemotherapeutic agent Actinomycin D to KB cells. This novel nanocarrier concept provides a promising platform for the

  10. Biochemical filter with sigmoidal response: increasing the complexity of biomolecular logic.

    Science.gov (United States)

    Privman, Vladimir; Halámek, Jan; Arugula, Mary A; Melnikov, Dmitriy; Bocharova, Vera; Katz, Evgeny

    2010-11-11

    The first realization of a designed, rather than natural, biochemical filter process is reported and analyzed as a promising network component for increasing the complexity of biomolecular logic systems. Key challenge in biochemical logic research has been achieving scalability for complex network designs. Various logic gates have been realized, but a "toolbox" of analog elements for interconnectivity and signal processing has remained elusive. Filters are important as network elements that allow control of noise in signal transmission and conversion. We report a versatile biochemical filtering mechanism designed to have sigmoidal response in combination with signal-conversion process. Horseradish peroxidase-catalyzed oxidation of chromogenic electron donor by H(2)O(2) was altered by adding ascorbate, allowing to selectively suppress the output signal, modifying the response from convex to sigmoidal. A kinetic model was developed for evaluation of the quality of filtering. The results offer improved capabilities for design of scalable biomolecular information processing systems.

  11. Biomolecular Modification of Inorganic Crystal Growth

    Energy Technology Data Exchange (ETDEWEB)

    De Yoreo, J J

    2007-04-27

    The fascinating shapes and hierarchical designs of biomineralized structures are an inspiration to materials scientists because of the potential they suggest for biomolecular control over materials synthesis. Conversely, the failure to prevent or limit tissue mineralization in the vascular, skeletal, and urinary systems is a common source of disease. Understanding the mechanisms by which organisms direct or limit crystallization has long been a central challenge to the biomineralization community. One prevailing view is that mineral-associated macromolecules are responsible for either inhibiting crystallization or initiating and stabilizing non-equilibrium crystal polymorphs and morphologies through interactions between anionic moieties and cations in solution or at mineralizing surfaces. In particular, biomolecules that present carboxyl groups to the growing crystal have been implicated as primary modulators of growth. Here we review the results from a combination of in situ atomic force microscopy (AFM) and molecular modeling (MM) studies to investigate the effect of specific interactions between carboxylate-rich biomolecules and atomic steps on crystal surfaces during the growth of carbonates, oxalates and phosphates of calcium. Specifically, we how the growth kinetics and morphology depend on the concentration of additives that include citrate, simple amino acids, synthetic Asp-rich polypeptides, and naturally occurring Asp-rich proteins found in both functional and pathological mineral tissues. The results reveal a consistent picture of shape modification in which stereochemical matching of modifiers to specific atomic steps drives shape modification. Inhibition and other changes in growth kinetics are shown to be due to a range of mechanisms that depend on chemistry and molecular size. Some effects are well described by classic crystal growth theories, but others, such as step acceleration due to peptide charge and hydrophylicity, were previously unrealized

  12. Variational Methods for Biomolecular Modeling

    CERN Document Server

    Wei, Guo-Wei

    2016-01-01

    Structure, function and dynamics of many biomolecular systems can be characterized by the energetic variational principle and the corresponding systems of partial differential equations (PDEs). This principle allows us to focus on the identification of essential energetic components, the optimal parametrization of energies, and the efficient computational implementation of energy variation or minimization. Given the fact that complex biomolecular systems are structurally non-uniform and their interactions occur through contact interfaces, their free energies are associated with various interfaces as well, such as solute-solvent interface, molecular binding interface, lipid domain interface, and membrane surfaces. This fact motivates the inclusion of interface geometry, particular its curvatures, to the parametrization of free energies. Applications of such interface geometry based energetic variational principles are illustrated through three concrete topics: the multiscale modeling of biomolecular electrosta...

  13. Grid computing and biomolecular simulation.

    Science.gov (United States)

    Woods, Christopher J; Ng, Muan Hong; Johnston, Steven; Murdock, Stuart E; Wu, Bing; Tai, Kaihsu; Fangohr, Hans; Jeffreys, Paul; Cox, Simon; Frey, Jeremy G; Sansom, Mark S P; Essex, Jonathan W

    2005-08-15

    Biomolecular computer simulations are now widely used not only in an academic setting to understand the fundamental role of molecular dynamics on biological function, but also in the industrial context to assist in drug design. In this paper, two applications of Grid computing to this area will be outlined. The first, involving the coupling of distributed computing resources to dedicated Beowulf clusters, is targeted at simulating protein conformational change using the Replica Exchange methodology. In the second, the rationale and design of a database of biomolecular simulation trajectories is described. Both applications illustrate the increasingly important role modern computational methods are playing in the life sciences.

  14. Controlled mechanized trepan.

    Science.gov (United States)

    Kam, J; Goldratt, E M; Barishak, Y R; Stein, R

    1978-04-01

    A mechanized trepan is described whose cutting action is halted automatically when the trepan's cutting edge reaches the last 0.03 mm. tissue layer of the cornea. The automatic half of both the motor which advances the trepan as well as the second motor which rotates the trepan is triggered by the sudden change in electrical resistance between the trepan and the patient's internal body fluid, at the final stage of penetration. This automatic feature eliminates the danger of inadvertant damage to the inner structures of the eye.

  15. Optimal Control of Mechanical Systems

    OpenAIRE

    Vadim Azhmyakov

    2007-01-01

    In the present work, we consider a class of nonlinear optimal control problems, which can be called “optimal control problems in mechanics.” We deal with control systems whose dynamics can be described by a system of Euler-Lagrange or Hamilton equations. Using the variational structure of the solution of the corresponding boundary-value problems, we reduce the initial optimal control problem to an auxiliary problem of multiobjective programming. This technique makes it possible to apply some ...

  16. Optimal Control of Mechanical Systems

    Directory of Open Access Journals (Sweden)

    Vadim Azhmyakov

    2007-01-01

    Full Text Available In the present work, we consider a class of nonlinear optimal control problems, which can be called “optimal control problems in mechanics.” We deal with control systems whose dynamics can be described by a system of Euler-Lagrange or Hamilton equations. Using the variational structure of the solution of the corresponding boundary-value problems, we reduce the initial optimal control problem to an auxiliary problem of multiobjective programming. This technique makes it possible to apply some consistent numerical approximations of a multiobjective optimization problem to the initial optimal control problem. For solving the auxiliary problem, we propose an implementable numerical algorithm.

  17. Nonequilibrium phase transitions in biomolecular signal transduction

    Science.gov (United States)

    Smith, Eric; Krishnamurthy, Supriya; Fontana, Walter; Krakauer, David

    2011-11-01

    We study a mechanism for reliable switching in biomolecular signal-transduction cascades. Steady bistable states are created by system-size cooperative effects in populations of proteins, in spite of the fact that the phosphorylation-state transitions of any molecule, by means of which the switch is implemented, are highly stochastic. The emergence of switching is a nonequilibrium phase transition in an energetically driven, dissipative system described by a master equation. We use operator and functional integral methods from reaction-diffusion theory to solve for the phase structure, noise spectrum, and escape trajectories and first-passage times of a class of minimal models of switches, showing how all critical properties for switch behavior can be computed within a unified framework.

  18. Muscle mechanics and neuromuscular control

    NARCIS (Netherlands)

    Hof, AL

    2003-01-01

    The purpose of this paper is to demonstrate that the properties of the mechanical system, especially muscle elasticity and limb mass, to a large degree determine force output and movement. This makes the control demands of the central nervous system simpler and more robust. In human triceps surae, a

  19. Cellular mechanisms that control mistranslation

    DEFF Research Database (Denmark)

    Reynolds, Noah M; Lazazzera, Beth A; Ibba, Michael

    2010-01-01

    Mistranslation broadly encompasses the introduction of errors during any step of protein synthesis, leading to the incorporation of an amino acid that is different from the one encoded by the gene. Recent research has vastly enhanced our understanding of the mechanisms that control mistranslation...

  20. Chaos Control in Mechanical Systems

    Directory of Open Access Journals (Sweden)

    Marcelo A. Savi

    2006-01-01

    Full Text Available Chaos has an intrinsically richness related to its structure and, because of that, there are benefits for a natural system of adopting chaotic regimes with their wide range of potential behaviors. Under this condition, the system may quickly react to some new situation, changing conditions and their response. Therefore, chaos and many regulatory mechanisms control the dynamics of living systems, conferring a great flexibility to the system. Inspired by nature, the idea that chaotic behavior may be controlled by small perturbations of some physical parameter is making this kind of behavior to be desirable in different applications. Mechanical systems constitute a class of system where it is possible to exploit these ideas. Chaos control usually involves two steps. In the first, unstable periodic orbits (UPOs that are embedded in the chaotic set are identified. After that, a control technique is employed in order to stabilize a desirable orbit. This contribution employs the close-return method to identify UPOs and a semi-continuous control method, which is built up on the OGY method, to stabilize some desirable UPO. As an application to a mechanical system, a nonlinear pendulum is considered and, based on parameters obtained from an experimental setup, analyses are carried out. Signals are generated by numerical integration of the mathematical model and two different situations are treated. Firstly, it is assumed that all state variables are available. After that, the analysis is done from scalar time series and therefore, it is important to evaluate the effect of state space reconstruction. Delay coordinates method and extended state observers are employed with this aim. Results show situations where these techniques may be used to control chaos in mechanical systems.

  1. Biomolecular computing systems: principles, progress and potential.

    Science.gov (United States)

    Benenson, Yaakov

    2012-06-12

    The task of information processing, or computation, can be performed by natural and man-made 'devices'. Man-made computers are made from silicon chips, whereas natural 'computers', such as the brain, use cells and molecules. Computation also occurs on a much smaller scale in regulatory and signalling pathways in individual cells and even within single biomolecules. Indeed, much of what we recognize as life results from the remarkable capacity of biological building blocks to compute in highly sophisticated ways. Rational design and engineering of biological computing systems can greatly enhance our ability to study and to control biological systems. Potential applications include tissue engineering and regeneration and medical treatments. This Review introduces key concepts and discusses recent progress that has been made in biomolecular computing.

  2. Biomolecular rods and tubes in nanotechnology

    Science.gov (United States)

    Bittner, Alexander M.

    2005-02-01

    Biomolecules are vitally important elements in nanoscale science and also in future nanotechnology. Their shape and their chemical and physical functionality can give them a big advantage over inorganic and organic substances. While this becomes most obvious in proteins and peptides, with their complicated, but easily controlled chemistry, other biomolecular substances such as DNA, lipids and carbohydrates can also be important. In this review, the emphasis is on one-dimensional molecules and on molecules that self-assemble into linear structures, and on their potential applications. An important aspect is that biomolecules can act as templates, i.e. their shape and chemical properties can be employed to arrange inorganic substances such as metals or metal compounds on the nanometre scale. In particular, rod- and tube-like nanostructures can show physical properties that are different from those of the bulk material, and thus these structures are likely to be a basis for new technology.

  3. Reactive uCP on Ultrathin Block Copolymer Films: Investigation of the uCP Mechanism and Application to Sub-um (Bio)molecular Patterning

    NARCIS (Netherlands)

    Feng, Chuan Liang; Vancso, G. Julius; Schönherr, Holger

    2007-01-01

    In this paper, the mechanism of the recently introduced soft lithographic patterning approach of reactive microcontact printing on thin substrate-supported polystyrene-block-poly(tert-butyl acrylate) (PS690-b-PtBA1210) films using trifluoroacetic acid (TFA)-inked elastomeric poly(dimethylsiloxane) (

  4. Patterning mechanisms controlling digit development

    Institute of Scientific and Technical Information of China (English)

    2008-01-01

    Vertebrate digits are essential structures for movement,feeding and communication.Specialized regions of the developing limb bud including the zone of polarizing activity(ZPA),the apical ectodermal ridge(AER),and the non-ridge ectoderm regulate the patterning of digits.Although a series of signaling molecules have been characterized as patterning signals from the organizing centers,the delicate cellular and molecular mechanisms that interpret how these patterning signals control the detailed digit anatomy remain unclear.Recent studies from model organisms and human hand malformations provide new insights into the mechanisms regulating this process.Here,we review the current understanding of the genetic networks governing digit morphogenesis.

  5. Integrative NMR for biomolecular research.

    Science.gov (United States)

    Lee, Woonghee; Cornilescu, Gabriel; Dashti, Hesam; Eghbalnia, Hamid R; Tonelli, Marco; Westler, William M; Butcher, Samuel E; Henzler-Wildman, Katherine A; Markley, John L

    2016-04-01

    NMR spectroscopy is a powerful technique for determining structural and functional features of biomolecules in physiological solution as well as for observing their intermolecular interactions in real-time. However, complex steps associated with its practice have made the approach daunting for non-specialists. We introduce an NMR platform that makes biomolecular NMR spectroscopy much more accessible by integrating tools, databases, web services, and video tutorials that can be launched by simple installation of NMRFAM software packages or using a cross-platform virtual machine that can be run on any standard laptop or desktop computer. The software package can be downloaded freely from the NMRFAM software download page ( http://pine.nmrfam.wisc.edu/download_packages.html ), and detailed instructions are available from the Integrative NMR Video Tutorial page ( http://pine.nmrfam.wisc.edu/integrative.html ).

  6. Physics at the biomolecular interface fundamentals for molecular targeted therapy

    CERN Document Server

    Fernández, Ariel

    2016-01-01

    This book focuses primarily on the role of interfacial forces in understanding biological phenomena at the molecular scale. By providing a suitable statistical mechanical apparatus to handle the biomolecular interface, the book becomes uniquely positioned to address core problems in molecular biophysics. It highlights the importance of interfacial tension in delineating a solution to the protein folding problem, in unravelling the physico-chemical basis of enzyme catalysis and protein associations, and in rationally designing molecular targeted therapies. Thus grounded in fundamental science, the book develops a powerful technological platform for drug discovery, while it is set to inspire scientists at any level in their careers determined to address the major challenges in molecular biophysics. The acknowledgment of how exquisitely the structure and dynamics of proteins and their aqueous environment are related attests to the overdue recognition that biomolecular phenomena cannot be effectively understood w...

  7. Autoregulatory mechanisms controlling the microprocessor.

    Science.gov (United States)

    Triboulet, Robinson; Gregory, Richard I

    2011-01-01

    The Microprocessor, comprising the ribonuclease Drosha and its essential cofactor, the double-stranded RNA-binding protein, DGCR8, is essential for the first step of the miRNA biogenesis pathway. It specifically cleaves double-stranded RNA within stem-loop structures of primary miRNA transcripts (pri-miRNAs) to generate precursor (pre-miRNA) intermediates. Pre-miRNAs are subsequently processed by Dicer to their mature ∼22 nt form. Thus, Microprocessor is essential for miRNA maturation, and pri-miRNA cleavage by this complex defines one end of the mature miRNA. Moreover, it is emerging that dysregulation of the Microprocessor is associated with various human diseases. It is therefore important to understand the mechanisms by which the expression of the subunits of the Microprocessor is regulated. Recent findings have uncovered a post-transcriptional mechanism that maintains the integrity of the Microprocessor. These studies revealed that the Microprocessor is involved in the processing of the messenger RNA (mRNA) that encodes DGCR8. This regulatory feedback loop, along with the reported role played by DGCR8 in the stabilization of Drosha protein, is part of a newly identified regulatory mechanism controlling Microprocessor activity.

  8. Control mechanisms for ecological-economic systems

    CERN Document Server

    Burkov, Vladimir N; Shchepkin, Alexander V

    2015-01-01

    This monograph presents and analyzes the optimization, game-theoretic and simulation models of control mechanisms for ecological-economic systems. It is devoted to integrated assessment mechanisms for total risks and losses, penalty mechanisms, risk payment mechanisms, financing and costs compensation mechanisms for risk level reduction, sales mechanisms for risk level quotas, audit mechanisms, mechanisms for expected losses reduction, economic motivation mechanisms, optimization mechanisms for regional environmental (risk level reduction) programs, and mechanisms for authorities' interests coordination. The book is aiming at undergraduate and postgraduate students, as well as at experts in mathematical modeling and control of ecological economic, socioeconomic and organizational systems.

  9. Biomolecular recognition and detection using gold-based nanoprobes

    Science.gov (United States)

    Crew, Elizabeth

    The ability to control the biomolecular interactions is important for developing bioanalytical probes used in biomolecule and biomarker detections. This work aims at a fundamental understanding of the interactions and reactivities involving DNA, miRNA, and amino acids using gold-based nanoparticles as nanoprobes, which has implications for developing new strategies for the early detection of diseases, such as cancer, and controlled delivery of drugs. Surface modifications of the nanoprobes with DNA, miRNA, and amino acids and the nanoprobe directed biomolecular reactivities, such as complementary-strand binding, enzymatic cutting and amino acid interactions, have been investigated. Among various analytical techniques employed for the analysis of the biomolecule-nanoprobe interactions, surface enhanced Raman scattering spectroscopy (SERS) has been demonstrated to provide a powerful tool for real time monitoring of the DNA assembly and enzymatic cutting processes in solutions. This demonstration harnesses the "hot-spot" characteristic tuned by the interparticle biomolecular-regulated interactions and distances. The assembly of gold nanoparticles has also been exploited as sensing thin films on chemiresistor arrays for the detection of volatile organic compounds, including biomarker molecules associated with diabetes. Important findings of the nanoprobes in delivering miRNA to cells, detecting DNA hybridization kinetics, discerning chiral recognition with enantiomeric cysteines, and sensing biomarker molecules with the nanostructured thin films will be discussed, along with their implications to enhancing sensitivity, selectivity and limits of detection.

  10. iBIOMES: managing and sharing biomolecular simulation data in a distributed environment.

    Science.gov (United States)

    Thibault, Julien C; Facelli, Julio C; Cheatham, Thomas E

    2013-03-25

    Biomolecular simulations, which were once batch queue or compute limited, have now become data analysis and management limited. In this paper we introduce a new management system for large biomolecular simulation and computational chemistry data sets. The system can be easily deployed on distributed servers to create a mini-grid at the researcher's site. The system not only offers a simple data deposition mechanism but also a way to register data into the system without moving the data from their original location. Any registered data set can be searched and downloaded using a set of defined metadata for molecular dynamics and quantum mechanics and visualized through a dynamic Web interface.

  11. Conducting polymer based biomolecular electronic devices

    Indian Academy of Sciences (India)

    B D Malhotra; Rahul Singhal

    2003-08-01

    Biomolecular electronics is rapidly evolving from physics, chemistry, biology, electronics and information technology. Organic materials such as proteins, pigments and conducting polymers have been considered as alternatives for carrying out the functions that are presently being performed by semiconductor silicon. Conducting polymers such as polypyrroles, polythiophenes and polyanilines have been projected for applications for a wide range of biomolecular electronic devices such as optical, electronic, drug-delivery, memory and biosensing devices. Our group has been actively working towards the application of conducting polymers to Schottky diodes, metal–insulator–semiconductor (MIS) devices and biosensors for the past 10 years. This paper is a review of some of the results obtained at our laboratory in the area of conducting polymer biomolecular electronics.

  12. Biochemical Filter with Sigmoidal Response: Increasing the Complexity of Biomolecular Logic

    CERN Document Server

    Privman, Vladimir; Arugula, Mary A; Melnikov, Dmitriy; Bocharova, Vera; Katz, Evgeny

    2010-01-01

    The first realization of a designed, rather than natural, biochemical filter process is reported and analyzed as a promising network component for increasing the complexity of biomolecular logic systems. Key challenge in biochemical logic research has been achieving scalability for complex network designs. Various logic gates have been realized, but a "toolbox" of analog elements for interconnectivity and signal processing has remained elusive. Filters are important as network elements that allow control of noise in signal transmission and conversion. We report a versatile biochemical filtering mechanism designed to have sigmoidal response in combination with signal-conversion process. Horseradish peroxidase-catalyzed oxidation of chromogenic electron donor by hydrogen peroxide, was altered by adding ascorbate, allowing to selectively suppress the output signal, modifying the response from convex to sigmoidal. A kinetic model was developed for evaluation of the quality of filtering. The results offer improved...

  13. Thermodynamic properties of water solvating biomolecular surfaces

    Science.gov (United States)

    Heyden, Matthias

    Changes in the potential energy and entropy of water molecules hydrating biomolecular interfaces play a significant role for biomolecular solubility and association. Free energy perturbation and thermodynamic integration methods allow calculations of free energy differences between two states from simulations. However, these methods are computationally demanding and do not provide insights into individual thermodynamic contributions, i.e. changes in the solvent energy or entropy. Here, we employ methods to spatially resolve distributions of hydration water thermodynamic properties in the vicinity of biomolecular surfaces. This allows direct insights into thermodynamic signatures of the hydration of hydrophobic and hydrophilic solvent accessible sites of proteins and small molecules and comparisons to ideal model surfaces. We correlate dynamic properties of hydration water molecules, i.e. translational and rotational mobility, to their thermodynamics. The latter can be used as a guide to extract thermodynamic information from experimental measurements of site-resolved water dynamics. Further, we study energy-entropy compensations of water at different hydration sites of biomolecular surfaces. This work is supported by the Cluster of Excellence RESOLV (EXC 1069) funded by the Deutsche Forschungsgemeinschaft.

  14. Recent applications of AC electrokinetics in biomolecular analysis on microfluidic devices.

    Science.gov (United States)

    Sasaki, Naoki

    2012-01-01

    AC electrokinetics is a generic term that refers to an induced motion of particles and fluids under nonuniform AC electric fields. The AC electric fields are formed by application of AC voltages to microelectrodes, which can be easily integrated into microfluidic devices by standard microfabrication techniques. Moreover, the magnitude of the motion is large enough to control the mass transfer on the devices. These advantages are attractive for biomolecular analysis on the microfluidic devices, in which the characteristics of small space and microfluidics have been mainly employed. In this review, I describe recent applications of AC electrokinetics in biomolecular analysis on microfluidic devices. The applications include fluid pumping and mixing by AC electrokinetic flow, and manipulation of biomolecules such as DNA and proteins by various AC electrokinetic techniques. Future prospects for highly functional biomolecular analysis on microfluidic devices with the aid of AC electrokinetics are also discussed.

  15. Turbomachinery Fluid Mechanics and Control

    Science.gov (United States)

    2010-01-01

    ratio. Both the rotor and stator blade rows in an axial turbomachine diffuse their respective incoming flow fields. Therefore flow control technologies...in both cases, but are much more efficiently investigated in the stator blade row. 3 The blade rows in axial turbomachines are most accurately...Aeroacoustics & Aeroelasticity of Turbomachines , Sept 7-11, 2003 Duke University, Burham, NC. 39 Gorrell, S.E., Okiishi, T., and Copenhaver

  16. Scanning probe and optical tweezer investigations of biomolecular interactions

    Energy Technology Data Exchange (ETDEWEB)

    Rigby-Singleton, Shellie

    2002-07-01

    A complex array of intermolecular forces controls the interactions between and within biological molecules. The desire to empirically explore the fundamental forces has led to the development of several biophysical techniques. Of these, the atomic force microscope (AFM) and the optical tweezers have been employed throughout this thesis to monitor the intermolecular forces involved in biomolecular interactions. The AFM is a well-established force sensing technique capable of measuring biomolecular interactions at a single molecule level. However, its versatility has not been extrapolated to the investigation of a drug-enzyme complex. The energy landscape for the force induced dissociation of the DHFR-methotrexate complex was studied. Revealing an energy barrier to dissociation located {approx}0.3 nm from the bound state. Unfortunately, the AFM has a limited range of accessible loading rates and in order to profile the complete energy landscape alternative force sensing instrumentation should be considered, for example the BFP and optical tweezers. Thus, this thesis outlines the development and construction an optical trap capable of measuring intermolecular forces between biomolecules at the single molecule level. To demonstrate the force sensing abilities of the optical set up, proof of principle measurements were performed which investigate the interactions between proteins and polymer surfaces subjected to varying degrees of argon plasma treatment. Complementary data was gained from measurements performed independently by the AFM. Changes in polymer resistance to proteins as a response to changes in polymer surface chemistry were detected utilising both AFM and optical tweezers measurements. Finally, the AFM and optical tweezers were employed as ultrasensitive biosensors. Single molecule investigations of the antibody-antigen interaction between the cardiac troponin I marker and its complementary antibody, reveals the impact therapeutic concentrations of heparin

  17. Optimal Control of Active Recoil Mechanisms

    Science.gov (United States)

    1977-02-01

    pressures in different chambers, rod pull are available and can be plotted. A linear state feedback control system is proposed to adapt this...desirable. A linear state feedback control system with variable gains is proposed in the report. A separate control law is designed for each...optimization algorithm to choose a feasible solution. 27 3.3 Results for M-37 Recoil Mechanism The linear state feedback control system and

  18. Versatile single-molecule multi-color excitation and detection fluorescence setup for studying biomolecular dynamics

    KAUST Repository

    Sobhy, M. A.

    2011-11-07

    Single-molecule fluorescence imaging is at the forefront of tools applied to study biomolecular dynamics both in vitro and in vivo. The ability of the single-molecule fluorescence microscope to conduct simultaneous multi-color excitation and detection is a key experimental feature that is under continuous development. In this paper, we describe in detail the design and the construction of a sophisticated and versatile multi-color excitation and emission fluorescence instrument for studying biomolecular dynamics at the single-molecule level. The setup is novel, economical and compact, where two inverted microscopes share a laser combiner module with six individual laser sources that extend from 400 to 640 nm. Nonetheless, each microscope can independently and in a flexible manner select the combinations, sequences, and intensities of the excitation wavelengths. This high flexibility is achieved by the replacement of conventional mechanical shutters with acousto-optic tunable filter (AOTF). The use of AOTF provides major advancement by controlling the intensities, duration, and selection of up to eight different wavelengths with microsecond alternation time in a transparent and easy manner for the end user. To our knowledge this is the first time AOTF is applied to wide-field total internal reflection fluorescence (TIRF) microscopy even though it has been commonly used in multi-wavelength confocal microscopy. The laser outputs from the combiner module are coupled to the microscopes by two sets of four single-mode optic fibers in order to allow for the optimization of the TIRF angle for each wavelength independently. The emission is split into two or four spectral channels to allow for the simultaneous detection of up to four different fluorophores of wide selection and using many possible excitation and photoactivation schemes. We demonstrate the performance of this new setup by conducting two-color alternating excitation single-molecule fluorescence resonance energy

  19. Application of Nanodiamonds in Biomolecular Mass Spectrometry

    Directory of Open Access Journals (Sweden)

    Ping Cheng

    2010-03-01

    Full Text Available The combination of nanodiamond (ND with biomolecular mass spectrometry (MS makes rapid, sensitive detection of biopolymers from complex biosamples feasible. Due to its chemical inertness, optical transparency and biocompatibility, the advantage of NDs in MS study is unique. Furthermore, functionalization on the surfaces of NDs expands their application in the fields of proteomics and genomics for specific requirements greatly. This review presents methods of MS analysis based on solid phase extraction and elution on NDs and different application examples including peptide, protein, DNA, glycan and others. Owing to the quick development of nanotechnology, surface chemistry, new MS methods and the intense interest in proteomics and genomics, a huge increase of their applications in biomolecular MS analysis in the near future can be predicted.

  20. Improvements in continuum modeling for biomolecular systems

    CERN Document Server

    Qiao, Yu

    2015-01-01

    Modeling of biomolecular systems plays an essential role in understanding biological processes, such as ionic flow across channels, protein modification or interaction, and cell signaling. The continuum model described by the Poisson-Boltzmann (PB)/Poisson-Nernst-Planck (PNP) equations has made great contributions towards simulation of these processes. However, the model has shortcomings in its commonly used form and cannot capture (or cannot accurately capture) some important physical properties of biological systems. Considerable efforts have been made to improve the continuum model to account for discrete particle interactions and to make progress in numerical methods to provide accurate and efficient simulation. This review will summarize recent main improvements in continuum modeling for biomolecular systems, with focus on the size-modified models, the coupling of the classical density functional theory and PNP equations, the coupling of polar and nonpolar interactions, and numerical progress.

  1. Mechanics and aerodynamics of insect flight control.

    Science.gov (United States)

    Taylor, G K

    2001-11-01

    Insects have evolved sophisticated fight control mechanisms permitting a remarkable range of manoeuvres. Here, I present a qualitative analysis of insect flight control from the perspective of flight mechanics, drawing upon both the neurophysiology and biomechanics literatures. The current literature does not permit a formal, quantitative analysis of flight control, because the aerodynamic force systems that biologists have measured have rarely been complete and the position of the centre of gravity has only been recorded in a few studies. Treating the two best-known insect orders (Diptera and Orthoptera) separately from other insects, I discuss the control mechanisms of different insects in detail. Recent experimental studies suggest that the helicopter model of flight control proposed for Drosophila spp. may be better thought of as a facultative strategy for flight control, rather than the fixed (albeit selected) constraint that it is usually interpreted to be. On the other hand, the so-called 'constant-lift reaction' of locusts appears not to be a reflex for maintaining constant lift at varying angles of attack, as is usually assumed, but rather a mechanism to restore the insect to pitch equilibrium following a disturbance. Differences in the kinematic control mechanisms used by the various insect orders are related to differences in the arrangement of the wings, the construction of the flight motor and the unsteady mechanisms of lift production that are used. Since the evolution of insect flight control is likely to have paralleled the evolutionary refinement of these unsteady aerodynamic mechanisms, taxonomic differences in the kinematics of control could provide an assay of the relative importance of different unsteady mechanisms. Although the control kinematics vary widely between orders, the number of degrees of freedom that different insects can control will always be limited by the number of independent control inputs that they use. Control of the moments

  2. Mechanical engineers' handbook, design, instrumentation, and controls

    CERN Document Server

    Kutz, Myer

    2015-01-01

    Full coverage of electronics, MEMS, and instrumentation andcontrol in mechanical engineering This second volume of Mechanical Engineers' Handbookcovers electronics, MEMS, and instrumentation and control, givingyou accessible and in-depth access to the topics you'll encounterin the discipline: computer-aided design, product design formanufacturing and assembly, design optimization, total qualitymanagement in mechanical system design, reliability in themechanical design process for sustainability, life-cycle design,design for remanufacturing processes, signal processing, dataacquisition and dis

  3. Application of Nanodiamonds in Biomolecular Mass Spectrometry

    OpenAIRE

    Ping Cheng; Xianglei Kong

    2010-01-01

    The combination of nanodiamond (ND) with biomolecular mass spectrometry (MS) makes rapid, sensitive detection of biopolymers from complex biosamples feasible. Due to its chemical inertness, optical transparency and biocompatibility, the advantage of NDs in MS study is unique. Furthermore, functionalization on the surfaces of NDs expands their application in the fields of proteomics and genomics for specific requirements greatly. This review presents methods of MS analysis based on solid phase...

  4. Biomolecular electrostatics and solvation: a computational perspective.

    Science.gov (United States)

    Ren, Pengyu; Chun, Jaehun; Thomas, Dennis G; Schnieders, Michael J; Marucho, Marcelo; Zhang, Jiajing; Baker, Nathan A

    2012-11-01

    An understanding of molecular interactions is essential for insight into biological systems at the molecular scale. Among the various components of molecular interactions, electrostatics are of special importance because of their long-range nature and their influence on polar or charged molecules, including water, aqueous ions, proteins, nucleic acids, carbohydrates, and membrane lipids. In particular, robust models of electrostatic interactions are essential for understanding the solvation properties of biomolecules and the effects of solvation upon biomolecular folding, binding, enzyme catalysis, and dynamics. Electrostatics, therefore, are of central importance to understanding biomolecular structure and modeling interactions within and among biological molecules. This review discusses the solvation of biomolecules with a computational biophysics view toward describing the phenomenon. While our main focus lies on the computational aspect of the models, we provide an overview of the basic elements of biomolecular solvation (e.g. solvent structure, polarization, ion binding, and non-polar behavior) in order to provide a background to understand the different types of solvation models.

  5. Integrated design approach for controlled mechanical structures

    Energy Technology Data Exchange (ETDEWEB)

    Kiriazov, P. [Bulgarian Academy of Sciences, Sofia (Bulgaria). Inst. of Mechanics

    1998-10-01

    This study is addressed to design problems of controlled mechanical structures (CMS) like robot manipulators and engineering systems with active vibration control that may be subject to arbitrary disturbances. Along with the basic design requirement for strength/load capacity, additional design criteria for CMS are needed to meet the continuously increasing demands for faster response, improved precision and reduced energy consumption. As a CMS is a functionally directed assembly of mutually influencing components: control, actuator, mechanical, and sensor subsystems, a conceptual framework for their integrated design is required. Parameters of these subsystems influencing the dynamic performance of CMS define a matrix that transfers the control inputs into the controlled outputs (accelerations). This transfer matrix plays the key role in the integrated structure-control design. We consider the design optimization problem for CMS having decentralized control architecture. An integrated design criterion for such systems is proposed which is based on optimal trade-off relations between bounds of model uncertainties and control force limits. Optimizing this criterion leads to CMS with maximum degree of robustness. The approach proposed makes it possible a decomposition of the overall design problem into design problems for the CMS`s components. The design concepts are applied to the mechanical subsystem of planar linkage systems. Robust decentralized controllers are designed for a two-degree-of-freedom manipulator with elastic joints. (orig.)

  6. Damage-mitigating control of mechanical systems

    Science.gov (United States)

    Holmes, Michael S.

    Damage-Mitigating Control is a field of research involving the integration of two distinct disciplines: Systems Sciences and Mechanics of Materials. This dissertation presents a feedback control architecture for mechanical systems to achieve a tradeoff between dynamic performance and structural durability of critical plant components. The proposed damage-mitigating control system has a two-tier structure: (i) A lower-level linear output feedback controller for plant output tracking and stability robustness over a specified operating range; and (ii) An upper-level nonlinear feedback controller which takes advantage of the real-time information generated by a physics-based model of material damage. The advantages and disadvantages of various methods available for the design of linear tracking controllers are discussed. A robust sampled-data Hsbinfty controller is designed for a reusable rocket engine, similar to the Space Shuttle Main Engine, based on a 2-input/2-output, 20-state model. The mu-synthesis technique is used to design a robust sampled-data controller for a commercial-scale fossil-fueled power plant based on a 4-input/4-output, 27-state model. A procedure for the design of damage-mitigating linear tracking controllers is also presented. The concept of fuzzy control is used to synthesize upper-level nonlinear feedback controllers based on real-time damage information. Damage-mitigating controllers are designed for the reusable rocket engine and the fossil-fueled power plant. A major advantage of using the fuzzy method for damage-mitigating controller design is that the controller can be synthesized without directly dealing with the inherent nonlinearities of the damage model. Simulation results for the reusable rocket engine and the fossil-fueled power plant suggest that the fuzzy method of damage mitigation is a practical way to design damage controllers for mechanical systems. The damage controller parameter optimization method is presented as an

  7. Nonsmooth mechanics models, dynamics and control

    CERN Document Server

    Brogliato, Bernard

    2016-01-01

    Now in its third edition, this standard reference is a comprehensive treatment of nonsmooth mechanical systems refocused to give more prominence to control and modelling. It covers Lagrangian and Newton–Euler systems, detailing mathematical tools such as convex analysis and complementarity theory. The ways in which nonsmooth mechanics influence and are influenced by well-posedness analysis, numerical analysis and simulation, modelling and control are explained. Contact/impact laws, stability theory and trajectory-tracking control are given in-depth exposition connected by a framework formed from complementarity systems and measure-differential inclusions. Links are established with electrical circuits with set-valued nonsmooth elements and with other nonsmooth dynamical systems like impulsive and piecewise linear systems. Nonsmooth Mechanics (third edition) has been substantially rewritten, edited and updated to account for the significant body of results that have emerged in the twenty-first century—incl...

  8. [Nitrogen metabolism and its control mechanisms].

    Science.gov (United States)

    Bergner, H

    1989-01-01

    N intake in the form of protein has neither got an upper nor a lower limit for agricultural working animals within a diet and there is no control mechanism for it. A high surplus of certain amino acids results in a reduction of feed intake. N excretion in faeces depends on 1) the excretion of N containing indigestible feedstuffs, 2) bacterial nitrogen synthesis in the large intestine and 3) the excretion of true endogenous N containing substances (digestion enzymes, intestinal epithelium, N containing endogenous secretion). There are no other control mechanisms for N excretion in faeces. N excretion in urine mainly comprises the nitrogen from the degeneration of amino acids and nucleic acids. The interrelations between urea, NH3, allantoin, creatine and creatinine, uric acid and hippuric acid depend on the species (monogastric or ruminants), on the nitrogen and N amount consumed and on the recycling ratio of the amino acids. The absolute amount of N excretion is not subject to any control mechanism, it depends on the intake of protein and NPN substances, the interim stages, however, which lead to the formation of excretory products, are intermediately controlled. The most important interim stage is protein biosynthesis, which is a fixed, intermediately controlled value in maintenance level. Under growth conditions only, the protein synthesis quota can exceed the protein degradation quota of the total organism (positive N balance). The control mechanisms of protein biosynthesis have, according to current knowledge, the following structure: Stimulation: 1) growth hormone (STH) stimulates protein synthesis by means of somatomedins; 2) hormones of the thyroid gland (T4 and T3) are controlled by the hormone stimulating the thyroid gland (TSH); 3) insulin. Inhibition: 1) somatostatin inhibits STH, TSH and insulin; 2) cortisol directly inhibits protein synthesis and stimulates protein degradation. The control mechanisms of protein turnover in addition to genetic coding

  9. Biomolecular decision-making process for self assembly.

    Energy Technology Data Exchange (ETDEWEB)

    Osbourn, Gordon Cecil

    2005-01-01

    The brain is often identified with decision-making processes in the biological world. In fact, single cells, single macromolecules (proteins) and populations of molecules also make simple decisions. These decision processes are essential to survival and to the biological self-assembly and self-repair processes that we seek to emulate. How do these tiny systems make effective decisions? How do they make decisions in concert with a cooperative network of other molecules or cells? How can we emulate the decision-making behaviors of small-scale biological systems to program and self-assemble microsystems? This LDRD supported research to answer these questions. Our work included modeling and simulation of protein populations to help us understand, mimic, and categorize molecular decision-making mechanisms that nonequilibrium systems can exhibit. This work is an early step towards mimicking such nanoscale and microscale biomolecular decision-making processes in inorganic systems.

  10. Design and implementation of a biomolecular concentration tracker.

    Science.gov (United States)

    Hsiao, Victoria; de los Santos, Emmanuel L C; Whitaker, Weston R; Dueber, John E; Murray, Richard M

    2015-02-20

    As a field, synthetic biology strives to engineer increasingly complex artificial systems in living cells. Active feedback in closed loop systems offers a dynamic and adaptive way to ensure constant relative activity independent of intrinsic and extrinsic noise. In this work, we use synthetic protein scaffolds as a modular and tunable mechanism for concentration tracking through negative feedback. Input to the circuit initiates scaffold production, leading to colocalization of a two-component system and resulting in the production of an inhibitory antiscaffold protein. Using a combination of modeling and experimental work, we show that the biomolecular concentration tracker circuit achieves dynamic protein concentration tracking in Escherichia coli and that steady state outputs can be tuned.

  11. Barcoded microchips for biomolecular assays.

    Science.gov (United States)

    Zhang, Yi; Sun, Jiashu; Zou, Yu; Chen, Wenwen; Zhang, Wei; Xi, Jianzhong Jeff; Jiang, Xingyu

    2015-01-20

    Multiplexed assay of analytes is of great importance for clinical diagnostics and other analytical applications. Barcode-based bioassays with the ability to encode and decode may realize this goal in a straightforward and consistent manner. We present here a microfluidic barcoded chip containing several sets of microchannels with different widths, imitating the commonly used barcode. A single barcoded microchip can carry out tens of individual protein/nucleic acid assays (encode) and immediately yield all assay results by a portable barcode reader or a smartphone (decode). The applicability of a barcoded microchip is demonstrated by human immunodeficiency virus (HIV) immunoassays for simultaneous detection of three targets (anti-gp41 antibody, anti-gp120 antibody, and anti-gp36 antibody) from six human serum samples. We can also determine seven pathogen-specific oligonucleotides by a single chip containing both positive and negative controls.

  12. Azurin for Biomolecular Electronics: a Reliability Study

    Science.gov (United States)

    Bramanti, Alessandro; Pompa, Pier Paolo; Maruccio, Giuseppe; Calabi, Franco; Arima, Valentina; Cingolani, Roberto; Corni, Stefano; Di Felice, Rosa; De Rienzo, Francesca; Rinaldi, Ross

    2005-09-01

    The metalloprotein azurin, used in biomolecular electronics, is investigated with respect to its resilience to high electric fields and ambient conditions, which are crucial reliability issues. Concerning the effect of electric fields, two models of different complexity agree indicating an unexpectedly high robustness. Experiments in device-like conditions confirm that no structural modifications occur, according to fluorescence spectra, even after a 40-min exposure to tens of MV/m. Ageing is then investigated experimentally, at ambient conditions and without field, over several days. Only a small conformational rearrangement is observed in the first tens of hours, followed by an equilibrium state.

  13. Nanotube-Based Chemical and Biomolecular Sensors

    Institute of Scientific and Technical Information of China (English)

    J.Koh; B.Kim; S.Hong; H.Lim; H.C.Choi

    2008-01-01

    We present a brief review about recent results regarding carbon nanotube (CNT)-based chemical and biomolecular sensors. For the fabrication of CNT-based sensors, devices containing CNT channels between two metal electrodes are first fabricated usually via chemical vapor deposition (CVD) process or "surface programmed assembly" method. Then, the CNT surfaces are often functionalized to enhance the selectivity of the sensors. Using this process, highly-sensitive CNT-based sensors can be fabricated for the selective detection of various chemical and biological molecules such as hydrogen, ammonia, carbon monoxide, chlorine gas, DNA, glucose, alcohol, and proteins.

  14. Scalable Molecular Dynamics for Large Biomolecular Systems

    Directory of Open Access Journals (Sweden)

    Robert K. Brunner

    2000-01-01

    Full Text Available We present an optimized parallelization scheme for molecular dynamics simulations of large biomolecular systems, implemented in the production-quality molecular dynamics program NAMD. With an object-based hybrid force and spatial decomposition scheme, and an aggressive measurement-based predictive load balancing framework, we have attained speeds and speedups that are much higher than any reported in literature so far. The paper first summarizes the broad methodology we are pursuing, and the basic parallelization scheme we used. It then describes the optimizations that were instrumental in increasing performance, and presents performance results on benchmark simulations.

  15. Micro and Nanotechnologies Enhanced Biomolecular Sensing

    Directory of Open Access Journals (Sweden)

    Tza-Huei Wang

    2013-07-01

    Full Text Available This editorial summarizes some of the recent advances of micro and nanotechnology-based tools and devices for biomolecular detection. These include the incorporation of nanomaterials into a sensor surface or directly interfacing with molecular probes to enhance target detection via more rapid and sensitive responses, and the use of self-assembled organic/inorganic nanocomposites that inhibit exceptional spectroscopic properties to enable facile homogenous assays with efficient binding kinetics. Discussions also include some insight into microfluidic principles behind the development of an integrated sample preparation and biosensor platform toward a miniaturized and fully functional system for point of care applications.

  16. Fundamentos biomoleculares de la diabetes mellitus

    OpenAIRE

    2013-01-01

    La diabetes mellitus es una enfermedad endocrina con importantes implicaciones a nivel sistémico, como: angiopatía, neuropatía, retinopatía y nefropatía, entre otras. Estas  complicaciones tienen su origen en eventos biomoleculares desencadenados por la hiperglicemia.  La presente revisión de tema trata sobre la estructura y síntesis de la insulina en las células β del páncreas; los eventos moleculares y bioquímicos que activan su secreción como respuesta a una alta concentración de glucosa e...

  17. Nanoarchitectonics of biomolecular assemblies for functional applications

    Science.gov (United States)

    Avinash, M. B.; Govindaraju, T.

    2014-10-01

    The stringent processes of natural selection and evolution have enabled extraordinary structure-function properties of biomolecules. Specifically, the archetypal designs of biomolecules, such as amino acids, nucleobases, carbohydrates and lipids amongst others, encode unparalleled information, selectivity and specificity. The integration of biomolecules either with functional molecules or with an embodied functionality ensures an eclectic approach for novel and advanced nanotechnological applications ranging from electronics to biomedicine, besides bright prospects in systems chemistry and synthetic biology. Given this intriguing scenario, our feature article intends to shed light on the emerging field of functional biomolecular engineering.

  18. Biomolecular Aspects of Mercury Transformations

    Science.gov (United States)

    Johs, A.; Shi, L.; Miller, S. M.; Summers, A. O.; Liang, L.

    2008-12-01

    Bacteria participate significantly in mercury transformation in natural and industrial environments. Previous studies have shown that bacterial mercury resistance is mediated by the mer operon, typically located on transposons or plasmids. It encodes specific genes that facilitate uptake of mercury species, cleavage of organomercurials, and reduction of Hg(II) to Hg(0). Expression of mer operon genes is regulated by MerR, a metal-responsive regulator protein on the level of transcription. In vitro studies have shown that MerR forms a non-transcribing pre-initiation complex with RNA polymerase and the promoter DNA. Binding of Hg(II) induces conformational changes in MerR and other components of the complex resulting in the transcription of mer operon genes. As part of ongoing investigations on allosteric conformational changes induced by Hg(II) in dimeric MerR, and the implications on the binding of RNA polymerase to the promoter of the mer operon, we applied small angle scattering to study the regulatory mechanism of MerR in the presence and absence of Hg(II). Our results show that in the presence of Hg(II) the MerR dimer undergoes a significant reorientation from a compact state to a conformation revealing two distinct domains. Bacterial reduction of Hg(II) can also occur at concentrations too low to induce mer operon functions. Dissimilatory metal reducing bacteria, such as Shewanella and Geobacter are able to reduce Hg(II) in the presence of mineral oxides. This process has been linked to the activity of outer membrane multiheme cytochromes. We isolated and purified a decaheme outer membrane cytochrome OmcA from Shewanella oneidensis MR-1 and characterized its envelope shape in solution by small angle x-ray scattering. Structural features were identified and compared to homology models. These results show that OmcA is an elongated macromolecule consisting of separate modules, which may be connected by flexible linkers.

  19. Controllability for single-input mechanical control systems with dissipation

    Institute of Scientific and Technical Information of China (English)

    Jianling KANG; Hong WANG; Huawen YE

    2005-01-01

    Within the affine connection framework of Lagrangian control systems,based on the results of Sussmann on small-time locally controllability of single-input affine nonlinear control systems,the controllability results for mechanical control systems with single-input are extended to the case of the systems with isotropic damping,where the Lagrangian is the kinetic energy associated with a Riemannian metric.A sufficient condition of negative small-time locally controllability for the system is obtained.Then,it is demonstrated that such systems are small-time locally configuration controllable if and only if the dimension of the configuration manifold is one.Finally,two examples are given to illustrate the results.Lie bracketting of vector fields and the symmetric product show the advantages in the discussion.

  20. Notions of controllability for quantum mechanical systems

    CERN Document Server

    Albertini, F

    2001-01-01

    In this paper, we define four different notions of controllability of physical interest for multilevel quantum mechanical systems. These notions involve the possibility of driving the evolution operator as well as the state of the system. We establish the connections among these different notions as well as methods to verify controllability. The paper also contains results on the relation between the controllability in arbitrary small time of a system varying on a compact transformation Lie group and the corresponding system on the associated homogeneous space. As an application, we prove that, for the system of two interacting spin 1/2 particles, not every state transfer can be obtained in arbitrary small time.

  1. Stress controls the mechanics of collagen networks.

    Science.gov (United States)

    Licup, Albert James; Münster, Stefan; Sharma, Abhinav; Sheinman, Michael; Jawerth, Louise M; Fabry, Ben; Weitz, David A; MacKintosh, Fred C

    2015-08-04

    Collagen is the main structural and load-bearing element of various connective tissues, where it forms the extracellular matrix that supports cells. It has long been known that collagenous tissues exhibit a highly nonlinear stress-strain relationship, although the origins of this nonlinearity remain unknown. Here, we show that the nonlinear stiffening of reconstituted type I collagen networks is controlled by the applied stress and that the network stiffness becomes surprisingly insensitive to network concentration. We demonstrate how a simple model for networks of elastic fibers can quantitatively account for the mechanics of reconstituted collagen networks. Our model points to the important role of normal stresses in determining the nonlinear shear elastic response, which can explain the approximate exponential relationship between stress and strain reported for collagenous tissues. This further suggests principles for the design of synthetic fiber networks with collagen-like properties, as well as a mechanism for the control of the mechanics of such networks.

  2. Control of Compliant Mechanisms with Large Deflections

    Science.gov (United States)

    Kern, D.; Bauer, J.; Seemann, W.

    Very often elastic joints are used in high precision applications. In the case of rotational joints flexure hinges do have some advantages compared to conventional ones. However, the most important disadvantages are the complicated and complex kinematics and kinetics. As consequence, the control of mechanisms comprised of flexure hinges gets more difficult. The strategy pursued here is to reduce flexure hinges to pseudo rigid-body systems that fit into the elaborated framework of multi-body dynamics, in particular pre-control in combination with a feedback controller. The inherent deviations of these reduced models are described as uncertainties. Methods from robust control are used to synthesize controllers for such systems with uncertainty. The procedure is illustrated by examining an example of a single flexure hinge (leaf spring type).

  3. Improvements in continuum modeling for biomolecular systems

    Science.gov (United States)

    Yu, Qiao; Ben-Zhuo, Lu

    2016-01-01

    Modeling of biomolecular systems plays an essential role in understanding biological processes, such as ionic flow across channels, protein modification or interaction, and cell signaling. The continuum model described by the Poisson- Boltzmann (PB)/Poisson-Nernst-Planck (PNP) equations has made great contributions towards simulation of these processes. However, the model has shortcomings in its commonly used form and cannot capture (or cannot accurately capture) some important physical properties of the biological systems. Considerable efforts have been made to improve the continuum model to account for discrete particle interactions and to make progress in numerical methods to provide accurate and efficient simulations. This review will summarize recent main improvements in continuum modeling for biomolecular systems, with focus on the size-modified models, the coupling of the classical density functional theory and the PNP equations, the coupling of polar and nonpolar interactions, and numerical progress. Project supported by the National Natural Science Foundation of China (Grant No. 91230106) and the Chinese Academy of Sciences Program for Cross & Cooperative Team of the Science & Technology Innovation.

  4. Smartphones for cell and biomolecular detection.

    Science.gov (United States)

    Liu, Xiyuan; Lin, Tung-Yi; Lillehoj, Peter B

    2014-11-01

    Recent advances in biomedical science and technology have played a significant role in the development of new sensors and assays for cell and biomolecular detection. Generally, these efforts are aimed at reducing the complexity and costs associated with diagnostic testing so that it can be performed outside of a laboratory or hospital setting, requiring minimal equipment and user involvement. In particular, point-of-care (POC) testing offers immense potential for many important applications including medical diagnosis, environmental monitoring, food safety, and biosecurity. When coupled with smartphones, POC systems can offer portability, ease of use and enhanced functionality while maintaining performance. This review article focuses on recent advancements and developments in smartphone-based POC systems within the last 6 years with an emphasis on cell and biomolecular detection. These devices typically comprise multiple components, such as detectors, sample processors, disposable chips, batteries, and software, which are integrated with a commercial smartphone. One of the most important aspects of developing these systems is the integration of these components onto a compact and lightweight platform that requires minimal power. Researchers have demonstrated several promising approaches employing various detection schemes and device configurations, and it is expected that further developments in biosensors, battery technology and miniaturized electronics will enable smartphone-based POC technologies to become more mainstream tools in the scientific and biomedical communities.

  5. Fully Mechanically Controlled Automated Electron Microscopic Tomography

    Science.gov (United States)

    Liu, Jinxin; Li, Hongchang; Zhang, Lei; Rames, Matthew; Zhang, Meng; Yu, Yadong; Peng, Bo; Celis, César Díaz; Xu, April; Zou, Qin; Yang, Xu; Chen, Xuefeng; Ren, Gang

    2016-07-01

    Knowledge of three-dimensional (3D) structures of each individual particles of asymmetric and flexible proteins is essential in understanding those proteins’ functions; but their structures are difficult to determine. Electron tomography (ET) provides a tool for imaging a single and unique biological object from a series of tilted angles, but it is challenging to image a single protein for three-dimensional (3D) reconstruction due to the imperfect mechanical control capability of the specimen goniometer under both a medium to high magnification (approximately 50,000–160,000×) and an optimized beam coherence condition. Here, we report a fully mechanical control method for automating ET data acquisition without using beam tilt/shift processes. This method could reduce the accumulation of beam tilt/shift that used to compensate the error from the mechanical control, but downgraded the beam coherence. Our method was developed by minimizing the error of the target object center during the tilting process through a closed-loop proportional-integral (PI) control algorithm. The validations by both negative staining (NS) and cryo-electron microscopy (cryo-EM) suggest that this method has a comparable capability to other ET methods in tracking target proteins while maintaining optimized beam coherence conditions for imaging.

  6. Concurrency Control Mechanism of Complex Objects

    Institute of Scientific and Technical Information of China (English)

    徐庆云; 王能斌

    1992-01-01

    A complex object is an abstraction and description of a complex entity of the real world.Many applications in such domains as CIMS,CAD and OA define and manipulate a complex object as a single unit.In this paper,a definition of the model of complex objects is given,and the concurrency control mechanism of complex objects in WHYMX object-oriented database system is described.

  7. Development of Mechanical Water Level Controller

    OpenAIRE

    Akonyi Nasiru Sule; Chinedu Cletus Obinwa; Christian Ebele Okekeze; Eyo Ifreke

    2012-01-01

    The automatic water level controller is a device designed to regulate automatically the pumping of water to an overhead tank without allowing the water in the tank to be exhausted. The design of this mechanical device was achieved using the Archimedes principle of floatation; having a float which determines the water level in the tank depending on the choice of the minimum (lower) and maximum (upper) level inscribed in the tank. The fundamental attribute of this device is the ease in design, ...

  8. Stochastic Simulation of Biomolecular Reaction Networks Using the Biomolecular Network Simulator Software

    Science.gov (United States)

    2008-02-01

    investigate the simulation of a biomolecular reaction network with BNS, a simple model of a generic self-assembling catalytic ligation reaction in a...Amino Acid Pools Nucleotide Triphosphate Pools Nucleotide Monophosphate Pools Ligation Reaction 1551 517 7 RESULTS Simulation of exemplar...and reaction r8 is the catalytic ligation reaction . In figures 5(B) through 5(F), both the time-averaged event rate for a single simulation run

  9. Biochemical and biomolecular aspects of oxidative stress due to acute and severe hypoxia in human muscle tissue.

    Science.gov (United States)

    Corbucci, G G; Sessego, R; Velluti, C; Salvi, M

    1995-01-01

    Mitochondrial oxidative stress was investigated in severe and acute hypoxia and in reperfusion applied to human muscle tissues. The biochemical and biomolecular relationship between the response of the respiratory-chain enzymic complexes and the metabolism of specific hypoxia stress proteins (HSP) suggest an adaptive mechanism which antagonizes the oxidative damage due to acute and severe tissue hypoxia.

  10. New Interference Mechanism Controls Ultracold Chemistry

    Science.gov (United States)

    Kendrick, Brian K.; Hazra, Jisha; Balakrishnan, N.

    2016-05-01

    A newly discovered interference mechanism has been shown to control the outcome of ultracold chemical reactions. The mechanism originates from the unique properties associated with ultracold collisions, namely: (1) isotropic (s-wave) scattering and (2) an effective quantization of the scattering phase shift (which originates from the bound state structure of the molecule). These two properties can lead to maximum constructive or destructive interference between two interfering reaction pathways (such as exchange and non-exchange in systems with two or more identical nuclei). If the molecular system exhibits a conical intersection, then the associated geometric phase is shown to act as a ``quantum switch'' which can turn the reactivity on or off. Reaction rate coefficients for the O + OH --> H + O2 and H + H2, reactions are presented which explicitly demonstrate the effect. Experimentalists might exploit this new mechanism to control ultracold reactions by the application of external electric or magnetic fields or by the selection of a particular nuclear spin state. This work was supported in part by the LDRD program (Grant No. 20140309ER) at LANL (B.K.) and by NSF Grant PHY-1505557 (N.B.) and ARO MURI Grant No. W911NF-12-1-0476 (N.B.).

  11. Biomolecular Markers in Cancer of the Tongue

    Directory of Open Access Journals (Sweden)

    Daris Ferrari

    2009-01-01

    Full Text Available The incidence of tongue cancer is increasing worldwide, and its aggressiveness remains high regardless of treatment. Genetic changes and the expression of abnormal proteins have been frequently reported in the case of head and neck cancers, but the little information that has been published concerning tongue tumours is often contradictory. This review will concentrate on the immunohistochemical expression of biomolecular markers and their relationships with clinical behaviour and prognosis. Most of these proteins are associated with nodal stage, tumour progression and metastases, but there is still controversy concerning their impact on disease-free and overall survival, and treatment response. More extensive clinical studies are needed to identify the patterns of molecular alterations and the most reliable predictors in order to develop tailored anti-tumour strategies based on the targeting of hypoxia markers, vascular and lymphangiogenic factors, epidermal growth factor receptors, intracytoplasmatic signalling and apoptosis.

  12. Fundamentos biomoleculares de la diabetes mellitus

    Directory of Open Access Journals (Sweden)

    Katiana Mendoza

    2013-12-01

    Full Text Available La diabetes mellitus es una enfermedad endocrina con importantes implicaciones a nivel sistémico, como: angiopatía, neuropatía, retinopatía y nefropatía, entre otras. Estas  complicaciones tienen su origen en eventos biomoleculares desencadenados por la hiperglicemia.  La presente revisión de tema trata sobre la estructura y síntesis de la insulina en las células β del páncreas; los eventos moleculares y bioquímicos que activan su secreción como respuesta a una alta concentración de glucosa en sangre; la cascada de señalización generada por la unión de la insulina a su receptor sobre células diana; y las alteraciones metabólicas que los diferentes tipos de diabetes mellitus producen.

  13. Global Langevin model of multidimensional biomolecular dynamics

    Science.gov (United States)

    Schaudinnus, Norbert; Lickert, Benjamin; Biswas, Mithun; Stock, Gerhard

    2016-11-01

    Molecular dynamics simulations of biomolecular processes are often discussed in terms of diffusive motion on a low-dimensional free energy landscape F ( 𝒙 ) . To provide a theoretical basis for this interpretation, one may invoke the system-bath ansatz á la Zwanzig. That is, by assuming a time scale separation between the slow motion along the system coordinate x and the fast fluctuations of the bath, a memory-free Langevin equation can be derived that describes the system's motion on the free energy landscape F ( 𝒙 ) , which is damped by a friction field and driven by a stochastic force that is related to the friction via the fluctuation-dissipation theorem. While the theoretical formulation of Zwanzig typically assumes a highly idealized form of the bath Hamiltonian and the system-bath coupling, one would like to extend the approach to realistic data-based biomolecular systems. Here a practical method is proposed to construct an analytically defined global model of structural dynamics. Given a molecular dynamics simulation and adequate collective coordinates, the approach employs an "empirical valence bond"-type model which is suitable to represent multidimensional free energy landscapes as well as an approximate description of the friction field. Adopting alanine dipeptide and a three-dimensional model of heptaalanine as simple examples, the resulting Langevin model is shown to reproduce the results of the underlying all-atom simulations. Because the Langevin equation can also be shown to satisfy the underlying assumptions of the theory (such as a delta-correlated Gaussian-distributed noise), the global model provides a correct, albeit empirical, realization of Zwanzig's formulation. As an application, the model can be used to investigate the dependence of the system on parameter changes and to predict the effect of site-selective mutations on the dynamics.

  14. Control mechanisms in mitochondrial oxidative phosphorylation

    Institute of Scientific and Technical Information of China (English)

    Jana Hroudová; Zdeněk Fi(s)ar

    2013-01-01

    Distribution and activity of mitochondria are key factors in neuronal development, synaptic plasticity and axogenesis. The majority of energy sources, necessary for cellular functions, originate from oxidative phosphorylation located in the inner mitochondrial membrane. The adenosine-5'- triphosphate production is regulated by many control mechanism–firstly by oxygen, substrate level, adenosine-5'-diphosphate level, mitochondrial membrane potential, and rate of coupling and proton leak. Recently, these mechanisms have been implemented by "second control mechanisms," such as reversible phosphorylation of the tricarboxylic acid cycle enzymes and electron transport chain complexes, allosteric inhibition of cytochrome c oxidase, thyroid hormones, effects of fatty acids and uncoupling proteins. Impaired function of mitochondria is implicated in many diseases ranging from mitochondrial myopathies to bipolar disorder and schizophrenia. Mitochondrial dysfunctions are usually related to the ability of mitochondria to generate adenosine-5'-triphosphate in response to energy demands. Large amounts of reactive oxygen species are released by defective mitochondria, similarly, decline of antioxidative enzyme activities (e.g. in the elderly) enhances reactive oxygen species production. We reviewed data concerning neuroplasticity, physiology, and control of mitochondrial oxidative phosphorylation and reactive oxygen species production.

  15. Stirling engine control mechanism and method

    Science.gov (United States)

    Dineen, John J.

    1983-01-01

    A reciprocating-to-rotating motion conversion and power control device for a Stirling engine includes a hub mounted on an offset portion of the output shaft for rotation relative to the shaft and for sliding motion therealong which causes the hub to tilt relative to the axis of rotation of the shaft. This changes the angle of inclination of the hub relative to the shaft axis and changes the axial stroke of a set of arms connected to the hub and nutating therewith. A hydraulic actuating mechanism is connected to the hub for moving its axial position along the shaft. A balancing wheel is linked to the hub and changes its angle of inclination as the angle of inclination of the hub changes to maintain the mechanism in perfect balance throughout its range of motion.

  16. Development of Mechanical Water Level Controller

    Directory of Open Access Journals (Sweden)

    Akonyi Nasiru Sule

    2012-10-01

    Full Text Available The automatic water level controller is a device designed to regulate automatically the pumping of water to an overhead tank without allowing the water in the tank to be exhausted. The design of this mechanical device was achieved using the Archimedes principle of floatation; having a float which determines the water level in the tank depending on the choice of the minimum (lower and maximum (upper level inscribed in the tank. The fundamental attribute of this device is the ease in design, fabrication and mounting at a lower cost. Its testing had shown and proved that it works efficiently with Archimedes’ principle of floatation. This eliminates the frequent human intervention/monitoring of the water level in the overhead tank to control overflow manually, thereby eliminating water and energy wastages.

  17. Pneumatic, PLC Controlled, Automotive Gear Shifting Mechanism

    Directory of Open Access Journals (Sweden)

    Muntaser Momani

    2010-05-01

    Full Text Available In this study, a gear shifting mechanism was designed and applied to make the shifting process faster and less destructible for the driver. The new device must be reliable, has a small dimensions, low construction and maintenance cost. This paper aims to improve gear shifting process using devices as: a manual four speed gear box, four pneumatic double acting cylinders, four pneumatic two position five ways directional control valves, Programmable Logic Controller (PLC LOGO unit, an electrical motor, an electrical clutch, a belt, two pulleys, limit switches, push buttons, bulbs, a table (holder and power supply. According to suggested gear_ shifting method the driver can select the transmission gear ratio without moving his hands from the steering wheel by putting the gear shifting push buttons on the steering wheel. Using this method leaves to the driver the excitement of choosing the shifting moment.

  18. Dynamic Discontinuous Control for Active Control of Mechanical Vibrations

    Directory of Open Access Journals (Sweden)

    Orestes Llanes Santiago

    2010-02-01

    Full Text Available This article shows the use of the discontinuous control using dynamic sliding modes for the active isolation of vibrations in mechanical systems. This type of control law constitutes a robust feedback control policy due to its insensitivity to external disturbance inputs, certain immunity to model parameter variations, within known bounds, and to the ever present modelling errors.  The whole theoretical analysis is applied to a lineal model of two degrees of freedom of the vehicle's suspension where the irregularities of the land represent of direct  way the external interferences to the system . To carry out the isolation an electro-hydraulic operator it is used. Simulations are performed which validate the proposed approach.

  19. Biomolecular Nano-Flow-Sensor to Measure Near-Surface Flow

    Directory of Open Access Journals (Sweden)

    Noji Hiroyuki

    2009-01-01

    Full Text Available Abstract We have proposed and experimentally demonstrated that the measurement of the near-surface flow at the interface between a liquid and solid using a 10 nm-sized biomolecular motor of F1-ATPase as a nano-flow-sensor. For this purpose, we developed a microfluidic test-bed chip to precisely control the liquid flow acting on the F1-ATPase. In order to visualize the rotation of F1-ATPase, several hundreds nanometer-sized particle was immobilized at the rotational axis of F1-ATPase to enhance the rotation to be detected by optical microscopy. The rotational motion of F1-ATPase, which was immobilized on an inner surface of the test-bed chip, was measured to obtain the correlation between the near-surface flow and the rotation speed of F1-ATPase. As a result, we obtained the relationship that the rotation speed of F1-ATPase was linearly decelerated with increasing flow velocity. The mechanism of the correlation between the rotation speed and the near-surface flow remains unclear, however the concept to use biomolecule as a nano-flow-sensor was proofed successfully. (See supplementary material 1 Electronic supplementary material The online version of this article (doi:10.1007/s11671-009-9479-3 contains supplementary material, which is available to authorized users. Click here for file

  20. Gain control mechanisms in spinal motoneurons

    Directory of Open Access Journals (Sweden)

    Michael David Johnson

    2014-07-01

    Full Text Available Motoneurons provide the only conduit for motor commands to reach muscles. For many years, motoneurons were in fact considered to be little more than passive wires. Systematic studies in the past 25 years however have clearly demonstrated that the intrinsic electrical properties of motoneurons are under strong neuromodulatory control via multiple sources. The discovery of potent neuromodulation from the brainstem and its ability to change the gain of motoneurons shows that the passive view of the motor output stage is no longer tenable. A mechanism for gain control at the motor output stage makes good functional sense considering our capability of generating an enormous range of forces, from very delicate (e.g. putting in a contact lens to highly forceful (emergency reactions. Just as sensory systems need gain control to deal with a wide dynamic range of inputs, so to might motor output need gain control to deal with the wide dynamic range of the normal movement repertoire. Two problems emerge from the potential use of the brainstem monoaminergic projection to motoneurons for gain control. First, the projection is highly diffuse anatomically, so that independent control of the gains of different motor pools is not feasible. In fact, the system is so diffuse that gain for all the motor pools in a limb likely increases in concert. Second, if there is a system that increases gain, probably a system to reduce gain is also needed. In this review, we summarize recent studies that show local inhibitory circuits within the spinal cord, especially reciprocal and recurrent inhibition, have the potential to solve both of these problems as well as constitute another source of gain modulation.

  1. Dynamic congestion control mechanisms for MPLS networks

    Science.gov (United States)

    Holness, Felicia; Phillips, Chris I.

    2001-02-01

    Considerable interest has arisen in congestion control through traffic engineering from the knowledge that although sensible provisioning of the network infrastructure is needed, together with sufficient underlying capacity, these are not sufficient to deliver the Quality of Service required for new applications. This is due to dynamic variations in load. In operational Internet Protocol (IP) networks, it has been difficult to incorporate effective traffic engineering due to the limited capabilities of the IP technology. In principle, Multiprotocol Label Switching (MPLS), which is a connection-oriented label swapping technology, offers new possibilities in addressing the limitations by allowing the operator to use sophisticated traffic control mechanisms. This paper presents a novel scheme to dynamically manage traffic flows through the network by re-balancing streams during periods of congestion. It proposes management-based algorithms that will allow label switched routers within the network to utilize mechanisms within MPLS to indicate when flows are starting to experience frame/packet loss and then to react accordingly. Based upon knowledge of the customer's Service Level Agreement, together with instantaneous flow information, the label edge routers can then instigate changes to the LSP route and circumvent congestion that would hitherto violate the customer contacts.

  2. Changes of trabecular bone under control of biologically mechanical mechanism

    Science.gov (United States)

    Wang, C.; Zhang, C. Q.; Dong, X.; Wu, H.

    2008-10-01

    In this study, a biological process of bone remodeling was considered as a closed loop feedback control system, which enables bone to optimize and renew itself over a lifetime. A novel idea of combining strain-adaptive and damage-induced remodeling algorithms at Basic Multicellular Unit (BMU) level was introduced. In order to make the outcomes get closer to clinical observation, the stochastic occurrence of microdamage was involved and a hypothesis that remodeling activation probability is related to the value of damage rate was assumed. Integrated with Finite Element Analysis (FEA), the changes of trabecular bone in morphology and material properties were simulated in the course of five years. The results suggest that deterioration and anisotropy of trabecluar bone are inevitable with natural aging, and that compression rather than tension can be applied to strengthen the ability of resistance to fracture. This investigation helps to gain more insight the mechanism of bone loss and identify improved treatment and prevention for osteoporosis or stress fracture.

  3. Accelerated search for biomolecular network models to interpret high-throughput experimental data

    Directory of Open Access Journals (Sweden)

    Sokhansanj Bahrad A

    2007-07-01

    Full Text Available Abstract Background The functions of human cells are carried out by biomolecular networks, which include proteins, genes, and regulatory sites within DNA that encode and control protein expression. Models of biomolecular network structure and dynamics can be inferred from high-throughput measurements of gene and protein expression. We build on our previously developed fuzzy logic method for bridging quantitative and qualitative biological data to address the challenges of noisy, low resolution high-throughput measurements, i.e., from gene expression microarrays. We employ an evolutionary search algorithm to accelerate the search for hypothetical fuzzy biomolecular network models consistent with a biological data set. We also develop a method to estimate the probability of a potential network model fitting a set of data by chance. The resulting metric provides an estimate of both model quality and dataset quality, identifying data that are too noisy to identify meaningful correlations between the measured variables. Results Optimal parameters for the evolutionary search were identified based on artificial data, and the algorithm showed scalable and consistent performance for as many as 150 variables. The method was tested on previously published human cell cycle gene expression microarray data sets. The evolutionary search method was found to converge to the results of exhaustive search. The randomized evolutionary search was able to converge on a set of similar best-fitting network models on different training data sets after 30 generations running 30 models per generation. Consistent results were found regardless of which of the published data sets were used to train or verify the quantitative predictions of the best-fitting models for cell cycle gene dynamics. Conclusion Our results demonstrate the capability of scalable evolutionary search for fuzzy network models to address the problem of inferring models based on complex, noisy biomolecular

  4. Rational Design of Biomolecular Templates for Synthesizing Multifunctional Noble Metal Nanoclusters toward Personalized Theranostic Applications.

    Science.gov (United States)

    Yu, Yong; Mok, Beverly Y L; Loh, Xian Jun; Tan, Yen Nee

    2016-08-01

    Biomolecule-templated or biotemplated metal nanoclusters (NCs) are ultrasmall (<2 nm) metal (Au, Ag) particles stabilized by a certain type of biomolecular template (e.g., peptides, proteins, and DNA). Due to their unique physiochemical properties, biotemplated metal NCs have been widely used in sensing, imaging, delivery and therapy. The overwhelming applications in these individual areas imply the great promise of harnessing biotemplated metal NCs in more advanced biomedical aspects such as theranostics. Although applications of biotemplated metal NCs as theranostic agents are trending, the rational design of biomolecular templates suitable for the synthesis of multifunctional metal NCs for theranostics is comparatively underexplored. This progress report first identifies the essential attributes of biotemplated metal NCs for theranostics by reviewing the state-of-art applications in each of the four modalities of theranostics, namely sensing, imaging, delivery and therapy. To achieve high efficacy in these modalities, we elucidate the design principles underlying the use of biomolecules (proteins, peptides and nucleic acids) to control the NC size, emission color and surface chemistries for post-functionalization of therapeutic moieties. We then propose a unified strategy to engineer biomolecular templates that combine all these modalities to produce multifunctional biotemplated metal NCs that can serve as the next-generation personalized theranostic agents.

  5. Architecture of transcriptional regulatory circuits is knitted over the topology of bio-molecular interaction networks

    Directory of Open Access Journals (Sweden)

    Nielsen Jens

    2008-02-01

    Full Text Available Abstract Background Uncovering the operating principles underlying cellular processes by using 'omics' data is often a difficult task due to the high-dimensionality of the solution space that spans all interactions among the bio-molecules under consideration. A rational way to overcome this problem is to use the topology of bio-molecular interaction networks in order to constrain the solution space. Such approaches systematically integrate the existing biological knowledge with the 'omics' data. Results Here we introduce a hypothesis-driven method that integrates bio-molecular network topology with transcriptome data, thereby allowing the identification of key biological features (Reporter Features around which transcriptional changes are significantly concentrated. We have combined transcriptome data with different biological networks in order to identify Reporter Gene Ontologies, Reporter Transcription Factors, Reporter Proteins and Reporter Complexes, and use this to decipher the logic of regulatory circuits playing a key role in yeast glucose repression and human diabetes. Conclusion Reporter Features offer the opportunity to identify regulatory hot-spots in bio-molecular interaction networks that are significantly affected between or across conditions. Results of the Reporter Feature analysis not only provide a snapshot of the transcriptional regulatory program but also are biologically easy to interpret and provide a powerful way to generate new hypotheses. Our Reporter Features analyses of yeast glucose repression and human diabetes data brings hints towards the understanding of the principles of transcriptional regulation controlling these two important and potentially closely related systems.

  6. Nanogap biosensors for electrical and label-free detection of biomolecular interactions

    Energy Technology Data Exchange (ETDEWEB)

    Kyu Kim, Sang; Cho, Hyunmin; Park, Hye-Jung; Kwon, Dohyoung; Min Lee, Jeong; Hyun Chung, Bong, E-mail: chungbh@kribb.re.k [BioNanotechnology Research Center, Korea Research Institute of Bioscience and Biotechnology, PO Box 115, Yuseong, Daejeon 305-600 (Korea, Republic of)

    2009-11-11

    We demonstrate nanogap biosensors for electrical and label-free detection of biomolecular interactions. Parallel fabrication of nanometer distance gaps has been achieved using a silicon anisotropic wet etching technique on a silicon-on-insulator (SOI) wafer with a finely controllable silicon device layer. Since silicon anisotropic wet etching resulted in a trapezoid-shaped structure whose end became narrower during the etching, the nanogap structure was simply fabricated on the device layer of a SOI wafer. The nanogap devices were individually addressable and a gap size of less than 60 nm was obtained. We demonstrate that the nanogap biosensors can electrically detect biomolecular interactions such as biotin/streptavidin and antigen/antibody pairs. The nanogap devices show a current increase when the proteins are bound to the surface. The current increases proportionally depending upon the concentrations of the molecules in the range of 100 fg ml{sup -1}-100 ng ml{sup -1} at 1 V bias. It is expected that the nanogap developed here could be a highly sensitive biosensor platform for label-free detection of biomolecular interactions.

  7. Mechanism and control of lake eutrophication

    Institute of Scientific and Technical Information of China (English)

    QIN Boqiang; YANG Liuyan; CHEN Feizhou; ZHU Guangwei; ZHANG Lu; CHEN Yiyu

    2006-01-01

    A review about lake naturally eutrophi- cating, the internal loading of nutrients from lake sediment as well as the mechanism of algal blooms and the control practices was made, especially the eutrophication problem of shallow lakes since sev- enty percent of fresh water lakes in China are shallow lakes. It was found that shallow lakes are apt toward eutrophication than deep lakes. Without any influ- ences of human activity, shallow lakes in the middle and lower reaches of Yangtze River are still easily eutrophicated, which may be owing to the effects of flood in this area. In shallow lakes, sediments are frequently disturbed by wind-wave and resuspended, which result in huge nutrients release to overlying water. This may be the major reason for higher in- ternal loading of nutrients in shallow lakes than in deep lakes. Algal bloom is an extreme response of lake ecosystem to the eutrophication. Appearance of algal blooms is related to physical condition of lakes, such as underwater radiation (or transparency), temperature, and hydrodynamic conditions, or related to geochemical conditions of lakes, like concentra- tions of nutrients and ratio of nitrogen to phosphorus, as well as the physiological advantage of cyanobac- teria such as vacuole for moving towards the radiant energy-rich zone and the mycosporine-like amino acids (MAAs) for resisting the harm of ultraviolet ra- diation. In shallow lakes, these advantages of cyanobacteria are favorable in the competition than in deep lakes. Also being the shallowness, it is more difficult to reduce nutrient loading and to control algae blooms in shallow lakes. For the control of eutrophi- cation, people should follow the sequence from pollution sources control, ecological restoration to catchment management. To control the internal nu- trient release, physical, chemical, biological tech- niques, and even bionic techniques could be selected. The idea of ecological restoration for a eutrophic lake is to shift the ecosystem

  8. PREFACE: India-Japan Workshop on Biomolecular Electronics & Organic Nanotechnology for Environment Preservation

    Science.gov (United States)

    Onoda, Mitsuyoshi; Malhotra, Bansi D.

    2012-04-01

    Organic Functional Materials We would like to express our sincere thanks to the organizing committee members of this workshop and the many organizations such as the Japan Society for the Promotion of Science (JSPS), Japan, the Department of Science & Technology (DST), India, the Society of Organic Nanometric Interfacial Controlled Electronic (NICE) Devices, the Japan Society of Applied Physics, Himeji City, Himeji Convention & Visitors Bureau, Delhi Technological University, Delhi, India and the University of Hyogo for their financial support. Thanks are also given to The Japan Society of Applied Physics, Division of Molecular Electronics and Bioelectronics, The Japan Society of Applied Physics (M & BE), the Technical Committee on Dielectric and Electrical Insulation Materials of the Institute of Electrical Engineering in Japan (IEEJ), the Technical Group on Organic Molecular Electronics, Electronics Society of the Institute of Electronics, Information and Communication Engineers (IEICE), and the IEEE Dielectrics and Electrical Insulation Society, Japan Chapter, for their cooperation. Finally, we hope that the many young and active researchers who are participating will enjoy stimulating discussions and exchange ideas with each other at IJWBME 2011, Himeji, Japan. 7 April 2011 IJWBME 2011 Chairs Mitsuyoshi Onoda Graduate School of Engineering, University of Hyogo, Himeji, Japan Bansi D Malhotra Department of Biotechnology, Delhi Technological University, Delhi, India Conference photograph Participants of the India-Japan Workshop on Biomolecular Electronics & Organic Nanotechnology for Environment Preservation 2011, December 7-10 2011, EGRET Himeji, Japan The PDF also contains a list of sponsors.

  9. The fidelity of dynamic signaling by noisy biomolecular networks.

    Directory of Open Access Journals (Sweden)

    Clive G Bowsher

    Full Text Available Cells live in changing, dynamic environments. To understand cellular decision-making, we must therefore understand how fluctuating inputs are processed by noisy biomolecular networks. Here we present a general methodology for analyzing the fidelity with which different statistics of a fluctuating input are represented, or encoded, in the output of a signaling system over time. We identify two orthogonal sources of error that corrupt perfect representation of the signal: dynamical error, which occurs when the network responds on average to other features of the input trajectory as well as to the signal of interest, and mechanistic error, which occurs because biochemical reactions comprising the signaling mechanism are stochastic. Trade-offs between these two errors can determine the system's fidelity. By developing mathematical approaches to derive dynamics conditional on input trajectories we can show, for example, that increased biochemical noise (mechanistic error can improve fidelity and that both negative and positive feedback degrade fidelity, for standard models of genetic autoregulation. For a group of cells, the fidelity of the collective output exceeds that of an individual cell and negative feedback then typically becomes beneficial. We can also predict the dynamic signal for which a given system has highest fidelity and, conversely, how to modify the network design to maximize fidelity for a given dynamic signal. Our approach is general, has applications to both systems and synthetic biology, and will help underpin studies of cellular behavior in natural, dynamic environments.

  10. Electrochemical sensor for multiplex screening of genetically modified DNA: identification of biotech crops by logic-based biomolecular analysis.

    Science.gov (United States)

    Liao, Wei-Ching; Chuang, Min-Chieh; Ho, Ja-An Annie

    2013-12-15

    Genetically modified (GM) technique, one of the modern biomolecular engineering technologies, has been deemed as profitable strategy to fight against global starvation. Yet rapid and reliable analytical method is deficient to evaluate the quality and potential risk of such resulting GM products. We herein present a biomolecular analytical system constructed with distinct biochemical activities to expedite the computational detection of genetically modified organisms (GMOs). The computational mechanism provides an alternative to the complex procedures commonly involved in the screening of GMOs. Given that the bioanalytical system is capable of processing promoter, coding and species genes, affirmative interpretations succeed to identify specified GM event in terms of both electrochemical and optical fashions. The biomolecular computational assay exhibits detection capability of genetically modified DNA below sub-nanomolar level and is found interference-free by abundant coexistence of non-GM DNA. This bioanalytical system, furthermore, sophisticates in array fashion operating multiplex screening against variable GM events. Such a biomolecular computational assay and biosensor holds great promise for rapid, cost-effective, and high-fidelity screening of GMO.

  11. Control mechanisms for a nonlinear model of international relations

    Energy Technology Data Exchange (ETDEWEB)

    Pentek, A.; Kadtke, J. [Univ. of California, San Diego, La Jolla, CA (United States). Inst. for Pure and Applied Physical Sciences; Lenhart, S. [Univ. of Tennessee, Knoxville, TN (United States). Mathematics Dept.; Protopopescu, V. [Oak Ridge National Lab., TN (United States). Computer Science and Mathematics Div.

    1997-07-15

    Some issues of control in complex dynamical systems are considered. The authors discuss two control mechanisms, namely: a short range, reactive control based on the chaos control idea and a long-term strategic control based on an optimal control algorithm. They apply these control ideas to simple examples in a discrete nonlinear model of a multi-nation arms race.

  12. Effects of Clear Kefir on Biomolecular Aspects of Glycemic Status of Type 2 Diabetes Mellitus (T2DM Patients in Bandung, West Java [Study on Human Blood Glucose, c Peptide and Insulin

    Directory of Open Access Journals (Sweden)

    Judiono J

    2014-08-01

    Full Text Available Background: Diabetes Mellitus (DM triggers an excessive reaction of free-radicals. It increases reactive oxygen species and reduces antioxidants status as well as the β cell damage. Clear kefir was used for DM therapies, however it limited biomolecular exploration of its bioactive roles. Research aimed to investigate the effects of clear kefir on the biomolecular nature of the glycemic status of T2DM in Bandung. Methods: The randomized pretest-posttest control group was conducted by 106 T2DM patients. Research was done in several hospitals in Bandung and Cimahi, West Java from 2012–2013. Samples were divided randomly into three groups: (1 T2DM with HbA1c 7 fed standard diet and supplemented 200 ml/day by clear kefir, (3 T2DM with HbA1c was fed a standard diet as a control group. Dose response was obtained from a preeliminary vivo study, and then converted to human dosage by year 2011. Intervention was effectively done for 30 days. HbA1c was measured by HPLC. Fasting blood glucose (FBG and Postprandial blood glucose levels (PBG were measured by enzymes levels. C Peptide and insulin were measured by Elisa. Data was analyzed by a statictics programme by significance p<0,05. Study was approved by ethic committee. Results : HbA1c was significantly reduced in delta level (p<0.01 and FBG (p<0.015 among kefir groups. PBG was not significantly reduced among groups. C-Peptide was significantly increased in delta level, except in control group (p<0.014. Insulin was reduced significantly, except in control group (p<0.003. Conclusions : Supplementation of clear kefir reduced blood glucose levels (HbA1c, FBG, PBG and increased c-peptide. Clear kefir’s biomolecular mechanisms and chemistry characterization is a challenge for future studies.

  13. Cellular Mechanisms of Ciliary Length Control

    Directory of Open Access Journals (Sweden)

    Jacob Keeling

    2016-01-01

    Full Text Available Cilia and flagella are evolutionarily conserved, membrane-bound, microtubule-based organelles on the surface of most eukaryotic cells. They play important roles in coordinating a variety of signaling pathways during growth, development, cell mobility, and tissue homeostasis. Defects in ciliary structure or function are associated with multiple human disorders called ciliopathies. These diseases affect diverse tissues, including, but not limited to the eyes, kidneys, brain, and lungs. Many processes must be coordinated simultaneously in order to initiate ciliogenesis. These include cell cycle, vesicular trafficking, and axonemal extension. Centrioles play a central role in both cell cycle progression and ciliogenesis, making the transition between basal bodies and mitotic spindle organizers integral to both processes. The maturation of centrioles involves a functional shift from cell division toward cilium nucleation which takes place concurrently with its migration and fusion to the plasma membrane. Several proteinaceous structures of the distal appendages in mother centrioles are required for this docking process. Ciliary assembly and maintenance requires a precise balance between two indispensable processes; so called assembly and disassembly. The interplay between them determines the length of the resulting cilia. These processes require a highly conserved transport system to provide the necessary substances at the tips of the cilia and to recycle ciliary turnover products to the base using a based microtubule intraflagellar transport (IFT system. In this review; we discuss the stages of ciliogenesis as well as mechanisms controlling the lengths of assembled cilia.

  14. Adaptive mechanically controlled lubrication mechanism found in articular joints.

    Science.gov (United States)

    Greene, George W; Banquy, Xavier; Lee, Dong Woog; Lowrey, Daniel D; Yu, Jing; Israelachvili, Jacob N

    2011-03-29

    Articular cartilage is a highly efficacious water-based tribological system that is optimized to provide low friction and wear protection at both low and high loads (pressures) and sliding velocities that must last over a lifetime. Although many different lubrication mechanisms have been proposed, it is becoming increasingly apparent that the tribological performance of cartilage cannot be attributed to a single mechanism acting alone but on the synergistic action of multiple "modes" of lubrication that are adapted to provide optimum lubrication as the normal loads, shear stresses, and rates change. Hyaluronic acid (HA) is abundant in cartilage and synovial fluid and widely thought to play a principal role in joint lubrication although this role remains unclear. HA is also known to complex readily with the glycoprotein lubricin (LUB) to form a cross-linked network that has also been shown to be critical to the wear prevention mechanism of joints. Friction experiments on porcine cartilage using the surface forces apparatus, and enzymatic digestion, reveal an "adaptive" role for an HA-LUB complex whereby, under compression, nominally free HA diffusing out of the cartilage becomes mechanically, i.e., physically, trapped at the interface by the increasingly constricted collagen pore network. The mechanically trapped HA-LUB complex now acts as an effective (chemically bound) "boundary lubricant"--reducing the friction force slightly but, more importantly, eliminating wear damage to the rubbing/shearing surfaces. This paper focuses on the contribution of HA in cartilage lubrication; however, the system as a whole requires both HA and LUB to function optimally under all conditions.

  15. Engineering biomolecular microenvironments for cell instructive biomaterials.

    Science.gov (United States)

    Custódio, Catarina A; Reis, Rui L; Mano, João F

    2014-06-01

    Engineered cell instructive microenvironments with the ability to stimulate specific cellular responses are a topic of high interest in the fabrication and development of biomaterials for application in tissue engineering. Cells are inherently sensitive to the in vivo microenvironment that is often designed as the cell "niche." The cell "niche" comprising the extracellular matrix and adjacent cells, influences not only cell architecture and mechanics, but also cell polarity and function. Extensive research has been performed to establish new tools to fabricate biomimetic advanced materials for tissue engineering that incorporate structural, mechanical, and biochemical signals that interact with cells in a controlled manner and to recapitulate the in vivo dynamic microenvironment. Bioactive tunable microenvironments using micro and nanofabrication have been successfully developed and proven to be extremely powerful to control intracellular signaling and cell function. This Review is focused in the assortment of biochemical signals that have been explored to fabricate bioactive cell microenvironments and the main technologies and chemical strategies to encode them in engineered biomaterials with biological information.

  16. Control Mechanism and Security Region for Intentional Islanding Transition

    DEFF Research Database (Denmark)

    Chen, Yu; Xu, Zhao; Østergaard, Jacob

    2009-01-01

    in the grid. The concept of Islanding Security Region (ISR) has been proposed as an organic composition of the developed control mechanism. The purpose of this control mechanism is to maintain the frequency stability and eventually the security of power supply to the customers, by utilizing resources from...... generation and demand sides. The control mechanism can be extended to consider the distributed generations like wind power and other innovative technologies such as the Demand as Frequency controlled Reserve (DFR) technique in the future....

  17. Biomolecular interactions in HCV nucleocapsid-like particles as revealed by vibrational spectroscopy

    Science.gov (United States)

    Rodríguez-Casado, Arantxa; Molina, Marina; Carmona, Pedro

    2007-05-01

    Hepatitis C virus (HCV) occurs in the form of 55-65 nm spherical particles, but the structure of the virion remains to be clarified. Structural studies of HCV have been hampered by the lack of an appropriate cell culture system. However, structural analyses of HCV components can provide an essential framework for understanding of the molecular mechanism of virion assembly. This article reviews the potential of vibrational spectroscopy aimed at the knowledge of HCV structural biology, particularly regarding biomolecular interactions in nucleocapsid-like particles obtained in vitro.

  18. In situ monitoring of biomolecular processes in living systems using surface-enhanced Raman scattering

    Science.gov (United States)

    Altunbek, Mine; Kelestemur, Seda; Culha, Mustafa

    2015-12-01

    Surface-enhanced Raman scattering (SERS) continues to strive to gather molecular level information from dynamic biological systems. It is our ongoing effort to utilize the technique for understanding of the biomolecular processes in living systems such as eukaryotic and prokaryotic cells. In this study, the technique is investigated to identify cell death mechanisms in 2D and 3D in vitro cell culture models, which is a very important process in tissue engineering and pharmaceutical applications. Second, in situ biofilm formation monitoring is investigated to understand how microorganisms respond to the environmental stimuli, which inferred information can be used to interfere with biofilm formation and fight against their pathogenic activity.

  19. Controlled Unusual Stiffness of Mechanical Metamaterials.

    Science.gov (United States)

    Lee, Wooju; Kang, Da-Young; Song, Jihwan; Moon, Jun Hyuk; Kim, Dongchoul

    2016-02-03

    Mechanical metamaterials that are engineered with sub-unit structures present unusual mechanical properties depending on the loading direction. Although they show promise, their practical utility has so far been somewhat limited because, to the best of our knowledge, no study about the potential of mechanical metamaterials made from sophisticatedly tailored sub-unit structures has been made. Here, we present a mechanical metamaterial whose mechanical properties can be systematically designed without changing its chemical composition or weight. We study the mechanical properties of triply periodic bicontinuous structures whose detailed sub-unit structure can be precisely fabricated using various sub-micron fabrication methods. Simulation results show that the effective wave velocity of the structures along with different directions can be designed to introduce the anisotropy of stiffness by changing a volume fraction and aspect ratio. The ratio of Young's modulus to shear modulus can be increased by up to at least 100, which is a 3500% increase over that of isotropic material (2.8, acrylonitrile butadiene styrene). Furthermore, Poisson's ratio of the constituent material changes the ratio while Young's modulus does not influence it. This study presents the promising potential of mechanical metamaterials for versatile industrial and biomedical applications.

  20. Finite-time Control of One-link Mechanical System

    Science.gov (United States)

    Matoba, Shunsuke; Nakamura, Nami; Nakamura, Hisakazu; Akiba, Hideyuki

    This paper considers finite-time position control of an one-link mechanical system. The system is modeled by discontinuous differential equations. In this paper, we prove that the Nakamura's local homogeneous controller based on a control Lyapunov function is valid to the position control of the robot manipulators, and show the effectiveness of the controller by experiments.

  1. Raman spectroscopy detects biomolecular changes associated with nanoencapsulated hesperetin treatment in experimental oral carcinogenesis

    Science.gov (United States)

    Gurushankar, K.; Gohulkumar, M.; Kumar, Piyush; Krishna, C. Murali; Krishnakumar, N.

    2016-03-01

    Recently it has been shown that Raman spectroscopy possesses great potential in the investigation of biomolecular changes of tumor tissues with therapeutic drug response in a non-invasive and label-free manner. The present study is designed to investigate the antitumor effect of hespertin-loaded nanoparticles (HETNPs) relative to the efficacy of native hesperetin (HET) in modifying the biomolecular changes during 7,12-dimethyl benz(a)anthracene (DMBA)-induced oral carcinogenesis using a Raman spectroscopic technique. Significant differences in the intensity and shape of the Raman spectra between the control and the experimental tissues at 1800-500 cm-1 were observed. Tumor tissues are characterized by an increase in the relative amount of proteins, nucleic acids, tryptophan and phenylalanine and a decrease in the percentage of lipids when compared to the control tissues. Further, oral administration of HET and its nanoparticulates restored the status of the lipids and significantly decreased the levels of protein and nucleic acid content. Treatment with HETNPs showed a more potent antitumor effect than treatment with native HET, which resulted in an overall reduction in the intensity of several biochemical Raman bands in DMBA-induced oral carcinogenesis being observed. Principal component and linear discriminant analysis (PC-LDA), together with leave-one-out cross validation (LOOCV) on Raman spectra yielded diagnostic sensitivities of 100%, 80%, 91.6% and 65% and specificities of 100%, 65%, 60% and 55% for classification of control versus DMBA, DMBA versus DMBA  +  HET, DMBA versus DMBA  +  HETNPs and DMBA  +  HET versus DMBA  +  HETNPs treated tissue groups, respectively. These results further demonstrate that Raman spectroscopy associated with multivariate statistical algorithms could be a valuable tool for developing a comprehensive understanding of the process of biomolecular changes, and could reveal the signatures of the

  2. Biomolecular detection using a metal semiconductor field effect transistor

    Science.gov (United States)

    Estephan, Elias; Saab, Marie-Belle; Buzatu, Petre; Aulombard, Roger; Cuisinier, Frédéric J. G.; Gergely, Csilla; Cloitre, Thierry

    2010-04-01

    In this work, our attention was drawn towards developing affinity-based electrical biosensors, using a MESFET (Metal Semiconductor Field Effect Transistor). Semiconductor (SC) surfaces must be prepared before the incubations with biomolecules. The peptides route was adapted to exceed and bypass the limits revealed by other types of surface modification due to the unwanted unspecific interactions. As these peptides reveal specific recognition of materials, then controlled functionalization can be achieved. Peptides were produced by phage display technology using a library of M13 bacteriophage. After several rounds of bio-panning, the phages presenting affinities for GaAs SC were isolated; the DNA of these specific phages were sequenced, and the peptide with the highest affinity was synthesized and biotinylated. To explore the possibility of electrical detection, the MESFET fabricated with the GaAs SC were used to detect the streptavidin via the biotinylated peptide in the presence of the bovine Serum Albumin. After each surface modification step, the IDS (current between the drain and the source) of the transistor was measured and a decrease in the intensity was detected. Furthermore, fluorescent microscopy was used in order to prove the specificity of this peptide and the specific localisation of biomolecules. In conclusion, the feasibility of producing an electrical biosensor using a MESFET has been demonstrated. Controlled placement, specific localization and detection of biomolecules on a MESFET transistor were achieved without covering the drain and the source. This method of functionalization and detection can be of great utility for biosensing application opening a new way for developing bioFETs (Biomolecular Field-Effect Transistor).

  3. Analysis and control of underactuated mechanical systems

    CERN Document Server

    Choukchou-Braham, Amal; Djemaï, Mohamed; Busawon, Krishna

    2014-01-01

    This monograph provides readers with tools for the analysis, and control of systems with fewer control inputs than degrees of freedom to be controlled, i.e., underactuated systems. The text deals with the consequences of a lack of a general theory that would allow methodical treatment of such systems and the ad hoc approach to control design that often results, imposing a level of organization whenever the latter is lacking. The authors take as their starting point the construction of a graphical characterization or control flow diagram reflecting the transmission of generalized forces through the degrees of freedom. Underactuated systems are classified according to the three main structures by which this is found to happen—chain, tree, and isolated vertex—and control design procedures proposed. The procedure is applied to several well-known examples of underactuated systems: acrobot; pendubot; Tora system; ball and beam; inertia wheel; and robotic arm with elastic joint. The text is illustrated with MATL...

  4. Towards a Unified Representation of Mechanisms for Robotic Control Software

    Directory of Open Access Journals (Sweden)

    Antonio Diaz-Calderon

    2008-11-01

    Full Text Available This article gives an overview of the Mechanism Model paradigm. The mechanism model paradigm provides a framework to modeling mechanisms for robotic control. The emphasis is on the unification of mathematical models of kinematics/dynamics, geometric information and control system parameters for a variety of robotic systems (including serial manipulators, wheeled and legged locomotors, with algorithms that are needed for typical robot control applications.

  5. Bases biomoleculares do fotoenvelhecimento Molecular basis of photoaging

    Directory of Open Access Journals (Sweden)

    Suelen Montagner

    2009-07-01

    Full Text Available Com o aumento da expectativa de vida, o estudo do processo de envelhecimento orgânico tem sido estimulado. O envelhecimento da pele, órgão que espelha os sinais do tempo, é processo de deterioração progressiva, tempo-dependente, e pode ser intensificado pela exposição solar, então designado fotoenvelhecimento. O dano das radiações sobre diversas estruturas celulares e cutâneas leva a alterações morfológicas nesses componentes, fruto de modificações biomoleculares. Muitas pesquisas são desenvolvidas com o intuito de combater ou minimizar os efeitos do fotoenvelhecimento, porém a principal estratégia nesse sentido continua sendo a prevenção, só conseguida pelo progressivo desvendar dos mecanismos fisiopatogênicos envolvidos nesse processo.As a result of the increase in life expectancy, the study of the organic process of aging has been stimulated. Skin ageing, which reflects the signs of time, is a time-dependent process of progressive deterioration that can be intensified by sun exposure, which is known as photoaging. The damage of radiation on various cell structures and on the skin results in molecular and morphological changes to these components. Many research studies are performed to try to minimize the effects of photoaging; however, the main strategy to manage it is still prevention, which will only be achieved once we learn about the mechanisms involved in the process.

  6. The HADDOCK web server for data-driven biomolecular docking

    NARCIS (Netherlands)

    de Vries, S.J.; van Dijk, M.; Bonvin, A.M.J.J.

    2010-01-01

    Computational docking is the prediction or modeling of the three-dimensional structure of a biomolecular complex, starting from the structures of the individual molecules in their free, unbound form. HADDOC K is a popular docking program that takes a datadriven approach to docking, with support for

  7. Exposing biomolecular properties one molecule at a time

    NARCIS (Netherlands)

    Elmalk, Abdalmohsen

    2012-01-01

    The work described in this thesis was aimed at the study of the functional properties of (isolated and purified) biomolecular systems at the single-molecule level. Two prerequisites are essential for successfully achieving this goal. First of all, single biomolecules should be observable, which mean

  8. From dynamics to structure and function of model biomolecular systems

    NARCIS (Netherlands)

    Fontaine-Vive-Curtaz, F.

    2007-01-01

    The purpose of this thesis was to extend recent works on structure and dynamics of hydrogen bonded crystals to model biomolecular systems and biological processes. The tools that we have used are neutron scattering (NS) and density functional theory (DFT) and force field (FF) based simulation method

  9. Cutaneous mechanisms of isometric ankle force control

    DEFF Research Database (Denmark)

    Choi, Julia T; Jensen, Jesper Lundbye; Leukel, Christian

    2013-01-01

    The sense of force is critical in the control of movement and posture. Multiple factors influence our perception of exerted force, including inputs from cutaneous afferents, muscle afferents and central commands. Here, we studied the influence of cutaneous feedback on the control of ankle force...... of transient stimulation on force error were greater when compared to continuous stimulation and lidocaine injection. Position-matching performance was unaffected by peroneal nerve or plantar nerve stimulation. Our results show that cutaneous feedback plays a role in the control of force output at the ankle...... joint. Understanding how the nervous system normally uses cutaneous feedback in motor control will help us identify which functional aspects are impaired in aging and neurological diseases....

  10. Control Engineering Analysis of Mechanical Pitch Systems

    Science.gov (United States)

    Bernicke, Olaf; Gauterin, Eckhard; Schulte, Horst; Zajac, Michal

    2014-12-01

    With the help of a local stability analysis the coefficient range of a discrete damper, used for centrifugal forced, mechanical pitch system of small wind turbines (SWT), is gained for equilibrium points. - By a global stability analysis the gained coefficient range can be validated. An appropriate approach by Takagi-Sugeno is presented in the paper.

  11. [Visual attention and its control mechanisms].

    Science.gov (United States)

    Ogawa, Hirokazu

    2014-04-01

    Given the vast amount of visual information in visual scenes, the capacity of our brain to processes such scenes is severely limited. The core mechanism of selection is referred to as visual attention, and it has been the topic of intense investigation for over 25 years in experimental psychology and cognitive neuroscience. Visual attention is not a single, unitary mechanism, but consists of multiple subcomponents. Attention can be directed to various aspects of visual information, such as spatial location, features, or objects. Additionally, attention is guided by external factors such as the salience of stimuli, or whether we are able to move our attention volitionally. The purpose of this article is to review the status of these components of attentional guidance and how they interact with each other, with an emphasis on psychophysical studies.

  12. fireball/amber: An Efficient Local-Orbital DFT QM/MM Method for Biomolecular Systems.

    Science.gov (United States)

    Mendieta-Moreno, Jesús I; Walker, Ross C; Lewis, James P; Gómez-Puertas, Paulino; Mendieta, Jesús; Ortega, José

    2014-05-13

    In recent years, quantum mechanics/molecular mechanics (QM/MM) methods have become an important computational tool for the study of chemical reactions and other processes in biomolecular systems. In the QM/MM technique, the active region is described by means of QM calculations, while the remainder of the system is described using a MM approach. Because of the complexity of biomolecules and the desire to achieve converged sampling, it is important that the QM method presents a good balance between accuracy and computational efficiency. Here, we report on the implementation of a QM/MM technique that combines a DFT approach specially designed for the study of complex systems using first-principles molecular dynamics simulations (fireball) with the amber force fields and simulation programs. We also present examples of the application of this QM/MM approach to three representative biomolecular systems: the analysis of the effect of electrostatic embedding in the behavior of a salt bridge between an aspartic acid and a lysine residue, a study of the intermediate states for the triosephosphate isomerase catalyzed conversion of dihydroxyacetone phosphate into glyceraldehyde 3-phosphate, and the detailed description, using DFT QM/MM molecular dynamics, of the cleavage of a phosphodiester bond in RNA catalyzed by the enzyme RNase A.

  13. High Precision Motion Control of Hybrid Five-Bar Mechanism with an Intelligent Control

    Institute of Scientific and Technical Information of China (English)

    ZHANG Ke; WANG Sheng-ze

    2009-01-01

    Hybrid mechanism is a new type of planar controllable mechanism. Position control accuracy of system determines the output acctracy of the mechanism In order to achieve the desired high accuracy, nonlinear factors as friction must be accurately compensated in the real-time servo control algarithm. In this paper, the model of a hybrid flve-bar mechanism is introduced In terms of the characteristics of the hybrid mechanism, a hybrid intelligent control algorithm based on proportional-integral-derivative(PID) control and cerebellar model articulation control techniques was presented and used to perform control of hybrid five-bar mechanism for the first time. The simulation results show that the hybrid control method can improve the control effect remarkably, compared with the traditional PID control strategy.

  14. Cutaneous mechanisms of isometric ankle force control.

    Science.gov (United States)

    Choi, Julia T; Lundbye-Jensen, Jesper; Leukel, Christian; Nielsen, Jens Bo

    2013-07-01

    The sense of force is critical in the control of movement and posture. Multiple factors influence our perception of exerted force, including inputs from cutaneous afferents, muscle afferents and central commands. Here, we studied the influence of cutaneous feedback on the control of ankle force output. We used repetitive electrical stimulation of the superficial peroneal (foot dorsum) and medial plantar nerves (foot sole) to disrupt cutaneous afferent input in 8 healthy subjects. We measured the effects of repetitive nerve stimulation on (1) tactile thresholds, (2) performance in an ankle force-matching and (3) an ankle position-matching task. Additional force-matching experiments were done to compare the effects of transient versus continuous stimulation in 6 subjects and to determine the effects of foot anesthesia using lidocaine in another 6 subjects. The results showed that stimulation decreased cutaneous sensory function as evidenced by increased touch threshold. Absolute dorsiflexion force error increased without visual feedback during peroneal nerve stimulation. This was not a general effect of stimulation because force error did not increase during plantar nerve stimulation. The effects of transient stimulation on force error were greater when compared to continuous stimulation and lidocaine injection. Position-matching performance was unaffected by peroneal nerve or plantar nerve stimulation. Our results show that cutaneous feedback plays a role in the control of force output at the ankle joint. Understanding how the nervous system normally uses cutaneous feedback in motor control will help us identify which functional aspects are impaired in aging and neurological diseases.

  15. Dynamics and control of a class of underactuated mechanical systems

    NARCIS (Netherlands)

    Reyhanoglu, Mahmut; Schaft, van der Arjan; McClamroch, N. Harris; Kolmanovsky, Ilya

    1999-01-01

    This paper presents a theoretical framework for the dynamics and control of underactuated mechanical systems, defined as systems with fewer inputs than degrees of freedom. Control system formulation of underactuated mechanical systems is addressed and a class of underactuated systems characterized b

  16. Dynamics and Control of a Class of Underactuated Mechanical Systems

    NARCIS (Netherlands)

    Reyhanoglu, Mahmut; Schaft, Arjan van der; McClamroch, N. Harris; Kolmanovsky, Ilya

    1999-01-01

    This paper presents a theoretical framework for the dynamics and control of underactuated mechanical systems, defined as systems with fewer inputs than degrees of freedom. Control system formulation of underactuated mechanical systems is addressed and a class of underactuated systems characterized b

  17. Improving Control Mechanism at Routers in TCP/IP Network

    Directory of Open Access Journals (Sweden)

    Nguyen Kim Quoc

    2014-09-01

    Full Text Available The existing control mechanisms at the network nodes have a good active and very effective at each local router, but they do not still strong enough to control nonlinear and dynamical behaviour of the network. Therefore, the control system requirements must be designed to be flexible to fully grasp the important status information of the variation and intelligent control methods to control network congestion in nonlinear network. To solve this problem, we propose a solution combined fuzzy reasoning with neural network control put on active queue management mechanisms at the network nodes.

  18. Novel Mechanism Control Algorithm for Wired Network

    Directory of Open Access Journals (Sweden)

    V. B. Kirubanand

    2011-01-01

    Full Text Available Problem statement: A critical issue in wireless network where the data can hack by the person and we add a novel encryption mechanism to protect the data transfer from client to server and vice versa. Approach: We present a queuing model of a client and server that uses for bulk arrival service. The arrival of data requests is assumed to Markov Poisson Distributed Process (MPDP and the events are considered in the server for process sharing. We obtained the parameter of service rate, arrival rate, expected waiting time and expected busy period. We also derive the expression for the data value of threshold. Results: The total number of packets request processed, there was no time limit to arrivals, while compared to m/m/1 model. Our model m/m (1,b/1 was more efficient to find response and request time in between client and server. Conclusions: Our proposed simulation model validated through Java programming.

  19. An immunosurveillance mechanism controls cancer cell ploidy.

    Science.gov (United States)

    Senovilla, Laura; Vitale, Ilio; Martins, Isabelle; Tailler, Maximilien; Pailleret, Claire; Michaud, Mickaël; Galluzzi, Lorenzo; Adjemian, Sandy; Kepp, Oliver; Niso-Santano, Mireia; Shen, Shensi; Mariño, Guillermo; Criollo, Alfredo; Boilève, Alice; Job, Bastien; Ladoire, Sylvain; Ghiringhelli, François; Sistigu, Antonella; Yamazaki, Takahiro; Rello-Varona, Santiago; Locher, Clara; Poirier-Colame, Vichnou; Talbot, Monique; Valent, Alexander; Berardinelli, Francesco; Antoccia, Antonio; Ciccosanti, Fabiola; Fimia, Gian Maria; Piacentini, Mauro; Fueyo, Antonio; Messina, Nicole L; Li, Ming; Chan, Christopher J; Sigl, Verena; Pourcher, Guillaume; Ruckenstuhl, Christoph; Carmona-Gutierrez, Didac; Lazar, Vladimir; Penninger, Josef M; Madeo, Frank; López-Otín, Carlos; Smyth, Mark J; Zitvogel, Laurence; Castedo, Maria; Kroemer, Guido

    2012-09-28

    Cancer cells accommodate multiple genetic and epigenetic alterations that initially activate intrinsic (cell-autonomous) and extrinsic (immune-mediated) oncosuppressive mechanisms. Only once these barriers to oncogenesis have been overcome can malignant growth proceed unrestrained. Tetraploidization can contribute to oncogenesis because hyperploid cells are genomically unstable. We report that hyperploid cancer cells become immunogenic because of a constitutive endoplasmic reticulum stress response resulting in the aberrant cell surface exposure of calreticulin. Hyperploid, calreticulin-exposing cancer cells readily proliferated in immunodeficient mice and conserved their increased DNA content. In contrast, hyperploid cells injected into immunocompetent mice generated tumors only after a delay, and such tumors exhibited reduced DNA content, endoplasmic reticulum stress, and calreticulin exposure. Our results unveil an immunosurveillance system that imposes immunoselection against hyperploidy in carcinogen- and oncogene-induced cancers.

  20. Dynamics and Control of a Class of Underactuated Mechanical Systems

    OpenAIRE

    Reyhanoglu, Mahmut; van der Schaft, Arjan; McClamroch, N. Harris; Kolmanovsky, Ilya

    1999-01-01

    This paper presents a theoretical framework for the dynamics and control of underactuated mechanical systems, defined as systems with fewer inputs than degrees of freedom. Control system formulation of underactuated mechanical systems is addressed and a class of underactuated systems characterized by nonintegrable dynamics relations is identified. Controllability and stabilizability results are derived for this class of underactuated systems. Examples are included to illustrate the results; t...

  1. Control of a mechanical gripper with a fuzzy controller; Control de una garra robotizada mediante un controlador borroso

    Energy Technology Data Exchange (ETDEWEB)

    Alberdi, J.; Barcala, J.M.; Gamero, E.; Navarrete, J.J.

    1995-07-01

    A fuzzy logic system is used to control a mechanical gripper. System is based in a NLX230 fuzzy micro controller. Control rules are programmed by a 68020 microprocessor in the micro controller memory. Stress and its derived are used as feedback signals in the control. This system can adapt its effort to the mechanical resistance of the object between the fingers. (Author)

  2. Control of a mechanical gripper with a fuzzy controller; Control de una garra robotizada mediante un controlador borroso

    Energy Technology Data Exchange (ETDEWEB)

    Alberdi, J.; Barcala, J.M.; Gamero, E.; Navarrete, J.J.

    1995-07-01

    A fuzzy logic system is used to control a mechanical gripper. System is based in a NLX230 fuzzy micro controller. Control rules are programmed by a 68020 microprocessor in the micro controller memory. Stress and its derived are used as feedback signals in the control. This system can adapt its effort to the mechanical resistance of the object between the fingers.

  3. Urgent epidemic control mechanism for aviation networks

    KAUST Repository

    Peng, Chengbin

    2011-01-01

    In the current century, the highly developed transportation system can not only boost the economy, but also greatly accelerate the spreading of epidemics. While some epidemic diseases may infect quite a number of people ahead of our awareness, the health care resources such as vaccines and the medical staff are usually locally or even globally insufficient. In this research, with the network of major aviation routes as an example, we present a method to determine the optimal locations to allocate the medical service in order to minimize the impact of the infectious disease with limited resources. Specifically, we demonstrate that when the medical resources are insufficient, we should concentrate our efforts on the travelers with the objective of effectively controlling the spreading rate of the epidemic diseases. © 2011 Springer-Verlag Berlin Heidelberg.

  4. Mechanical design and control of a new myoelectric hand prosthesis

    NARCIS (Netherlands)

    Peerdeman, B.; Stramigioli, S.; Hekman, E.; Brouwer, D.M.; Misra, S.

    2011-01-01

    The development of modern, myoelectrically controlled hand prostheses can be difficult, due to the many requirements its mechanical design and control system need to fulfill [1]. The hand should be controllable with few input signals, while being able to perform a wide range of motions. It should be

  5. Chemical and mechanical weed control in soybean (Glycine max

    Directory of Open Access Journals (Sweden)

    Weber, Jonas Felix

    2016-02-01

    Full Text Available In this study we investigated the possibility of chemical and mechanical weed control strategies in soybean. Soybean field experiments were carried out in 2013 and 2014 in Southern Germany. Five treatments including common herbicide mixtures and four mechanical weed control treatments, implementing a harrow and a hoe, were tested at different locations. In the herbicide experiments two treatments were applied by PRE emergence herbicides (metribuzin, clomazone, dimethenamid and metribuzin, flufenacet, clomazone and another two treatments were sprayed with a combination of PRE + POST emergence herbicides (metribuzin, flufenacet, thifensulfuron and pendimethalin, thifensulfuron, bentazone, cycloxydim. Furthermore, a POST herbicide treatment was implemented (thifensulfuron, bentazone, thifensulfuron and fluazifop-P-butyl. In the mechanical weed control experiments, treatments were: three times hoeing, PRE emergence harrowing plus three times hoeing, hoeing and harrowing in rotation or three times harrowing. In both experiments an untreated control was included. A 90% weed control efficacy and 23% yield increase was observed in the POST herbicide treatment. PRE + POST treatments resulted in 92% to 99% weed control efficiency and 15% yield increase compared to the untreated control. In the mechanical weed control experiments the combination of PRE emergence harrowing and POST emergence hoeing resulted in 82% weed control efficiency and 34% higher yield compared to the untreated control. Less weed control efficiency (72% was observed in the harrow treatment, leading to 20% higher yield compared to the control. The suitability of both strategies for implementation in “Integrated Weed Management” has been investigated.

  6. Fuzzy control of electro-mechanical gearbox actuator

    Institute of Scientific and Technical Information of China (English)

    G Iordanidis; P H Mellor; D Holliday; P M Churn

    2003-01-01

    In this paper, a prototype direct-drive electro-mechanical actuator is proposed to select gears in a high performance gearbox. Because of the nonlinear behavior of the actuator, a fuzzy logic controller is adopted. The result of simulation has proved that the dynamic response obtained using the fuzzy controller is much faster than that obtained using traditional PD controller.

  7. Physical damping in IDA-PBC controlled underactuated mechanical systems

    NARCIS (Netherlands)

    Gomez-Estern, F.; Schaft, van der A.J.

    2004-01-01

    Energy shaping and passivity-based control designs have proven to be effective in solving control problems for tinderactttated mechanical systems. In recent works, interconnection and damping assignment passivity-based control (IDA-PEC) has been successfully applied to open-loop conservative models,

  8. Mechanical systems a unified approach to vibrations and controls

    CERN Document Server

    Gans, Roger F

    2015-01-01

    This essential textbook covers analysis and control of engineering mechanisms, which include almost any apparatus with moving parts used in daily life, from musical instruments to robots. The text  presents both vibrations and controls with considerable breadth and depth using a unified notation. It strikes a nice balance between the analytical and the practical.  This text contains enough material for a two semester sequence, but it can also be used in a single semester course combining the two topics. Mechanical Systems: A Unified Approach to Vibrations and Controls presents a common notation and approach to these closely related areas. Examples from the both vibrations and controls components are integrated throughout this text. This book also: ·         Presents a unified approach to vibrations and controls, including an excellent diagram that simultaneously discusses embedding classical vibrations (mechanical systems) in a discussion of models, inverse models, and open and closed loop control ...

  9. Quantum dynamics of bio-molecular systems in noisy environments

    OpenAIRE

    Huelga S.F.; Plenio M.B.

    2012-01-01

    We discuss three different aspects of the quantum dynamics of bio-molecular systems and more generally complex networks in the presence of strongly coupled environments. Firstly, we make a case for the systematic study of fundamental structural elements underlying the quantum dynamics of these systems, identify such elements and explore the resulting interplay of quantum dynamics and environmental decoherence. Secondly, we critically examine some existing approaches to the numerical descripti...

  10. Mechanism of Attitude Control Device for Floating Object

    OpenAIRE

    辻, 俊明; 大西, 公平

    2003-01-01

    This paper describes the new mechanism on attitude control device for unfixed objects. Flywheel is a common attitude control device on spacecraft that provides precise control at an easy rate. However, rapid response is hardly achieved since low reaction torque is available applying flywheel. The purpose in this paper is to improve the response of attitude control device with flywheel. Brake equipment is mounted on the flywheel in order to raise the maximum torque. Maximum torque is raised dr...

  11. Solution influence on biomolecular equilibria - Nucleic acid base associations

    Science.gov (United States)

    Pohorille, A.; Pratt, L. R.; Burt, S. K.; Macelroy, R. D.

    1984-01-01

    Various attempts to construct an understanding of the influence of solution environment on biomolecular equilibria at the molecular level using computer simulation are discussed. First, the application of the formal statistical thermodynamic program for investigating biomolecular equilibria in solution is presented, addressing modeling and conceptual simplications such as perturbative methods, long-range interaction approximations, surface thermodynamics, and hydration shell. Then, Monte Carlo calculations on the associations of nucleic acid bases in both polar and nonpolar solvents such as water and carbon tetrachloride are carried out. The solvent contribution to the enthalpy of base association is positive (destabilizing) in both polar and nonpolar solvents while negative enthalpies for stacked complexes are obtained only when the solute-solute in vacuo energy is added to the total energy. The release upon association of solvent molecules from the first hydration layer around a solute to the bulk is accompanied by an increase in solute-solvent energy and decrease in solvent-solvent energy. The techniques presented are expectd to displace less molecular and more heuristic modeling of biomolecular equilibria in solution.

  12. Retroactivity in the Context of Modularly Structured Biomolecular Systems

    Science.gov (United States)

    Pantoja-Hernández, Libertad; Martínez-García, Juan Carlos

    2015-01-01

    Synthetic biology has intensively promoted the technical implementation of modular strategies in the fabrication of biological devices. Modules are considered as networks of reactions. The behavior displayed by biomolecular systems results from the information processes carried out by the interconnection of the involved modules. However, in natural systems, module wiring is not a free-of-charge process; as a consequence of interconnection, a reactive phenomenon called retroactivity emerges. This phenomenon is characterized by signals that propagate from downstream modules (the modules that receive the incoming signals upon interconnection) to upstream ones (the modules that send the signals upon interconnection). Such retroactivity signals, depending of their strength, may change and sometimes even disrupt the behavior of modular biomolecular systems. Thus, analysis of retroactivity effects in natural biological and biosynthetic systems is crucial to achieve a deeper understanding of how this interconnection between functionally characterized modules takes place and how it impacts the overall behavior of the involved cell. By discussing the modules interconnection in natural and synthetic biomolecular systems, we propose that such systems should be considered as quasi-modular. PMID:26137457

  13. Modeling and Adaptive Control of a Planar Parallel Mechanism

    Institute of Scientific and Technical Information of China (English)

    敖银辉; 陈新

    2004-01-01

    Dynamic model and control strategy of parallel mechanism have always been a problem in robotics research. In this paper,different dynamics formulation methods are discussed first, A model of redundant driven parallel mechanism with a planar parallel manipulator is then constructed as an example. A nonlinear adaptive control method is introduced. Matrix pseudo-inversion is used to get a desired actuator torque from a desired end-effector coordinate while the feedback torque is directly calculated in the actuator space. This treatment avoids forward kinematics computation that is very difficult in a parallel mechanism. Experiments with PID together with the descibed adaptive control strategy were carried out for a planar parallel mechanism. The results show that the proposed adaptive controller outperforms conventional PID methods in tracking desired input at a high speed,

  14. The Integrated Control-Mechanism in ATM-Based Networks

    Institute of Scientific and Technical Information of China (English)

    2000-01-01

    Survivability is one of the important issues in ATM-based networks since even a single network element failure may cause a serious data loss. This paper introduces a new restoration mechanism based on multi-layer ATM survivable network management architecture. This mechanism integrates the general control and restoration control by establishing the Working VPs logical network, Backup VPs logical network and spare logical network in order to optimally utilize the network resources while maintaining the restoration requirements.

  15. The Design of Wheelchair Lifting Mechanism and Control System

    Institute of Scientific and Technical Information of China (English)

    ZHAO Cong; WANG Zheng-xing; JIANG Shi-hong; ZHANG Li; LIU Zheng-yu

    2014-01-01

    In order to achieve a wheelchair lift function, this paper designs a tri-scissors mechanism. Through the so-called H-type transmission and L-type swing rod, the three scissors mechanisms lift in the same rate with only one liner motor while ensuring the stability of the lift. Finite element analysis in ANSYS is performed to verify the material strength. The control system with Sunplus SCM achieves the voice control of wheelchair walking and lifting.

  16. Mechanics and model-based control of advanced engineering systems

    CERN Document Server

    Irschik, Hans; Krommer, Michael

    2014-01-01

    Mechanics and Model-Based Control of Advanced Engineering Systems collects 32 contributions presented at the International Workshop on Advanced Dynamics and Model Based Control of Structures and Machines, which took place in St. Petersburg, Russia in July 2012. The workshop continued a series of international workshops, which started with a Japan-Austria Joint Workshop on Mechanics and Model Based Control of Smart Materials and Structures and a Russia-Austria Joint Workshop on Advanced Dynamics and Model Based Control of Structures and Machines. In the present volume, 10 full-length papers based on presentations from Russia, 9 from Austria, 8 from Japan, 3 from Italy, one from Germany and one from Taiwan are included, which represent the state of the art in the field of mechanics and model based control, with particular emphasis on the application of advanced structures and machines.

  17. An Analytical Dynamics Approach to the Control of Mechanical Systems

    Science.gov (United States)

    Mylapilli, Harshavardhan

    A new and novel approach to the control of nonlinear mechanical systems is presented in this study. The approach is inspired by recent results in analytical dynamics that deal with the theory of constrained motion. The control requirements on the dynamical system are viewed from an analytical dynamics perspective and the theory of constrained motion is used to recast these control requirements as constraints on the dynamical system. Explicit closed form expressions for the generalized nonlinear control forces are obtained by using the fundamental equation of mechanics. The control so obtained is optimal at each instant of time and causes the constraints to be exactly satisfied. No linearizations and/or approximations of the nonlinear dynamical system are made, and no a priori structure is imposed on the nature of nonlinear controller. Three examples dealing with highly nonlinear complex dynamical systems that are chosen from diverse areas of discrete and continuum mechanics are presented to demonstrate the control approach. The first example deals with the energy control of underactuated inhomogeneous nonlinear lattices (or chains), the second example deals with the synchronization of the motion of multiple coupled slave gyros with that of a master gyro, and the final example deals with the control of incompressible hyperelastic rubber-like thin cantilever beams. Numerical simulations accompanying these examples show the ease, simplicity and the efficacy with which the control methodology can be applied and the accuracy with which the desired control objectives can be met.

  18. Differential geometry-based solvation and electrolyte transport models for biomolecular modeling: a review

    Energy Technology Data Exchange (ETDEWEB)

    Wei, Guowei; Baker, Nathan A.

    2016-11-11

    This chapter reviews the differential geometry-based solvation and electrolyte transport for biomolecular solvation that have been developed over the past decade. A key component of these methods is the differential geometry of surfaces theory, as applied to the solvent-solute boundary. In these approaches, the solvent-solute boundary is determined by a variational principle that determines the major physical observables of interest, for example, biomolecular surface area, enclosed volume, electrostatic potential, ion density, electron density, etc. Recently, differential geometry theory has been used to define the surfaces that separate the microscopic (solute) domains for biomolecules from the macroscopic (solvent) domains. In these approaches, the microscopic domains are modeled with atomistic or quantum mechanical descriptions, while continuum mechanics models (including fluid mechanics, elastic mechanics, and continuum electrostatics) are applied to the macroscopic domains. This multiphysics description is integrated through an energy functional formalism and the resulting Euler-Lagrange equation is employed to derive a variety of governing partial differential equations for different solvation and transport processes; e.g., the Laplace-Beltrami equation for the solvent-solute interface, Poisson or Poisson-Boltzmann equations for electrostatic potentials, the Nernst-Planck equation for ion densities, and the Kohn-Sham equation for solute electron density. Extensive validation of these models has been carried out over hundreds of molecules, including proteins and ion channels, and the experimental data have been compared in terms of solvation energies, voltage-current curves, and density distributions. We also propose a new quantum model for electrolyte transport.

  19. Single-atom quantum control of macroscopic mechanical oscillators

    Science.gov (United States)

    Bariani, F.; Otterbach, J.; Tan, Huatang; Meystre, P.

    2014-01-01

    We investigate a hybrid electromechanical system consisting of a pair of charged macroscopic mechanical oscillators coupled to a small ensemble of Rydberg atoms. The resonant dipole-dipole coupling between an internal atomic Rydberg transition and the mechanics allows cooling to its motional ground state with a single atom despite the considerable mass imbalance between the two subsystems. We show that the rich electronic spectrum of Rydberg atoms, combined with their high degree of optical control, paves the way towards implementing various quantum-control protocols for the mechanical oscillators.

  20. Soft Time-Suboptimal Controlling Structure for Mechanical Systems

    DEFF Research Database (Denmark)

    Kulczycki, Piotr; Wisniewski, Rafal; Kowalski, Piotr

    2004-01-01

    The paper presents conception of a soft control structure based on the time-optimal approach. Its parameters are selected in accordance with the rules of the statistical decision theory and additionally it allows to eliminate rapid changes in control values. The object is a basic mechanical system...

  1. The Significance of Sedation Control in Patients Receiving Mechanical Ventilation

    OpenAIRE

    2012-01-01

    Background Adequate assessment and control of sedation play crucial roles in the proper performance of mechanical ventilation. Methods A total of 30 patients with various pulmonary diseases were prospectively enrolled. The study population was randomized into two groups. The sedation assessment group (SAG) received active protocol-based control of sedation, and in the empiric control group (ECG), the sedation levels were empirically adjusted. Subsequently, daily interruption of sedation (DIS)...

  2. Integrated design of cam mechanisms and servo-control systems

    Institute of Scientific and Technical Information of China (English)

    姚燕安[1; 颜鸿森[2; 张策[3; 邹慧君[4

    2000-01-01

    Traditionally, in a cam mechanism, the cam is driven by an actuator at a constant speed. The motion characteristics of the follower are determined once the cam profile is designed. This paper presents a novel theory named "integrated design of cam mechanisms and servo-control systems" whose basic idea is varying the input speed trajectory of the cam by a microcomputer-controlled servomotor to improve kinematic and dynamic characteristics of the follower system. The philosophy of the theory is developing superior machines by taking advantage of the flexibility of servo-control systems to compensate for disadvantages of rigid cam mechanisms. The systematic design criteria of the cam-servo-integrated system are developed and an approach based on optimal-control theory is presented for to select suitable cam speed functions, hence the basis of the theory is formed.

  3. Synthesis of dissipative output feedback controllers. Application to mechanical systems

    Energy Technology Data Exchange (ETDEWEB)

    Johannessen, Erling Aarsand

    1997-12-31

    This thesis presents new results on the synthesis of linear controllers with passivity, or more general, dissipativity properties. These methods may be applied to obtain more accurate control over mechanical systems and in the control of chemical processes that involve dissipative subsystems. The thesis presents two different approaches for synthesis of dissipative controllers: (1) A method that exploits the Riccati equation solution to the state space formulation of the H{sub {infinity}} control problem is investigated, illustrated by synthesising a controller for damping of flexible modes in a beam. (2) A more general method for dissipative control synthesis is developed that retains the well-known techniques of loop-shaping and frequency weighting in H{sub {infinity}}. A method is also presented for controller synthesis directly from frequency response data. 82 refs., 34 figs., 3 tabs.

  4. Biomolecular transport and separation in nanotubular networks.

    Energy Technology Data Exchange (ETDEWEB)

    Stachowiak, Jeanne C.; Stevens, Mark Jackson (Sandia National Laboratories, Albuquerque, NM); Robinson, David B.; Branda, Steven S.; Zendejas, Frank; Meagher, Robert J.; Sasaki, Darryl Yoshio; Bachand, George David (Sandia National Laboratories, Albuquerque, NM); Hayden, Carl C.; Sinha, Anupama; Abate, Elisa; Wang, Julia; Carroll-Portillo, Amanda (Sandia National Laboratories, Albuquerque, NM); Liu, Haiqing (Sandia National Laboratories, Albuquerque, NM)

    2010-09-01

    Cell membranes are dynamic substrates that achieve a diverse array of functions through multi-scale reconfigurations. We explore the morphological changes that occur upon protein interaction to model membrane systems that induce deformation of their planar structure to yield nanotube assemblies. In the two examples shown in this report we will describe the use of membrane adhesion and particle trajectory to form lipid nanotubes via mechanical stretching, and protein adsorption onto domains and the induction of membrane curvature through steric pressure. Through this work the relationship between membrane bending rigidity, protein affinity, and line tension of phase separated structures were examined and their relationship in biological membranes explored.

  5. Molecular mechanism of size control in development and human diseases

    Institute of Scientific and Technical Information of China (English)

    Xiaolong Yang; Tian Xu

    2011-01-01

    How multicellular organisms control their size is a fundamental question that fascinated generations of biologists.In the past 10 years, tremendous progress has been made toward our understanding of the molecular mechanism underlying size control. Original studies from Drosophila showed that in addition to extrinsic nutritional and hormonal cues, intrinsic mechanisms also play important roles in the control of organ size during development. Several novel signaling pathways such as insulin and Hippo-LATS signaling pathways have been identified that control organ size by regulating cell size and/or cell number through modulation of cell growth, cell division, and cell death. Later studies using mammalian cell and mouse models also demonstrated that the signaling pathways identified in flies are also conserved in mammals. Significantly, recent studies showed that dysregulation of size control plays important roles in the development of many human diseases sucha as cancer,diabetes,and hypertrophy.

  6. An Adaptive Variable Structure Control Scheme for Underactuated Mechanical Manipulators

    Directory of Open Access Journals (Sweden)

    Jung Hua Yang

    2012-01-01

    Full Text Available Mechanical arms have been widely used in the industry for many decades. They have played a dominant role in factory automation. However the control performance, or even system stability, would be deteriorated if some of the actuators fail during the operations. Hence, in this study, an adaptive variable structure scheme is presented to solve this problem. It is shown that, by applying the control mechanism proposed in this paper, the motion of robot systems can maintain asymptotical stability in case of actuators failure. The control algorithms as well as the convergence analysis are theoretically proved based on Lyapunov theory. In addition, to demonstrate the validity of the controller, a number of simulations as well as real-time experiments are also performed for Pendubot robot and Furuta robot systems. The results confirm the applicability of the proposed controller.

  7. Biomolecular papain thin films grown by matrix assisted and conventional pulsed laser deposition: A comparative study

    Science.gov (United States)

    György, E.; Pérez del Pino, A.; Sauthier, G.; Figueras, A.

    2009-12-01

    Biomolecular papain thin films were grown both by matrix assisted pulsed laser evaporation (MAPLE) and conventional pulsed laser deposition (PLD) techniques with the aid of an UV KrF∗ (λ =248 nm, τFWHM≅20 ns) excimer laser source. For the MAPLE experiments the targets submitted to laser radiation consisted on frozen composites obtained by dissolving the biomaterial powder in distilled water at 10 wt % concentration. Conventional pressed biomaterial powder targets were used in the PLD experiments. The surface morphology of the obtained thin films was studied by atomic force microscopy and their structure and composition were investigated by Fourier transform infrared spectroscopy. The possible physical mechanisms implied in the ablation processes of the two techniques, under comparable experimental conditions were identified. The results showed that the growth mode, surface morphology as well as structure of the deposited biomaterial thin films are determined both by the incident laser fluence value as well as target preparation procedure.

  8. Control mechanism of double-rotator-structure ternary optical computer

    Science.gov (United States)

    Kai, SONG; Liping, YAN

    2017-03-01

    Double-rotator-structure ternary optical processor (DRSTOP) has two characteristics, namely, giant data-bits parallel computing and reconfigurable processor, which can handle thousands of data bits in parallel, and can run much faster than computers and other optical computer systems so far. In order to put DRSTOP into practical application, this paper established a series of methods, namely, task classification method, data-bits allocation method, control information generation method, control information formatting and sending method, and decoded results obtaining method and so on. These methods form the control mechanism of DRSTOP. This control mechanism makes DRSTOP become an automated computing platform. Compared with the traditional calculation tools, DRSTOP computing platform can ease the contradiction between high energy consumption and big data computing due to greatly reducing the cost of communications and I/O. Finally, the paper designed a set of experiments for DRSTOP control mechanism to verify its feasibility and correctness. Experimental results showed that the control mechanism is correct, feasible and efficient.

  9. Thermal coupling at aqueous and biomolecular interfaces

    Science.gov (United States)

    Shenogina, Natalia B.

    Heat flow in the materials with nanoscopic features is dominated by thermal properties of the interfaces. While thermal properties of the solid-solid and solid-liquid interfaces are well studied, research of the thermal transport properties across soft (liquid-liquid) interfaces is very limited. Such interfaces are, however, plentiful in biological systems. In such systems the temperature control is of a great importance, because biochemical reactions, conformation of biomolecules as well as processes in biological cells and membranes have strong temperature sensitivity. The critical ingredient to temperature control in biological systems is the understanding of heat flow and thermal coupling across soft interfaces. To investigate heat transfer across biological and aqueous interfaces we chose to study a number of soft interfacial systems by means of molecular dynamic simulations. One of the interfaces under our investigation is the interface between protein (specifically green fluorescent protein) and water. Using this model we concentrated on the importance of vibrational frequency on coupling between water and proteins, and on significant differences between the roles of low and high frequency vibrations. Our thermal interfacial analysis allowed us to shed new light on to the issue of protein to water slaving, i.e., the concept of water controlling protein dynamics. Considering that the surface of the protein is composed of a complicated mixture of the hydrophobic and hydrophilic domains, to systematically explore the role of interfacial interactions we studied less complicated models with homogenous interfaces whith interfacial chemistry that could be changed in a controlled manner. We demonstrated that thermal transport measurements can be used to probe interfacial environments and to quantify interfacial bonding strength. Such ability provides a unique opportunity to characterize a variety of interfaces, which can be difficult to achieve with more direct

  10. Molecular mechanisms controlling the cell cycle in embryonic stem cells.

    Science.gov (United States)

    Abdelalim, Essam M

    2013-12-01

    Embryonic stem (ES) cells are originated from the inner cell mass of a blastocyst stage embryo. They can proliferate indefinitely, maintain an undifferentiated state (self-renewal), and differentiate into any cell type (pluripotency). ES cells have an unusual cell cycle structure, consists mainly of S phase cells, a short G1 phase and absence of G1/S checkpoint. Cell division and cell cycle progression are controlled by mechanisms ensuring the accurate transmission of genetic information from generation to generation. Therefore, control of cell cycle is a complicated process, involving several signaling pathways. Although great progress has been made on the molecular mechanisms involved in the regulation of ES cell cycle, many regulatory mechanisms remain unknown. This review summarizes the current knowledge about the molecular mechanisms regulating the cell cycle of ES cells and describes the relationship existing between cell cycle progression and the self-renewal.

  11. Mechanically implementable accommodation matrices for passive force control

    Energy Technology Data Exchange (ETDEWEB)

    Goswami, A. [Univ. of Pennsylvania, Philadelphia, PA (United States). Center for Human Modeling and Simulation; Peshkin, M. [Northwestern Univ., Evanston, IL (United States). Dept. of Mechanical Engineering

    1999-08-01

    Robot force control implemented by means of passive mechanical devices has inherent advantages over active implementations with regard to stability, response rapidity, and physical robustness. The class of devices considered in this paper consists of a Stewart platform-type mechanism interconnected with a network of adjustable mechanical elements such as springs and dampers. The control law repertoire of such a device, imagined as a robot wrist, is given by the range of admittance matrices that it may be programmed to possess. This paper focuses on wrists incorporating damper networks for which the admittance matrices reduce to accommodation or inverse-damping matrices. The authors show that a hydraulic network of fully adjustable damper elements may attain any diagonally dominant accommodation matrix. They describe the technique of selecting the individual damping coefficients to design a desired matrix. They identify the set of dominant matrices as a polyhedral convex cone in the space of matrix entries, and show that each dominant matrix can be composed of a positive linear combination of a fixed set of basis matrices. The overall wrist-accommodation matrix is obtained by projecting the accommodation matrix of the damper network through the wrist kinematics. The linear combination of the dominant basis matrices projected through the wrist kinematics generates the entire space of mechanically implementable force-control laws. The authors quantify the versatility of mechanically implementable force-control laws by comparing this space to the space of all matrices.

  12. Mechanical Response of DNA–Nanoparticle Crystals to Controlled Deformation

    Science.gov (United States)

    2016-01-01

    The self-assembly of DNA-conjugated nanoparticles represents a promising avenue toward the design of engineered hierarchical materials. By using DNA to encode nanoscale interactions, macroscale crystals can be formed with mechanical properties that can, at least in principle, be tuned. Here we present in silico evidence that the mechanical response of these assemblies can indeed be controlled, and that subtle modifications of the linking DNA sequences can change the Young’s modulus from 97 kPa to 2.1 MPa. We rely on a detailed molecular model to quantify the energetics of DNA–nanoparticle assembly and demonstrate that the mechanical response is governed by entropic, rather than enthalpic, contributions and that the response of the entire network can be estimated from the elastic properties of an individual nanoparticle. The results here provide a first step toward the mechanical characterization of DNA–nanoparticle assemblies, and suggest the possibility of mechanical metamaterials constructed using DNA. PMID:27725959

  13. Design and control of a high precision drive mechanism

    Science.gov (United States)

    Pan, Bo; He, Yongqiang; Wang, Haowei; Zhang, Shuyang; Zhang, Donghua; Wei, Xiaorong; Jiang, Zhihong

    2017-01-01

    This paper summarizes the development of a high precision drive mechanism (HPDM) for space application, such as the directional antenna, the laser communication device, the mobile camera and other pointing mechanisms. In view of the great practical significance of high precision drive system, control technology for permanent magnet synchronous motor (PMSM) servo system is also studied and a PMSM servo controller is designed in this paper. And the software alignment was applied to the controller to eliminate the steady error of the optical encoder, which helps to realize the 1 arcsec (1σ) control precision. To assess its capabilities, the qualification environment testing including the thermal vacuum cycling testing, and the sinusoidal and random vibration were carried out. The testing results show that the performance of the HPDM is almost the same between the former and the end of each testing.

  14. Combination of the Sorting Line Priority Polling Control Mechanism

    Directory of Open Access Journals (Sweden)

    Wenxue Ran

    2013-10-01

    Full Text Available The paper proposed the priority polling control mechanism of the unit material combinations sorting lines, and sorters operating process is understood to be the arrival process of orders, service process of each sorter sorts orders and the conversion process between sorting machines. Control process, sorters of the combined sorting lines are divided into the priority sorters and ordinary sorters, priority sorters use full service control, ordinary sorters use limited service (k = 1, applies the polling service system theory, through the embedded Markov chain and probability generating function to establish the mathematical model of the system, the exact solution of the control mechanism of the polling system model and the first and second characteristic parameters, combined with the actual production priority parameters of orders picking for simulation analysis

  15. Mechanisms of active control for noise inside a vibrating cylinder

    Science.gov (United States)

    Lester, Harold C.; Fuller, Chris R.

    1987-01-01

    The active control of propeller-induced noise fields inside a flexible cylinder is studied with attention given to the noise reduction mechanisms inherent in the present coupled acoustic shell model. The active noise control model consists of an infinitely long aluminum cylinder with a radius of 0.4 m and a thickness of 0.001 m. Pressure maps are shown when the two external sources are driven in-phase at a frequency corresponding to Omega = 0.22.

  16. Control of a perturbed under-actuated mechanical system

    KAUST Repository

    Zayane, Chadia

    2015-11-05

    In this work, the trajectory tracking problem for an under-actuated mechanical system in presence of unknown input disturbances is addressed. The studied inertia wheel inverted pendulum falls in the class of non minimum phase systems. The proposed high order sliding mode control architecture including a controller and differentiator allows to track accurately the predefined trajectory and to stabilize the internal dynamics. The robustness of the proposed approach is illustrated through different perturbation and output noise configurations.

  17. Improvement Research of Control Rod Drive Mechanism in CARR

    Institute of Scientific and Technical Information of China (English)

    ZHU; Xue-wei; ZHEN; Jian-xiao; LUO; Zhong; YANG; Kun; WANG; Yi-shi; JIA; Yue-guang

    2013-01-01

    We take an improvement research of synchronization in process of control rod drive mechanism(CRDM)inversion.An experimental prototype is designed based on the structure and function of the CRDM,we take some experiments on this experimental prototype,such as maximum loading force experiment,coil temperature rise experiment and stiffness experiment,achieve important magnetic

  18. Mechanism and control of Genipa americana seed germination

    NARCIS (Netherlands)

    Queiroz, S.E.E.; Silva, da E.A.A.; Davide, A.C.; Jose, A.C.; Silva, A.T.; Fraiz, A.C.R.; Faria, J.M.R.; Hilhorst, H.W.M.

    2012-01-01

    Genipa americana (Rubiaceae) is important for restoration of riparian forest in the Brazilian Cerrado. The objective was to characterize the mechanism and control of germination of G. americana to support uniform seedling production. Morphology and morphometrics of seeds, embryo and endosperm were a

  19. Quasivelocities and Optimal Control for Underactuated Mechanical Systems

    CERN Document Server

    Colombo, L

    2010-01-01

    This paper is concerned with the application of the theory of quasivelocities for optimal control for underactuated mechanical systems. Using this theory, we convert the original problem in a variational second-order lagrangian system subjected to constraints. The equations of motion are geometrically derived using an adaptation of the classical Skinner and Rusk formalism.

  20. Quasivelocities and Optimal Control for underactuated Mechanical Systems

    Science.gov (United States)

    Colombo, L.; de Diego, D. Martín

    2010-07-01

    This paper is concerned with the application of the theory of quasivelocities for optimal control for underactuated mechanical systems. Using this theory, we convert the original problem in a variational second-order lagrangian system subjected to constraints. The equations of motion are geometrically derived using an adaptation of the classical Skinner and Rusk formalism.

  1. Fluid Mechanics of Wing Adaptation for Separation Control

    Science.gov (United States)

    Chandrasekhara, M. S.; Wilder, M. C.; Carr, L. W.; Davis, Sanford S. (Technical Monitor)

    1997-01-01

    The unsteady fluid mechanics associated with use of a dynamically deforming leading edge airfoil for achieving compressible flow separation control has been experimentally studied. Changing the leading edge curvature at rapid rates dramatically alters the flow vorticity dynamics which is responsible for the many effects observed in the flow.

  2. Context-Based E-Health System Access Control Mechanism

    Science.gov (United States)

    Al-Neyadi, Fahed; Abawajy, Jemal H.

    E-Health systems logically demand a sufficiently fine-grained authorization policy for access control. The access to medical information should not be just role-based but should also include the contextual condition of the role to access data. In this paper, we present a mechanism to extend the standard role-based access control to incorporate contextual information for making access control decisions in e-health application. We present an architecture consisting of authorisation and context infrastructure that work cooperatively to grant access rights based on context-aware authorization policies and context information.

  3. Pressure and volume controlled mechanical ventilation in anaesthetized pregnant sheep.

    Science.gov (United States)

    Davis, J; Musk, G C

    2014-10-01

    Optimal mechanical ventilation of the pregnant ewe during anaesthesia is of vital importance for maintaining fetal viability. This study aimed to compare peak inspiratory pressure (PIP), oxygenation and cardiovascular parameters with pressure-control (PCV) or volume-control (VCV) mechanical ventilation of anaesthetized pregnant sheep. Twenty ewes at 110 days gestation underwent general anaesthesia in dorsal recumbency for fetal surgery in a research setting. All the sheep were mechanically ventilated; one group with PCV (n = 10) and another with VCV (n = 10) to maintain normocapnia. PIP, direct arterial blood pressure, heart rate, arterial pH and arterial oxygen tension were recorded. PIP was lower in the PCV group (P sheep anaesthetized in dorsal recumbency, though PCV may provide superior oxygenation at a lower PIP.

  4. The Effect of Headquarter Integration Mechanisms on Subsidiaries’ New Product Success: From Control to Coordination Mechanism

    Directory of Open Access Journals (Sweden)

    Firmanzah

    2007-10-01

    Full Text Available New product launching (NPL to the local market by subsidiary managers is a strategic activity, which requires organizational supports from MNC global network. The NPL activity is marked by high level of uncertainty, risk, and market failure. Thus, a headquarter needs to integrate the subsidiary NPL into global strategy. There are two mechanisms to integrate subsidiaries’ activities during NPL process; coordination and control process. By testing the effect of each mechanism on role clarity and functional conflict, I found that coordination mechanism increase role clarity between headquarter and subsidiaries’ managers. In contrast, exercising control mechanism reduces role clarity and functional conflict between headquarter and subsidiaries’ managers during NPL. This research shows that both role clarity and functional conflict increase new product commercial performance introduced by subsidiary in the local market.

  5. MPBEC, a Matlab Program for Biomolecular Electrostatic Calculations.

    Science.gov (United States)

    Vergara-Perez, Sandra; Marucho, Marcelo

    2016-01-01

    One of the most used and efficient approaches to compute electrostatic properties of biological systems is to numerically solve the Poisson-Boltzmann (PB) equation. There are several software packages available that solve the PB equation for molecules in aqueous electrolyte solutions. Most of these software packages are useful for scientists with specialized training and expertise in computational biophysics. However, the user is usually required to manually take several important choices, depending on the complexity of the biological system, to successfully obtain the numerical solution of the PB equation. This may become an obstacle for researchers, experimentalists, even students with no special training in computational methodologies. Aiming to overcome this limitation, in this article we present MPBEC, a free, cross-platform, open-source software that provides non-experts in the field an easy and efficient way to perform biomolecular electrostatic calculations on single processor computers. MPBEC is a Matlab script based on the Adaptative Poisson Boltzmann Solver, one of the most popular approaches used to solve the PB equation. MPBEC does not require any user programming, text editing or extensive statistical skills, and comes with detailed user-guide documentation. As a unique feature, MPBEC includes a useful graphical user interface (GUI) application which helps and guides users to configure and setup the optimal parameters and approximations to successfully perform the required biomolecular electrostatic calculations. The GUI also incorporates visualization tools to facilitate users pre- and post- analysis of structural and electrical properties of biomolecules.

  6. MPBEC, a Matlab Program for Biomolecular Electrostatic Calculations

    Science.gov (United States)

    Vergara-Perez, Sandra; Marucho, Marcelo

    2016-01-01

    One of the most used and efficient approaches to compute electrostatic properties of biological systems is to numerically solve the Poisson-Boltzmann (PB) equation. There are several software packages available that solve the PB equation for molecules in aqueous electrolyte solutions. Most of these software packages are useful for scientists with specialized training and expertise in computational biophysics. However, the user is usually required to manually take several important choices, depending on the complexity of the biological system, to successfully obtain the numerical solution of the PB equation. This may become an obstacle for researchers, experimentalists, even students with no special training in computational methodologies. Aiming to overcome this limitation, in this article we present MPBEC, a free, cross-platform, open-source software that provides non-experts in the field an easy and efficient way to perform biomolecular electrostatic calculations on single processor computers. MPBEC is a Matlab script based on the Adaptative Poisson-Boltzmann Solver, one of the most popular approaches used to solve the PB equation. MPBEC does not require any user programming, text editing or extensive statistical skills, and comes with detailed user-guide documentation. As a unique feature, MPBEC includes a useful graphical user interface (GUI) application which helps and guides users to configure and setup the optimal parameters and approximations to successfully perform the required biomolecular electrostatic calculations. The GUI also incorporates visualization tools to facilitate users pre- and post-analysis of structural and electrical properties of biomolecules.

  7. Knowledge based cluster ensemble for cancer discovery from biomolecular data.

    Science.gov (United States)

    Yu, Zhiwen; Wongb, Hau-San; You, Jane; Yang, Qinmin; Liao, Hongying

    2011-06-01

    The adoption of microarray techniques in biological and medical research provides a new way for cancer diagnosis and treatment. In order to perform successful diagnosis and treatment of cancer, discovering and classifying cancer types correctly is essential. Class discovery is one of the most important tasks in cancer classification using biomolecular data. Most of the existing works adopt single clustering algorithms to perform class discovery from biomolecular data. However, single clustering algorithms have limitations, which include a lack of robustness, stability, and accuracy. In this paper, we propose a new cluster ensemble approach called knowledge based cluster ensemble (KCE) which incorporates the prior knowledge of the data sets into the cluster ensemble framework. Specifically, KCE represents the prior knowledge of a data set in the form of pairwise constraints. Then, the spectral clustering algorithm (SC) is adopted to generate a set of clustering solutions. Next, KCE transforms pairwise constraints into confidence factors for these clustering solutions. After that, a consensus matrix is constructed by considering all the clustering solutions and their corresponding confidence factors. The final clustering result is obtained by partitioning the consensus matrix. Comparison with single clustering algorithms and conventional cluster ensemble approaches, knowledge based cluster ensemble approaches are more robust, stable and accurate. The experiments on cancer data sets show that: 1) KCE works well on these data sets; 2) KCE not only outperforms most of the state-of-the-art single clustering algorithms, but also outperforms most of the state-of-the-art cluster ensemble approaches.

  8. Photochirogenesis: Photochemical Models on the Origin of Biomolecular Homochirality

    Directory of Open Access Journals (Sweden)

    Cornelia Meinert

    2010-05-01

    Full Text Available Current research focuses on a better understanding of the origin of biomolecular asymmetry by the identification and detection of the possibly first chiral molecules that were involved in the appearance and evolution of life on Earth. We have reasons to assume that these molecules were specific chiral amino acids. Chiral amino acids have been identified in both chondritic meteorites and simulated interstellar ices. Present research reasons that circularly polarized electromagnetic radiation was identified in interstellar environments and an asymmetric interstellar photon-molecule interaction might have triggered biomolecular symmetry breaking. We review on the possible prebiotic interaction of ‘chiral photons’ in the form of circularly polarized light, with early chiral organic molecules. We will highlight recent studies on enantioselective photolysis of racemic amino acids by circularly polarized light and experiments on the asymmetric photochemical synthesis of amino acids from only one C and one N containing molecules by simulating interstellar environments. Both approaches are based on circular dichroic transitions of amino acids that will be presented as well.

  9. Programming in Biomolecular Computation: Programs, Self-Interpretation and Visualisation

    Directory of Open Access Journals (Sweden)

    J.G. Simonsen

    2011-01-01

    Full Text Available Our goal is to provide a top-down approach to biomolecular computation. In spite of widespread discussion about connections between biology and computation, one question seems notable by its absence: Where are the programs? We identify a number of common features in programming that seem conspicuously absent from the literature on biomolecular computing; to partially redress this absence, we introduce a model of computation that is evidently programmable, by programs reminiscent of low-level computer machine code; and at the same time biologically plausible: its functioning is defined by a single and relatively small set of chemical-like reaction rules. Further properties: the model is stored-program: programs are the same as data, so programs are not only executable, but are also compilable and interpretable. It is universal: all computable functions can be computed (in natural ways and without arcane encodings of data and algorithm; it is also uniform: new ``hardware'' is not needed to solve new problems; and (last but not least it is Turing complete in a strong sense: a universal algorithm exists, that is able to execute any program, and is not asymptotically inefficient.

  10. A New Lyapunov Based Robust Control for Uncertain Mechanical Systems

    Institute of Scientific and Technical Information of China (English)

    ZHEN Sheng-Chao; ZHAO Han; CHEN Ye-Hwa; HUANG Kang

    2014-01-01

    We design a new robust controller for uncertain mechanical systems. The inertia matrix0s singularity and upper bound property are first analyzed. It is shown that the inertia matrix may be positive semi-definite due to over-simplified model. Further-more, the inertia matrix0s being uniformly bounded above is also limited. A robust controller is proposed to suppress the effect of uncertainty in mechanical systems with the assumption of uniform positive definiteness and upper bound of the inertia matrix. We theoretically prove that the robust control renders uniform boundedness and uniform ultimate boundedness. The size of the ultimate boundedness ball can be made arbitrarily small by the designer. Simulation results are presented and discussed.

  11. Optimal piezo-electro-mechanical coupling to control plate vibrations

    CERN Document Server

    Alessandroni, S; Frezza, F

    2010-01-01

    A new way of coupling electrical and mechanical waves, using piezoelectric effect, is presented here. Since the energy exchange between two systems supporting wave propagation is maximum when their evolution is governed by similar equations, hence, an optimal electromechanical coupling is obtained by designing an electric network which is "analog" to the mechanical structure to be controlled. In this paper, we exploit this idea to enhance the coupling, between a Kirchhoff-Love plate and one possible synthesis of its circuital analog, as obtained by means of a set of piezoelectric actuators uniformly distributed upon the plate. It is shown how this approach allows for an optimal energy exchange between the mechanic and the electric forms independent of the modal evolution of the structure. Moreover, we show how an efficient electric dissipation of the mechanical energy can be obtained adding dissipative elements in the electric network.

  12. Control of autoresonance in mechanical and physical models

    Science.gov (United States)

    Kovaleva, A.

    2017-03-01

    Autoresonant energy transfer has been considered as one of the most effective methods of excitation and control of high-energy oscillations for a broad range of physical and engineering systems. Nonlinear time-invariant feedback control provides effective self-tuning and self-adaptation mechanisms targeted at preserving resonance oscillations under variations of the system parameters but its implementation may become extremely complicated. A large class of systems can avoid nonlinear feedback, still producing the required state due to time-variant feed-forward frequency control. This type of control in oscillator arrays employs an intrinsic property of a nonlinear oscillator to vary both its amplitude and the frequency when the driving frequency changes. This paper presents a survey of recently published and new results studying possibilities and limitations of time-variant frequency control in nonlinear oscillator arrays. This article is part of the themed issue 'Horizons of cybernetical physics'.

  13. The Mechanics and Trajectory Control in Locust Jumping

    Institute of Scientific and Technical Information of China (English)

    Longbao Han; Zhouyi Wang; Aihong Ji; Zhendong Dai

    2013-01-01

    Locusts (Locusta migratoria manilensis) are characterised by their flying ability and abiding jump ability.Research on the jumping mechanics and behavior of locusts plays an important role in elucidating the mechanism of hexapod locomotion.The jump gestures of locusts were observed using high-speed video camera at 250 fps.The reaction forces of the hindlegs were measured using two three-dimensional sensors,in case the two hindlegs attached on separated sensor plates.The jump gestures and reaction forces were used to illustrate the locust jumping mechanism.Results show that the trajectory control is achieved by rapid rolling and yawing movements of the locust body,caused by the forelegs,midlegs and hindlegs in different jumping phases.The final jump trajectory was not determined until hind tarsi left platform.The horizontal co-impulse between two hindlegs might play a key role in jump stability and accuracy.Besides,the angle between two hindlegs affects the control of jump trajectory but has a little effect on the elevation angle of a jump,which is controlled mechanically by the initial position of the hindlegs.This research lays the groundwork for the probable design and development of biomimetic robotics.

  14. Flow around a semicircular cylinder with passive flow control mechanisms

    Science.gov (United States)

    Hamed, A. M.; Vega, J.; Liu, B.; Chamorro, L. P.

    2017-03-01

    Wind tunnel experiments were performed to study the effect of passive flow control strategies on the wake and drag of a semicircular cylinder of infinite aspect ratio. High-resolution planar particle image velocimetry was used to obtain flow statistics around the semicircular cylinder at Reynolds number Re≈ 3.2× 10^4 based on the cylinder diameter. The control mechanisms under consideration include rigid flaps of various lengths placed at the edges of the structure and a small slot along the symmetry plane of the cylinder. Mean velocity fields reveal the distinctive effects of each passive mechanism on the flow, such as velocity recovery, size of the recirculation bubble and location of the reattachment point. The distributions of turbulence kinetic energy and kinematic shear stress show the modulation of each passive control mechanism on the wake, including the onset and location of the maximum turbulence levels. Instantaneous and mean fields of swirling strength further highlight the role of the passive mechanisms in the vortex dynamics. Drag coefficient for the various cases was estimated indirectly from the flow measurements using a momentum balance. This approach shows that long flaps and slot were able to reduce drag with respect to the base case. The rigid flaps with length coincident with the diameter of the cylinder offered the best performance with drag reduction of ˜25%.

  15. Adaptive mechanism-based congestion control for networked systems

    Science.gov (United States)

    Liu, Zhi; Zhang, Yun; Chen, C. L. Philip

    2013-03-01

    In order to assure the communication quality in network systems with heavy traffic and limited bandwidth, a new ATRED (adaptive thresholds random early detection) congestion control algorithm is proposed for the congestion avoidance and resource management of network systems. Different to the traditional AQM (active queue management) algorithms, the control parameters of ATRED are not configured statically, but dynamically adjusted by the adaptive mechanism. By integrating with the adaptive strategy, ATRED alleviates the tuning difficulty of RED (random early detection) and shows a better control on the queue management, and achieve a more robust performance than RED under varying network conditions. Furthermore, a dynamic transmission control protocol-AQM control system using ATRED controller is introduced for the systematic analysis. It is proved that the stability of the network system can be guaranteed when the adaptive mechanism is finely designed. Simulation studies show the proposed ATRED algorithm achieves a good performance in varying network environments, which is superior to the RED and Gentle-RED algorithm, and providing more reliable service under varying network conditions.

  16. The Dark Energy Spectroscopic Instrument (DESI) instrument mechanism control systems

    Science.gov (United States)

    Coker, Carl T.; Pappalardo, Daniel; Pogge, Richard; Martini, Paul; Derwent, Mark; O'Brien, Thomas P.; Honscheid, Klaus

    2016-08-01

    The Dark Energy Spectroscopic Instrument (DESI) is under construction to measure the expansion history of the Universe using the Baryon Acoustic Oscillation technique. The spectra of 40 million galaxies over 14,000 sq deg will be measured during the life of the experiment. A new prime focus corrector for the KPNO Mayall telescope will deliver light to 5,000 fiber optic positioners. The fibers in turn feed ten broad-band spectrographs. We present the design details of the instrument mechanism control systems for the spectrographs. Each spectrograph has a stand-alone mechanism control box that operates the unit's four remotely-operated mechanisms (two shutters and two Hartmannn doors), and provides a suite of temperature and humidity sensors. Each control box is highly modular, and is operated by a dedicated on-board Linux computer to provide all of the control and monitoring functions. We describe our solution for integrating a number of network-connected devices within each unit spectrograph, and describe the basic software architecture.

  17. Altered neuromuscular control mechanisms of the trapezius muscle in fibromyalgia

    Directory of Open Access Journals (Sweden)

    Karlsson Stefan J

    2010-03-01

    Full Text Available Abstract Background fibromyalgia is a relatively common condition with widespread pain and pressure allodynia, but unknown aetiology. For decades, the association between motor control strategies and chronic pain has been a topic for debate. One long held functional neuromuscular control mechanism is differential activation between regions within a single muscle. The aim of this study was to investigate differences in neuromuscular control, i.e. differential activation, between myalgic trapezius in fibromyalgia patients and healthy controls. Methods 27 fibromyalgia patients and 30 healthy controls performed 3 minutes bilateral shoulder elevations with different loads (0-4 Kg with a high-density surface electromyographical (EMG grid placed above the upper trapezius. Differential activation was quantified by the power spectral median frequency of the difference in EMG amplitude between the cranial and caudal parts of the upper trapezius. The average duration of the differential activation was described by the inverse of the median frequency of the differential activations. Results the median frequency of the differential activations was significantly lower, and the average duration of the differential activations significantly longer in fibromyalgia compared with controls at the two lowest load levels (0-1 Kg (p Conclusion these findings illustrate a different neuromuscular control between fibromyalgia patients and healthy controls during a low load functional task, either sustaining or resulting from the chronic painful condition. The findings may have clinical relevance for rehabilitation strategies for fibromyalgia.

  18. Comparative Study on New AQM Mechanisms for Congestion Control

    Directory of Open Access Journals (Sweden)

    Ramakrishna B B

    2013-09-01

    Full Text Available As usage of network goes increasing day by day, managing network traffic becomes a very difficult task. It is important to avoid high packet loss rates in the Internet. Congestion is the one of the major issue in the present networks. Congestion Control is one of the solutions adopted to solve the congestion issue and to control it. Numbers of queue management algorithms are proposed for congestion control and to reduce high packet loss rates. Active Queue Management (AQM is one such mechanism which provides better control over congestion. In this paper a study is made on recent load based AQM techniques that are proposed and its merits and shortfall is presented.

  19. Biomimetic Control of Mechanical Systems Equipped with Musculotendon Actuators

    Institute of Scientific and Technical Information of China (English)

    Javier Moreno-Valenzuela; Adriana Salinas-Avila

    2011-01-01

    This paper addresses the problem of modelling, control, and simulation of a mechanical system actuated by an agonist-antagonist musculotendon subsystem. Contraction dynamics is given by case I of Zajac's model. Saturated semi positive proportional-derivative-type controllers with switching as neural excitation inputs are proposed. Stability theory of switched system and SOSTOOLS, which is a sum of squares optimization toolbox of Matlab, are used to determine the stability of the obtained closed-loop system. To corroborate the obtained theoretical results numerical simulations are carried out. As additional contribution, the discussed ideas are applied to the biomimetic control of a DC motor, i.e., the position control is addressed assuming the presence of musculotendon actuators. Real-experiments corroborate the expected results.

  20. Controlling chaos based on an adaptive nonlinear compensator mechanism

    Institute of Scientific and Technical Information of China (English)

    Tian Ling-Ling; Li Dong-Hai; Sun Xian-Fang

    2008-01-01

    The control problems of chaotic systems are investigated in the presence of parametric uncertainty and persistent external disturbances based on nonlinear control theory.By using a designed nonlinear compensator mechanism,the system deterministic nonlinearity,parametric uncertainty and disturbance effect can be compensated effectively.The renowned chaotic Lorenz system subjected to parametric variations and external disturbances is studied as an illustrative example.From the Lyapunov stability theory,sufficient conditions for choosing control parameters to guarantee chaos control are derived.Several experiments are carried out,including parameter change experiments,set-point change experiments and disturbance experiments.Simulation results indicate that the chaotic motion can be regulated not only to steady states but also to any desired periodic orbits with great immunity to parametric variations and external disturbances.

  1. Quality control of injection moulded micro mechanical parts

    DEFF Research Database (Denmark)

    Gasparin, Stefania; Tosello, Guido; Hansen, Hans Nørgaard

    2009-01-01

    Quality control of micro components is an increasing challenge. Smaller mechanical parts are characterized by smaller tolerance to be verified. This paper focuses on the dimensional verification of micro injection moulded components selected from an industrial application. These parts are measured...... using an Optical Coordinate Measuring Machine (OCMM), which guarantees fast surface scans suitable for in line quality control. The uncertainty assessment of the measurements is calculated following the substitution method. To investigate the influence parameters in optical coordinate metrology two...... analyses are carried out and discussed. The estimation of the total variability of optical measurements and instrument repeatability are reported....

  2. Optimal control of underactuated mechanical systems: A geometric approach

    Science.gov (United States)

    Colombo, Leonardo; Martín De Diego, David; Zuccalli, Marcela

    2010-08-01

    In this paper, we consider a geometric formalism for optimal control of underactuated mechanical systems. Our techniques are an adaptation of the classical Skinner and Rusk approach for the case of Lagrangian dynamics with higher-order constraints. We study a regular case where it is possible to establish a symplectic framework and, as a consequence, to obtain a unique vector field determining the dynamics of the optimal control problem. These developments will allow us to develop a new class of geometric integrators based on discrete variational calculus.

  3. Optimal Control of Underactuated Mechanical Systems: A Geometric Approach

    CERN Document Server

    Colombo, L; Zuccalli, M

    2009-01-01

    In this paper, we consider a geometric formalism for optimal control of underactuated mechanical systems. Our techniques are an adaptation of the classical Skinner and Rusk approach for the case of Lagrangian dynamics with higher-order constraints. We study a regular case where it is possible to establish a symplectic framework and, as a consequence, to obtain a unique vector field determining the dynamics of the optimal control problem. These developments will allow us to develop a new class of geometric integrators based on discrete variational calculus.

  4. Antenna mechanism of length control of actin cables

    CERN Document Server

    Mohapatra, Lishibanya; Kondev, Jane

    2014-01-01

    Actin cables are linear cytoskeletal structures that serve as tracks for myosin-based intracellular transport of vesicles and organelles in both yeast and mammalian cells. In a yeast cell undergoing budding, cables are in constant dynamic turnover yet some cables grow from the bud neck toward the back of the mother cell until their length roughly equals the diameter of the mother cell. This raises the question: how is the length of these cables controlled? Here we describe a novel molecular mechanism for cable length control inspired by recent experimental observations in cells. This antenna mechanism involves three key proteins: formins, which polymerize actin, Smy1 proteins, which bind formins and inhibit actin polymerization, and myosin motors, which deliver Smy1 to formins, leading to a length-dependent actin polymerization rate. We compute the probability distribution of cable lengths as a function of several experimentally tuneable parameters such as the formin-binding affinity of Smy1 and the concentra...

  5. Mechanization and Control Concepts for Biologically Inspired Micro Aerial Vehicles

    Science.gov (United States)

    Raney, David L.; Slominski, Eric C.

    2003-01-01

    It is possible that MAV designs of the future will exploit flapping flight in order to perform missions that require extreme agility, such as rapid flight beneath a forest canopy or within the confines of a building. Many of nature's most agile flyers generate flapping motions through resonant excitation of an aeroelastically tailored structure: muscle tissue is used to excite a vibratory mode of their flexible wing structure that creates propulsion and lift. A number of MAV concepts have been proposed that would operate in a similar fashion. This paper describes an ongoing research activity in which mechanization and control concepts with application to resonant flapping MAVs are being explored. Structural approaches, mechanical design, sensing and wingbeat control concepts inspired by hummingbirds, bats and insects are examined. Experimental results from a testbed capable of generating vibratory wingbeat patterns that approximately match those exhibited by hummingbirds in hover, cruise, and reverse flight are presented.

  6. Systematic evaluation of bundled SPC water for biomolecular simulations.

    Science.gov (United States)

    Gopal, Srinivasa M; Kuhn, Alexander B; Schäfer, Lars V

    2015-04-07

    In bundled SPC water models, the relative motion of groups of four water molecules is restrained by distance-dependent potentials. Bundled SPC models have been used in hybrid all-atom/coarse-grained (AA/CG) multiscale simulations, since they enable to couple atomistic SPC water with supra-molecular CG water models that effectively represent more than a single water molecule. In the present work, we systematically validated and critically tested bundled SPC water models as solvent for biomolecular simulations. To that aim, we investigated both thermodynamic and structural properties of various biomolecular systems through molecular dynamics (MD) simulations. Potentials of mean force of dimerization of pairs of amino acid side chains as well as hydration free energies of single side chains obtained with bundled SPC and standard (unrestrained) SPC water agree closely with each other and with experimental data. Decomposition of the hydration free energies into enthalpic and entropic contributions reveals that in bundled SPC, this favorable agreement of the free energies is due to a larger degree of error compensation between hydration enthalpy and entropy. The Ramachandran maps of Ala3, Ala5, and Ala7 peptides are similar in bundled and unrestrained SPC, whereas for the (GS)2 peptide, bundled water leads to a slight overpopulation of extended conformations. Analysis of the end-to-end distance autocorrelation times of the Ala5 and (GS)2 peptides shows that sampling in more viscous bundled SPC water is about two times slower. Pronounced differences between the water models were found for the structure of a coiled-coil dimer, which is instable in bundled SPC but not in standard SPC. In addition, the hydration of the active site of the serine protease α-chymotrypsin depends on the water model. Bundled SPC leads to an increased hydration of the active site region, more hydrogen bonds between water and catalytic triad residues, and a significantly slower exchange of water

  7. A Dynamic Adaptive Layered Multicast Congestion Control Mechanism

    Institute of Scientific and Technical Information of China (English)

    REN Liyong; LU Xianliang; WEI Qingsong; ZHOU Xu

    2003-01-01

    To solve the problem that most of existing layered multicast protocols cannot adapt to dynamic network conditions because their layers are coarsely granulated and static, a new congestion control mechanism for dynamic adaptive layered multicast(DALM) is presented. In this mechanism, a novel feedback aggregating algorithm is put forward, which can dynamically determine the number of layers and the rate of each layer, and can efficiently improve network bandwidth utilization ratio.Additionally, because all layers is transmitted in only one group, the intricate and time-consuming internet group management protocol(IGMP) operations, caused by receiver joining a new layer or leaving the topmost subscribed layer, are thoroughly eliminated. And this mechanism also avoids other problems resulted from multiple groups. Simulation results show that DALM is adaptive and TCP friendly.

  8. Invasive mechanism and control strategy of Ageratina adenophora (Sprengel)

    Institute of Scientific and Technical Information of China (English)

    2010-01-01

    In order to ascertain the invasive mechanism and control strategy of the invasive Crofton weed, Ageratina adenophora, its ecological adaptability and population differentiation,the formation of single dominant population, displacement of native plants and sustainable management strategies were investigated. The present results helped to clarify and explain such issues as the adaptability post invasion,interaction and competition between inter-and intra-species and community resistance, thereby providing important references to researches on other invasive alien species.

  9. Immunosensor with Fluid Control Mechanism for Salivary Cortisol Analysis

    OpenAIRE

    Yamaguchi, Masaki; Matsuda, Yohei; Sasaki, Shohei; Sasaki, Makoto; Kadoma, Yoshihiro; Imai, Yoshikatsu; Niwa, Daisuke; Shetty, Vivek

    2012-01-01

    The purpose of this research is to demonstrate a new design for a cortisol immunosensor for the noninvasive and quantitative analysis of salivary cortisol. We propose a cortisol immunosensor with a fluid control mechanism which has both a vertical flow and a lateral flow. The detected current resulting from a competitive reaction between the sample cortisol and a glucose oxidase (GOD)-labeled cortisol conjugate was found to be inversely related to the concentration of cortisol in the sample s...

  10. Mechanisms of control of microRNA biogenesis

    OpenAIRE

    Davis-Dusenbery, Brandi N.; Hata, Akiko

    2010-01-01

    MicroRNAs (miRNAs) are a class of ∼22 nt non-coding RNAs that control diverse biological functions in animals, plants and unicellular eukaryotes by promoting degradation or inhibition of translation of target mRNAs. miRNA expression is often tissue specific and developmentally regulated. Aberrant expression of miRNAs has been linked to developmental abnormalities and human diseases, including cancer and cardiovascular disorders. The recent identification of mechanisms of miRNA biogenesis regu...

  11. Multi-finger prehension: control of a redundant mechanical system.

    Science.gov (United States)

    Latash, Mark L; Zatsiorsky, Vladimir M

    2009-01-01

    The human hand has been a fascinating object of study for researchers in both biomechanics and motor control. Studies of human prehension have contributed significantly to the progress in addressing the famous problem of motor redundancy. After a brief review of the hand mechanics, we present results of recent studies that support a general view that the apparently redundant design of the hand is not a source of computational problems but a rich apparatus that allows performing a variety of tasks in a reliable and flexible way (the principle of abundance). Multi-digit synergies have been analyzed at two levels of a hypothetical hierarchy involved in the control of prehensile actions. At the upper level, forces and moments produced by the thumb and virtual finger (an imagined finger with a mechanical action equal to the combined mechanical action of all four fingers of the hand) co-vary to stabilize the gripping action and the orientation of the hand-held object. These results support the principle of superposition suggested earlier in robotics with respect to the control of artificial grippers. At the lower level of the hierarchy, forces and moments produced by individual fingers co-vary to stabilize the magnitude and direction of the force vector and the moment of force produced by the virtual finger. Adjustments to changes in task constraints (such as, for example, friction under individual digits) may be local and synergic. The latter reflect multi-digit prehension synergies and may be analyzed with the so-called chain effects: Sequences of relatively straightforward cause-effect links directly related to mechanical constraints leading to non-trivial strong co-variation between pairs of elemental variables. Analysis of grip force adjustments during motion of hand-held objects suggests that the central nervous system adjusts to gravitational and inertial loads differently. The human hand is a gold mine for researchers interested in the control of natural human

  12. CONFIGURATION CONTROLLABILITY FOR NON-ZERO POTENTIAL MECHANICAL CONTROL SYSTEMS WITH DISSIPATION

    Institute of Scientific and Technical Information of China (English)

    KANG Jian-ling; WANG Hong; YE Hua-wen

    2005-01-01

    Within the affine connection framework of Lagrangian control systems, based on the results of Sussmann on controllability of general affine control systems defined on a finite-dimensional manifold, a computable sufficient condition of configuration controllability for the simple mechanical control systems was extended to the case of systems with strictly dissipative energy terms of linear isotropic nature, and a sufficient condition of equilibrium controllability for the systems was also given, where Lagrangian is kinetic energy minus potential energy. Lie bracketting of vector fields in controllable Lie algebra, and the symmetric product associated with Levi-Civita connection show virtues in the discussion. Liouville vector field simplified the computation of controllable Lie algebra for the systems, although the terms of potential energy complicated the study of configuration controllability.

  13. Control of directional change after mechanical stimulation in Drosophila

    Directory of Open Access Journals (Sweden)

    Zhou Yating

    2012-10-01

    Full Text Available Abstract Background Proper adjustment of moving direction after external mechanical stimulation is essential for animals to avoid danger (e.g. predators, and thus is vital for survival. This process involves sensory inputs, central processing and motor outputs. Recent studies have made considerable progress in identifying mechanosensitive neurons and mechanosensation receptor proteins. Our understandings of molecular and cellular mechanisms that link mechanosensation with the changes in moving direction, however, remain limited. Results In this study, we investigate the control of movement adjustment in Drosophila. In response to gentle touch at the anterior segments, Drosophila larvae reorient and select a new direction for forward movement. The extent of change in moving direction is correlated with the intensity of tactile stimuli. Sensation of gentle touch requires chordotonal organs and class IV da neurons. Genetic analysis indicates an important role for the evolutionarily conserved immunoglobulin (Ig superfamily protein Turtle (Tutl to regulate touch-initiated directional change. Tutl is required specifically in post-mitotic neurons at larval stage after the completion of embryonic development. Circuit breaking analysis identified a small subset of Tutl-positive neurons that are involved in the adjustment of moving direction. Conclusion We identify Tutl and a small subset of CNS neurons in modulating directional change in response to gentle touch. This study presents an excellent starting point for further dissection of molecular and cellular mechanisms controlling directional adjustment after mechanical stimulation.

  14. Mechanical design and optimal control of humanoid robot (TPinokio

    Directory of Open Access Journals (Sweden)

    Teck Chew Wee

    2014-04-01

    Full Text Available The mechanical structure and the control of the locomotion of bipedal humanoid is an important and challenging domain of research in bipedal robots. Accurate models of the kinematics and dynamics of the robot are essential to achieve bipedal locomotion. Toe-foot walking produces a more natural and faster walking speed and it is even possible to perform stretch knee walking. This study presents the mechanical design of a toe-feet bipedal, TPinokio and the implementation of some optimal walking gait generation methods. The optimality in the gait trajectory is achieved by applying augmented model predictive control method and the pole-zero cancellation method, taken into consideration of a trade-off between walking speed and stability. The mechanism of the TPinokio robot is designed in modular form, so that its kinematics can be modelled accurately into a multiple point-mass system, its dynamics is modelled using the single and double mass inverted pendulum model and zero-moment-point concept. The effectiveness of the design and control technique is validated by simulation testing with the robot walking on flat surface and climbing stairs.

  15. Antenna Mechanism of Length Control of Actin Cables.

    Directory of Open Access Journals (Sweden)

    Lishibanya Mohapatra

    2015-06-01

    Full Text Available Actin cables are linear cytoskeletal structures that serve as tracks for myosin-based intracellular transport of vesicles and organelles in both yeast and mammalian cells. In a yeast cell undergoing budding, cables are in constant dynamic turnover yet some cables grow from the bud neck toward the back of the mother cell until their length roughly equals the diameter of the mother cell. This raises the question: how is the length of these cables controlled? Here we describe a novel molecular mechanism for cable length control inspired by recent experimental observations in cells. This "antenna mechanism" involves three key proteins: formins, which polymerize actin, Smy1 proteins, which bind formins and inhibit actin polymerization, and myosin motors, which deliver Smy1 to formins, leading to a length-dependent actin polymerization rate. We compute the probability distribution of cable lengths as a function of several experimentally tuneable parameters such as the formin-binding affinity of Smy1 and the concentration of myosin motors delivering Smy1. These results provide testable predictions of the antenna mechanism of actin-cable length control.

  16. Nanomechanical force transducers for biomolecular and intracellular measurements: is there room to shrink and why do it?

    Science.gov (United States)

    Sirbuly, Donald J; Friddle, Raymond W; Villanueva, Joshua; Huang, Qian

    2015-02-01

    Over the past couple of decades there has been a tremendous amount of progress on the development of ultrasensitive nanomechanical instruments, which has enabled scientists to peer for the first time into the mechanical world of biomolecular systems. Currently, work-horse instruments such as the atomic force microscope and optical/magnetic tweezers have provided the resolution necessary to extract quantitative force data from various molecular systems down to the femtonewton range, but it remains difficult to access the intracellular environment with these analytical tools as they have fairly large sizes and complicated feedback systems. This review is focused on highlighting some of the major milestones and discoveries in the field of biomolecular mechanics that have been made possible by the development of advanced atomic force microscope and tweezer techniques as well as on introducing emerging state-of-the-art nanomechanical force transducers that are addressing the size limitations presented by these standard tools. We will first briefly cover the basic setup and operation of these instruments, and then focus heavily on summarizing advances in in vitro force studies at both the molecular and cellular level. The last part of this review will include strategies for shrinking down the size of force transducers and provide insight into why this may be important for gaining a more complete understanding of cellular activity and function.

  17. Simulation of Parallel Logical Operations with Biomolecular Computing

    Directory of Open Access Journals (Sweden)

    Mahnaz Kadkhoda

    2008-01-01

    Full Text Available Biomolecular computing is the computational method that uses the potential of DNA as a parallel computing device. DNA computing can be used to solve NP-complete problems. An appropriate application of DNA computation is large-scale evaluation of parallel computation models such as Boolean Circuits. In this study, we present a molecular-based algorithm for evaluation of Nand-based Boolean Circuits. The contribution of this paper is that the proposed algorithm has been implemented using only three molecular operations and the number of passes in each level is decreased to less than half of previously addressed in the literature. Thus, the proposed algorithm is much easier to implement in the laboratory.

  18. Structure and Interactions of Isolated Biomolecular Building Blocks.

    Science.gov (United States)

    de Vries, Mattanjah

    2006-03-01

    We investigate biomolecular building blocks and their clusters with each other and with water on a single molecular level. The motivation is the need to distinguish between intrinsic molecular properties and those that result from the biological environment. This is achieved by a combination of laser desorption and jet cooling, applied to aromatic amino acids, small peptides containing those, nucleobases and nucleosides. This approach is coupled with a number of laser spectroscopic techniques, including resonant multi-photon ionization, spectral hole burning and infra-red ion-dip spectroscopy. We will discuss examples illustrating how information can be obtained on spatial structure of individual biomolecules, including peptide conformations and details of DNA base-pairing.

  19. Orientation of biomolecular assemblies in a microfluidic jet

    Energy Technology Data Exchange (ETDEWEB)

    Priebe, M; Kalbfleisch, S; Tolkiehn, M; Salditt, T [Institut fuer Roentgenphysik, Universitaet Goettingen, Goettingen (Germany); Koester, S [Courant Research Centre Nano-Spectroscopy and X-Ray Imaging, Universitaet Goettingen, Goettingen (Germany); Abel, B [Institut fuer Physikalische Chemie, Universitaet Goettingen, Goettingen (Germany); Davies, R J, E-mail: tsalditt@gwdg.d [ID13, ESRF, Grenoble (France)

    2010-04-15

    We have investigated multilamellar lipid assemblies in a microfluidic jet, operating at high shear rates of the order of 10{sup 7} s{sup -1}. Compared to classical Couette cells or rheometers, the shear rate was increased by at least 2-3 orders of magnitude, and the sample volume was scaled down correspondingly. At the same time, the jet is characterized by high extensional stress due to elongational flow. A focused synchrotron x-ray beam was used to measure the structure and orientation of the lipid assemblies in the jet. The diffraction patterns indicate conventional multilamellar phases, aligned with the membrane normals oriented along the velocity gradient of the jet. The results indicate that the setup may be well suited for coherent diffractive imaging of oriented biomolecular assemblies and macromolecules at the future x-ray free electron laser (XFEL) sources.

  20. Biomolecular Network-Based Synergistic Drug Combination Discovery

    Directory of Open Access Journals (Sweden)

    Xiangyi Li

    2016-01-01

    Full Text Available Drug combination is a powerful and promising approach for complex disease therapy such as cancer and cardiovascular disease. However, the number of synergistic drug combinations approved by the Food and Drug Administration is very small. To bridge the gap between urgent need and low yield, researchers have constructed various models to identify synergistic drug combinations. Among these models, biomolecular network-based model is outstanding because of its ability to reflect and illustrate the relationships among drugs, disease-related genes, therapeutic targets, and disease-specific signaling pathways as a system. In this review, we analyzed and classified models for synergistic drug combination prediction in recent decade according to their respective algorithms. Besides, we collected useful resources including databases and analysis tools for synergistic drug combination prediction. It should provide a quick resource for computational biologists who work with network medicine or synergistic drug combination designing.

  1. The biomolecular corona of nanoparticles in circulating biological media

    Science.gov (United States)

    Pozzi, D.; Caracciolo, G.; Digiacomo, L.; Colapicchioni, V.; Palchetti, S.; Capriotti, A. L.; Cavaliere, C.; Zenezini Chiozzi, R.; Puglisi, A.; Laganà, A.

    2015-08-01

    When nanoparticles come into contact with biological media, they are covered by a biomolecular `corona', which confers a new identity to the particles. In all the studies reported so far nanoparticles are incubated with isolated plasma or serum that are used as a model for protein adsorption. Anyway, bodily fluids are dynamic in nature so the question arises on whether the incubation protocol, i.e. dynamic vs. static incubation, could affect the composition and structure of the biomolecular corona. Here we let multicomponent liposomes interact with fetal bovine serum (FBS) both statically and dynamically, i.e. in contact with circulating FBS (~40 cm s-1). The structure and composition of the liposome-protein corona, as determined by dynamic light scattering, electrophoretic light scattering and liquid chromatography tandem mass spectrometry, were found to be dependent on the incubation protocol. Specifically, following dynamic exposure to FBS, multicomponent liposomes were less enriched in complement proteins and appreciably more enriched in apolipoproteins and acute phase proteins (e.g. alpha-1-antitrypsin and inter-alpha-trypsin inhibitor heavy chain H3) that are involved in relevant interactions between nanoparticles and living systems. Supported by our results, we speculate that efficient predictive modeling of nanoparticle behavior in vivo will require accurate knowledge of nanoparticle-specific protein fingerprints in circulating biological media.When nanoparticles come into contact with biological media, they are covered by a biomolecular `corona', which confers a new identity to the particles. In all the studies reported so far nanoparticles are incubated with isolated plasma or serum that are used as a model for protein adsorption. Anyway, bodily fluids are dynamic in nature so the question arises on whether the incubation protocol, i.e. dynamic vs. static incubation, could affect the composition and structure of the biomolecular corona. Here we let

  2. Computational and theoretical aspects of biomolecular structure and dynamics

    Energy Technology Data Exchange (ETDEWEB)

    Garcia, A.E.; Berendzen, J.; Catasti, P., Chen, X. [and others

    1996-09-01

    This is the final report for a project that sought to evaluate and develop theoretical, and computational bases for designing, performing, and analyzing experimental studies in structural biology. Simulations of large biomolecular systems in solution, hydrophobic interactions, and quantum chemical calculations for large systems have been performed. We have developed a code that implements the Fast Multipole Algorithm (FMA) that scales linearly in the number of particles simulated in a large system. New methods have been developed for the analysis of multidimensional NMR data in order to obtain high resolution atomic structures. These methods have been applied to the study of DNA sequences in the human centromere, sequences linked to genetic diseases, and the dynamics and structure of myoglobin.

  3. Quantum dynamics of bio-molecular systems in noisy environments

    CERN Document Server

    Plenio, M B

    2012-01-01

    We discuss three different aspects of the quantum dynamics of bio-molecular systems and more generally complex networks in the presence of strongly coupled environments. Firstly, we make a case for the systematic study of fundamental structural elements underlying the quantum dynamics of these systems, identify such elements and explore the resulting interplay of quantum dynamics and environmental decoherence. Secondly, we critically examine some existing approaches to the numerical description of system-environment interaction in the non-perturbative regime and present a promising new method that can overcome some limitations of existing methods. Thirdly, we present an approach towards deciding and quantifying the non-classicality of the action of the environment and the observed system-dynamics. We stress the relevance of these tools for strengthening the interplay between theoretical and experimental research in this field.

  4. Ion irradiation and biomolecular radiation damage II. Indirect effect

    CERN Document Server

    Wang, Wei; Su, Wenhui

    2010-01-01

    It has been reported that damage of genome in a living cell by ionizing radiation is about one-third direct and two-thirds indirect. The former which has been introduced in our last paper, concerns direct energy deposition and ionizing reactions in the biomolecules; the latter results from radiation induced reactive species (mainly radicals) in the medium (mainly water) surrounding the biomolecules. In this review, a short description of ion implantation induced radical formation in water is presented. Then we summarize the aqueous radical reaction chemistry of DNA, protein and their components, followed by a brief introduction of biomolecular damage induced by secondary particles (ions and electron). Some downstream biological effects are also discussed.

  5. Hybrid organic semiconductor lasers for bio-molecular sensing.

    Science.gov (United States)

    Haughey, Anne-Marie; Foucher, Caroline; Guilhabert, Benoit; Kanibolotsky, Alexander L; Skabara, Peter J; Burley, Glenn; Dawson, Martin D; Laurand, Nicolas

    2014-01-01

    Bio-functionalised luminescent organic semiconductors are attractive for biophotonics because they can act as efficient laser materials while simultaneously interacting with molecules. In this paper, we present and discuss a laser biosensor platform that utilises a gain layer made of such an organic semiconductor material. The simple structure of the sensor and its operation principle are described. Nanolayer detection is shown experimentally and analysed theoretically in order to assess the potential and the limits of the biosensor. The advantage conferred by the organic semiconductor is explained, and comparisons to laser sensors using alternative dye-doped materials are made. Specific biomolecular sensing is demonstrated, and routes to functionalisation with nucleic acid probes, and future developments opened up by this achievement, are highlighted. Finally, attractive formats for sensing applications are mentioned, as well as colloidal quantum dots, which in the future could be used in conjunction with organic semiconductors.

  6. Bio-Inspired Controller for a Robot Cheetah with a Neural Mechanism Controlling Leg Muscles

    Institute of Scientific and Technical Information of China (English)

    Xin Wang; Mantian Li; Pengfei Wang; Wei Guo; Lining Sun

    2012-01-01

    The realization of a high-speed running robot is one of the most challenging problems in developing legged robots.The excellent performance of cheetahs provides inspiration for the control and mechanical design of such robots.This paper presents a three-dimensional model of a cheetah that predicts the locomotory behaviors of a running cheetah.Applying biological knowledge of the neural mechanism,we control the muscle flexion and extension during the stance phase,and control the positions of the joints in the flight phase via a PD controller to minimize complexity.The proposed control strategy is shown to achieve similar locomotion of a real cheetah.The simulation realizes good biological properties,such as the leg retraction,ground reaction force,and spring-like leg behavior.The stable bounding results show the promise of the controller in high-speed locomotion.The model can reach 2.7 m·s- 1 as the highest speed,and can accelerate from 0 to 1.5 m·s -1 in one stride cycle.A mechanical structure based on this simulation is designed to demonstrate the control approach,and the most recently developed hindlimb controlled by the proposed controller is presented in swinging-leg experiments and jump-force experiments.

  7. Dynamics and control of mechanical systems in offshore engineering

    CERN Document Server

    He, Wei; How, Bernard Voon Ee; Choo, Yoo Sang

    2014-01-01

    Dynamics and Control of Mechanical Systems in Offshore Engineering is a comprehensive treatment of marine mechanical systems (MMS) involved in processes of great importance such as oil drilling and mineral recovery. Ranging from nonlinear dynamic modeling and stability analysis of flexible riser systems, through advanced control design for an installation system with a single rigid payload attached by thrusters, to robust adaptive control for mooring systems, it is an authoritative reference on the dynamics and control of MMS. Readers will gain not only a complete picture of MMS at the system level, but also a better understanding of the technical considerations involved and solutions to problems that commonly arise from dealing with them. The text provides:                                                                                                                                 ...

  8. Application of isothermal titration calorimetry for characterizing thermodynamic parameters of biomolecular interactions: peptide self-assembly and protein adsorption case studies.

    Science.gov (United States)

    Kabiri, Maryam; Unsworth, Larry D

    2014-10-13

    The complex nature of macromolecular interactions usually makes it very hard to identify the molecular-level mechanisms that ultimately dictate the result of these interactions. This is especially evident in the case of biological systems, where the complex interaction of molecules in various situations may be responsible for driving biomolecular interactions themselves but also has a broader effect at the cell and/or tissue level. This review will endeavor to further the understanding of biomolecular interactions utilizing the isothermal titration calorimetry (ITC) technique for thermodynamic characterization of two extremely important biomaterial systems, viz., peptide self-assembly and nonfouling polymer-modified surfaces. The advantages and shortcomings of this technique will be presented along with a thorough review of the recent application of ITC to these two areas. Furthermore, the controversies associated with the enthalpy-entropy compensation effect as well as thermodynamic equilibrium state for such interactions will be discussed.

  9. Moving constraints as stabilizing controls in classical mechanics

    CERN Document Server

    Bressan, A

    2008-01-01

    The paper analyzes a Lagrangian system which is controlled by directly assigning some of the coordinates as functions of time, by means of frictionless constraints. In a natural system of coordinates, the equations of motions contain terms which are linear or quadratic w.r.t.time derivatives of the control functions. After reviewing the basic equations, we explain the significance of the quadratic terms, related to geodesics orthogonal to a given foliation. We then study the problem of stabilization of the system to a given point, by means of oscillating controls. This problem is first reduced to the weak stability for a related convex-valued differential inclusion, then studied by Lyapunov functions methods. In the last sections, we illustrate the results by means of various mechanical examples.

  10. Moving Constraints as Stabilizing Controls in Classical Mechanics

    Science.gov (United States)

    Bressan, Alberto; Rampazzo, Franco

    2010-04-01

    The paper analyzes a Lagrangian system which is controlled by directly assigning some of the coordinates as functions of time, by means of frictionless constraints. In a natural system of coordinates, the equations of motion contain terms which are linear or quadratic with respect to time derivatives of the control functions. After reviewing the basic equations, we explain the significance of the quadratic terms related to geodesics orthogonal to a given foliation. We then study the problem of stabilization of the system to a given point by means of oscillating controls. This problem is first reduced to theweak stability for a related convex-valued differential inclusion, then studied by Lyapunov functions methods. In the last sections, we illustrate the results by means of various mechanical examples.

  11. Bilingualism modulates dual mechanisms of cognitive control: Evidence from ERPs.

    Science.gov (United States)

    Morales, Julia; Yudes, Carolina; Gómez-Ariza, Carlos J; Bajo, M Teresa

    2015-01-01

    Recent behavioral findings with the AX-Continous Performance Task (AX-CPT; Morales et al., 2013) show that bilinguals only outperform monolinguals under conditions that require the highest adjustment between monitoring (proactive) and inhibitory (reactive) control, which supports the idea that bilingualism modulates the coordination of different control mechanisms. In an ERP experiment we aimed to further investigate the role that bilingualism plays in the dynamic combination of proactive and reactive control in the AX-CPT. Our results strongly indicate that bilingualism facilitates an effective adjustment between both components of cognitive control. First, we replicated previous behavioral results. Second, ERP components indicated that bilingualism influences the conflict monitoring, response inhibition and error monitoring components of control (as indexed by the N2 and P3a elicited by the probe and the error-related negativity following incorrect responses, respectively). Thus, bilinguals exerted higher reactive control than monolinguals but only when they needed to overcome the competing cue-information. These findings join others in suggesting that a better understanding of the cognitive benefits of bilingualism may require consideration of a multi-component perspective.

  12. Mechanical control of mitotic progression in single animal cells.

    Science.gov (United States)

    Cattin, Cedric J; Düggelin, Marcel; Martinez-Martin, David; Gerber, Christoph; Müller, Daniel J; Stewart, Martin P

    2015-09-08

    Despite the importance of mitotic cell rounding in tissue development and cell proliferation, there remains a paucity of approaches to investigate the mechanical robustness of cell rounding. Here we introduce ion beam-sculpted microcantilevers that enable precise force-feedback-controlled confinement of single cells while characterizing their progression through mitosis. We identify three force regimes according to the cell response: small forces (∼5 nN) that accelerate mitotic progression, intermediate forces where cells resist confinement (50-100 nN), and yield forces (>100 nN) where a significant decline in cell height impinges on microtubule spindle function, thereby inhibiting mitotic progression. Yield forces are coincident with a nonlinear drop in cell height potentiated by persistent blebbing and loss of cortical F-actin homogeneity. Our results suggest that a buildup of actomyosin-dependent cortical tension and intracellular pressure precedes mechanical failure, or herniation, of the cell cortex at the yield force. Thus, we reveal how the mechanical properties of mitotic cells and their response to external forces are linked to mitotic progression under conditions of mechanical confinement.

  13. Design and Control of Nonlinear Mechanical Systems for Minimum Time

    Directory of Open Access Journals (Sweden)

    J.B. Cardoso

    2008-01-01

    Full Text Available This paper presents an integrated methodology for optimal design and control of nonlinear flexible mechanical systems, including minimum time problems. This formulation is implemented in an optimum design code and it is applied to the nonlinear behavior dynamic response. Damping and stiffness characteristics plus control driven forces are considered as decision variables. A conceptual separation between time variant and time invariant design parameters is presented, this way including the design space into the control space and considering the design variables as control variables not depending on time. By using time integrals through all the derivations, design and control problems are unified. In the optimization process we can use both types of variables simultaneously or by interdependent levels. For treating minimum time problems, a unit time interval is mapped onto the original time interval, then treating equally time variant and time invariant problems. The dynamic response and its sensitivity are discretized via space-time finite elements, and may be integrated either by at-once integration or step-by-step. Adjoint system approach is used to calculate the sensitivities.

  14. Modeling Human Error Mechanism for Soft Control in Advanced Control Rooms (ACRs)

    Energy Technology Data Exchange (ETDEWEB)

    Aljneibi, Hanan Salah Ali [Khalifa Univ., Abu Dhabi (United Arab Emirates); Ha, Jun Su; Kang, Seongkeun; Seong, Poong Hyun [KAIST, Daejeon (Korea, Republic of)

    2015-10-15

    To achieve the switch from conventional analog-based design to digital design in ACRs, a large number of manual operating controls and switches have to be replaced by a few common multi-function devices which is called soft control system. The soft controls in APR-1400 ACRs are classified into safety-grade and non-safety-grade soft controls; each was designed using different and independent input devices in ACRs. The operations using soft controls require operators to perform new tasks which were not necessary in conventional controls such as navigating computerized displays to monitor plant information and control devices. These kinds of computerized displays and soft controls may make operations more convenient but they might cause new types of human error. In this study the human error mechanism during the soft controls is studied and modeled to be used for analysis and enhancement of human performance (or human errors) during NPP operation. The developed model would contribute to a lot of applications to improve human performance (or reduce human errors), HMI designs, and operators' training program in ACRs. The developed model of human error mechanism for the soft control is based on assumptions that a human operator has certain amount of capacity in cognitive resources and if resources required by operating tasks are greater than resources invested by the operator, human error (or poor human performance) is likely to occur (especially in 'slip'); good HMI (Human-machine Interface) design decreases the required resources; operator's skillfulness decreases the required resources; and high vigilance increases the invested resources. In this study the human error mechanism during the soft controls is studied and modeled to be used for analysis and enhancement of human performance (or reduction of human errors) during NPP operation.

  15. Control of forced vibrations of mechanical structures by an electromagnetic controller with a permanent magnet

    DEFF Research Database (Denmark)

    Stein, George Juraj; Darula, Radoslav; Sorokin, Sergey

    2012-01-01

    A theoretical analysis of an electromagnetic vibration controller is presented. The analyzed device consists of a pot-type iron core with a coil and a permanent magnet as a source of constant magnetic flux. The magnetic circuit is closed by a yoke, excited by an external harmonic mechanical force....... Due to the hysteretic effects in the magnetic material the internal losses influence the overall system’s performance. A mathematical model of the force balance in the oscillatory system is derived in a simplified, linearised form. The electric as well as mechanical system is modelled using lumped......-parameter approach and the actuating principle for control of forced vibration is investigated....

  16. Optimum design of control system in recoil mechanisms

    Directory of Open Access Journals (Sweden)

    J. P. Sirpal

    1959-07-01

    Full Text Available The various parameters in the design of a control system in a conventional type of recoil mechanism have been optimized for minimum weight and the ideal form of velocity space variation during runout has been derived. A theoretical analysis for some of the equipments in service reveals that their actual values are very nearly the same as those given by theory except for the ratio l by di which are lower than those theoretically suggested indicating that wide margins of safety against buckling have been used in their design.

  17. Control of mechanical systems with rolling constraints: Application to dynamic control of mobile robots

    Science.gov (United States)

    Sarkar, Nilanjan; Yun, Xiaoping; Kumar, Vijay

    1994-01-01

    There are many examples of mechanical systems that require rolling contacts between two or more rigid bodies. Rolling contacts engender nonholonomic constraints in an otherwise holonomic system. In this article, we develop a unified approach to the control of mechanical systems subject to both holonomic and nonholonomic constraints. We first present a state space realization of a constrained system. We then discuss the input-output linearization and zero dynamics of the system. This approach is applied to the dynamic control of mobile robots. Two types of control algorithms for mobile robots are investigated: trajectory tracking and path following. In each case, a smooth nonlinear feedback is obtained to achieve asymptotic input-output stability and Lagrange stability of the overall system. Simulation results are presented to demonstrate the effectiveness of the control algorithms and to compare the performane of trajectory-tracking and path-following algorithms.

  18. Pushing back the frontiers of mercury speciation using a combination of biomolecular and isotopic signatures: challenge and perspectives.

    Science.gov (United States)

    Pedrero, Zoyne; Donard, Olivier F X; Amouroux, David

    2016-04-01

    Mercury (Hg) pollution is considered a major environmental problem due to the extreme toxicity of Hg. However, Hg metabolic pathways in biota remain elusive. An understanding of these pathways is crucial to elucidating the (eco)toxic effects of Hg and its biogeochemical cycle. The development of a new analytical methodology based on both speciation and natural isotopic fractionation represents a promising approach for metabolic studies of Hg and other metal(loid)s. Speciation provides valuable information about the reactivity and potential toxicity of metabolites, while the use of natural isotopic signature analysis adds a complementary dynamic dimension that allows the life history of the target element to be probed, the source of the target element (i.e., the source of pollution) to be identified, and reactions to be tracked. The resulting combined (bio)molecular and isotopic signature affords precious insight into the behavior of Hg in biota and Hg detoxification mechanisms. In the long term, this highly innovative methodology could be used in life and environmental science studies of metal(loid)s to push back the frontiers of our knowledge in this field. This paper summarizes the current status of the application of Hg speciation and the isotopic signature of Hg at the biomolecular level in living organisms, and discusses potential future uses of this combination of techniques.

  19. Differential geometry-based solvation and electrolyte transport models for biomolecular modeling: a review

    OpenAIRE

    Wei, Guo Wei; Baker, Nathan A.

    2014-01-01

    This chapter reviews the differential geometry-based solvation and electrolyte transport for biomolecular solvation that have been developed over the past decade. A key component of these methods is the differential geometry of surfaces theory, as applied to the solvent-solute boundary. In these approaches, the solvent-solute boundary is determined by a variational principle that determines the major physical observables of interest, for example, biomolecular surface area, enclosed volume, el...

  20. Potential-of-mean-force description of ionic interactions and structural hydration in biomolecular systems

    Energy Technology Data Exchange (ETDEWEB)

    Hummer, G.; Garcia, A.E. [Los Alamos National Lab., NM (United States). Theoretical Biology and Biophysics Group; Soumpasis, D.M. [Max-Planck-Inst for Biophysical Chemistry, Goettingen (Germany). Biocomputation Group

    1994-10-01

    To understand the functioning of living organisms on a molecular level, it is crucial to dissect the intricate interplay of the immense number of biological molecules. Most of the biochemical processes in cells occur in a liquid environment formed mainly by water and ions. This solvent environment plays an important role in biological systems. The potential-of-mean-force (PMF) formalism attempts to describe quantitatively the interactions of the solvent with biological macromolecules on the basis of an approximate statistical-mechanical representation. At its current status of development, it deals with ionic effects on the biomolecular structure and with the structural hydration of biomolecules. The underlying idea of the PMF formalism is to identify the dominant sources of interactions and incorporate these interactions into the theoretical formalism using PMF`s (or particle correlation functions) extracted from bulk-liquid systems. In the following, the authors shall briefly outline the statistical-mechanical foundation of the PMF formalism and introduce the PMF expansion formalism, which is intimately linked to superposition approximations for higher-order particle correlation functions. The authors shall then sketch applications, which describe the effects of the ionic environment on nucleic-acid structure. Finally, the authors shall present the more recent extension of the PMF idea to describe quantitatively the structural hydration of biomolecules. Results for the interface of ice and water and for the hydration of deoxyribonucleic acid (DNA) will be discussed.

  1. Extension of the GLYCAM06 Biomolecular Force Field to Lipids, Lipid Bilayers and Glycolipids.

    Science.gov (United States)

    Tessier, Matthew B; Demarco, Mari L; Yongye, Austin B; Woods, Robert J

    2008-01-01

    GLYCAM06 is a generalisable biomolecular force field that is extendible to diverse molecular classes in the spirit of a small-molecule force field. Here we report parameters for lipids, lipid bilayers and glycolipids for use with GLYCAM06. Only three lipid-specific atom types have been introduced, in keeping with the general philosophy of transferable parameter development. Bond stretching, angle bending, and torsional force constants were derived by fitting to quantum mechanical data for a collection of minimal molecular fragments and related small molecules. Partial atomic charges were computed by fitting to ensemble-averaged quantum-computed molecular electrostatic potentials.In addition to reproducing quantum mechanical internal rotational energies and experimental valence geometries for an array of small molecules, condensed-phase simulations employing the new parameters are shown to reproduce the bulk physical properties of a DMPC lipid bilayer. The new parameters allow for molecular dynamics simulations of complex systems containing lipids, lipid bilayers, glycolipids, and carbohydrates, using an internally consistent force field. By combining the AMBER parameters for proteins with the GLYCAM06 parameters, it is also possible to simulate protein-lipid complexes and proteins in biologically relevant membrane-like environments.

  2. Mechanism of controlled release kinetics from medical devices

    Directory of Open Access Journals (Sweden)

    A. Raval

    2010-06-01

    Full Text Available Utilization of biodegradable polymers for controlled drug delivery has gained immense attention in the pharmaceutical and medical device industry to administer various drugs, proteins and other bio-molecules both systematically and locally to cure several diseases. The efficacy and toxicity of this local therapeutics depends upon drug release kinetics, which will further decide drug deposition, distribution, and retention at the target site. Drug Eluting Stent (DES presently possesses clinical importance as an alternative to Coronary Artery Bypass Grafting due to the ease of the procedure and comparable safety and efficacy. Many models have been developed to describe the drug delivery from polymeric carriers based on the different mechanisms which control the release phenomenon from DES. Advanced characterization techniques facilitate an understanding of the complexities behind design and related drug release behavior of drug eluting stents, which aids in the development of improved future drug eluting systems. This review discusses different drug release mechanisms, engineering principles, mathematical models and current trends that are proposed for drug-polymer coated medical devices such as cardiovascular stents and different analytical methods currently utilized to probe diverse characteristics of drug eluting devices.

  3. Neural mechanisms of attentional control in mindfulness meditation

    Directory of Open Access Journals (Sweden)

    Peter eMalinowski

    2013-02-01

    Full Text Available The scientific interest in meditation and mindfulness practice has recently seen an unprecedented surge. After an initial phase of presenting beneficial effects of mindfulness practice in various domains, research is now seeking to unravel the underlying psychological and neurophysiological mechanisms. Advances in understanding these processes are required for improving and fine-tuning mindfulness-based interventions that target specific conditions such as eating disorders or attention deficit hyperactivity disorders. This review presents a theoretical framework that emphasizes the central role of attentional control mechanisms in the development of mindfulness skills. It discusses the phenomenological level of experience during meditation, the different attentional functions that are involved, and relates these to the brain networks that subserve these functions. On the basis of currently available empirical evidence specific processes as to how attention exerts its positive influence are considered and it is concluded that meditation practice appears to positively impact attentional functions by improving resource allocation processes. As a result, attentional resources are allocated more fully during early processing phases which subsequently enhance further processing. Neural changes resulting from a pure form of mindfulness practice that is central to most mindfulness programs are considered from the perspective that they constitute a useful reference point for future research. Furthermore, possible interrelations between the improvement of attentional control and emotion regulation skills are discussed.

  4. Central chemoreceptors and neural mechanisms of cardiorespiratory control

    Directory of Open Access Journals (Sweden)

    T.S. Moreira

    2011-09-01

    Full Text Available The arterial partial pressure (P CO2 of carbon dioxide is virtually constant because of the close match between the metabolic production of this gas and its excretion via breathing. Blood gas homeostasis does not rely solely on changes in lung ventilation, but also to a considerable extent on circulatory adjustments that regulate the transport of CO2 from its sites of production to the lungs. The neural mechanisms that coordinate circulatory and ventilatory changes to achieve blood gas homeostasis are the subject of this review. Emphasis will be placed on the control of sympathetic outflow by central chemoreceptors. High levels of CO2 exert an excitatory effect on sympathetic outflow that is mediated by specialized chemoreceptors such as the neurons located in the retrotrapezoid region. In addition, high CO2 causes an aversive awareness in conscious animals, activating wake-promoting pathways such as the noradrenergic neurons. These neuronal groups, which may also be directly activated by brain acidification, have projections that contribute to the CO2-induced rise in breathing and sympathetic outflow. However, since the level of activity of the retrotrapezoid nucleus is regulated by converging inputs from wake-promoting systems, behavior-specific inputs from higher centers and by chemical drive, the main focus of the present manuscript is to review the contribution of central chemoreceptors to the control of autonomic and respiratory mechanisms.

  5. Molecular mechanisms controlling the migration of striatal interneurons.

    Science.gov (United States)

    Villar-Cerviño, Verona; Kappeler, Caroline; Nóbrega-Pereira, Sandrina; Henkemeyer, Mark; Rago, Luciano; Nieto, M Angela; Marín, Oscar

    2015-06-10

    In the developing telencephalon, the medial ganglionic eminence (MGE) generates many cortical and virtually all striatal interneurons. While the molecular mechanisms controlling the migration of interneurons to the cortex have been extensively studied, very little is known about the nature of the signals that guide interneurons to the striatum. Here we report that the allocation of MGE-derived interneurons in the developing striatum of the mouse relies on a combination of chemoattractive and chemorepulsive activities. Specifically, interneurons migrate toward the striatum in response to Nrg1/ErbB4 chemoattraction, and avoid migrating into the adjacent cortical territories by a repulsive activity mediated by EphB/ephrinB signaling. Our results also suggest that the responsiveness of MGE-derived striatal interneurons to these cues is at least in part controlled by the postmitotic activity of the transcription factor Nkx2-1. This study therefore reveals parallel mechanisms for the migration of MGE-derived interneurons to the striatum and the cerebral cortex.

  6. Emergent patterns of growth controlled by multicellular form and mechanics

    Science.gov (United States)

    Nelson, Celeste M.; Jean, Ronald P.; Tan, John L.; Liu, Wendy F.; Sniadecki, Nathan J.; Spector, Alexander A.; Chen, Christopher S.

    2005-01-01

    Spatial patterns of cellular growth generate mechanical stresses that help to push, fold, expand, and deform tissues into their specific forms. Genetic factors are thought to specify patterns of growth and other behaviors to drive morphogenesis. Here, we show that tissue form itself can feed back to regulate patterns of proliferation. Using microfabrication to control the organization of sheets of cells, we demonstrated the emergence of stable patterns of proliferative foci. Regions of concentrated growth corresponded to regions of high tractional stress generated within the sheet, as predicted by a finite-element model of multicellular mechanics and measured directly by using a micromechanical force sensor array. Inhibiting actomyosin-based tension or cadherin-mediated connections between cells disrupted the spatial pattern of proliferation. These findings demonstrate the existence of patterns of mechanical forces that originate from the contraction of cells, emerge from their multicellular organization, and result in patterns of growth. Thus, tissue form is not only a consequence but also an active regulator of tissue growth. PMID:16049098

  7. Fixed and flexible formularies as cost-control mechanisms.

    Science.gov (United States)

    Dewa, Carolyn S; Hoch, Jeffrey S

    2003-06-01

    The purpose of this review is to consider the prevalent types of fixed and flexible formularies, the general economic principles on which they are based and the evidence for their effectiveness in controlling rising drug expenditures. The principal-agent relationship and economic model underlying the various types of formularies are described. The principal-agent model describes a relationship where there is an asymmetry of information between two parties involved in a particular task. As a result of this asymmetry of information, the party with less information (the principal) allows the party with more information (the agent) to make decisions about that task or activity for them. In the case of formularies and cost-control, the principal is the payer. Depending on the incentives offered by the formulary, the agent can alternately be the prescriber, dispenser or patient. The success of a formulary type to control costs is dependent on two main factors. First, the payer (the principal) must identify the agent for whom it is reasonable to create incentives that incorporate the financial risks associated with use of the drugs. Second, the payer must develop a structure that best aligns the principal and agent objectives. The principal-agent framework serves as the vehicle through which the authors examine five major types of formularies (i.e., closed, best available price, reference-based pricing, tiered and open formularies) and their inherent incentives and limitations. The evidence for their effectiveness as cost-control mechanisms is reviewed and the system factors that can affect formulary success will be discussed. Finally, the authors' observations are summarized and interpreted, and suggested implications for future use of formularies in controlling the costs of pharmaceutical use are offered.

  8. PUPIL: A Software Integration System for Multi-Scale QM/MM-MD Simulations and Its Application to Biomolecular Systems.

    Science.gov (United States)

    Torras, Juan; Roberts, Benjamin P; Seabra, Gustavo M; Trickey, Samuel B

    2015-01-01

    PUPIL (Program for User Package Interfacing and Linking) implements a distinctive multi-scale approach to hybrid quantum mechanical/molecular mechanical molecular dynamics (QM/MM-MD) simulations. Originally developed to interface different external programs for multi-scale simulation with applications in the materials sciences, PUPIL is finding increasing use in the study of complex biological systems. Advanced MD techniques from the external packages can be applied readily to a hybrid QM/MM treatment in which the forces and energy for the QM region can be computed by any of the QM methods available in any of the other external packages. Here, we give a survey of PUPIL design philosophy, main features, and key implementation decisions, with an orientation to biomolecular simulation. We discuss recently implemented features which enable highly realistic simulations of complex biological systems which have more than one active site that must be treated concurrently. Examples are given.

  9. Chemo-mechanical control of neural stem cell differentiation

    Science.gov (United States)

    Geishecker, Emily R.

    Cellular processes such as adhesion, proliferation, and differentiation are controlled in part by cell interactions with the microenvironment. Cells can sense and respond to a variety of stimuli, including soluble and insoluble factors (such as proteins and small molecules) and externally applied mechanical stresses. Mechanical properties of the environment, such as substrate stiffness, have also been suggested to play an important role in cell processes. The roles of both biochemical and mechanical signaling in fate modification of stem cells have been explored independently. However, very few studies have been performed to study well-controlled chemo-mechanotransduction. The objective of this work is to design, synthesize, and characterize a chemo-mechanical substrate to encourage neuronal differentiation of C17.2 neural stem cells. In Chapter 2, Polyacrylamide (PA) gels of varying stiffnesses are functionalized with differing amounts of whole collagen to investigate the role of protein concentration in combination with substrate stiffness. As expected, neurons on the softest substrate were more in number and neuronal morphology than those on stiffer substrates. Neurons appeared locally aligned with an expansive network of neurites. Additional experiments would allow for statistical analysis to determine if and how collagen density impacts C17.2 differentiation in combination with substrate stiffness. Due to difficulties associated with whole protein approaches, a similar platform was developed using mixed adhesive peptides, derived from fibronectin and laminin, and is presented in Chapter 3. The matrix elasticity and peptide concentration can be individually modulated to systematically probe the effects of chemo-mechanical signaling on differentiation of C17.2 cells. Polyacrylamide gel stiffness was confirmed using rheological techniques and found to support values published by Yeung et al. [1]. Cellular growth and differentiation were assessed by cell counts

  10. Toxicity evaluation of PEDOT/biomolecular composites intended for neural communication electrodes

    Energy Technology Data Exchange (ETDEWEB)

    Asplund, M; Thaning, E; Von Holst, H [Division of Neuronic Engineering, School of Technology and Health, Royal Institute of Technology, SE-14152 Huddinge (Sweden); Lundberg, J [Section for Neuroradiology, R2:02 NKK-lab, Department of Clinical Neuroscience, Karolinska Institutet, Karolinska University Hospital, Solna, SE-171 76, Stockholm (Sweden); Sandberg-Nordqvist, A C [Section of Clinical CNS Research, Department of Clinical Neuroscience, Karolinska Institutet, Karolinska University Hospital, Solna, SE-171 76, Stockholm (Sweden); Kostyszyn, B [Center for Hearing and Communication Research, Department of Clinical Neuroscience, Karolinska Institutet, Karolinska University Hospital, M1:01, SE-171 76 Stockholm (Sweden); Inganaes, O, E-mail: maria.asplund@sth.kth.s [Biomolecular and Organic Electronics, IFM, Linkoeping University, SE-581 83 Linkoeping (Sweden)

    2009-08-15

    Electrodes coated with the conducting polymer poly(3,4-ethylene dioxythiophene) (PEDOT) possess attractive electrochemical properties for stimulation or recording in the nervous system. Biomolecules, added as counter ions in electropolymerization, could further improve the biomaterial properties, eliminating the need for surfactant counter ions in the process. Such PEDOT/biomolecular composites, using heparin or hyaluronic acid, have previously been investigated electrochemically. In the present study, their biocompatibility is evaluated. An agarose overlay assay using L929 fibroblasts, and elution and direct contact tests on human neuroblastoma SH-SY5Y cells are applied to investigate cytotoxicity in vitro. PEDOT:heparin was further evaluated in vivo through polymer-coated implants in rodent cortex. No cytotoxic response was seen to any of the PEDOT materials tested. The examination of cortical tissue exposed to polymer-coated implants showed extensive glial scarring irrespective of implant material (Pt:polymer or Pt). However, quantification of immunological response, through distance measurements from implant site to closest neuron and counting of ED1+ cell density around implant, was comparable to those of platinum controls. These results indicate that PEDOT:heparin surfaces were non-cytotoxic and show no marked difference in immunological response in cortical tissue compared to pure platinum controls.

  11. [Biobanking and Biomolecular Resources Research Infrastructure (BBMRI). Implications for pathology].

    Science.gov (United States)

    Viertler, C; Zatloukal, K

    2008-11-01

    High quality human biological samples (e.g. blood, tissue or DNA) with associated, well documented clinical and research data are key resources for advancement of life sciences, biotechnology, clinical medicine, drug development and also molecular pathology. Millions of samples of diseased tissues have been collected in the context of routine histopathological diagnosis and are stored in the archives of hospitals and institutes of pathology. A concerted effort is necessary to overcome the current fragmentation of the European biobanking community in order to tap the full research potential of existing biobanks. A pan-European research infrastructure for biobanking and biomolecular resources (BBMRI) is currently in its planning phase. The mission is to link and provide access to local biobanks of different formats, including tissue collections, harmonize standards, establish operational procedures which properly consider ethical, legal, societal aspects, and to secure sustainable funding. Pathology plays a key role in development and administration of tissue banks and is, thus, a major partner for collaboration, expertise and construction of this pan-European research infrastructure.

  12. Biomolecular Evidence of Silk from 8,500 Years Ago.

    Science.gov (United States)

    Gong, Yuxuan; Li, Li; Gong, Decai; Yin, Hao; Zhang, Juzhong

    2016-01-01

    Pottery, bone implements, and stone tools are routinely found at Neolithic sites. However, the integrity of textiles or silk is susceptible to degradation, and it is therefore very difficult for such materials to be preserved for 8,000 years. Although previous studies have provided important evidence of the emergence of weaving skills and tools, such as figuline spinning wheels and osseous lamellas with traces of filament winding, there is a lack of direct evidence proving the existence of silk. In this paper, we explored evidence of prehistoric silk fibroin through the analysis of soil samples collected from three tombs at the Neolithic site of Jiahu. Mass spectrometry was employed and integrated with proteomics to characterize the key peptides of silk fibroin. The direct biomolecular evidence reported here showed the existence of prehistoric silk fibroin, which was found in 8,500-year-old tombs. Rough weaving tools and bone needles were also excavated, indicating the possibility that the Jiahu residents may possess the basic weaving and sewing skills in making textile. This finding may advance the study of the history of silk, and the civilization of the Neolithic Age.

  13. Label-free screening of bio-molecular interactions.

    Science.gov (United States)

    Cooper, Matthew A

    2003-11-01

    The majority of techniques currently employed to interrogate a biomolecular interaction require some type of radio- or enzymatic- or fluorescent-labelling to report the binding event. However, there is an increasing awareness of novel techniques that do not require labelling of the ligand or the receptor, and that allow virtually any complex to be screened with minimal assay development. This review focuses on three major label-free screening platforms: surface plasmon resonance biosensors, acoustic biosensors, and calorimetric biosensors. Scientists in both academia and industry are using biosensors in areas that encompass almost all areas drug discovery, diagnostics, and the life sciences. The capabilities and advantages of each technique are compared and key applications involving small molecules, proteins, oligonucleotides, bacteriophage, viruses, bacteria, and cells are reviewed. The role of the interface between the biosensor surface (in the case of SPR and acoustic biosensors) and the chemical or biological systems to be studied is also covered with attention to the covalent and non-covalent coupling chemistries commonly employed.

  14. Stochastic Simulation of Biomolecular Networks in Dynamic Environments.

    Directory of Open Access Journals (Sweden)

    Margaritis Voliotis

    2016-06-01

    Full Text Available Simulation of biomolecular networks is now indispensable for studying biological systems, from small reaction networks to large ensembles of cells. Here we present a novel approach for stochastic simulation of networks embedded in the dynamic environment of the cell and its surroundings. We thus sample trajectories of the stochastic process described by the chemical master equation with time-varying propensities. A comparative analysis shows that existing approaches can either fail dramatically, or else can impose impractical computational burdens due to numerical integration of reaction propensities, especially when cell ensembles are studied. Here we introduce the Extrande method which, given a simulated time course of dynamic network inputs, provides a conditionally exact and several orders-of-magnitude faster simulation solution. The new approach makes it feasible to demonstrate-using decision-making by a large population of quorum sensing bacteria-that robustness to fluctuations from upstream signaling places strong constraints on the design of networks determining cell fate. Our approach has the potential to significantly advance both understanding of molecular systems biology and design of synthetic circuits.

  15. Microscale thermophoresis quantifies biomolecular interactions under previously challenging conditions.

    Science.gov (United States)

    Seidel, Susanne A I; Dijkman, Patricia M; Lea, Wendy A; van den Bogaart, Geert; Jerabek-Willemsen, Moran; Lazic, Ana; Joseph, Jeremiah S; Srinivasan, Prakash; Baaske, Philipp; Simeonov, Anton; Katritch, Ilia; Melo, Fernando A; Ladbury, John E; Schreiber, Gideon; Watts, Anthony; Braun, Dieter; Duhr, Stefan

    2013-03-01

    Microscale thermophoresis (MST) allows for quantitative analysis of protein interactions in free solution and with low sample consumption. The technique is based on thermophoresis, the directed motion of molecules in temperature gradients. Thermophoresis is highly sensitive to all types of binding-induced changes of molecular properties, be it in size, charge, hydration shell or conformation. In an all-optical approach, an infrared laser is used for local heating, and molecule mobility in the temperature gradient is analyzed via fluorescence. In standard MST one binding partner is fluorescently labeled. However, MST can also be performed label-free by exploiting intrinsic protein UV-fluorescence. Despite the high molecular weight ratio, the interaction of small molecules and peptides with proteins is readily accessible by MST. Furthermore, MST assays are highly adaptable to fit to the diverse requirements of different biomolecules, such as membrane proteins to be stabilized in solution. The type of buffer and additives can be chosen freely. Measuring is even possible in complex bioliquids like cell lysate allowing close to in vivo conditions without sample purification. Binding modes that are quantifiable via MST include dimerization, cooperativity and competition. Thus, its flexibility in assay design qualifies MST for analysis of biomolecular interactions in complex experimental settings, which we herein demonstrate by addressing typically challenging types of binding events from various fields of life science.

  16. A fast mollified impulse method for biomolecular atomistic simulations

    Science.gov (United States)

    Fath, L.; Hochbruck, M.; Singh, C. V.

    2017-03-01

    Classical integration methods for molecular dynamics are inherently limited due to resonance phenomena occurring at certain time-step sizes. The mollified impulse method can partially avoid this problem by using appropriate filters based on averaging or projection techniques. However, existing filters are computationally expensive and tedious in implementation since they require either analytical Hessians or they need to solve nonlinear systems from constraints. In this work we follow a different approach based on corotation for the construction of a new filter for (flexible) biomolecular simulations. The main advantages of the proposed filter are its excellent stability properties and ease of implementation in standard softwares without Hessians or solving constraint systems. By simulating multiple realistic examples such as peptide, protein, ice equilibrium and ice-ice friction, the new filter is shown to speed up the computations of long-range interactions by approximately 20%. The proposed filtered integrators allow step sizes as large as 10 fs while keeping the energy drift less than 1% on a 50 ps simulation.

  17. The inner-city Skater Facility - playground or control mechanism?

    DEFF Research Database (Denmark)

    Gravesen, David Thore

    2015-01-01

    The inner-city Skater Facility - playground or control mechanism? In 2013, the municipality in Horsens, a medium-sized provincial town in Denmark, bestowed the city's children and young people a skater facility at the city's central squares. Officially, the municipality donated the facility to give...... local children and young people an opportunity to use their leisure time stimulating their bodies, having a great time with friends and other urban dwellers. The gift is accompanied by a number of (more or less camouflaged) crime prevention- and social education agendas, carried out by the SSP (a...... special Social services, School and Police unit), that observe, mingle and socialize at the facility. The social workers affiliated with the SSP understand and define their role in contradiction to the official agenda. The social workers seek to pull the young people off the street and get them to enroll...

  18. Mechanism of anterior-posterior polarity control in planarians

    Energy Technology Data Exchange (ETDEWEB)

    Lange, C.S.; Steele, V.E.

    1978-01-01

    The substance which inhibits brain formation in the regenerating planarian Dugesia etrusca was found to be a large molecule, at least in part protein, which electrophoreses as an electronegative moiety in pH 6.8 buffer. A model is presented, based on this finding and previous studies, which proposes an electrochemical mechanism for the control of polarity and possibly for the maintenance of tissue organization in planarians. It is proposed that a bioelectric field exists and moves the electronegative brain-inhibiting substance in a posterior direction, establishing polarity. This model explains the polarity reversal experiments using external fields and many of the previously unexplained classical planarian experiments. Data are presented demonstrating the existence, magnitude, and polarity of this bioelectric field, which is not greatly altered upon decapitation, all in accord with predictions of the model.

  19. Cellular and Humoral Mechanisms Involved in the Control of Tuberculosis

    Directory of Open Access Journals (Sweden)

    Joaquin Zuñiga

    2012-01-01

    Full Text Available Mycobacterium tuberculosis (Mtb infection is a major international public health problem. One-third of the world's population is thought to have latent tuberculosis, a condition where individuals are infected by the intracellular bacteria without active disease but are at risk for reactivation, if their immune system fails. Here, we discuss the role of nonspecific inflammatory responses mediated by cytokines and chemokines induced by interaction of innate receptors expressed in macrophages and dendritic cells (DCs. We also review current information regarding the importance of several cytokines including IL-17/IL-23 in the development of protective cellular and antibody-mediated protective responses against Mtb and their influence in containment of the infection. Finally, in this paper, emphasis is placed on the mechanisms of failure of Mtb control, including the immune dysregulation induced by the treatment with biological drugs in different autoimmune diseases. Further functional studies, focused on the mechanisms involved in the early host-Mtb interactions and the interplay between host innate and acquired immunity against Mtb, may be helpful to improve the understanding of protective responses in the lung and in the development of novel therapeutic and prophylactic tools in TB.

  20. Lattice Metamaterials with Mechanically Tunable Poisson's Ratio for Vibration Control

    Science.gov (United States)

    Chen, Yanyu; Li, Tiantian; Scarpa, Fabrizio; Wang, Lifeng

    2017-02-01

    Metamaterials with artificially designed architectures are increasingly considered as new paradigmatic material systems with unusual physical properties. Here, we report a class of architected lattice metamaterials with mechanically tunable negative Poisson's ratios and vibration-mitigation capability. The proposed lattice metamaterials are built by replacing regular straight beams with sinusoidally shaped ones, which are highly stretchable under uniaxial tension. Our experimental and numerical results indicate that the proposed lattices exhibit extreme Poisson's-ratio variations between -0.7 and 0.5 over large tensile deformations up to 50%. This large variation of Poisson's-ratio values is attributed to the deformation pattern switching from bending to stretching within the sinusoidally shaped beams. The interplay between the multiscale (ligament and cell) architecture and wave propagation also enables remarkable broadband vibration-mitigation capability of the lattice metamaterials, which can be dynamically tuned by an external mechanical stimulus. The material design strategy provides insights into the development of classes of architected metamaterials with potential applications including energy absorption, tunable acoustics, vibration control, responsive devices, soft robotics, and stretchable electronics.

  1. An Effective Feedback Control Mechanism for DiffServ Architecture

    Institute of Scientific and Technical Information of China (English)

    王重钢; 隆克平; 杨健; 程时端

    2002-01-01

    As a scalable QoS (Quality of Service) architecture, DiffServ (Differentiated Service) mainly consists of two components: traffic conditioning at the edge of the DiffServ domain and simple packet forwarding inside the DiffServ domain. DiffServ has many advantages such as flexibility, scalability and simplicity. But when providing AF (Assured Forwarding)services, DiffServ has some problems such as unfairness among aggregated flows or among microflows belonging to an aggregated flow. In this paper, a feedback mechanism for AF aggregated flows is proposed to solve this problem. Simulation results show that this mechanism does improve the performance of DiffServ. First, it can improve the fairness among aggregated flows and make DiffServ more friendly toward TCP (Transmission Control Protocol) flows. Second,it can decrease the buffer requirements at the congested router and thus obtain lower delay and packet loss rate. Third, it also keeps almost the same link utility as in normal DiffServ.Finally, it is simple and easy to be implemented.

  2. Mechanisms controlling the distribution of two invasive Bromus species

    Directory of Open Access Journals (Sweden)

    Olga Bykova

    2014-03-01

    Full Text Available In order to predict future range shifts for invasive species it is important to explore their ability to acclimate to the new environment and understand physiological and reproductive constraints controlling their distribution. My dissertation studied mechanisms by which temperature may affect the distribution of two aggressive plant invaders in North America, Bromus tectorum and Bromus rubens. I first evaluated winter freezing tolerance of Bromus species and demonstrated that the mechanism explaining their distinct northern range limits is different acquisition time of freezing tolerance. While B. rubens has a slower rate of freezing acclimation that leads to intolerance of sudden, late-autumn drops in temperature below -12°C, B. tectorum rapidly hardens and so is not impacted by the sudden onset of severe late-autumn cold. In addition, the analysis of male reproductive development and seed production showed that neither species produces seed at or above 36°C, due to complete pollen sterility, which might trigger climate-mediated range contractions at B. tectorum and B. rubens southern margins. Finally, a detailed gas-exchange analysis combined with biochemical modelling demonstrated that both species acclimate to a broad range of temperatures and photosynthetic response to temperature does not explain their current range separation.

  3. Passive Flow Separation Control Mechanism Inspired by Shark Skin

    Science.gov (United States)

    Oakley, India; Lang, Amy

    2015-11-01

    The following experimental work seeks to examine shark scales as passive flow-actuated separation control mechanisms. It is hypothesized that the actuation of these scales can in fact reduce pressure drag by inhibiting flow reversal and thereby prevent flow separation. In order to examine this mechanism at a fundamental level, three-dimensional sharkskin scales were simplified and modeled as two-dimensional flaps. To further simplify the experiment, the flaps were observed within a laminar boundary layer. The laminar boundary layer was grown over a long flat plate that was placed inside a water tunnel. A rotating cylinder was also used to induce an unsteady, increasing adverse pressure gradient, which generated a reversing flow. In order to visualize the potential actuation of the two-dimensional flaps DPIV (digital particle image velocimetry) was utilized. Three main objectives for this work included, the actuation of the two-dimensional flaps, the resistance to a reversed flow as a result of flap actuation and the prevention of flow separation. However once the experiment was conducted the flaps did not perform as previously hypothesized. The adverse pressure gradient induced by the rotating cylinder did not produce a reversing flow powerful enough to actuate the flaps. NSF REU Site Award 1358991.

  4. A starting point for fluorescence-based single-molecule measurements in biomolecular research.

    Science.gov (United States)

    Gust, Alexander; Zander, Adrian; Gietl, Andreas; Holzmeister, Phil; Schulz, Sarah; Lalkens, Birka; Tinnefeld, Philip; Grohmann, Dina

    2014-09-30

    Single-molecule fluorescence techniques are ideally suited to provide information about the structure-function-dynamics relationship of a biomolecule as static and dynamic heterogeneity can be easily detected. However, what type of single-molecule fluorescence technique is suited for which kind of biological question and what are the obstacles on the way to a successful single-molecule microscopy experiment? In this review, we provide practical insights into fluorescence-based single-molecule experiments aiming for scientists who wish to take their experiments to the single-molecule level. We especially focus on fluorescence resonance energy transfer (FRET) experiments as these are a widely employed tool for the investigation of biomolecular mechanisms. We will guide the reader through the most critical steps that determine the success and quality of diffusion-based confocal and immobilization-based total internal reflection fluorescence microscopy. We discuss the specific chemical and photophysical requirements that make fluorescent dyes suitable for single-molecule fluorescence experiments. Most importantly, we review recently emerged photoprotection systems as well as passivation and immobilization strategies that enable the observation of fluorescently labeled molecules under biocompatible conditions. Moreover, we discuss how the optical single-molecule toolkit has been extended in recent years to capture the physiological complexity of a cell making it even more relevant for biological research.

  5. A Quick-responsive DNA Nanotechnology Device for Bio-molecular Homeostasis Regulation.

    Science.gov (United States)

    Wu, Songlin; Wang, Pei; Xiao, Chen; Li, Zheng; Yang, Bing; Fu, Jieyang; Chen, Jing; Wan, Neng; Ma, Cong; Li, Maoteng; Yang, Xiangliang; Zhan, Yi

    2016-08-10

    Physiological processes such as metabolism, cell apoptosis and immune responses, must be strictly regulated to maintain their homeostasis and achieve their normal physiological functions. The speed with which bio-molecular homeostatic regulation occurs directly determines the ability of an organism to adapt to conditional changes. To produce a quick-responsive regulatory system that can be easily utilized for various types of homeostasis, a device called nano-fingers that facilitates the regulation of physiological processes was constructed using DNA origami nanotechnology. This nano-fingers device functioned in linked open and closed phases using two types of DNA tweezers, which were covalently coupled with aptamers that captured specific molecules when the tweezer arms were sufficiently close. Via this specific interaction mechanism, certain physiological processes could be simultaneously regulated from two directions by capturing one biofactor and releasing the other to enhance the regulatory capacity of the device. To validate the universal application of this device, regulation of the homeostasis of the blood coagulant thrombin was attempted using the nano-fingers device. It was successfully demonstrated that this nano-fingers device achieved coagulation buffering upon the input of fuel DNA. This nano-device could also be utilized to regulate the homeostasis of other types of bio-molecules.

  6. A Starting Point for Fluorescence-Based Single-Molecule Measurements in Biomolecular Research

    Directory of Open Access Journals (Sweden)

    Alexander Gust

    2014-09-01

    Full Text Available Single-molecule fluorescence techniques are ideally suited to provide information about the structure-function-dynamics relationship of a biomolecule as static and dynamic heterogeneity can be easily detected. However, what type of single-molecule fluorescence technique is suited for which kind of biological question and what are the obstacles on the way to a successful single-molecule microscopy experiment? In this review, we provide practical insights into fluorescence-based single-molecule experiments aiming for scientists who wish to take their experiments to the single-molecule level. We especially focus on fluorescence resonance energy transfer (FRET experiments as these are a widely employed tool for the investigation of biomolecular mechanisms. We will guide the reader through the most critical steps that determine the success and quality of diffusion-based confocal and immobilization-based total internal reflection fluorescence microscopy. We discuss the specific chemical and photophysical requirements that make fluorescent dyes suitable for single-molecule fluorescence experiments. Most importantly, we review recently emerged photoprotection systems as well as passivation and immobilization strategies that enable the observation of fluorescently labeled molecules under biocompatible conditions. Moreover, we discuss how the optical single-molecule toolkit has been extended in recent years to capture the physiological complexity of a cell making it even more relevant for biological research.

  7. Quality control mechanisms of protein biogenesis: proteostasis dies hard

    Directory of Open Access Journals (Sweden)

    Timothy Jan Bergmann

    2016-10-01

    Full Text Available The biosynthesis of proteins entails a complex series of chemical reactions that transform the information stored in the nucleic acid sequence into a polypeptide chain that needs to properly fold and reach its functional location in or outside the cell. It is of no surprise that errors might occur that alter the polypeptide sequence leading to a non-functional proteins or that impede delivery of proteins at the appropriate site of activity. In order to minimize such mistakes and guarantee the synthesis of the correct amount and quality of the proteome, cells have developed folding, quality control, degradation and transport mechanisms that ensure and tightly regulate protein biogenesis. Genetic mutations, harsh environmental conditions or attack by pathogens can subvert the cellular quality control machineries and perturb cellular proteostasis leading to pathological conditions. This review summarizes basic concepts of the flow of information from DNA to folded and active proteins and to the variable fidelity (from incredibly high to quite sloppy characterizing these processes. We will give particular emphasis on events that maintain or recover the homeostasis of the endoplasmic reticulum (ER, a major site of proteins synthesis and folding in eukaryotic cells. Finally, we will report on how cells can adapt to stressful conditions, how perturbation of ER homeostasis may result in diseases and how these can be treated.

  8. Shark Skin Bristling as a Passive Mechanism for Separation Control

    Science.gov (United States)

    Wheelus, Jennifer; Lang, Amy; Jones, Emily

    2011-11-01

    The skin of fast-swimming sharks is proposed to have mechanisms to reduce drag and delay flow separation. The skin of fast-swimming and agile sharks is covered with small teeth-like denticles on the order of 0.2 mm. The shortfin mako is one of the fastest and most agile ocean predators creating the need to minimize its pressure drag by controlling flow separation. Biological studies of the shortfin mako skin have shown the passive bristling angle of their denticles to exceed 50 degrees in areas on the flank corresponding to the locations likely to experience separation first. It is proposed that reversing flow, as occurs at the onset of separation in a turbulent boundary layer, would activate denticle bristling and hinder local separation from leading to global separation over the shark. This study focuses on the denticle reaction to various reversed flow conditions using a pulsating jet. Mako shark skin was subjected to numerous reversed flow velocities to determine the bristling onset velocity. Digital Particle Image Velocimetry (DPIV) and digital video were used to determine the flow conditions and denticle behavior. The effect of reversed flow velocity on denticle bristling and its relation to separation control will be discussed. Research funded by NSF (award 0932352).

  9. Mechanical stratigraphic controls on natural fracture spacing and penetration

    Science.gov (United States)

    McGinnis, Ronald N.; Ferrill, David A.; Morris, Alan P.; Smart, Kevin J.; Lehrmann, Daniel

    2017-02-01

    Fine-grained low permeability sedimentary rocks, such as shale and mudrock, have drawn attention as unconventional hydrocarbon reservoirs. Fracturing - both natural and induced - is extremely important for increasing permeability in otherwise low-permeability rock. We analyze natural extension fracture networks within a complete measured outcrop section of the Ernst Member of the Boquillas Formation in Big Bend National Park, west Texas. Results of bed-center, dip-parallel scanline surveys demonstrate nearly identical fracture strikes and slight variation in dip between mudrock, chalk, and limestone beds. Fracture spacing tends to increase proportional to bed thickness in limestone and chalk beds; however, dramatic differences in fracture spacing are observed in mudrock. A direct relationship is observed between fracture spacing/thickness ratio and rock competence. Vertical fracture penetrations measured from the middle of chalk and limestone beds generally extend to and often beyond bed boundaries into the vertically adjacent mudrock beds. In contrast, fractures in the mudrock beds rarely penetrate beyond the bed boundaries into the adjacent carbonate beds. Consequently, natural bed-perpendicular fracture connectivity through the mechanically layered sequence generally is poor. Fracture connectivity strongly influences permeability architecture, and fracture prediction should consider thin bed-scale control on fracture heights and the strong lithologic control on fracture spacing.

  10. Mechanical and dosimetric quality control for computer controlled radiotherapy treatment equipment.

    Science.gov (United States)

    Thompson, A V; Lam, K L; Balter, J M; McShan, D L; Martel, M K; Weaver, T A; Fraass, B A; Ten Haken, R K

    1995-05-01

    Modern computer controlled radiotherapy treatment equipment offers the possibility of delivering complex, multiple field treatments with minimal operator intervention, thus making multiple field conformal therapy practical. Conventional quality control programs are inadequate for this new technology, so new quality control procedures are needed. A reasonably fast, sensitive, and complete daily quality control program has been developed in our clinic that includes nearly automated mechanical as well as dosimetric tests. Automated delivery of these quality control fields is performed by the control system of the MM50 racetrack microtron, directed by the CCRS sequence processor [D. L. McShan and B. A. Fraass, Proceedings of the XIth International Conference on the use of computers in Radiation Therapy, 20-24 March 1994, Manchester, U.K. (North Western Medical Physics Department, Manchester, U.K., 1994), pp. 210-211], which controls the treatment process. The mechanical tests involve multiple irradiations of a single film to check the accuracy and reproducibility of the computer controlled setup of gantry and collimator angles, table orientation, collimator jaws, and multileaf collimator shape. The dosimetric tests, which involve multiple irradiations of an array of ionization chambers in a commercial dose detector (Keithly model 90100 Tracker System) rigidly attached to the head of the treatment gantry, check the output and symmetry of the treatment unit as a function of gantry and collimator angle and other parameters. For each of the dosimetric tests, readings from the five ionization chambers are automatically read out, stored, and analyzed by the computer, along with the geometric parameters of the treatment unit for that beam.(ABSTRACT TRUNCATED AT 250 WORDS)

  11. Cell shape, cytoskeletal mechanics, and cell cycle control in angiogenesis

    Science.gov (United States)

    Ingber, D. E.; Prusty, D.; Sun, Z.; Betensky, H.; Wang, N.

    1995-01-01

    Capillary endothelial cells can be switched between growth and differentiation by altering cell-extracellular matrix interactions and thereby, modulating cell shape. Studies were carried out to determine when cell shape exerts its growth-regulatory influence during cell cycle progression and to explore the role of cytoskeletal structure and mechanics in this control mechanism. When G0-synchronized cells were cultured in basic fibroblast growth factor (FGF)-containing defined medium on dishes coated with increasing densities of fibronectin or a synthetic integrin ligand (RGD-containing peptide), cell spreading, nuclear extension, and DNA synthesis all increased in parallel. To determine the minimum time cells must be adherent and spread on extracellular matrix (ECM) to gain entry into S phase, cells were removed with trypsin or induced to retract using cytochalasin D at different times after plating. Both approaches revealed that cells must remain extended for approximately 12-15 h and hence, most of G1, in order to enter S phase. After this restriction point was passed, normally 'anchorage-dependent' endothelial cells turned on DNA synthesis even when round and in suspension. The importance of actin-containing microfilaments in shape-dependent growth control was confirmed by culturing cells in the presence of cytochalasin D (25-1000 ng ml-1): dose-dependent inhibition of cell spreading, nuclear extension, and DNA synthesis resulted. In contrast, induction of microtubule disassembly using nocodazole had little effect on cell or nuclear spreading and only partially inhibited DNA synthesis. Interestingly, combination of nocodazole with a suboptimal dose of cytochalasin D (100 ng ml-1) resulted in potent inhibition of both spreading and growth, suggesting that microtubules are redundant structural elements which can provide critical load-bearing functions when microfilaments are partially compromised. Similar synergism between nocodazole and cytochalasin D was observed

  12. Drug Transport Microdevice Mimicking an Idealized Nanoscale Bio-molecular Motor

    Institute of Scientific and Technical Information of China (English)

    Jae Hwan Lee; Ramana M. Pidaparti

    2011-01-01

    Molecular motors are nature's nano-devices and the essential agents of movement that are an integral part of many living organisms.The supramolecular motor,called Nuclear Pore Complex (NPC),controls the transport of all cellular material between the cytoplasm and the nucleus that occurs naturally in biological cells of many organisms.In order to understand the design characteristics of the NPC,we developed a microdevice for drug/fluidic transport mimicking the coarse-grained representation of the NPC geometry through computational fluid dynamic analysis and optimization.Specifically,the role of the central plug in active fluidic/particle transport and passive transport (without central plug) was investigated.Results of flow rate,pressure and velocity profiles obtained from the models indicate that the central plug plays a major role in transport through this biomolecular machine.The results of this investigation show that fluidic transport and flow passages are important factors in designing NPC based nano- and micro-devices for drug delivery.

  13. Antimicrobial agents used in the control of periodontal biofilms: effective adjuncts to mechanical plaque control?

    Directory of Open Access Journals (Sweden)

    Ricardo Palmier Teles

    2009-06-01

    Full Text Available The control of biofilm accumulation on teeth has been the cornerstone of periodontal disease prevention for decades. However, the widespread prevalence of gingivitis suggests the inefficiency of self-performed mechanical plaque control in preventing gingival inflammation. This is particularly relevant in light of recent evidence suggesting that long standing gingivitis increases the risk of loss of attachment and that prevention of gingival inflammation might reduce the prevalence of mild to moderate periodontitis. Several antimicrobials have been tested as adjuncts to mechanical plaque control in order to improve the results obtained with oral home care. Recent studies, including meta-analyses, have indicated that home care products containing chemical antimicrobials can provide gingivitis reduction beyond what can be accomplished with brushing and flossing. Particularly, formulations containing chlorhexidine, mouthrinses containing essential oils and triclosan/copolymer dentifrices have well documented clinical antiplaque and antigingivitis effects. In vivo microbiological tests have demonstrated the ability of these antimicrobial agents to penetrate the biofilm mass and to kill bacteria growing within biofilms. In addition, chemical antimicrobials can reach difficult-to-clean areas such as interproximal surfaces and can also impact the growth of biofilms on soft tissue. These agents have a positive track record of safety and their use does not seem to increase the levels of resistant species. Further, no study has been able to establish a correlation between mouthrinses containing alcohol and oral cancer. In summary, the adjunct use of chemical plaque control should be recommended to subjects with well documented difficulties in achieving proper biofilm control using only mechanical means.

  14. Antimicrobial agents used in the control of periodontal biofilms: effective adjuncts to mechanical plaque control?

    Science.gov (United States)

    Teles, Ricardo Palmier; Teles, Flavia Rocha Fonseca

    2009-01-01

    The control of biofilm accumulation on teeth has been the cornerstone of periodontal disease prevention for decades. However, the widespread prevalence of gingivitis suggests the inefficiency of self-performed mechanical plaque control in preventing gingival inflammation. This is particularly relevant in light of recent evidence suggesting that long standing gingivitis increases the risk of loss of attachment and that prevention of gingival inflammation might reduce the prevalence of mild to moderate periodontitis. Several antimicrobials have been tested as adjuncts to mechanical plaque control in order to improve the results obtained with oral home care. Recent studies, including meta-analyses, have indicated that home care products containing chemical antimicrobials can provide gingivitis reduction beyond what can be accomplished with brushing and flossing. Particularly, formulations containing chlorhexidine, mouthrinses containing essential oils and triclosan/copolymer dentifrices have well documented clinical antiplaque and antigingivitis effects. In vivo microbiological tests have demonstrated the ability of these antimicrobial agents to penetrate the biofilm mass and to kill bacteria growing within biofilms. In addition, chemical antimicrobials can reach difficult-to-clean areas such as interproximal surfaces and can also impact the growth of biofilms on soft tissue. These agents have a positive track record of safety and their use does not seem to increase the levels of resistant species. Further, no study has been able to establish a correlation between mouthrinses containing alcohol and oral cancer. In summary, the adjunct use of chemical plaque control should be recommended to subjects with well documented difficulties in achieving proper biofilm control using only mechanical means.

  15. Catalytic Synthesis of Oxygenates: Mechanisms, Catalysts and Controlling Characteristics

    Energy Technology Data Exchange (ETDEWEB)

    Klier, Kamil; Herman, Richard G

    2005-11-30

    This research focused on catalytic synthesis of unsymmetrical ethers as a part of a larger program involving oxygenated products in general, including alcohols, ethers, esters, carboxylic acids and their derivatives that link together environmentally compliant fuels, monomers, and high-value chemicals. The catalysts studied here were solid acids possessing strong Brnsted acid functionalities. The design of these catalysts involved anchoring the acid groups onto inorganic oxides, e.g. surface-grafted acid groups on zirconia, and a new class of mesoporous solid acids, i.e. propylsulfonic acid-derivatized SBA-15. The former catalysts consisted of a high surface concentration of sulfate groups on stable zirconia catalysts. The latter catalyst consists of high surface area, large pore propylsulfonic acid-derivatized silicas, specifically SBA-15. In both cases, the catalyst design and synthesis yielded high concentrations of acid sites in close proximity to one another. These materials have been well-characterization in terms of physical and chemical properties, as well as in regard to surface and bulk characteristics. Both types of catalysts were shown to exhibit high catalytic performance with respect to both activity and selectivity for the bifunctional coupling of alcohols to form ethers, which proceeds via an efficient SN2 reaction mechanism on the proximal acid sites. This commonality of the dual-site SN2 reaction mechanism over acid catalysts provides for maximum reaction rates and control of selectivity by reaction conditions, i.e. pressure, temperature, and reactant concentrations. This research provides the scientific groundwork for synthesis of ethers for energy applications. The synthesized environmentally acceptable ethers, in part derived from natural gas via alcohol intermediates, exhibit high cetane properties, e.g. methylisobutylether with cetane No. of 53 and dimethylether with cetane No. of 55-60, or high octane properties, e.g. diisopropylether with

  16. Adrenergic receptor control mechanism for growth hormone secretion.

    Science.gov (United States)

    Blackard, W G; Heidingsfelder, S A

    1968-06-01

    The influence of catecholamines on growth hormone secretion has been difficult to establish previously, possibly because of the suppressive effect of the induced hyperglycemia on growth hormone concentrations. In this study, an adrenergic receptor control mechanism for human growth hormone (HGH) secretion was uncovered by studying the effects of alpha and beta receptor blockade on insulin-induced growth hormone elevations in volunteer subjects. Alpha adrenergic blockade with phentolamine during insulin hypoglycemia, 0.1 U/kg, inhibited growth hormon elevations to 30-50% of values in the same subjects during insulin hypoglycemia without adrenergic blockade. More complete inhibition by phentolamine could not be demonstrated at a lower dose of insulin (0.05 U/kg). Beta adrenergic blockade with propranolol during insulin hypoglycemia significantly enhanced HGH concentrations in paired experiments. The inhibiting effect of alpha adrenergic receptor blockade on HGH concentrations could not be attributed to differences in blood glucose or free fatty acid values; however, more prolonged hypoglycemia and lower plasma free fatty acid values may have been a factor in the greater HGH concentrations observed during beta blockade. In the absence of insulin induced hypoglycemia, neither alpha nor beta adrenergic receptor blockade had a detectable effect on HGH concentrations. Theophylline, an inhibitor of cyclic 3'5'-AMP phosphodiesterase activity, also failed to alter plasma HGH concentrations. These studies demonstrate a stimulatory effect of alpha receptors and a possible inhibitory effect of beta receptors on growth hormone secretion.

  17. Controlled growth mechanism of poly (3-hexylthiophene) nanowires

    Science.gov (United States)

    Kiymaz, D.; Yagmurcukardes, M.; Tomak, A.; Sahin, H.; Senger, R. T.; Peeters, F. M.; Zareie, H. M.; Zafer, C.

    2016-11-01

    Synthesis of 1D-polymer nanowires by a self-assembly method using marginal solvents is an attractive technique. While the formation mechanism is poorly understood, this method is essential in order to control the growth of nanowires. Here we visualized the time-dependent assembly of poly (3-hexyl-thiophene-2,5-diyl) (P3HT) nanowires by atomic force microscopy and scanning tunneling microscopy. The assembly of P3HT nanowires was carried out at room temperature by mixing cyclohexanone (CHN), as a poor solvent, with polymer solution in 1,2-dichlorobenzene (DCB). Both π-π stacking and planarization, obtained at the mix volume ratio of P3HT (in DCB):CHN (10:7), were considered during the investigation. We find that the length of nanowires was determined by the ordering of polymers in the polymer repetition direction. Additionally, our density functional theory calculations revealed that the presence of DCB and CHN molecules that stabilize the structural distortions due to tail group of polymers was essential for the core-wire formation.

  18. Controlling mechanisms of moisture diffusion in convective drying of leather

    Science.gov (United States)

    Benmakhlouf, Naima; Azzouz, Soufien; Monzó-Cabrera, Juan; Khdhira, Hechmi; ELCafsi, Afif

    2016-08-01

    Leather manufacturing involves a crucial energy-intensive drying stage in the finishing process to remove its residual moisture. It occurs several times in the tanning course. As it is the target of this paper to depict an experimental way to determine moisture diffusion in the convective drying of leather. The effective diffusion coefficient is estimated by a method derived from Fick's law and by analytic method. The effective diffusion coefficients are obtained from drying tests and the diffusivity behaviour is studied versus the controlling parameter such as the convective airflow temperature. The experiments were conducted at hot air temperatures of 40, 45, 50, 55 and 60 °C and hot air speed of 1 m/s. The hot air temperature had significant effect on the effective moisture diffusivity of the leather sample. The average effective moisture diffusivity in rosehip ranged between 5.87 × 10-11 and 14.48 × 10-11 m2/s for leather at the temperatures studied. Activation energy for convective drying was found to be 38.46 kJ/mol for leather. The obtained results fully confirm the theoretical study in which an exponentially increasing relationship between effective diffusivity and temperature is predicted. The results of this study provide a better understanding of the drying mechanisms and may lead to a series of recommendations for leather drying optimization. It opens the possibility for further investigations on the description of drying conditions.

  19. Immunosensor with fluid control mechanism for salivary cortisol analysis.

    Science.gov (United States)

    Yamaguchi, Masaki; Matsuda, Yohei; Sasaki, Shohei; Sasaki, Makoto; Kadoma, Yoshihiro; Imai, Yoshikatsu; Niwa, Daisuke; Shetty, Vivek

    2013-03-15

    The purpose of this research is to demonstrate a new design for a cortisol immunosensor for the noninvasive and quantitative analysis of salivary cortisol. We propose a cortisol immunosensor with a fluid control mechanism which has both a vertical flow and a lateral flow. The detected current resulting from a competitive reaction between the sample cortisol and a glucose oxidase (GOD)-labeled cortisol conjugate was found to be inversely related to the concentration of cortisol in the sample solution. A calibration curve using the relative detected current showed a R(2)=0.98 and CV=14% for a range of standard cortisol solutions corresponding to the concentrations of native salivary cortisol (0.1-10 ng/ml). The measurement could be accomplished within 35 min and the cortisol immunosensor could be reused. These results show promise for realizing an on-site and easy-to-use biosensor for cortisol. Used for evaluation of human salivary cortisol levels, the cortisol immunosensor measurement corresponded closely with commercially available ELISA method (R(2)=0.92). Our results indicate the promise of the new cortisol immunosensor for noninvasive, point of care measurement of human salivary cortisol levels.

  20. Weathering controls on mechanisms of carbon storage in grassland soils

    Energy Technology Data Exchange (ETDEWEB)

    Masiello, C.A.; Chadwick, O.A.; Southon, J.; Torn, M.S.; Harden, J.W.

    2004-09-01

    On a sequence of soils developed under similar vegetation, temperature, and precipitation conditions, but with variations in mineralogical properties, we use organic carbon and 14C inventories to examine mineral protection of soil organic carbon. In these soils, 14C data indicate that the creation of slow-cycling carbon can be modeled as occurring through reaction of organic ligands with Al3+ and Fe3+ cations in the upper horizons, followed by sorption to amorphous inorganic Al compounds at depth. Only one of these processes, the chelation of Al3+ and Fe3+ by organic ligands, is linked to large carbon stocks. Organic ligands stabilized by this process traverse the soil column as dissolved organic carbon (both from surface horizons and root exudates). At our moist grassland site, this chelation and transport process is very strongly correlated with the storage and long-term stabilization of soil organic carbon. Our 14C results show that the mechanisms of organic carbon transport and storage at this site follow a classic model previously believed to only be significant in a single soil order (Spodosols), and closely related to the presence of forests. The presence of this process in the grassland Alfisol, Inceptisol, and Mollisol soils of this chronosequence suggests that this process is a more significant control on organic carbon storage than previously thought.

  1. Mechanical Engineering Design Project report: Enabler control systems

    Science.gov (United States)

    Cullen, Christian; Delvecchio, Dave; Scarborough, Alan; Havics, Andrew A.

    1992-01-01

    The Controls Group was assigned the responsibility for designing the Enabler's control system. The requirement for the design was that the control system must provide a simple user interface to control the boom articulation joints, chassis articulation joints, and the wheel drive. The system required controlling hydraulic motors on the Enabler by implementing 8-bit microprocessor boards. In addition, feedback to evaluate positions and velocities must be interfaced to provide the operator with confirmation as well as control.

  2. Mining, modeling, and evaluation of subnetworks from large biomolecular networks and its comparison study.

    Science.gov (United States)

    Hu, Xiaohua; Ng, Michael; Wu, Fang-Xiang; Sokhansanj, Bahrad A

    2009-03-01

    In this paper, we present a novel method to mine, model, and evaluate a regulatory system executing cellular functions that can be represented as a biomolecular network. Our method consists of two steps. First, a novel scale-free network clustering approach is applied to such a biomolecular network to obtain various subnetworks. Second, computational models are generated for the subnetworks and simulated to predict their behavior in the cellular context. We discuss and evaluate some of the advanced computational modeling approaches, in particular, state-space modeling, probabilistic Boolean network modeling, and fuzzy logic modeling. The modeling and simulation results represent hypotheses that are tested against high-throughput biological datasets (microarrays and/or genetic screens) under normal and perturbation conditions. Experimental results on time-series gene expression data for the human cell cycle indicate that our approach is promising for subnetwork mining and simulation from large biomolecular networks.

  3. Sop-GPU: accelerating biomolecular simulations in the centisecond timescale using graphics processors.

    Science.gov (United States)

    Zhmurov, A; Dima, R I; Kholodov, Y; Barsegov, V

    2010-11-01

    Theoretical exploration of fundamental biological processes involving the forced unraveling of multimeric proteins, the sliding motion in protein fibers and the mechanical deformation of biomolecular assemblies under physiological force loads is challenging even for distributed computing systems. Using a C(α)-based coarse-grained self organized polymer (SOP) model, we implemented the Langevin simulations of proteins on graphics processing units (SOP-GPU program). We assessed the computational performance of an end-to-end application of the program, where all the steps of the algorithm are running on a GPU, by profiling the simulation time and memory usage for a number of test systems. The ∼90-fold computational speedup on a GPU, compared with an optimized central processing unit program, enabled us to follow the dynamics in the centisecond timescale, and to obtain the force-extension profiles using experimental pulling speeds (v(f) = 1-10 μm/s) employed in atomic force microscopy and in optical tweezers-based dynamic force spectroscopy. We found that the mechanical molecular response critically depends on the conditions of force application and that the kinetics and pathways for unfolding change drastically even upon a modest 10-fold increase in v(f). This implies that, to resolve accurately the free energy landscape and to relate the results of single-molecule experiments in vitro and in silico, molecular simulations should be carried out under the experimentally relevant force loads. This can be accomplished in reasonable wall-clock time for biomolecules of size as large as 10(5) residues using the SOP-GPU package.

  4. Disentangling the Impact of Control-Enhancing Mechanisms on Firm Performance

    DEFF Research Database (Denmark)

    Zattoni, Alessandro; Pedersen, Torben

    2011-01-01

    Governance scholars and investors traditionally advocate against the use of control enhancing mechanisms, i.e. mechanisms aimed at separating voting and cash flow rights. These mechanisms may, in fact, determine a deviation from the proportionality principle and may encourage large and controlling......, and (ii) the negative impact on firm performance of mechanisms aimed at enhancing control by leveraging voting power is mediated by the divergence in voting and cash flow rights....

  5. Engineering intracellular active transport systems as in vivo biomolecular tools.

    Energy Technology Data Exchange (ETDEWEB)

    Bachand, George David; Carroll-Portillo, Amanda

    2006-11-01

    Active transport systems provide essential functions in terms of cell physiology and metastasis. These systems, however, are also co-opted by invading viruses, enabling directed transport of the virus to and from the cell's nucleus (i.e., the site of virus replication). Based on this concept, fundamentally new approaches for interrogating and manipulating the inner workings of living cells may be achievable by co-opting Nature's active transport systems as an in vivo biomolecular tool. The overall goal of this project was to investigate the ability to engineer kinesin-based transport systems for in vivo applications, specifically the collection of effector proteins (e.g., transcriptional regulators) within single cells. In the first part of this project, a chimeric fusion protein consisting of kinesin and a single chain variable fragment (scFv) of an antibody was successfully produced through a recombinant expression system. The kinesin-scFv retained both catalytic and antigenic functionality, enabling selective capture and transport of target antigens. The incorporation of a rabbit IgG-specific scFv into the kinesin established a generalized system for functionalizing kinesin with a wide range of target-selective antibodies raised in rabbits. The second objective was to develop methods of isolating the intact microtubule network from live cells as a platform for evaluating kinesin-based transport within the cytoskeletal architecture of a cell. Successful isolation of intact microtubule networks from two distinct cell types was demonstrated using glutaraldehyde and methanol fixation methods. This work provides a platform for inferring the ability of kinesin-scFv to function in vivo, and may also serve as a three-dimensional scaffold for evaluating and exploiting kinesin-based transport for nanotechnological applications. Overall, the technology developed in this project represents a first-step in engineering active transport system for in vivo

  6. Output-input ratio in thermally fluctuating biomolecular machines.

    Science.gov (United States)

    Kurzynski, Michal; Torchala, Mieczyslaw; Chelminiak, Przemyslaw

    2014-01-01

    Biological molecular machines are proteins that operate under isothermal conditions and hence are referred to as free energy transducers. They can be formally considered as enzymes that simultaneously catalyze two chemical reactions: the free energy-donating (input) reaction and the free energy-accepting (output) one. Most if not all biologically active proteins display a slow stochastic dynamics of transitions between a variety of conformational substates composing their native state. This makes the description of the enzymatic reaction kinetics in terms of conventional rate constants insufficient. In the steady state, upon taking advantage of the assumption that each reaction proceeds through a single pair (the gate) of transition conformational substates of the enzyme-substrates complex, the degree of coupling between the output and the input reaction fluxes has been expressed in terms of the mean first-passage times on a conformational transition network between the distinguished substates. The theory is confronted with the results of random-walk simulations on the five-dimensional hypercube. The formal proof is given that, for single input and output gates, the output-input degree of coupling cannot exceed unity. As some experiments suggest such exceeding, looking for the conditions for increasing the degree of coupling value over unity challenges the theory. Performed simulations of random walks on several model networks involving more extended gates indicate that the case of the degree of coupling value higher than 1 is realized in a natural way on critical branching trees extended by long-range shortcuts. Such networks are scale-free and display the property of the small world. For short-range shortcuts, the networks are scale-free and fractal, representing a reasonable model for biomolecular machines displaying tight coupling, i.e., the degree of coupling equal exactly to unity. A hypothesis is stated that the protein conformational transition networks, as

  7. Development of an Outdoor Temperature-Based Control Algorithm for Residential Mechanical Ventilation Control

    Energy Technology Data Exchange (ETDEWEB)

    Less, Brennan [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Walker, Iain [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Tang, Yihuan [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)

    2014-06-01

    Smart ventilation systems use controls to ventilate more during those periods that provide either an energy or IAQ advantage (or both) and less during periods that provide a dis advantage. Using detailed building simulations, this study addresses one of the simplest and lowest cost types of smart controllers —outdoor temperature- based control. If the outdoor temperature falls below a certain cut- off, the fan is simply turned off. T he main principle of smart ventilation used in this study is to shift ventilation from time periods with large indoor -outdoor temperature differences, to periods where these differences are smaller, and their energy impacts are expected to be less. Energy and IAQ performance are assessed relative to a base case of a continuously operated ventilation fan sized to comply with ASHRAE 62.2-2013 whole house ventilation requirements. In order to satisfy 62.2-2013, annual pollutant exposure must be equivalent between the temperature controlled and continuous fan cases. This requires ventilation to be greater than 62.2 requirements when the ventilation system operates. This is achieved by increasing the mechanical ventilation system air flow rates.

  8. Matlab/simMechanics based control of four-bar passive lower-body mechanism for rehabilitation

    Directory of Open Access Journals (Sweden)

    Ashish Singla

    2016-09-01

    Full Text Available In recent times, use of wearable devices is becoming popular for providing precise ways of rehabilitation. The focus of this paper is to propose a passive lower body mechanism using a four-bar linkage, which can be actuated via the hip joint to move the other two joints at knee and ankle as well. Simulations are performed here by considering an average male human (height six feet by modelling the gait cycle in CAD software and executing the control strategy in the SimMechanics, which provides a convenient way to study without use of detailed computational mathematics. The study of the controller aspects of the passive mechanism is presented with both PD and PID controllers with auto- and manual-tuned gains. Significant reduction in actuator torques is observed with the manually-tuned PID controller over automatically-tuned PID controller with marginal degradation in the overshoot and settling time.

  9. Compound control strategy used in Electro-Mechanical Actuator (EMA)

    Science.gov (United States)

    Fu, Yongling; Yan, Meng

    2017-01-01

    This article briefly describes the overall structure of the loading test rig; establish mathematical model of loading EMA, analyze its stability, surplus force and other properties in MATLAB; propose a compound control strategy combined speed feedback, PID and feed-forward compensation based on structure invariance principle. To verify the effectiveness of the control strategy, do a co-simulation by designing a controller based on the control strategy above in MATLAB and building the EMA model in AMESim. The results show that the compound control strategy can significantly improve dynamic tracking accuracy and reduce surplus force.

  10. An Analysis of Biomolecular Force Fields for Simulations of Polyglutamine in Solution

    Energy Technology Data Exchange (ETDEWEB)

    Fluitt, Aaron M. [Univ. of Chicago, IL (United States); de Pablo, Juan J. [Argonne National Lab. (ANL), Argonne, IL (United States)

    2015-09-01

    Polyglutamine (polyQ) peptides are a useful model system for biophysical studies of protein folding and aggregation, both for their intriguing aggregation properties and their own relevance to human disease. The genetic expansion of a polyQ tract triggers the formation of amyloid aggregates associated with nine neurodegenerative diseases. Several clearly identifiable and separable factors, notably the length of the polyQ tract, influence the mechanism of aggregation, its associated kinetics, and the ensemble of structures formed. Atomistic simulations are well positioned to answer open questions regarding the thermodynamics and kinetics of polyQ folding and aggregation. The additional, explicit representation of water permits deeper investigation of the role of solvent dynamics, and it permits a direct comparison of simulation results with infrared spectroscopy experiments. The generation of meaningful simulation results hinges on satisfying two essential criteria: achieving sufficient conformational sampling to draw statistically valid conclusions, and accurately reproducing the intermolecular forces that govern system structure and dynamics. In this work, we examine the ability of 12 biomolecular force fields to reproduce the properties of a simple, 30-residue polyQ peptide (Q30) in explicit water. In addition to secondary and tertiary structure, we consider generic structural properties of polymers that provide additional dimensions for analysis of the highly degenerate disordered states of the molecule. We find that the 12 force fields produce a wide range of predictions. We identify AMBER ff99SB, AMBER ff99SB*, and OPLS-AA/L to be most suitable for studies of polyQ folding and aggregation.

  11. Independent backup mode transfer and mechanism for digital control computers

    Science.gov (United States)

    Tulpule, Bhalchandra R. (Inventor); Oscarson, Edward M. (Inventor)

    1992-01-01

    An interrupt is provided to a signal processor having a non-maskable interrupt input, in response to the detection of a request for transfer to backup software. The signal processor provides a transfer signal to a transfer mechanism only after completion of the present machine cycle. Transfer to the backup software is initiated by the transfer mechanism only upon reception of the transfer signal.

  12. Mechanical and controller design of a modular mechatronic device - mechacell

    OpenAIRE

    Ristevski, Stefan

    2015-01-01

    Cataloged from PDF version of thesis. Includes bibliographical references (leaves 75-79). Thesis (M.S.): Bilkent University, The Department of Mechanical Engineering, İhsan Doğramacı Bilkent University, 2015. Since ancient times people have been building tools to aid them in their life. Robots evolved from being purely mechanical to mechatronic, from immobile to mobile and became smaller in scale. As the technology in building robots matured researchers, began working to bui...

  13. Adaptive Control Methods for Mechanical Manipulators: A Comparative Study

    Science.gov (United States)

    1989-12-01

    control task is to what extent one should take into account real robot dynamics in control synthesis. Current industrial practices, in order to take...in an attempt to be able to take advantage of the full robot dynamics and to overcome the limitations of the actually available practices [16,17...given to the question of how to use the knowledge of the robot dynamics to synthesize such control that would be simple enough to implement in practice

  14. Adaptive Clutch Engaging Process Control for Automatic Mechanical Transmission

    Institute of Scientific and Technical Information of China (English)

    LIU Hai-ou; CHEN Hui-yan; DING Hua-rong; HE Zhong-bo

    2005-01-01

    Based on detail analysis of clutch engaging process control targets and adaptive demands, a control strategy which is based on speed signal, different from that of based on main clutch displacement signal, is put forward. It considers both jerk and slipping work which are the most commonly used quality evaluating indexes of vehicle starting phase. The adaptive control system and its reference model are discussed profoundly.Taking the adaptability to different starting gears and different road conditions as examples, some proving field test records are shown to illustrate the main clutch adaptive control strategy at starting phase. Proving field test gives acceptable results.

  15. Prognostics Enhanced Reconfigurable Control of Electro-Mechanical Actuators

    Data.gov (United States)

    National Aeronautics and Space Administration — Actuator systems are employed widely in aerospace, transportation and industrial processes to provide power to critical loads, such as aircraft control surfaces....

  16. Computer Programming and Biomolecular Structure Studies: A Step beyond Internet Bioinformatics

    Science.gov (United States)

    Likic, Vladimir A.

    2006-01-01

    This article describes the experience of teaching structural bioinformatics to third year undergraduate students in a subject titled "Biomolecular Structure and Bioinformatics." Students were introduced to computer programming and used this knowledge in a practical application as an alternative to the well established Internet bioinformatics…

  17. Global analysis of time-resolved fluorescence microspectroscopy and applications in biomolecular studies

    NARCIS (Netherlands)

    Laptenok, S.

    2009-01-01

    Understanding the properties of biomolecular networks is of central importance in life sciences. Optical microscopy has been very useful to determine the sub-cellular localisation of proteins but it cannot reveal whether proteins interact with one another. Micro-spectroscopic techniques (combining m

  18. Control Mechanism Strategies for Spin-Stabilized Projectiles

    Science.gov (United States)

    2008-09-01

    from more traditional smart weapons, thus warranting basic research into guidance and control strategies. Conventional methods include canards, fins...moment arms. AACC XNXN  . (1) 14 CG CP Nose Base Figure 13. Relationship between maneuver footprint and control axial location. XC CG MC

  19. An Intelligent Call Admission Control Decision Mechanism for Wireless Networks

    CERN Document Server

    S., Ramesh Babu H; S, Satyanarayana P

    2010-01-01

    The Call admission control (CAC) is one of the Radio Resource Management (RRM) techniques plays instrumental role in ensuring the desired Quality of Service (QoS) to the users working on different applications which have diversified nature of QoS requirements. This paper proposes a fuzzy neural approach for call admission control in a multi class traffic based Next Generation Wireless Networks (NGWN). The proposed Fuzzy Neural Call Admission Control (FNCAC) scheme is an integrated CAC module that combines the linguistic control capabilities of the fuzzy logic controller and the learning capabilities of the neural networks .The model is based on Recurrent Radial Basis Function Networks (RRBFN) which have better learning and adaptability that can be used to develop the intelligent system to handle the incoming traffic in the heterogeneous network environment. The proposed FNCAC can achieve reduced call blocking probability keeping the resource utilisation at an optimal level. In the proposed algorithm we have c...

  20. Physical damping in IDA-PBC controlled underactuated mechanical systems : Special issue on Hamiltonian and Lagrangian Methods for Nonlinear Control

    NARCIS (Netherlands)

    Gómez-Estern, F.; Schaft, A.J. van der

    2004-01-01

    Energy shaping and passivity-based control designs have proven to be effective in solving control problems for underactuated mechanical systems. In recent works, Interconnection and Damping Assignment Passivity-Based Control (IDA-PBC) has been successfully applied to open loop conservative models, i

  1. Correction: β-Sialon nanowires, nanobelts and hierarchical nanostructures: morphology control, growth mechanism and cathodoluminescence properties

    Science.gov (United States)

    Huang, Juntong; Huang, Zhaohui; Liu, Yangai; Fang, Minghao; Chen, Kai; Huang, Yaoting; Huang, Saifang; Ji, Haipeng; Yang, Jingzhou; Wu, Xiaowen; Zhang, Shaowei

    2016-07-01

    Correction for `β-Sialon nanowires, nanobelts and hierarchical nanostructures: morphology control, growth mechanism and cathodoluminescence properties' by Juntong Huang, et al., Nanoscale, 2014, 6, 424-432.

  2. RESEARCH ON MECHANICAL MEASUREMENT-ORIENTED INTELLIGENT VIRTUAL CONTROLS

    Institute of Scientific and Technical Information of China (English)

    Tang Baoping; Qin Shuren

    2004-01-01

    Intelligent virtual control (IVC) is an intelligent measurement instrument unit with the function of actual measurement instruments, and the unit can be used as basic building block for a variety of more complex virtual measurement instruments on a PC. IVC is a further advancement from virtual instrument (VI), and it fuses the function modules and the controls modules so that the relationship between the functions and controls of an instrument is imbedded in one or more units. The design, implementation and optimization methods of IVCs are introduced. The computer software representation of IVCs is discussed. An example of an actual VI constructed with the building blocks of IVCs is given.

  3. Lyapunov based nonlinear control of electrical and mechanical systems

    Science.gov (United States)

    Behal, Aman

    This Ph.D. dissertation describes the design and implementation of various control strategies centered around the following applications: (i) an improved indirect field oriented controller for the induction motor, (ii) partial state feedback control of an induction motor with saturation effects, (iii) tracking control of an underactuated surface vessel, and (iv) an attitude tracking controller for an underactuated spacecraft. The theory found in each of these sections is demonstrated through simulation or experimental results. An introduction to each of these four primary chapters can be found in chapter one. In the second chapter, the previously published tracking control of [16] 1 is presented in the indirect field oriented control (IFOC) notation to achieve exponential rotor velocity/rotor flux tracking. Specifically, it is illustrated how the proposed IFOC controller can be rewritten in the manner of [16] to allow for a direct Lyapunov stability proof. Experimental results (implemented with the IFOC algorithm) are provided to corroborate the efficacy of the algorithm. In the third chapter, a singularity-free, rotor position tracking controller is presented for the full order, nonlinear dynamic model of the induction motor that includes the effects of magnetic saturation. Specifically, by utilizing the pi-equivalent saturation model, an observer/controller strategy is designed that achieves semi-global exponential rotor position tracking and only requires stator current, rotor velocity, and rotor position measurements. Simulation and experimental results are included to demonstrate the efficacy of the proposed algorithm. In the fourth chapter, a continuous, time-varying tracking controller is designed that globally exponentially forces the position/orientation tracking error of an under-actuated surface vessel to a neighborhood about zero that can be made arbitrarily small (i.e., global uniformly ultimately boundedness (GUUB)). The result is facilitated by

  4. Mechanisms Involved in Nematode Control by Endophytic Fungi

    NARCIS (Netherlands)

    Schouten, Sander

    2016-01-01

    Colonization of plants by particular endophytic fungi can provide plants with improved defenses toward nematodes. Evidently, such endophytes can be important in developing more sustainable agricultural practices. The mechanisms playing a role in this quantitative antagonism are poorly understood

  5. CONCEPTUAL APPROACHES TO CREATE CONTROL MECHANISM BY PASSENGER COMMUTATION SERVICES

    Directory of Open Access Journals (Sweden)

    V. O. Zadoya

    2010-11-01

    Full Text Available In the article the basic approaches of improving a management mechanism for passenger suburban railway transportations are considered, and the classification of reformation models for passenger suburban railway transportations depending on scales, degree of independence, department subordination and amount of proprietors of future company is offered.

  6. Mechanisms for quality control of misfolded transmembrane proteins

    OpenAIRE

    Houck, Scott A.; Cyr, Douglas M.

    2011-01-01

    To prevent the accumulation of misfolded and aggregated proteins, the cell has developed a complex network of cellular quality control (QC) systems to recognize misfolded proteins and facilitate their refolding or degradation. The cell faces numerous obstacles when performing quality control on transmembrane proteins. Transmembrane proteins have domains on both sides of a membrane and QC systems in distinct compartments must coordinate to monitor the folding status of the protein. Additionall...

  7. Group Theoretical Approach for Controlled Quantum Mechanical Systems

    Science.gov (United States)

    2007-11-06

    evolution equation with Hamiltonians which may possess discrete , continuous, and mixed spectrum. For such a quantum system, the Hamiltonian operator...study of classical linear and nonlinear systems, which proves to be very useful in understanding the design problems such as disturbance decoupling...developed by Kunita can then be implemented to establish controllability conditions for the original time-dependent Schrodinger control problem. The end

  8. Research in Fluid Mechanics, Control Theory and Such in Yugoslavia

    Science.gov (United States)

    1988-08-17

    microcom- verized coal in a steam reactor . There is presently a joint puter control systems, industrial robot systems, systems German and Yugoslav program on...of computer aided design to the semibatch column con- involves over 30 industrial companies and the two Slovene trol connected with the paper mill...M. Milanovic, "Computer Stefan Institute. Aided Design of Semibatch Distillation Column Control,’ Proceedings of the 2nd European Simulation Congress

  9. Quantum and classical control of single photon states via a mechanical resonator

    Science.gov (United States)

    Basiri-Esfahani, Sahar; Myers, Casey R.; Combes, Joshua; Milburn, G. J.

    2016-06-01

    Optomechanical systems typically use light to control the quantum state of a mechanical resonator. In this paper, we propose a scheme for controlling the quantum state of light using the mechanical degree of freedom as a controlled beam splitter. Preparing the mechanical resonator in non-classical states enables an optomechanical Stern-Gerlach interferometer. When the mechanical resonator has a small coherent amplitude it acts as a quantum control, entangling the optical and mechanical degrees of freedom. As the coherent amplitude of the resonator increases, we recover single photon and two-photon interference via a classically controlled beam splitter. The visibility of the two-photon interference is particularly sensitive to coherent excitations in the mechanical resonator and this could form the basis of an optically transduced weak-force sensor.

  10. The impact of a firm's internal control mechanisms on the choice of innovation mode

    Institute of Scientific and Technical Information of China (English)

    LIU Xinmin; LI Yuan; SU Zhongfeng; FENG Jinlu

    2007-01-01

    A finn's internal control mechanisms may have a significant influence on the choice of innovation mode. Therefore, based on the research on the internal control mechanisms of companies, we developed a model to explore the relationship between a finn's internal control mechanisms and the choice of innovation mode. Using a sample of 585 Chinese finns, this study tests the proposed model. Results show that strategic control has a positive relationship with radical innovation, but a negative relationship with incremental innovation, while financial control has a negative relationship with radical innovation, but a positive relationship with incremental innovation.

  11. Mechanical AGN Feedback: Controlling the Thermodynamical Evolution of Elliptical Galaxies

    CERN Document Server

    Gaspari, M; Temi, P

    2012-01-01

    A fundamental gap in the current understanding of galaxies concerns the thermodynamical evolution of the ordinary, baryonic matter. On one side, radiative emission drastically decreases the thermal energy content of the interstellar plasma (ISM), inducing a slow cooling flow toward the centre. On the other side, the active galactic nucleus (AGN) struggles to prevent the runaway cooling catastrophe, injecting huge amount of energy in the ISM. The present study intends to deeply investigate the role of mechanical AGN feedback in (isolated or massive) elliptical galaxies, extending and completing the mass range of tested cosmic environments. Our previously successful feedback models, in galaxy clusters and groups, demonstrated that AGN outflows, self-regulated by cold gas accretion, are able to properly quench the cooling flow, without destroying the cool core. Via 3D hydrodynamic simulations (FLASH 3.3), including also stellar evolution, we show that massive mechanical AGN outflows can indeed solve the cooling ...

  12. Mechanical control over valley magnetotransport in strained graphene

    Energy Technology Data Exchange (ETDEWEB)

    Ma, Ning, E-mail: maning@stu.xjtu.edu.cn [Department of Physics, MOE Key Laboratory of Advanced Transducers and Intelligent Control System, Taiyuan University of Technology, Taiyuan 030024 (China); Department of Applied Physics, MOE Key Laboratory for Nonequilibrium Synthesis and Modulation of Condensed Matter, Xi' an Jiaotong University, Xi' an 710049 (China); Zhang, Shengli, E-mail: zhangsl@mail.xjtu.edu.cn [Department of Applied Physics, MOE Key Laboratory for Nonequilibrium Synthesis and Modulation of Condensed Matter, Xi' an Jiaotong University, Xi' an 710049 (China); Liu, Daqing, E-mail: liudq@cczu.edu.cn [School of Mathematics and Physics, Changzhou University, Changzhou 213164 (China)

    2016-05-06

    Recent experiments report that the graphene exhibits Landau levels (LLs) that form in the presence of a uniform strain pseudomagnetic field with magnitudes up to hundreds of tesla. We further reveal that the strain removes the valley degeneracy in LLs, and leads to a significant valley polarization with inversion symmetry broken. This accordingly gives rise to the well separated valley Hall plateaus and Shubnikov–de Haas oscillations. These effects are absent in strainless graphene, and can be used to generate and detect valley polarization by mechanical means, forming the basis for the new paradigm “valleytronics” applications. - Highlights: • We explore the mechanical strain effects on the valley magnetotransport in graphene. • We analytically derive the dc collisional and Hall conductivities under strain. • The strain removes the valley degeneracy in Landau levels. • The strain causes a significant valley polarization with inversion symmetry broken. • The strain leads to the well separated valley Hall and Shubnikov–de Haas effects.

  13. Mechanically Controlled Electron Transfer in a Single-Polypeptide Transistor

    Science.gov (United States)

    Sheu, Sheh-Yi; Yang, Dah-Yen

    2017-01-01

    Proteins are of interest in nano-bio electronic devices due to their versatile structures, exquisite functionality and specificity. However, quantum transport measurements produce conflicting results due to technical limitations whereby it is difficult to precisely determine molecular orientation, the nature of the moieties, the presence of the surroundings and the temperature; in such circumstances a better understanding of the protein electron transfer (ET) pathway and the mechanism remains a considerable challenge. Here, we report an approach to mechanically drive polypeptide flip-flop motion to achieve a logic gate with ON and OFF states during protein ET. We have calculated the transmission spectra of the peptide-based molecular junctions and observed the hallmarks of electrical current and conductance. The results indicate that peptide ET follows an NC asymmetric process and depends on the amino acid chirality and α-helical handedness. Electron transmission decreases as the number of water molecules increases, and the ET efficiency and its pathway depend on the type of water-bridged H-bonds. Our results provide a rational mechanism for peptide ET and new perspectives on polypeptides as potential candidates in logic nano devices.

  14. Mechanical characterization of calcium pectinate hydrogel for controlled drug delivery

    Directory of Open Access Journals (Sweden)

    Chung Jin Thau

    2003-01-01

    Full Text Available Calcium pectinate beads, a paniculate hydrogel system, is an attractive drug carrier for oral delivery. In this study, a poorly water-soluble model drug indomethacin was incorporated into calcium pectinate beads made of different pectin concentrations, which were produced by an extrusion method. The effect of pectin concentration on bead size, circularity, swelling behavior, and mechanical properties, as well as in vitro drug release profile was investigated. The mechanical properties of calcium pectinate beads were determined by a micromanipulation technique. The drug release profile was measured using a standard British Pharmacopoeia method. It was found that the beads made of higher pectin concentration in general had a less permeable matrix structure and greater mechanical rigidity, although they swelled more after hydration. However, such an effect was not significant when the pectin concentration was increased to above 8%. Micromanipulation measurements showed that there was significant relaxation of the force being imposed on single hydrated beads when they were held, but this phenomenon did not occur on dry beads, which means that the force relaxation was dominated by liquid loss from the beads. The rate of the force relaxation was determined, and has been related to the release rate of the model drug entrapped in the calcium pectinate beads.

  15. Probable Mechanisms of Needling Therapies for Myofascial Pain Control

    Directory of Open Access Journals (Sweden)

    Li-Wei Chou

    2012-01-01

    Full Text Available Myofascial pain syndrome (MPS has been defined as a regional pain syndrome characterized by muscle pain caused by myofascial trigger points (MTrPs clinically. MTrP is defined as the hyperirritable spot in a palpable taut band of skeletal muscle fibers. Appropriate treatment to MTrPs can effectively relieve the clinical pain of MPS. Needling therapies, such as MTrP injection, dry needling, or acupuncture (AcP can effectively eliminate pain immediately. AcP is probably the first reported technique in treating MPS patients with dry needling based on the Traditional Chinese Medicine (TCM theory. The possible mechanism of AcP analgesia were studied and published in recent decades. The analgesic effect of AcP is hypothesized to be related to immune, hormonal, and nervous systems. Compared to slow-acting hormonal system, nervous system acts in a faster manner. Given these complexities, AcP analgesia cannot be explained by any single mechanism. There are several principles for selection of acupoints based on the TCM principles: “Ah-Shi” point, proximal or remote acupoints on the meridian, and extra-meridian acupoints. Correlations between acupoints and MTrPs are discussed. Some clinical and animal studies of remote AcP for MTrPs and the possible mechanisms of remote effectiveness are reviewed and discussed.

  16. Sand control mechanism analysis of metallic wool screen

    Energy Technology Data Exchange (ETDEWEB)

    Yongquan, H.; Jinzhou, Z.; Zhinjun, W.; Zhaofeng, L. [Southwest Petroleum Institute, China, (China); Lei, Y. [Liaohe petroleum Administration, China, (China)

    1997-08-01

    A filter prepacked with metallic wool was developed and claimed to have been effectively used on thermal and unconsolidated sand oil wells. Structural features of the filter screen and the factors having a bearing on its sand control function, such as particle characteristics, fluid properties, environmental conditions, and the filtering characteristics of metallic wool, were discussed. Some experimental results have been provided to illustrate desirable characteristics and advantages. According to this evidence, sanding velocity is highest at the beginning, stabilizing gradually. Production pressure drop must be appropriately adjusted to achieve best results with well sanding control. 9 refs., 1 tab., 5 figs.

  17. Decoherence control: A feedback mechanism based on hamiltonian tracking

    CERN Document Server

    Katz, G; Kosloff, R; Katz, Gil; Ratner, Mark; Kosloff, Ronnie

    2006-01-01

    Enviroment - caused dissipation disrupts the hamiltonian evolution of all quantum systems not fully isolated from any bath. We propose and examine a feedback-control scheme to eliminate such dissipation, by tracking the free hamiltonian evolution. We determine a driving-field that maximizes the projection of the actual molecular system onto the freely propagated one. The evolution of a model two level system in a dephasing bath is followed, and the driving field that overcomes the decoherence is calculated. An implementation of the scheme in the laboratory using feedback control is suggested.

  18. Lie Algebroids in Classical Mechanics and Optimal Control

    Directory of Open Access Journals (Sweden)

    Eduardo Martínez

    2007-03-01

    Full Text Available We review some recent results on the theory of Lagrangian systems on Lie algebroids. In particular we consider the symplectic and variational formalism and we study reduction. Finally we also consider optimal control systems on Lie algebroids and we show how to reduce Pontryagin maximum principle.

  19. Snail levels control the migration mechanism of mesenchymal tumor cells.

    Science.gov (United States)

    Belgiovine, Cristina; Chiesa, Giulio; Chiodi, Ilaria; Frapolli, Roberta; Bonezzi, Katiuscia; Taraboletti, Giulia; D'Incalci, Maurizio; Mondello, Chiara

    2016-07-01

    Cancer cells use two major types of movement: Mesenchymal, which is typical of cells of mesenchymal origin and depends on matrix metalloproteinase (MMP) activity, and amoeboid, which is characteristic of cells with a rounded shape and relies on the activity of Rho-associated kinase (ROCK). The present authors previously demonstrated that, during neoplastic transformation, telomerase-immortalized human fibroblasts (cen3tel cells) acquired a ROCK-dependent/MMP independent mechanism of invasion, mediated by the downregulation of the ROCK cellular inhibitor Round (Rnd)3/RhoE. In the present study, cen3tel transformation was also demonstrated to be paralleled by downregulation of Snail, a major determinant of the mesenchymal movement. To test whether Snail levels could determine the type of movement adopted by mesenchymal tumor cells, Snail was ectopically expressed in tumorigenic cells. It was observed that ectopic Snail did not increase the levels of typical mesenchymal markers, but induced cells to adopt an MMP-dependent mechanism of invasion. In cells expressing ectopic Snail, invasion became sensitive to the MMP inhibitor Ro 28-2653 and insensitive to the ROCK inhibitor Y27632, suggesting that, once induced by Snail, the mesenchymal movement prevails over the amoeboid one. Snail-expressing cells had a more aggressive behavior in vivo, and exhibited increased tumor growth rate and metastatic ability. These results confirm the high plasticity of cancer cells, which can adopt different types of movement in response to changes in the expression of specific genes. Furthermore, the present findings indicate that Rnd3 and Snail are possible regulators of the type of invasion mechanism adopted by mesenchymal tumor cells.

  20. Chemical and mechanical control of corrosion product transport

    Energy Technology Data Exchange (ETDEWEB)

    Hede Larsen, O.; Blum, R. [I/S Fynsvaerket, Faelleskemikerne, Odense (Denmark); Daucik, K. [I/S Skaerbaekvaerket, Faelleskemikerne, Fredericia (Denmark)

    1996-12-01

    The corrosion products formed in the condensate and feedwater system of once-through boilers are precipitated and deposited inside the evaporator tubes mainly in the burner zone at the highest heat flux. Depositions lead to increased oxidation rate and increased metal temperature of the evaporator tubes, hereby decreasing tube lifetime. This effect is more important in the new high efficiency USC boilers due to increased feedwater temperature and hence higher thermal load on the evaporator tubes. The only way to reduce the load on the evaporator tubes is to minimise corrosion product transport to the boiler. Two general methods for minimising corrosion product transport to the boiler have been evaluated through measurement campaigns for Fe in the water/steam cycle in supercritical boilers within the ELSAM area. One method is to reduce corrosion in the low temperature condensate system by changing conditioning mode from alkaline volatile treatment (AVT) to oxygenated treatment (OT). The other method is to filtrate part of the condensate with a mechanical filter at the deaerator. The results show, that both methods are effective at minimising Fe-transport to the boiler, but changing to OT has the highest effect and should always be used, whenever high purity condensate is maintained. Whether mechanical filtration also is required, depends on the boiler, specifically the load on the evaporator. A simplified calculation model for lifetime evaluation of evaporator tubes has been developed. This model has been used for evaluating the effect of corrosion product transport to the boiler on evaporator tube lifetime. Conventional supercritical boilers generally can achieve sufficient lifetime by AVT and even better by OT, whereas all measures to reduce Fe-content of feedwater, including OT and mechanical filtration, should be taken, to ensure sufficient lifetime for the new boilers with advanced steam data - 290 bar/580 deg. C and above. (au)

  1. Mechanical control over valley magnetotransport in strained graphene

    Science.gov (United States)

    Ma, Ning; Zhang, Shengli; Liu, Daqing

    2016-05-01

    Recent experiments report that the graphene exhibits Landau levels (LLs) that form in the presence of a uniform strain pseudomagnetic field with magnitudes up to hundreds of tesla. We further reveal that the strain removes the valley degeneracy in LLs, and leads to a significant valley polarization with inversion symmetry broken. This accordingly gives rise to the well separated valley Hall plateaus and Shubnikov-de Haas oscillations. These effects are absent in strainless graphene, and can be used to generate and detect valley polarization by mechanical means, forming the basis for the new paradigm "valleytronics" applications.

  2. Intermediate filaments: a dynamic network that controls cell mechanics.

    Science.gov (United States)

    Gruenbaum, Yosef; Aebi, Ueli

    2014-01-01

    In humans the superfamily of intermediate filament (IF) proteins is encoded by more than 70 different genes, which are expressed in a cell- and tissue-specific manner. IFs assemble into approximately 10 nm-wide filaments that account for the principal structural elements at the nuclear periphery, nucleoplasm, and cytoplasm. They are also required for organizing the microtubule and microfilament networks. In this review, we focus on the dynamics of IFs and how modifications regulate it. We also discuss the role of nuclear IF organization in determining nuclear mechanics as well as that of cytoplasmic IFs organization in maintaining cell stiffness, formation of lamellipodia, regulation of cell migration, and permitting cell adhesion.

  3. [Control of fertilization by self-incompatibility mechanisms].

    Science.gov (United States)

    Fobis-Loisy, Isabelle; Gaude, Thierry

    2010-01-01

    Flowering plants (angiosperms) are the most prevalent and evolutionarily advanced group of plants. Reproductive strategies that promote cross-fertilization have played an essential role in the success of angiosperms as they contribute to genetic variability among plant species. A major genetic barrier to self-fertilization is self-incompatibility (SI), which allows female reproductive cells to discriminate between self- and non-self pollen and specifically reject self-pollen. In this review, we describe three SI mechanisms showing that different flowering plant families use distinct molecules for recognition of self as well as diverse biochemical pathways to arrest pollen tube growth.

  4. Molecular Alignment and Orientation From Laser-Induced Mechanisms to Optimal Control

    CERN Document Server

    Atabek, O

    2002-01-01

    Genetic algorithms, as implemented in optimal control strategies, are currently successfully exploited in a wide range of problems in molecular physics. In this context, laser control of molecular alignment and orientation remains a very promising issue with challenging applications extending from chemical reactivity to nanoscale design. We emphasize the complementarity between basic quantum mechanisms monitoring alignment/orientation processes and optimal control scenarios. More explicitly, if on one hand we can help the optimal control scheme to take advantage of such mechanisms by appropriately building the targets and delineating the parameter sampling space, on the other hand we expect to learn, from optimal control results, some robust and physically sound dynamical mechanisms. We present basic mechanisms for alignment and orientation, such as pendular states accommodated by the molecule-plus-field effective potential and the "kick" mechanism obtained by a sudden excitation. Very interestingly, an optim...

  5. Control of distributed heat transfer mechanisms in membrane distillation plants

    KAUST Repository

    Laleg-Kirati, Taous-Meriem

    2017-01-05

    Various examples are provided that are related to boundary control in membrane distillation (MD) processes. In one example, a system includes a membrane distillation (MD) process comprising a feed side and a permeate side separated by a membrane boundary layer; and processing circuitry configured to control a water production rate of the MD process based at least in part upon a distributed heat transfer across the membrane boundary layer. In another example, a method includes determining a plurality of estimated temperature states of a membrane boundary layer separating a feed side and a permeate side of a membrane distillation (MD) process; and adjusting inlet flow rate or inlet temperature of at least one of the feed side or the permeate side to maintain a difference temperature along the membrane boundary layer about a defined reference temperature based at least in part upon the plurality of estimated temperature states.

  6. Sexual orientation biases attentional control: a possible gaydar mechanism

    Directory of Open Access Journals (Sweden)

    Lorenza S Colzato

    2010-05-01

    Full Text Available Homosexuals are believed to have a “sixth sense” for recognizing each other, an ability referred to as gaydar. We considered that being a homosexual might rely on systematic practice of processing relatively specific, local perceptual features, which might lead to a corresponding chronic bias of attentional control. This was tested by comparing male and female homosexuals and heterosexuals--brought up in the same country and culture and matched in terms of race, intelligence, sex, mood, age, personality, religious background, educational style, and socio-economic situation--in their efficiency to process global and local features of hierarchically-constructed visual stimuli. Both homosexuals and heterosexuals showed better performance on global features—the standard global precedence effect. However, this effect was significantly reduced in homosexuals, suggesting a relative preference for detail. Findings are taken to demonstrate chronic, generalized biases in attentional control parameters that reflect the selective reward provided by the respective sexual orientation.

  7. An Iris Mechanism Driven Temperature Control of Solar Thermal Reactors

    OpenAIRE

    Van den Langenbergh, Lode; Ophoff, Cédric; Ozalp, Nesrin

    2015-01-01

    In spite of their attraction for clean production of fuels and commodities; solar thermal reactors are challenged by the transient nature of solar energy. Control of reactor temperature during transient periods is the key factor to maintain solar reactor performance. Currently, there are few techniques that are being used to accommodate the fluctuations of incoming solar radiation. One of the commonly practiced methods is to adjust the mass flow rate of the feedstock which is very simple to i...

  8. Mechanisms of motor adaptation in reactive balance control.

    Directory of Open Access Journals (Sweden)

    Torrence D J Welch

    Full Text Available Balance control must be rapidly modified to provide stability in the face of environmental challenges. Although changes in reactive balance over repeated perturbations have been observed previously, only anticipatory postural adjustments preceding voluntary movements have been studied in the framework of motor adaptation and learning theory. Here, we hypothesized that adaptation occurs in task-level balance control during responses to perturbations due to central changes in the control of both anticipatory and reactive components of balance. Our adaptation paradigm consisted of a Training set of forward support-surface perturbations, a Reversal set of novel countermanding perturbations that reversed direction, and a Washout set identical to the Training set. Adaptation was characterized by a change in a motor variable from the beginning to the end of each set, the presence of aftereffects at the beginning of the Washout set when the novel perturbations were removed, and a return of the variable at the end of the Washout to a level comparable to the end of the Training set. Task-level balance performance was characterized by peak center of mass (CoM excursion and velocity, which showed adaptive changes with repetitive trials. Only small changes in anticipatory postural control, characterized by body lean and background muscle activity were observed. Adaptation was found in the evoked long-latency muscular response, and also in the sensorimotor transformation mediating that response. Finally, in each set, temporal patterns of muscle activity converged towards an optimum predicted by a trade-off between maximizing motor performance and minimizing muscle activity. Our results suggest that adaptation in balance, as well as other motor tasks, is mediated by altering central sensitivity to perturbations and may be driven by energetic considerations.

  9. PREFACE: 1st Nano-IBCT Conference 2011 - Radiation Damage of Biomolecular Systems: Nanoscale Insights into Ion Beam Cancer Therapy

    Science.gov (United States)

    Huber, Bernd A.; Malot, Christiane; Domaracka, Alicja; Solov'yov, Andrey V.

    2012-07-01

    The 1st Nano-IBCT Conference entitled 'Radiation Damage in Biomolecular Systems: Nanoscale Insights into Ion Beam Cancer Therapy' was held in Caen, France, in October 2011. The Meeting was organised in the framework of the COST Action MP1002 (Nano-IBCT) which was launched in December 2010 (http://fias.uni-frankfurt.de/nano-ibct). This action aims to promote the understanding of mechanisms and processes underlying the radiation damage of biomolecular systems at the molecular and nanoscopic level and to use the findings to improve the strategy of Ion Beam Cancer Therapy. In the hope of achieving this, participants from different disciplines were invited to represent the fields of physics, biology, medicine and chemistry, and also included those from industry and the operators of hadron therapy centres. Ion beam therapy offers the possibility of excellent dose localization for treatment of malignant tumours, minimizing radiation damage in normal healthy tissue, while maximizing cell killing within the tumour. Several ion beam cancer therapy clinical centres are now operating in Europe and elsewhere. However, the full potential of such therapy can only be exploited by better understanding the physical, chemical and biological mechanisms that lead to cell death under ion irradiation. Considering a range of spatio-temporal scales, the proposed action therefore aims to combine the unique experimental and theoretical expertise available within Europe to acquire greater insight at the nanoscopic and molecular level into radiation damage induced by ion impact. Success in this endeavour will be both an important scientific breakthrough and give great impetus to the practical improvement of this innovative therapeutic technique. Ion therapy potentially provides an important advance in cancer therapy and the COST action MP1002 will be very significant in ensuring Europe's leadership in this field, providing the scientific background, required data and mechanistic insight which

  10. Controlled Mechanical Cracking of Metal Films Deposited on Polydimethylsiloxane (PDMS

    Directory of Open Access Journals (Sweden)

    Andreas Polywka

    2016-09-01

    Full Text Available Stretchable large area electronics conform to arbitrarily-shaped 3D surfaces and enables comfortable contact to the human skin and other biological tissue. There are approaches allowing for large area thin films to be stretched by tens of percent without cracking. The approach presented here does not prevent cracking, rather it aims to precisely control the crack positions and their orientation. For this purpose, the polydimethylsiloxane (PDMS is hardened by exposure to ultraviolet radiation (172 nm through an exposure mask. Only well-defined patterns are kept untreated. With these soft islands cracks at the hardened surface can be controlled in terms of starting position, direction and end position. This approach is first investigated at the hardened PDMS surface itself. It is then applied to conductive silver films deposited from the liquid phase. It is found that statistical (uncontrolled cracking of the silver films can be avoided at strain below 35%. This enables metal interconnects to be integrated into stretchable networks. The combination of controlled cracks with wrinkling enables interconnects that are stretchable in arbitrary and changing directions. The deposition and patterning does not involve vacuum processing, photolithography, or solvents.

  11. Molecular Mechanisms to Control Post-Transplantation Hepatitis B Recurrence

    Directory of Open Access Journals (Sweden)

    Akinobu Takaki

    2015-07-01

    Full Text Available Hepatitis B often progresses to decompensated liver cirrhosis requiring orthotopic liver transplantation (OLT. Although newer nucleos(tide analogues result in >90% viral and hepatitis activity control, severely decompensated patients still need OLT because of drug-resistant virus, acute exacerbation, or hepatocellular carcinoma. Acute hepatitis B is also an indication for OLT, because it can progress to fatal acute liver failure. After OLT, the hepatitis B recurrence rate is >80% without prevention, while >90% of transplant recipients are clinically controlled with combined hepatitis B immunoglobulin (HBIG and nucleos(tide analogue treatment. However, long-term HBIG administration is associated with several unresolved issues, including limited availability and extremely high cost; therefore, several treatment protocols with low-dose HBIG, combined with nucleos(tide analogues, have been investigated. Another approach is to induce self-producing anti-hepatitis B virus (HBV antibodies using an HBV envelope (HBs antigen vaccine. Patients who are not HBV carriers, such as those with acutely infected liver failure, are good candidates for vaccination. For chronic HBV carrier liver cirrhosis patients, a successful vaccine response can only be achieved in selected patients, such as those treated with experimentally reduced immunosuppression protocols. The present protocol for post-OLT HBV control and the future prospects of newer treatment strategies are reviewed.

  12. Network output controllability-based method for drug target identification.

    Science.gov (United States)

    Wu, Lin; Shen, Yichao; Li, Min; Wu, Fang-Xiang

    2015-03-01

    Biomolecules do not perform their functions alone, but interactively with one another to form so called biomolecular networks. It is well known that a complex disease stems from the malfunctions of corresponding biomolecular networks. Therefore, one of important tasks is to identify drug targets from biomolecular networks. In this study, the drug target identification is formulated as a problem of finding steering nodes in biomolecular networks while the concept of network output controllability is applied to the problem of drug target identification. By applying control signals to these steering nodes, the biomolecular networks are expected to be transited from one state to another. A graph-theoretic algorithm has been proposed to find a minimum set of steering nodes in biomolecular networks which can be a potential set of drug targets. Application results of the method to real biomolecular networks show that identified potential drug targets are in agreement with existing research results. This indicates that the method can generate testable predictions and provide insights into experimental design of drug discovery.

  13. Development of passive-controlled HUB (teetered brake & damper mechanism) of horizontal axis wind turbine

    Energy Technology Data Exchange (ETDEWEB)

    Shimizu, Yukimaru; Kamada, Yasunari; Maeda, Takao [Mie Univ. (Japan)

    1997-12-31

    For the purpose of the improvement of reliability of the Mega-Watt wind turbine, this paper indicates the development of an original mechanism for the passive-controlled hub, which has the effects of braking and damping on aerodynamic forces. This mechanism is useful for variable speed control of the large wind turbine. The passive-controlled hub is the combination of two mechanisms. One is the passive-teetered and damping mechanism, and the other is the passive-variable-pitch mechanism. These mechanism are carried out by the combination of the teetering and feathering motions. When the wind speed exceeds the rated wind speed, the blade is passively teetered in a downwind direction and, simultaneously, a feathering mechanism, which is linked to the teetering mechanism through a connecting rods, is activated. Testing of the model horizontal axis wind turbine in a wind tunnel showed that the passive-controlled hub mechanism can suppress the over-rotational speed of the rotor. By the application of the passive-controlled hub mechanism, the maximum rotor speed is reduced to about 60%.

  14. Mechanisms of surgical control of type 2 diabetes

    DEFF Research Database (Denmark)

    Holst, Jens Juul; Madsbad, Sten

    2016-01-01

    GLP-1 secretion in response to meals is dramatically increased after gastric bypass operations. GLP-1 is a powerful insulinotropic and anorectic hormone, and analogs of GLP-1 are widely used for the treatment of diabetes and recently approved also for obesity treatment. It is, therefore, reasonable...... of the operation, is reduced and or abolished after GLP-1 receptor blockade. Also the postoperative improvement of glucose tolerance is eliminated and or reduced by the antagonist, pointing to a key role for the exaggerated GLP-1 secretion. Indeed, there is evidence that the exaggerated GLP-1 secretion is also...... responsible for postprandial hypoglycemia sometimes observed after bypass. Other operations (biliopancreatic-diversion and or sleeve gastrectomy) appear to involve different and/or additional mechanisms, and so does experimental bariatric surgery in rodents. However, unlike bypass surgery in humans...

  15. Sonolytic degradation of dimethoate: kinetics, mechanisms and toxic intermediates controlling.

    Science.gov (United States)

    Yao, Juan-Juan; Hoffmann, Michael R; Gao, Nai-Yun; Zhang, Zhi; Li, Lei

    2011-11-15

    The sonolytic degradation of aqueous solutions of dimethoate, O,O-dimethyl S-[2-(methylamino)-2-oxoethyl]dithiophosphate, was examined. Optimal degradation rates were obtained at 619 kHz for continuous sonolysis and 406 kHz for pulse sonolysis. The primary pathways for degradation include hydroxyl radical oxidation, hydrolysis and pyrolysis on collapsing cavitation bubble interfaces. Reaction mechanisms coupled with the corresponding kinetic models are proposed to reproduce the observed concentration versus time profiles for dimethoate, omethoate and N-(methyl) mercaptoacetamide during sonolysis. The oxidation and hydrolysis of dimethoate and omethoate occurred at the water-bubble interface was the rate-determining step for sonolytic overall degradation of dimethoate. More than 90% toxicity of dimethoate was reduced within 45 min ultrasonic irradiation. Ferrous ion at micro molar level can significantly enhance the sonolytic degradation of dimethoate and effectively reduce the yields of toxic intermediate omethoate.

  16. Factors controlling alkalisalt deposition in recovery boiler- release mechanisms

    Energy Technology Data Exchange (ETDEWEB)

    McKeough, P.; Kylloenen, H.; Kurkela, M. [VTT Energy, Espoo (Finland). Process Technology Group

    1996-12-01

    As part of a cooperative effort to develop a model to describe the behaviour of inorganic compounds in kraft recovery boilers, an experimental investigation of the release of sulphur during black liquor pyrolysis has been undertaken. Previous to these studies, the mechanisms of sulphur release and the reasons for the observed effects of process conditions on sulphur release were very poorly understood. On the basis of the experimental results, the main reactions leading to sulphur release have been elucidated with a fair degree of certainty. Logical explanations for the variations of sulphur release with temperature and with liquor solids content have been proposed. The influence of pressure has been investigated in order to gain insights into the effects of mass transfer on the sulphur-release rate. In the near future, the research will be aimed at generating the kinetic data necessary for modelling the release of sulphur in the recovery furnace. (author)

  17. A Review on Congestion control Mechanisms in Wireless Sensor Networks

    Directory of Open Access Journals (Sweden)

    N. Thrimoorthy

    2014-11-01

    Full Text Available Recently, Wireless Sensor Networks (WSNs have been in many applications and systems with vastly varying requirements and characteristics. Due to this, it would be difficult to decide the requirements regarding hardware issues and software support. Heterogeneous applications can be integrated within the same wireless sensor network with the aid of modern motes that have multiple sensors on a single radio board. Considering such multi-purpose nodes, different types of data could be generated from such types of motes with many transmission characteristics in terms of priority, transmission rate, required bandwidth, tolerable packet loss, delay demands etc. WSNs have many different constraints, such as computational power, storage capacity, energy supply and the most important issue is their energy constraint. Energy aware routing protocol is very important in WSN, but only considering energy has no efficiency in performance. Congestion in WSNs is one of the critical problems still from its evolution. Congestion causes malfunctions such as packet loss, lower throughput, energy efficiency, increase in collisions, increase in queuing delay and decreased network lifetime. As a result, the performance of the whole network is subject to undesirable and unpredictable changes. In this paper, WSN performance control by robust Congestion control approaches that aim to keep the network operational under varying network conditions is presented.

  18. Radial basis function (RBF) neural network control for mechanical systems design, analysis and Matlab simulation

    CERN Document Server

    Liu, Jinkun

    2013-01-01

    Radial Basis Function (RBF) Neural Network Control for Mechanical Systems is motivated by the need for systematic design approaches to stable adaptive control system design using neural network approximation-based techniques. The main objectives of the book are to introduce the concrete design methods and MATLAB simulation of stable adaptive RBF neural control strategies. In this book, a broad range of implementable neural network control design methods for mechanical systems are presented, such as robot manipulators, inverted pendulums, single link flexible joint robots, motors, etc. Advanced neural network controller design methods and their stability analysis are explored. The book provides readers with the fundamentals of neural network control system design.   This book is intended for the researchers in the fields of neural adaptive control, mechanical systems, Matlab simulation, engineering design, robotics and automation. Jinkun Liu is a professor at Beijing University of Aeronautics and Astronauti...

  19. Repetitive control mechanism of disturbance cancellation using a hybrid regression and genetic algorithm

    Science.gov (United States)

    Lin, Jeng-Wen; Shen, Pu Fun; Wen, Hao-Ping

    2015-10-01

    The application of a repetitive control mechanism for use in a mechanical control system has been a topic of investigation. The fundamental purpose of repetitive control is to eliminate disturbances in a mechanical control system. This paper presents two different repetitive control laws using individual types of basis function feedback and their combinations. These laws adjust the command given to a feedback control system to eliminate tracking errors, generally resulting from periodic disturbance. Periodic errors can be reduced through linear basis functions using regression and a genetic algorithm. The results illustrate that repetitive control is most effective method for eliminating disturbances. When the data are stabilized, the tracking error of the obtained convergence value, 10-14, is the optimal solution, verifying that the proposed regression and genetic algorithm can satisfactorily reduce periodic errors.

  20. Barrier Lyapunov function-based model-free constraint position control for mechanical systems

    Energy Technology Data Exchange (ETDEWEB)

    Han, Seong Ik; Ha, Hyun Uk; Lee, Jang Myung [Pusan National University, Busan (Korea, Republic of)

    2016-07-15

    In this article, a motion constraint control scheme is presented for mechanical systems without a modeling process by introducing a barrier Lyapunov function technique and adaptive estimation laws. The transformed error and filtered error surfaces are defined to constrain the motion tracking error in the prescribed boundary layers. Unknown parameters of mechanical systems are estimated using adaptive laws derived from the Lyapunov function. Then, robust control used the conventional sliding mode control, which give rise to excessive chattering, is changed to finite time-based control to alleviate undesirable chattering in the control action and to ensure finite-time error convergence. Finally, the constraint controller from the barrier Lyapunov function is designed and applied to the constraint of the position tracking error of the mechanical system. Two experimental examples for the XY table and articulated manipulator are shown to evaluate the proposed control scheme.

  1. Tracking Control of Fully-actuated port-Hamiltonian Mechanical Systems using Sliding Manifolds and Contraction

    NARCIS (Netherlands)

    Reyes Báez, Rodolfo; van der Schaft, Abraham; Jayawardhana, Bayu

    2017-01-01

    In this paper, we propose a novel trajectory tracking controller for fully-actuated mechanical port-Hamiltonian (pH) systems, which is based on recent advances in contraction- based control theory. Our proposed controller renders a desired sliding manifold (where the reference trajectory lies) attra

  2. Quantitative characterization of biomolecular assemblies and interactions using atomic force microscopy.

    Science.gov (United States)

    Yang, Yong; Wang, Hong; Erie, Dorothy A

    2003-02-01

    Atomic force microscopy (AFM) has been applied in many biological investigations in the past 15 years. This review focuses on the application of AFM for quantitatively characterizing the structural and thermodynamic properties of protein-protein and protein-nucleic acid complexes. AFM can be used to determine the stoichiometries and association constants of multiprotein assemblies and to quantify changes in conformations of proteins and protein-nucleic acid complexes. In addition, AFM in solution permits the observation of the dynamic properties of biomolecular complexes and the measurement of intermolecular forces between biomolecules. Recent advances in cryogenic AFM, AFM on two-dimensional crystals, carbon nanotube probes, solution imaging, high-speed AFM, and manipulation capabilities enhance these applications by improving AFM resolution and the dynamic and operative capabilities of the AFM. These developments make AFM a powerful tool for investigating the biomolecular assemblies and interactions that govern gene regulation.

  3. Specificity quantification of biomolecular recognition and its implication for drug discovery

    Science.gov (United States)

    Yan, Zhiqiang; Wang, Jin

    2012-03-01

    Highly efficient and specific biomolecular recognition requires both affinity and specificity. Previous quantitative descriptions of biomolecular recognition were mostly driven by improving the affinity prediction, but lack of quantification of specificity. We developed a novel method SPA (SPecificity and Affinity) based on our funneled energy landscape theory. The strategy is to simultaneously optimize the quantified specificity of the ``native'' protein-ligand complex discriminating against ``non-native'' binding modes and the affinity prediction. The benchmark testing of SPA shows the best performance against 16 other popular scoring functions in industry and academia on both prediction of binding affinity and ``native'' binding pose. For the target COX-2 of nonsteroidal anti-inflammatory drugs, SPA successfully discriminates the drugs from the diversity set, and the selective drugs from non-selective drugs. The remarkable performance demonstrates that SPA has significant potential applications in identifying lead compounds for drug discovery.

  4. Architecture of transcriptional regulatory circuits is knitted over the topology of bio-molecular interaction networks

    DEFF Research Database (Denmark)

    Soberano de Oliveira, Ana Paula; Patil, Kiran Raosaheb; Nielsen, Jens

    2008-01-01

    Background: Uncovering the operating principles underlying cellular processes by using 'omics' data is often a difficult task due to the high-dimensionality of the solution space that spans all interactions among the bio-molecules under consideration. A rational way to overcome this problem...... is to use the topology of bio-molecular interaction networks in order to constrain the solution space. Such approaches systematically integrate the existing biological knowledge with the 'omics' data. Results: Here we introduce a hypothesis-driven method that integrates bio-molecular network topology...... with transcriptome data, thereby allowing the identification of key biological features (Reporter Features) around which transcriptional changes are significantly concentrated. We have combined transcriptome data with different biological networks in order to identify Reporter Gene Ontologies, Reporter Transcription...

  5. Constructing Bio-molecular Databases on a DNA-based Computer

    CERN Document Server

    Chang, Weng-Long; Ho,; Guo, Minyi

    2007-01-01

    Codd [Codd 1970] wrote the first paper in which the model of a relational database was proposed. Adleman [Adleman 1994] wrote the first paper in which DNA strands in a test tube were used to solve an instance of the Hamiltonian path problem. From [Adleman 1994], it is obviously indicated that for storing information in molecules of DNA allows for an information density of approximately 1 bit per cubic nm (nanometer) and a dramatic improvement over existing storage media such as video tape which store information at a density of approximately 1 bit per 1012 cubic nanometers. This paper demonstrates that biological operations can be applied to construct bio-molecular databases where data records in relational tables are encoded as DNA strands. In order to achieve the goal, DNA algorithms are proposed to perform eight operations of relational algebra (calculus) on bio-molecular relational databases, which include Cartesian product, union, set difference, selection, projection, intersection, join and division. Fu...

  6. Out-of-equilibrium biomolecular interactions monitored by picosecond fluorescence in microfluidic droplets.

    Science.gov (United States)

    Maillot, Sacha; Carvalho, Alain; Vola, Jean-Pierre; Boudier, Christian; Mély, Yves; Haacke, Stefan; Léonard, Jérémie

    2014-05-21

    We developed a new experimental approach combining Time-Resolved Fluorescence (TRF) spectroscopy and Droplet Microfluidics (DμF) to investigate the relaxation dynamics of structurally heterogeneous biomolecular systems. Here DμF was used to produce with minimal material consumption an out-of-equilibrium, fluorescently labeled biomolecular complex by rapid mixing within the droplets. TRF detection was implemented with a streak camera to monitor the time evolution of the structural heterogeneity of the complex along its relaxation towards equilibrium while it propagates inside the microfluidic channel. The approach was validated by investigating the fluorescence decay kinetics of a model interacting system of bovine serum albumin and Patent Blue V. Fluorescence decay kinetics are acquired with very good signal-to-noise ratio and allow for global, multicomponent fluorescence decay analysis, evidencing heterogeneous structural relaxation over several 100 ms.

  7. Charge transport through biomolecular wires in a solvent: bridging molecular dynamics and model Hamiltonian approaches.

    Science.gov (United States)

    Gutiérrez, R; Caetano, R A; Woiczikowski, B P; Kubar, T; Elstner, M; Cuniberti, G

    2009-05-22

    We present a hybrid method based on a combination of classical molecular dynamics simulations, quantum-chemical calculations, and a model Hamiltonian approach to describe charge transport through biomolecular wires with variable lengths in presence of a solvent. The core of our approach consists in a mapping of the biomolecular electronic structure, as obtained from density-functional based tight-binding calculations of molecular structures along molecular dynamics trajectories, onto a low-dimensional model Hamiltonian including the coupling to a dissipative bosonic environment. The latter encodes fluctuation effects arising from the solvent and from the molecular conformational dynamics. We apply this approach to the case of pG-pC and pA-pT DNA oligomers as paradigmatic cases and show that the DNA conformational fluctuations are essential in determining and supporting charge transport.

  8. Conformation of bovine submaxillary mucin layers on hydrophobic surface as studied by biomolecular probes

    DEFF Research Database (Denmark)

    Pakkanen, Kirsi I.; Madsen, Jan Busk; Lee, Seunghwan

    2015-01-01

    In the present study, the conformational changes of bovine submaxillary mucin (BSM) adsorbed on a hydrophobic surface (polystyrene (PS)) as a function of concentration in bulk solution (up to 2mg/mL) have been investigated with biomolecular probe-based approaches, including bicinchoninic acid (BCA...... solution. Adsorbed masses of BSM onto hydrophobic surface, as probe by BCA, showed a continuously increasing trend up to 2mg/mL. But, the signals from EIA and ELLA, which probe the concentration of available unglycosylatedC-terminals and the central glycosylated regions, respectively, showed complicated...... non-linear responses with increasing surface concentration. The results from this study support the conventional amphiphilic, triblock model of BSM in the adsorption onto hydrophobic surface from aqueous solution.The biomolecular probe-based approaches employed in this study, however, provided further...

  9. Application of Fuzzy-PID Control System in Full-Mechanized Coal Face

    Institute of Scientific and Technical Information of China (English)

    LU Kui; TANG Pei-rong; YANG Wei-min

    2005-01-01

    The control system, which includes structure, the composition of software and hardware, the form of PID control system and its systematic closed-loop, was used in No.4236 full-mechanized coal face of Xinlongzhuang mine.The typical fuzzy PID control system structure was investigated, and a simplified fuzzy PID control system was taken the place of the complex three-dimension fuzzy controller. Based on the parameter relation between fuzzy controller and normal PID controller, a common method of parameter adjustment of PID controller was summed up and the computer simulation was realized. This system can overcome the problems of large delay, nonlinear, poor running environment and great load change in the full-mechanized coal face. The simulating investigation indicates that the designing method of fuzzy controller is simple and feasible.

  10. An Action-Based Fine-Grained Access Control Mechanism for Structured Documents and Its Application

    Directory of Open Access Journals (Sweden)

    Mang Su

    2014-01-01

    Full Text Available This paper presents an action-based fine-grained access control mechanism for structured documents. Firstly, we define a describing model for structured documents and analyze the application scenarios. The describing model could support the permission management on chapters, pages, sections, words, and pictures of structured documents. Secondly, based on the action-based access control (ABAC model, we propose a fine-grained control protocol for structured documents by introducing temporal state and environmental state. The protocol covering different stages from document creation, to permission specification and usage control are given by using the Z-notation. Finally, we give the implementation of our mechanism and make the comparisons between the existing methods and our mechanism. The result shows that our mechanism could provide the better solution of fine-grained access control for structured documents in complicated networks. Moreover, it is more flexible and practical.

  11. Block backstepping design of nonlinear state feedback control law for underactuated mechanical systems

    CERN Document Server

    Rudra, Shubhobrata; Maitra, Madhubanti

    2017-01-01

    This book presents a novel, generalized approach to the design of nonlinear state feedback control laws for a large class of underactuated mechanical systems based on application of the block backstepping method. The control law proposed here is robust against the effects of model uncertainty in dynamic and steady-state performance and addresses the issue of asymptotic stabilization for the class of underactuated mechanical systems. An underactuated system is defined as one for which the dimension of space spanned by the configuration vector is greater than that of the space spanned by the control variables. Control problems concerning underactuated systems currently represent an active field of research due to their broad range of applications in robotics, aerospace, and marine contexts. The book derives a generalized theory of block backstepping control design for underactuated mechanical systems, and examines several case studies that cover interesting examples of underactuated mechanical systems. The math...

  12. Study on Variable Capacity Control Mechanism of Scroll Compressor for Automotive Air Conditioner

    Science.gov (United States)

    Hirano, Takahisa; Shigeoka, Tetsuo

    As for the automotive air conditioner, (1) to keep the automotive cabin temperature in a comfortable region, (2) to improve driving feeling, (3) to drive the air conditioning system economically through all seasons, are universally required. Recently, from these points, compressors with variable capacity control mechanism for automotive air conditioners have been remarkably requested. We have developed a scroll comoressor with variable capacity control mechanism. The capacity control mechanism, which changes the channel area of the bypass hole continuously, according to the suction gas pressure and the discharge gas pressure, has been developed. In this report, we describe the mechanism of variable capacity control and the performance simulation program that has been developed for the scroll compressor. Further, we describe the measuring results of cylinder pressure behavior, the results of energy loss analysis and the effect of comfort, drivability, power saving in the refrigerating cycle using the developed capacity control compressor.

  13. Parity Violation in Chiral Molecules: From Theory towards Spectroscopic Experiment and the Evolution of Biomolecular Homochirality

    CERN Document Server

    CERN. Geneva

    2016-01-01

    The observation of biomolecular homochirality can be considered as a quasi-fossil of the evolution of life [1], the interpretation of which has been an open question for more than a century, with numerous related hypotheses, but no definitive answers. We shall briefly discuss the current status and the relation to the other two questions. The discovery of parity violation led to important developm...

  14. Colloid-in-Liquid Crystal Gels that Respond to Biomolecular Interactions

    OpenAIRE

    Agarwal, Ankit; Sidiq, Sumyra; Setia, Shilpa; Bukusoglu, Emre; de Pablo, Juan J.; Pal, Santanu Kumar; Abbott, Nicholas L.

    2013-01-01

    This paper advances the design of stimuli-responsive materials based on colloidal particles dispersed in liquid crystals (LCs). Specifically, we report that thin films of colloid-in-liquid crystal (CLC) gels can undergo easily visualized ordering transitions in response to reversible and irreversible (enzymatic) biomolecular interactions occurring at aqueous interfaces of the gels. In particular, we demonstrate that LC ordering transitions can propagate across the entire thickness of the gels...

  15. Assembly of single wall carbon nanotube-metal nanohybrids using biomolecular components

    Science.gov (United States)

    Kim, Sang Nyon; Slocik, Joseph M.; Naik, Rajesh R.

    2010-08-01

    Biomaterials such as nucleic acids and proteins can be exploited to create higher order structures. The biomolecular components such as DNA and peptides have been used to assemble nanoparticles with high fidelity. Here, we use DNA and peptides, and their preferential interaction with inorganic and carbon nanomaterials to form homogeneous hybrids. The enhanced binding of Pt ions to both DNA and peptide functionalized nanoparticles mediates the assembly of carbon nanotubes functionalized with DNA with peptide coated gold nanoparticles.

  16. Performance Analysis of Novel Overload Control with Threshold Mechanism

    Directory of Open Access Journals (Sweden)

    Doo Il Choi

    2016-01-01

    Full Text Available We propose a novel overload control method with hysteresis property; that is, we analyze the M/G/1/K queueing system where the service and arrival rates are varied depending on the queue-length. We use two threshold values: L1(≤L2 and L2(≤K. When the queue-length increases by an amount between L1 and L2, we apply one of the following two strategies to reduce the queue-length, either we decrease the mean service time or we decrease the arrival rate. If the queue-length exceeds L2 with one strategy, we apply the other; thus, there are two models that depend on the method that was applied first. We derive the queue-length distribution at departure and at arbitrary epochs using the embedded Markov chain method and the supplementary variable method. We investigate performance measures including the loss probability and mean waiting time using various numerical examples.

  17. Chilean Unremunerated Reserve Requirement Capital Controls as a Screening Mechanism

    Directory of Open Access Journals (Sweden)

    Thomas I. Palley

    2005-01-01

    Full Text Available Este trabajo presenta un modelo sobre los “speed bump” (topes a los controles de capital de tipo chileno, que los interpreta como un mecanismo para identificar a los inversores volátiles. Esta interpretación es contrastada con la explicación basada en las finanzas poeblicas, cuyo punto de vista muestra a los topes como un impuesto sobre ingresos de capital a corto plazo que incrementan su precio relativo. Un resultado sorprendente es que aun cuando los topes incrementan el costo del capital, ellos pueden realmente incrementar los ingresos de capital. Estos ingresos crecientes son más estables porque provienen de los inversionistas pacientes. La lección es que discriminar a los inversores volátiles estabiliza el ambiente financiero. Los topes benefician tanto a las empresas como a los inversionistas pacientes al reducir el daño que podría provenir de salidas repentinas de capital, lo cual aumenta la demanda y la oferta de capital.

  18. Dissociable mechanisms of cognitive control in prefrontal and premotor cortex.

    Science.gov (United States)

    Chambers, Christopher D; Bellgrove, Mark A; Gould, Ian C; English, Therese; Garavan, Hugh; McNaught, Elizabeth; Kamke, Marc; Mattingley, Jason B

    2007-12-01

    Intelligent behavior depends on the ability to suppress inappropriate actions and resolve interference between competing responses. Recent clinical and neuroimaging evidence has demonstrated the involvement of prefrontal, parietal, and premotor areas during behaviors that emphasize conflict and inhibition. It remains unclear, however, whether discrete subregions within this network are crucial for overseeing more specific inhibitory demands. Here we probed the functional specialization of human prefrontal cortex by combining repetitive transcranial magnetic stimulation (rTMS) with integrated behavioral measures of response inhibition (stop-signal task) and response competition (flanker task). Participants undertook a combined stop-signal/flanker task after rTMS of the inferior frontal gyrus (IFG) or dorsal premotor cortex (dPM) in each hemisphere. Stimulation of the right IFG impaired stop-signal inhibition under conditions of heightened response competition but did not influence the ability to suppress a competing response. In contrast, stimulation of the right dPM facilitated execution but had no effect on inhibition. Neither of these results was observed during rTMS of corresponding left-hemisphere regions. Overall, our findings are consistent with existing evidence that the right IFG is crucial for inhibitory control. The observed double dissociation of neurodisruptive effects between the right IFG and right dPM further implies that response inhibition and execution rely on distinct neural processes despite activating a common cortical network.

  19. Mechanism of Germacradien-4-ol Synthase-Controlled Water Capture

    Science.gov (United States)

    2016-01-01

    The sesquiterpene synthase germacradiene-4-ol synthase (GdolS) from Streptomyces citricolor is one of only a few known high-fidelity terpene synthases that convert farnesyl diphosphate (FDP) into a single hydroxylated product. Crystals of unliganded GdolS-E248A diffracted to 1.50 Å and revealed a typical class 1 sesquiterpene synthase fold with the active site in an open conformation. The metal binding motifs were identified as D80DQFD and N218DVRSFAQE. Some bound water molecules were evident in the X-ray crystal structure, but none were obviously positioned to quench a putative final carbocation intermediate. Incubations in H218O generated labeled product, confirming that the alcohol functionality arises from nucleophilic capture of the final carbocation by water originating from solution. Site-directed mutagenesis of amino acid residues from both within the metal binding motifs and without identified by sequence alignment with aristolochene synthase from Aspergillus terreus generated mostly functional germacradien-4-ol synthases. Only GdolS-N218Q generated radically different products (∼50% germacrene A), but no direct evidence of the mechanism of incorporation of water into the active site was obtained. Fluorinated FDP analogues 2F-FDP and 15,15,15-F3-FDP were potent noncompetitive inhibitors of GdolS. 12,13-DiF-FDP generated 12,13-(E)-β-farnesene upon being incubated with GdolS, suggesting stepwise formation of the germacryl cation during the catalytic cycle. Incubation of GdolS with [1-2H2]FDP and (R)-[1-2H]FDP demonstrated that following germacryl cation formation a [1,3]-hydride shift generates the final carbocation prior to nucleophilic capture. The stereochemistry of this shift is not defined, and the deuteron in the final product was scrambled. Because no clear candidate residue for binding of a nucleophilic water molecule in the active site and no significant perturbation of product distribution from the replacement of active site residues were

  20. Changes in biomolecular profile in a single nucleolus during cell fixation.

    Science.gov (United States)

    Kuzmin, Andrey N; Pliss, Artem; Prasad, Paras N

    2014-11-01

    Fixation of biological sample is an essential technique applied in order to "freeze" in time the intracellular molecular content. However, fixation induces changes of the cellular molecular structure, which mask physiological distribution of biomolecules and bias interpretation of results. Accurate, sensitive, and comprehensive characterization of changes in biomolecular composition, occurring during fixation, is crucial for proper analysis of experimental data. Here we apply biomolecular component analysis for Raman spectra measured in the same nucleoli of HeLa cells before and after fixation by either formaldehyde solution or by chilled ethanol. It is found that fixation in formaldehyde does not strongly affect the Raman spectra of nucleolar biomolecular components, but may significantly decrease the nucleolar RNA concentration. At the same time, ethanol fixation leads to a proportional increase (up to 40%) in concentrations of nucleolar proteins and RNA, most likely due to cell shrinkage occurring in the presence of coagulant fixative. Ethanol fixation also triggers changes in composition of nucleolar proteome, as indicated by an overall reduction of the α-helical structure of proteins and increase in the concentration of proteins containing the β-sheet conformation. We conclude that cross-linking fixation is a more appropriate protocol for mapping of proteins in situ. At the same time, ethanol fixation is preferential for studies of RNA-containing macromolecules. We supplemented our quantitative Raman spectroscopic measurements with mapping of the protein and lipid macromolecular groups in live and fixed cells using coherent anti-Stokes Raman scattering nonlinear optical imaging.

  1. Application of isothermal titration calorimetry and column chromatography for identification of biomolecular targets.

    Science.gov (United States)

    Zhou, Xingding; Kini, R Manjunatha; Sivaraman, J

    2011-02-01

    This protocol describes a method for identifying unknown target proteins from a mixture of biomolecules for a given drug or a lead compound. This method is based on a combination of chromatography and isothermal titration calorimetry (ITC) where ITC is used as a tracking tool. The first step involves the use of ITC to confirm the binding of ligand to a component in the biomolecular mixture. Subsequently, the biomolecular mixture is fractionated by chromatography, and the binding of the ligand with individual fractions (or subfractions) is verified by ITC. The iteration of chromatographic purification on the fractions combined with ITC results in identifying the target protein. This method is useful when the target protein or ligand is unknown and/or not amenable to labeling, chemical modification or immobilization. This protocol has been successfully used by our team and by others to identify both low-abundance and highly abundant target proteins present in biomolecular mixtures. With this protocol, it takes approximately 3-5 d to identify the target protein from a mixture.

  2. An improved simple polarisable water model for use in biomolecular simulation

    Energy Technology Data Exchange (ETDEWEB)

    Bachmann, Stephan J.; Gunsteren, Wilfred F. van, E-mail: wfvgn@igc.phys.chem.ethz.ch [Laboratory of Physical Chemistry, ETH Zürich, CH-8093 Zürich (Switzerland)

    2014-12-14

    The accuracy of biomolecular simulations depends to some degree on the accuracy of the water model used to solvate the biomolecules. Because many biomolecules such as proteins are electrostatically rather inhomogeneous, containing apolar, polar, and charged moieties or side chains, a water model should be able to represent the polarisation response to a local electrostatic field, while being compatible with the force field used to model the biomolecules or protein. The two polarisable water models, COS/G2 and COS/D, that are compatible with the GROMOS biomolecular force fields leave room for improvement. The COS/G2 model has a slightly too large dielectric permittivity and the COS/D model displays a much too slow dynamics. The proposed COS/D2 model has four interaction sites: only one Lennard-Jones interaction site, the oxygen atom, and three permanent charge sites, the two hydrogens, and one massless off-atom site that also serves as charge-on-spring (COS) polarisable site with a damped or sub-linear dependence of the induced dipole on the electric field strength for large values of the latter. These properties make it a cheap and yet realistic water model for biomolecular solvation.

  3. Optical tests of a space mechanism under an adverse environment: GAIA secondary mirror mechanism under vaccum and thermal controlled conditions

    Science.gov (United States)

    Ramos Zapata, Gonzalo; Sánchez Rodríguez, Antonio; Belenguer Dávila, Tomás; Urgoiti, Eduardo; Ramírez Quintana, Argiñe

    2007-09-01

    In this work, the optical evaluation of a mechanism for space applications under vacuum and temperature controlled conditions at the facilities of the Space Instrumentation Laboratory (LINES) of the Aerospace Technical Nacional Institute of Spain (INTA) is reported. The mechanism was developed by the Spanish company SENER to fulfill the high performance requirements from ESA technology preparatory program for GAIA Astrometric Mission; in particular, a five degrees of freedom (dof), three translations and two rotations positioning mechanism for the secondary mirror of the GAIA instrument. Both interferometric tests and autocollimator measurements have been combined in order to extract the information about the accuracy of the mechanism movements as well as their repeatability under adverse environmental conditions: vacuum and thermal controlled conditions, up to a 10 -6mbar and 100K. The scope of this paper will cover the measurements concept selection, the presentation of verification activities, the results of such dedicated optical measurements, the correlation with the mechanical models and a brief description of the design process followed to meet the test requirements.

  4. Ultrasensitive Negative Feedback Control: A Natural Approach for the Design of Synthetic Controllers

    Science.gov (United States)

    Montefusco, Francesco; Akman, Ozgur E.; Soyer, Orkun S.; Bates, Declan G.

    2016-01-01

    Many of the most important potential applications of Synthetic Biology will require the ability to design and implement high performance feedback control systems that can accurately regulate the dynamics of multiple molecular species within the cell. Here, we argue that the use of design strategies based on combining ultrasensitive response dynamics with negative feedback represents a natural approach to this problem that fully exploits the strongly nonlinear nature of cellular information processing. We propose that such feedback mechanisms can explain the adaptive responses observed in one of the most widely studied biomolecular feedback systems—the yeast osmoregulatory response network. Based on our analysis of such system, we identify strong links with a well-known branch of mathematical systems theory from the field of Control Engineering, known as Sliding Mode Control. These insights allow us to develop design guidelines that can inform the construction of feedback controllers for synthetic biological systems. PMID:27537373

  5. Interleukin 4: signalling mechanisms and control of T cell differentiation.

    Science.gov (United States)

    Paul, W E

    1997-01-01

    Interleukin 4 (IL-4) is a pleiotropic type I cytokine that controls both growth and differentiation among haemopoietic and non-haemopoietic cells. Its receptor is a heterodimer. One chain, the IL-4R alpha chain, binds IL-4 with high affinity and determines the nature of the biochemical signals that are induced. The second chain, gamma c, is required for the induction of such signals. IL-4-mediated growth depends upon activation events that involve phosphorylation of Y497 of IL-4R alpha, leading to the binding and phosphorylation of 4PS/IRS-2 in haemopoietic cells and of IRS-1 in non-haemopoietic cells. By contrast, IL-4-mediated differentiation events depend upon more distal regions of the IL-4R alpha chain that include a series of STAT-6 binding sites. The distinctive roles of these receptor domains was verified by receptor-reconstruction experiments. The 'growth' and 'differentiation' domains of the IL-4R alpha chain, independently expressed as chimeric structures with a truncated version of the IL-2R beta chain, were shown to convey their functions to the hybrid receptor. The critical role of STAT-6 in IL-4-mediated gene activation and differentiation was made clear by the finding that lymphocytes from STAT-6 knockout mice are strikingly deficient in these functions but have retained the capacity to grow, at least partially, in response to IL-4. IL-4 plays a central role in determining the phenotype of naive CD4+ T cells. In the presence of IL-4, newly primed naive T cells develop into IL-4 producers while in its absence they preferentially become gamma-interferon (IFN-gamma) producers. Recently, a specialized subpopulation of T cells, CD4+/NK1.1+ cells, has been shown to produce large amounts of IL-4 upon stimulation. Two examples of mice with deficiencies in these cells are described--beta 2-microglobulin knockout mice and SJL mice. Both show defects in the development of IL-4-producing cells and in the increase in serum IgE in response to stimulation with the

  6. Modeling and Control of Hybrid Machine Systems——a Five-bar Mechanism Case

    Institute of Scientific and Technical Information of China (English)

    Hongnian Yu

    2006-01-01

    A hybrid machine (HM) as a typical mechatronic device, is a useful tool to generate smooth motion, and combines the motions of a large constant speed motor with a small servo motor by means of a mechnical linkage mechanism, in order to provide a powerful programmable drive system. To achieve design objectives, a control system is required. To design a better control system and analyze the performance of an HM, a dynamic model is necessary. This paper first develops a dynamic model of an HM with a five-bar mechanism using a Lagrangian formulation. Then, several important properties which are very useful in system analysis, and control system design, are presented. Based on the developed dynamic model,two control approaches, computed torque, and combined computed torque and slide mode control, are adopted to control the HM system. Simulation results demonstrate the control performance and limitations of each control approach.

  7. Intelligent Integrated Control of Underactuated Mechanical Systems with Second-order Nonholonomic Constraints

    Institute of Scientific and Technical Information of China (English)

    Lai Xuzhi(赖旭芝); Wu Min; Cai Zixing; She Jinhua

    2003-01-01

    This paper describes an intelligent integrated control of an acrobot, which is an underactuated mechanical system with second-order nonholonomic constraints. The control combines a model-free fuzzy control, a fuzzy sliding-mode control and a model-based fuzzy control. The model-free fuzzy controller designed for the upswing ensures that the energy of the acrobot increases with each swing. Then the fuzzy sliding-mode controller is employed to control the movement that the acrobot enters the balance area from the swing-up area. The model-based fuzzy controller, which is based on a Takagi-Sugeno fuzzy model, is used to balance the acrobot. The stability of the fuzzy control system for balance control is guaranteed by a common symmetric positive matrix, which satisfies linear matrix inequalities.

  8. Towards a calculus of biomolecular complexes at equilibrium.

    Science.gov (United States)

    Mjolsness, Eric

    2007-07-01

    An overview is presented of the construction and use of algebraic partition functions to represent the equilibrium statistical mechanics of multimolecular complexes and their action within a larger regulatory network. Unlike many applications of equilibrium statistical mechanics, multimolecular complexes may operate with various subsets of their components present and connected to the others, the rest remaining in solution. Thus they are variable-structure systems. This aspect of their behavior may be accounted for by the use of 'fugacity' variables as a representation within the partition functions. Four principles are proposed by which the combinatorics of molecular complex construction can be reflected in the construction of their partition functions. The corresponding algebraic operations on partition functions are multiplication, addition, function composition and a less commonly used operation called contraction. Each has a natural interpretation in terms of probability distributions on multimolecular structures. Possible generalizations to nonequilibrium statistical mechanics are briefly discussed.

  9. A new formal model for privilege control with supporting POSIX capability mechanism

    Institute of Scientific and Technical Information of China (English)

    JI Qingguang; QING Sihan; HE Yeping

    2005-01-01

    In order to enforce the least privilege principle in the operating system, it is necessary for the process privilege to be effectively controlled; but this is very difficult because a process always changes as time changes. In this paper, based on the analysis on how the process privilege is generated and how it works, a hierarchy implementing the least privilege principle with three layers, i.e. administration layer, functionality control layer and performance layer, is posed. It is clearly demonstrated that to bound privilege's working scope is a critical part for controlling privilege, but this is only mentioned implicitly while not supported in POSIX capability mechanism. Based on analysis of existing control mechanism for privilege, not only an improved capability inheritance formula but also a new complete formal model for controlling process based on integrating RBAC, DTE, and POSIX capability mechanism is introduced. The new invariants in the model show that this novel privilege control mechanism is different from RBAC's, DTE's, and POSIX's, and it generalizes subdomain control mechanism and makes this mechanism dynamic.

  10. A control model for hysteresis based on microscopic polarization mechanisms in piezoelectric actuator

    Institute of Scientific and Technical Information of China (English)

    RU Chang-hai; SUN Li-ning; RONG Wei-bin

    2008-01-01

    Aiming at the limitation of control accuracy caused by hysteresis and creep for a piezoelectric actuator, the hysteresis phenomenon is explained based on the microscopic polarization mechanism and domain wall theory. Then a control model based on polarization is established, which can reduce the hysteresis and creep remarkablely. The experimental results show that the polarization control method is with more linearity and less hysteresis compared with the voltage control method.

  11. Mechanisms of Morphology Development and Control in Polymer- Polymer Blends

    Science.gov (United States)

    Macosko, Christopher W.

    1998-03-01

    Polymer-polymer blends continue to be the most important method for achieving optimization of properties in plastics products. Over 30 percent of all plastics are blends. While miscible blends generally give average properties between the components, immiscible blends offer synergistic possibilities such as high modulus with high toughness; high flow with high impact strength or diffusion barriers with good mechanical properties and low cost. The key to performance of these immiscible blends is their morphology. There are several important types of morphology which can lead to valuable property improvement: emulsion - small polymer spheres well dispersed in a polymer matrix. double emulsion - spheres inside spheres which are dispersed in another matrix. microlayer - thin, parallel layers of one polymer in a matrix. cocontinuous - two (or more) continuous, interpenetrating polymer phases. To be economical it is desirable to create these morphologies via melt mixing of powder or pellets in conventional compounding equipment. The melting stage during compounding is very important for morphology development. This presentation will demonstrate the role of melting or softening of each phase as well as their viscosity, elasticity and interfacial tension in morphology development. Interfacial modification with premade block copolymers or reactively formed copolymers can greatly alter morphology formation and stability. Experimental results will be presented which quantify the role of these additives. References to recent work in this area by our group are listed below: DeBrule, M. B., L. Levitt and C.W. Macosko, "The Rheology and Morphology of Layered Polymer Melts in Shear," Soc. Plastics Eng. Tech Papers (ANTEC), 84-89 (1996). Guegan, P., C. W. Macosko, T. Ishizone, A. Hirao and S. Nakahama, "Kinetics of Chain Coupling at Melt Interfaces, Macromol. 27, 4993-4997 (1994). Lee, M. S., T.P. Lodge, and C. W. Macosko, "Can Random Copolymers Serve as Effective Polymeric

  12. Error Analysis and Compensation Method on the Mechanical Structure of the Hydraulic Control System

    Directory of Open Access Journals (Sweden)

    Luo Yanyan

    2016-01-01

    Full Text Available Mechanical deformation of mechanical transmission part in hydraulic control system directly affects the loading accuracy of the system. For improving the mechanical properties of the system, The force analysis and motion analysis of mechanism are simulated based on the four-bar linkage structure (FLS, and kinematics simulation is designed by using Matlab program, then came to a system error bar graph. The system error was calculated accurately according to the results of the structural mechanics simulation made by Solidworks motion module. The structure of the system will be modified when systematic errors exceed the required limit values until it reach the required value.

  13. Numerical simulation and experimental validation of the control mechanism of noise and vibration active control devices by piezoceramic transducers

    Energy Technology Data Exchange (ETDEWEB)

    Miccoli, G. [National Research Council, Cassana (Italy). Earth-Moving Machinery and Off-Road Vehicles Inst.; Concilio, A. [C.I.R.A., Capua (Italy)

    1994-12-31

    The applications till now carried out by this research group in order to actively control structural noise and vibration levels by means of piezoceramic transducers refer to the use and test of simple analogic SISO control systems. These devices work each connected to a couple of sensor/actuator collocated piezoceramics and implement positive feedback control law with self-adaptive variable gain. In order to improve the performance of these control systems and get more insight into their operation, the simulation of the control mechanism itself has been carried out by means of: (a) theoretical analysis of phase and gain characteristics of these devices using finite element (FEM) code (MSC/NASTRAN); (b) experimental validation of the analytical results by means of an on purpose built SISO variable phase and gain control system. On the basis of the experimental results obtained the electronic components of this first SISO control system have been optimized in order to reduce possible instability phenomena.

  14. A methodology for identification and control of electro-mechanical actuators.

    Science.gov (United States)

    Tutunji, Tarek A; Saleem, Ashraf

    2015-01-01

    Mechatronic systems are fully-integrated engineering systems that are composed of mechanical, electronic, and computer control sub-systems. These integrated systems use electro-mechanical actuators to cause the required motion. Therefore, the design of appropriate controllers for these actuators are an essential step in mechatronic system design. In this paper, a three-stage methodology for real-time identification and control of electro-mechanical actuator plants is presented, tested, and validated. First, identification models are constructed from experimental data to approximate the plants' response. Second, the identified model is used in a simulation environment for the purpose of designing a suitable controller. Finally, the designed controller is applied and tested on the real plant through Hardware-in-the-Loop (HIL) environment. The described three-stage methodology provides the following practical contributions: •Establishes an easy-to-follow methodology for controller design of electro-mechanical actuators.•Combines off-line and on-line controller design for practical performance.•Modifies the HIL concept by using physical plants with computer control (rather than virtual plants with physical controllers). Simulated and experimental results for two case studies, induction motor and vehicle drive system, are presented in order to validate the proposed methodology. These results showed that electromechanical actuators can be identified and controlled using an easy-to-duplicate and flexible procedure.

  15. GA-based stable control for a class of underactuated mechanical systems

    Science.gov (United States)

    Liu, Diantong; Guo, Weiping; Yi, Jianqiang

    2005-12-01

    A nonlinear dynamic model of a class of underactuated mechanical systems was built using the Lagrangian method. Some system properties such as the system passivity were analyzed. A GA(Genetic Algorithms)-based stable control algorithm was proposed for the class of underactuated mechanical systems. The Lyapunov stability theory and system properties were utilized to guarantee the system's asymptotic stability to its equilibrium. A real-valued GA was used to adjust the parameters of a stable controller to improve the system performance. An underactuated double-pendulum-type overhead crane system is used to validate the proposed control algorithm. Simulation results illustrate the validity of proposed control algorithm under different conditions.

  16. State of the Art Report for Development of Control Element Drive Mechanism of the APR+ Reactor

    Energy Technology Data Exchange (ETDEWEB)

    Lee, Jae Seon; Choi, Suhn; Song, Chul Hwa

    2008-10-15

    Recently newly-developed nuclear reactors with increased safety and enhanced performance by developed countries in the nuclear area are competing in the global nuclear market. Several reactors, for example AP600 and AP1000 by Westinghouse Electric Co. in USA, EPR by Areva in Europe, APWR by Mitsubishi Heavy Industry in Japan in the pressurized power reactor, are competing to preoccupy the nuclear market during Nuclear Renaissance. Dedicated control element drive mechanism with enhanced performance and increased safety are developed for these new reactors. And load follow capability is required, and it is estimated that load follow requirement make design requirement of a control element drive mechanism harsh. It is necessary to review the current technical state of a control element drive mechanism. This work is aimed to review the design characteristics of a past and current control element drive mechanism for a nuclear reactor and to check the direction and goal of CEDM design development recently.

  17. New discrimination method for ablative control mechanism in solid-propellant rocket nozzle

    Institute of Scientific and Technical Information of China (English)

    2010-01-01

    A reasonable discrimination method for ablative control mechanism in solid-propellant rocket nozzle can improve the calculation accuracy of ablation rate. Based on the different rate constants for reactions of C with H2O and CO2,a new discrimination method for ablative control mechanism,which comprehensively considers the influence of nozzle surface temperature and gas component concentration,is presented. Using this new discrimination method,calculations were performed to simulate the nozzle throat insert ablation. The numerical results showed that the calculated ablation rate,which was more close to the measured values,was less than the value calculated by diffusion control mechanisms or by double control mechanisms. And H2O was proved to be the most detrimental oxidizing species in nozzle ablation.

  18. CONTROLLING AS A MECHANISM TO INCREASE THE EFFICIENCY OF MANAGEMENT ENTERPRISES OF FUEL-ENERGY COMPLEX

    Directory of Open Access Journals (Sweden)

    M. A. Ostashkin

    2013-01-01

    Full Text Available This article discusses the possibility of application of controlling as mechanism of increasing the efficiency of management of enterprises of fuel- energy complex. The research was conducted on the materials of the JSC «Gazprom».

  19. A Rate-Based Flow Control Mechanism for AvoidingCongestion

    Institute of Scientific and Technical Information of China (English)

    张孝林; 王宇宏; 吴介一

    2002-01-01

    The rate-based flow control mechanisms for the Available Bit Rate (ABR) service are used to share the available bandwidth of a bottleneck switch connected to a bottleneck link fairly and reasonably among many competitive users, and to maintain the buffer queue length of the switch at a desired level in order to avoid congestion in Asynchronous Transfer Mode (ATM) networks. In this paper, a control theoretic approach that uses a DeadbeatResponse (DR) controller to the design of a rate-based flow control mechanism is presented.The mechanism has a simple structure and is robust in the sense that its stability is not sensitive to the change of the number of active Virtual Connections (VCs). Simulation results show that this mechanism not only ensures fair share of the bandwidth for all active VCs regardless of the number of hops they traverse but also has the advantages of fast convergence, no oscillation,and high link bandwidth utilization.

  20. Supplementary Material to: Realization of Three-port Spring Networks with Inerter for Effective Mechanical Control

    OpenAIRE

    Michael Z. Q. Chen; Wang, Kai; Zou, Yun; Chen, Guanrong

    2015-01-01

    This is a supplementary material to "Realization of three-port spring networks with inerter for effective mechanical control" [1], which provides the detailed proofs of some results. For more background information, refer to [2]-[32] and references therein.

  1. Modelling of biomolecular complexes by data-driven docking

    NARCIS (Netherlands)

    Dijk, A.D.J. van

    2006-01-01

    Proteins play a major role in biology by interacting with each other and with other biomolecules. The study of these interactions is of fundamental importance to understand cellular processes, and this could be a key towards understanding mechanisms of diseases and possible development of drugs. As

  2. Noether-Form Invariance of Nonholonomic Controllable Mechanical Systems in Phase Space

    Institute of Scientific and Technical Information of China (English)

    XIA Li-Li; LI Yuan-Cheng

    2007-01-01

    In this paper, we study the Noether-form invariance of nonholonomic mechanical controllable systems in phase space. Equations of motion of the controllable mechanical systems in phase space are presented. The definition and the criterion for this system are presented. A new conserved quantity and the Noether conserved quantity deduced from the Noether-form invariance are obtained. An example is given to illustrate the application of the results.

  3. Study on the control mechanism of China aerospace enterprises' binary multinational operation

    Institute of Scientific and Technical Information of China (English)

    Wang Jian; Li Hanling; Wu Weiwei

    2008-01-01

    China's aerospace enterprises carry on the multinational operation and participate in the international competition and the international division of labor and cooperation positively.This article first analyzs China aerospace enterprises' binary multinational business control objective and constructes its model.Then the article analyzes the tangible and intangible control mechanism of China aerospace enterprises' binary multinational operation respectively.Finally,the article constructs the model of China aerospace enterprises' binary multinational operation mechanisms.

  4. Networked Just-in-time Control of a Parallel Mechanism with Pneumatic Linear Drives

    Directory of Open Access Journals (Sweden)

    Takahiro Kosaki

    2014-01-01

    Full Text Available Parallel mechanisms have advantages such as high power, high stiffness, and high precision due to the parallel arrangement of actuators, in comparison with typical serial mechanisms. In the present study, we used pneumatic linear drives to develop a linearly actuated parallel mechanism, in which the actuators fixed on a base enable high degrees of freedom of motion of an end-effector. Using pneumatic linear drives in the realization of such a parallel mechanism leads to lightweight, compact, and low-cost construction. For the parallel mechanism prototype, we construct a control system based on our previously proposed networked Just-In-Time (JIT control strategy, which is based on client-server architecture. In this system, the parallel mechanism is connected to a client computer, and a server computer has a database that stores the control data for all the pneumatic actuators to drive the parallel mechanism. The client online accesses the database, receives data from the server, and feeds control commands to the pneumatic actuators. Experiments were performed to investigate the performance of the developed parallel mechanism system.

  5. The Dynamic Evolution of Firms’ Pollution Control Strategy under Graded Reward-Penalty Mechanism

    Directory of Open Access Journals (Sweden)

    Li Ming Chen

    2016-01-01

    Full Text Available The externality of pollution problem makes firms lack enough incentive to reduce pollution emission. Therefore, it is necessary to design a reasonable environmental regulation mechanism so as to effectively urge firms to control pollution. In order to inspire firms to control pollution, we divide firms into different grades according to their pollution level and construct an evolutionary game model to analyze the interaction between government’s regulation and firms’ pollution control under graded reward-penalty mechanism. Then, we discuss stability of firms’ pollution control strategy and derive the condition of inspiring firms to control pollution. Our findings indicate that firms tend to control pollution after long-term repeated games if government’s excitation level and monitoring frequency meet some conditions. Otherwise, firms tend to discharge pollution that exceeds the stipulated standards. As a result, in order to effectively control pollution, a government should adjust its excitation level and monitoring frequency reasonably.

  6. Recent research progress on unstart mechanism, detection and control of hypersonic inlet

    Science.gov (United States)

    Chang, Juntao; Li, Nan; Xu, Kejing; Bao, Wen; Yu, Daren

    2017-02-01

    The present paper aims to provide a summary report on recent research progress about unstart mechanism, detection and control of hypersonic inlet to help the researchers working on hypersonic inlet to further their work. It covers unstart patterns with their mechanisms, monitoring methods for start/unstart classification and detection, characterization methods for unstart margin, and methods for unstart suppression and control. At first, the inner mechanisms of various unstart patterns have been surveyed and classified, which are respectively caused by contraction ratio (CR)/internal contraction ratio (ICR), backpressure, Mach number and heat release. Followed, monitoring methods (one is for start/unstart classification and the other is for unstart detection) have been introduced respectively. Thirdly, three types of techniques for margin characterization of unstart are listed, which are respectively based on backpressure, the location of shock train leading edge and pressure distribution. At last, unstart suppression and control have been discussed, which are based on flow control or feedback control.

  7. The allostery landscape: quantifying thermodynamic couplings in biomolecular systems

    CERN Document Server

    Cuendet, Michel A; LeVine, Michael V

    2016-01-01

    Allostery plays a fundament role in most biological processes. However, little theory is available to describe it outside of two-state models. Here we use a statistical mechanical approach to show that the allosteric coupling between two collective variables is not a single number, but instead a two-dimensional thermodynamic coupling function that is directly related to the mutual information from information theory and the copula density function from probability theory. On this basis, we demonstrate how to quantify the contribution of specific energy terms to this thermodynamic coupling function, enabling a decomposition that reveals the mechanism of allostery. We illustrate the thermodynamic coupling function and its use by showing how allosteric coupling in the alanine dipeptide molecule contributes to the overall shape of the {\\Phi}/{\\Psi} free energy surface, and by identifying the interactions that are necessary for this coupling.

  8. Microcontroller Based Proportional Derivative Plus Conditional Integral Controller for Electro-Mechanical Dual Acting Pulley Continuously Variable Transmission Ratio Control

    Science.gov (United States)

    Budianto, A.; Tawi, K. B.; Hussein, M.; Supriyo, B.; Ariyono, S.; Che Kob, M. S.; Ezlamy Zulkifli, Mohd; K, Khairuldean A.; Daraoh, Aishah

    2012-09-01

    Electro-Mechanical Dual Acting Pulley (EMDAP) Continuously Variable Transmission (CVT) is a transmission utilized by electro-mechanical actuated system. It has a potential to reduce energy consumption because it only needs power during changing CVT ratio and no power is needed to maintain CVT ratio due to self lock mechanism design. This paper proposed simple proportional derivative plus conditional integral (PDCI) controller to control EMDAP CVT ratio which can be simply implemented on a microcontroller. This proposed controller used Astrom-Hagglund method and Ziegler-Nichols formula to tune PDCI gain. The Proportional Derivative controller is directly activated from the start but Integral controller is only activated when the error value reaches error value setting point. Simulation using Matlab/Simulink software was conducted to evaluate PDCI system performance. The simulation results showed PDCI controller has ability to perform maximum overshoot 0.1%, 0.001 steady state error and 0.5s settling time. For clamping condition, settling time is about 11.46s during changing ratio from 2.0 to 0.7, while for release condition, settling time is about 8.33s during changing ratio from 0.7 to 2.0.

  9. A Closed-Loop Proportional-Integral (PI) Control Software for Fully Mechanically Controlled Automated Electron Microscopic Tomography

    Energy Technology Data Exchange (ETDEWEB)

    2016-06-23

    A closed-loop proportional-integral (PI) control software is provided for fully mechanically controlled automated electron microscopic tomography. The software is developed based on Gatan DigitalMicrograph�, and is compatible with Zeiss LIBRA� 120 transmission electron microscope. However, it can be expanded to other TEM instrument with modification. The software consists of a graphical user interface, a digital PI controller, an image analyzing unit, and other drive units (i.e.: image acquire unit and goniometer drive unit). During a tomography data collection process, the image analyzing unit analyzes both the accumulated shift and defocus value of the latest acquired image, and provides the results to the digital PI controller. The digital PI control compares the results with the preset values and determines the optimum adjustments of the goniometer. The goniometer drive unit adjusts the spatial position of the specimen according to the instructions given by the digital PI controller for the next tilt angle and image acquisition. The goniometer drive unit achieves high precision positioning by using a backlash elimination method. The major benefits of the software are: 1) the goniometer drive unit keeps pre-aligned/optimized beam conditions unchanged and achieves position tracking solely through mechanical control; 2) the image analyzing unit relies on only historical data and therefore does not require additional images/exposures; 3) the PI controller enables the system to dynamically track the imaging target with extremely low system error.

  10. Controlled switching of single-molecule junctions by mechanical motion of a phenyl ring

    Directory of Open Access Journals (Sweden)

    Yuya Kitaguchi

    2015-10-01

    Full Text Available Mechanical methods for single-molecule control have potential for wide application in nanodevices and machines. Here we demonstrate the operation of a single-molecule switch made functional by the motion of a phenyl ring, analogous to the lever in a conventional toggle switch. The switch can be actuated by dual triggers, either by a voltage pulse or by displacement of the electrode, and electronic manipulation of the ring by chemical substitution enables rational control of the on-state conductance. Owing to its simple mechanics, structural robustness, and chemical accessibility, we propose that phenyl rings are promising components in mechanical molecular devices.

  11. Enhancing Security and Privacy in Video Surveillance through Role-Oriented Access Control Mechanism

    DEFF Research Database (Denmark)

    Mahmood Rajpoot, Qasim

    the explicitly stated ones due to the hierarchical relations between the attributes of different entities. We implement a prototype of the proposed mechanism and demonstrate that the access control policies using our approach may be specified via eXtensible Access Control Markup Language (XACML)....

  12. Engine Performance (Section C: Emission Control Systems). Auto Mechanics Curriculum Guide. Module 3. Instructor's Guide.

    Science.gov (United States)

    Rains, Larry

    This engine performance (emission control systems) module is one of a series of competency-based modules in the Missouri Auto Mechanics Curriculum Guide. Topics of this module's five units are: positive crankcase ventilation (PCV) and evaporative emission control systems; exhaust gas recirculation (EGR); air injection and catalytic converters;…

  13. Joint Resource Allocation and Admission Control Mechanism for an OFDMA-Based System

    DEFF Research Database (Denmark)

    Meucci, Filippo; Mihovska, Albena D.; Anggorojati, Bayu;

    2008-01-01

    This paper describes a Call Admission Control (CAC) mechanism that adapts the type of admitted users based on a proposed resource allocation strategy that responds to changes in the channel conditions. The admission control decides to admit new services according to the load of the cell and based...

  14. Biomolecular modification of zirconia surfaces for enhanced biocompatibility

    Energy Technology Data Exchange (ETDEWEB)

    Hsu, Shih-Kuang; Hsu, Hsueh-Chuan [Department of Dental Technology and Materials Science, Central Taiwan University of Science and Technology, Taichung 40601, Taiwan, ROC (China); Ho, Wen-Fu [Department of Chemical and Materials Engineering, National University of Kaohsiung, Taiwan, ROC (China); Yao, Chun-Hsu [Department of Biomedical Imaging and Radiological Science, China Medical University, Taichung 40402, Taiwan, ROC (China); Chang, Pai-Ling [Taoyuan General Hospital, Taoyuan 33004, Taiwan, ROC (China); Wu, Shih-Ching, E-mail: scwu@ctust.edu.tw [Department of Dental Technology and Materials Science, Central Taiwan University of Science and Technology, Taichung 40601, Taiwan, ROC (China)

    2014-12-01

    Yttria-tetragonal zirconia polycrystal (Y-TZP) is a preferred biomaterial due to its good mechanical properties. In order to improve the biocompatibility of zirconia, RGD-peptide derived from extracellular matrix proteins was employed to modify the surface of Y-TZP to promote cell adhesion in this study. The surface of Y-TZP specimens was first modified using a hydrothermal method for different lengths of time. The topographies of modified Y-TZP specimens were analyzed by contact angle, XRD, FTIR, AFM, and FE-SEM. The mechanical properties were evaluated using Vickers hardness and three point bending strength. Then, the RGD-peptide was immobilized on the surface of the Y-TZP by chemical treatment. These RGD-peptide immobilized Y-TZP specimens were characterized by FTIR and AFM, and then were cocultured with MG-63 osteoblast cells for biocompatibility assay. The cell morphology and proliferation were evaluated by SEM, WST-1, and ALP activity assay. The XRD results indicated that the phase transition, from tetragonal phase to monoclinic phase, was increased with a longer incubation time of hydrothermal treatment. However, there were no significant differences in mechanical strengths after RGD-peptide was successfully grafted onto the Y-TZP surface. The SEM images showed that the MG-63 cells appeared polygonal, spindle-shaped, and attached on the RGD-peptide immobilized Y-TZP. The proliferation and cellular activities of MG-63 cells on the RGD-peptide immobilized Y-TZP were better than that on the unmodified Y-TZP. From the above results, the RGD-peptide can be successfully grafted onto the hydrothermal modified Y-TZP surface. The RGD-peptide immobilized Y-TZP can increase cell adhesion, and thus, improve the biocompatibility of Y-TZP. - Highlights: • Covalent bonding between peptide and Y-TZP was proposed. • Stable biomimetic structures produced on the surface of zirconia. • The biocompatibility was improved.

  15. ON THE DYNAMIC MODELING AND CONTROL OF 2-DOF PLANAR PARALLEL MECHANISM WITH FLEXIBLE LINKS

    Institute of Scientific and Technical Information of China (English)

    Luo Lei; Wang Shigang; Mo Jinqiu; Cai Jianguo

    2005-01-01

    The object of study is about dynamic modeling and control for a 2 degree-of-freedom (DOF) planar parallel mechanism (PM) with flexible links. The kinematic and dynamic equations are established according to the characteristics of mixed rigid and flexible structure. By using the singular perturbation approach (SPA), the model of the mechanism can be separated into slow and fast subsystems. Based on the feedback linearization theory and input shaping technique, the large scale rigid motion controller and the flexible link vibration controller can be designed separately to achieve fast and accurate positioning of the PM.

  16. Human Balance out of Equilibrium: Nonequilibrium Statistical Mechanics in Posture Control

    Science.gov (United States)

    Lauk, Michael; Chow, Carson C.; Pavlik, Ann E.; Collins, James J.

    1998-01-01

    During quiet standing, the human body sways in a stochastic manner. Here we show that the fluctuation-dissipation theorem can be applied to the human postural control system. That is, the dynamic response of the postural system to a weak mechanical perturbation can be predicted from the fluctuations exhibited by the system under quasistatic conditions. We also show that the estimated correlation and response functions can be described by a simple stochastic model consisting of a pinned polymer. These findings suggest that the postural control system utilizes the same control mechanisms under quiet-standing and dynamic conditions.

  17. Mechanism study and molecular design in controlled/“living” radical polymerization

    Institute of Scientific and Technical Information of China (English)

    2010-01-01

    This tutorial review summarizes recent progress in the research field of controlled/"living" radical polymerization (CLRP) from Soochow University.The present paper gives a broad overview of the mechanism study and molecular design in CLRP.The mechanism study in CLRP aided by microwave,initiated by γ-radiation at low temperature,mediated by iron,in reversible addition-fragmentation chain transfer (RAFT) polymerization and the mechanism transfer between different CLRP processes are reviewed and summarized.The molecular design in CLRP,especially in RAFT polymerization for mechanism study,and in achieving tailor-made functional polymers is studied and discussed in the later part.

  18. Robust Regulation and Tracking Control of a Class of Uncertain 2DOF Underactuated Mechanical Systems

    Directory of Open Access Journals (Sweden)

    David I. Rosas Almeida

    2015-01-01

    Full Text Available A strategy to design and implement a robust controller for a class of underactuated mechanical systems, with two degrees of freedom, which solves the problems of regulation and trajectory tracking, is proposed. This control strategy considers the partial measurement of the state vector and the presence of parametric uncertainties in the plant; these conditions are common in the implementation of a control system. The strategy is based on the use of robust finite time convergence observers to estimate the unmeasured state variables, unknown disturbances, and other signals needed for the control system implementation. The performance of the control strategy is illustrated numerically and experimentally.

  19. Coupling Mechanism and Decoupled Suspension Control Model of a Half Car

    OpenAIRE

    Hailong Zhang; Ning Zhang; Fuhong Min; Subhash Rakheja; Chunyi Su; Enrong Wang

    2016-01-01

    A structure decoupling control strategy of half-car suspension is proposed to fully decouple the system into independent front and rear quarter-car suspensions in this paper. The coupling mechanism of half-car suspension is firstly revealed and formulated with coupled damping force (CDF) in a linear function. Moreover, a novel dual dampers-based controllable quarter-car suspension structure is proposed to realize the independent control of pitch and vertical motions of the half car, in which ...

  20. Research of Control Method for Improving Mechanical Performance of Winding Motor

    Institute of Scientific and Technical Information of China (English)

    CHEN Zhao-zhang; YANG Zheng-lin

    2002-01-01

    A reformed PHD (Proportional-Integral- Differential)motor controller is developed for the ideal winding performance. It is verified that the PHD motor controller can largely improve the mechanical performance and raise the production efficiency by means of the test of a winding production system driven by a motor with high internal resistance rotator. It indicates that improving the control method is one of the most effective ways to improve the winding performance of the motor in winding production.

  1. Optimal Manoeuvres of Underactuated Linear Mechanical Systems: The Case of Controlling Gantry Crane Operations

    Directory of Open Access Journals (Sweden)

    S. Woods

    2014-01-01

    Full Text Available A method of solving optimal manoeuvre control of linear underactuated mechanical systems is presented. The nonintegrable constraints present in such systems are handled by adding dummy actuators and then by applying Lagrange multipliers to reduce their action to zero. The open- and closed-loop control schemes can be analyzed. The method, referred to as the constrained modal space optimal control (CMSOC, is illustrated in the examples of gantry crane operations.

  2. Optimal Manoeuvres of Underactuated Linear Mechanical Systems: The Case of Controlling Gantry Crane Operations

    OpenAIRE

    Woods, S; Szyszkowski, W.

    2014-01-01

    A method of solving optimal manoeuvre control of linear underactuated mechanical systems is presented. The nonintegrable constraints present in such systems are handled by adding dummy actuators and then by applying Lagrange multipliers to reduce their action to zero. The open- and closed-loop control schemes can be analyzed. The method, referred to as the constrained modal space optimal control (CMSOC), is illustrated in the examples of gantry crane operations.

  3. Interior and exterior ballistics coupled optimization with constraints of attitude control and mechanical-thermal conditions

    Science.gov (United States)

    Liang, Xin-xin; Zhang, Nai-min; Zhang, Yan

    2016-07-01

    For solid launch vehicle performance promotion, a modeling method of interior and exterior ballistics associated optimization with constraints of attitude control and mechanical-thermal condition is proposed. Firstly, the interior and external ballistic models of the solid launch vehicle are established, and the attitude control model of the high wind area and the stage of the separation is presented, and the load calculation model of the drag reduction device is presented, and thermal condition calculation model of flight is presented. Secondly, the optimization model is established to optimize the range, which has internal and external ballistic design parameters as variables selected by sensitivity analysis, and has attitude control and mechanical-thermal conditions as constraints. Finally, the method is applied to the optimal design of a three stage solid launch vehicle simulation with differential evolution algorithm. Simulation results are shown that range capability is improved by 10.8%, and both attitude control and mechanical-thermal conditions are satisfied.

  4. Biomolecular Mechanisms of Adaptive Reflectance and Related Biophotonic Systems in Molluscs

    Science.gov (United States)

    2015-01-09

    lightweight solar cells, IR detectors, and recovery of waste heat through thermal photovoltaics. Accordion-like folds in the cell membrane filled with unique...ADDRESS (ES) U.S. Army Research Office P.O. Box 12211 Research Triangle Park , NC 27709-2211 Squid, Photonics; Proteins; Reflectin; Camouflage...improvements in lightweight solar cells, IR detectors, and recovery of waste heat through thermal photovoltaics. Accordion-like folds in the cell membrane

  5. The development of controlled damage mechanisms-based design method for nonlinear static pushover analysis

    Directory of Open Access Journals (Sweden)

    Ćosić Mladen

    2014-01-01

    Full Text Available This paper presents the original method of controlled building damage mechanisms based on Nonlinear Static Pushover Analysis (NSPA-DMBD. The optimal building damage mechanism is determined based on the solution of the Capacity Design Method (CDM, and the response of the building is considered in incremental situations. The development of damage mechanism of a system in such incremental situations is being controlled on the strain level, examining the relationship of current and limit strains in concrete and reinforcement steel. Since the procedure of the system damage mechanism analysis according to the NSPA-DMBD method is being iteratively implemented and designing checked after the strain reaches the limit, for this analysis a term Iterative-Interactive Design (IID has been introduced. By selecting, monitoring and controlling the optimal damage mechanism of the system and by developed NSPA-DMBD method, damage mechanism of the building is being controlled and the level of resistance to an early collapse is being increased. [Projekat Ministarstva nauke Republike Srbije, br. TR 36043

  6. Incentive-Rewarding Mechanism for User-position Control in Mobile Services

    Science.gov (United States)

    Yoshino, Makoto; Sato, Kenichiro; Shinkuma, Ryoichi; Takahashi, Tatsuro

    When the number of users in a service area increases in mobile multimedia services, no individual user can obtain satisfactory radio resources such as bandwidth and signal power because the resources are limited and shared. A solution for such a problem is user-position control. In the user-position control, the operator informs users of better communication areas (or spots) and navigates them to these positions. However, because of subjective costs caused by subjects moving from their original to a new position, they do not always attempt to move. To motivate users to contribute their resources in network services that require resource contributions for users, incentive-rewarding mechanisms have been proposed. However, there are no mechanisms that distribute rewards appropriately according to various subjective factors involving users. Furthermore, since the conventional mechanisms limit how rewards are paid, they are applicable only for the network service they targeted. In this paper, we propose a novel incentive-rewarding mechanism to solve these problems, using an external evaluator and interactive learning agents. We also investigated ways of appropriately controlling rewards based on user contributions and system service quality. We applied the proposed mechanism and reward control to the user-position control, and demonstrated its validity.

  7. Remote toehold: a mechanism for flexible control of DNA hybridization kinetics.

    Science.gov (United States)

    Genot, Anthony J; Zhang, David Yu; Bath, Jonathan; Turberfield, Andrew J

    2011-02-23

    Hybridization of DNA strands can be used to build molecular devices, and control of the kinetics of DNA hybridization is a crucial element in the design and construction of functional and autonomous devices. Toehold-mediated strand displacement has proved to be a powerful mechanism that allows programmable control of DNA hybridization. So far, attempts to control hybridization kinetics have mainly focused on the length and binding strength of toehold sequences. Here we show that insertion of a spacer between the toehold and displacement domains provides additional control: modulation of the nature and length of the spacer can be used to control strand-displacement rates over at least 3 orders of magnitude. We apply this mechanism to operate displacement reactions in potentially useful kinetic regimes: the kinetic proofreading and concentration-robust regimes.

  8. Design and Development of Mechanical Structure and Control System for Tracked Trailing Mobile Robot

    Directory of Open Access Journals (Sweden)

    Hongchuan Xu

    2013-02-01

    Full Text Available Along with the science and technology unceasing progress, the uses of tracing robots become more and more widely. Tracked tracing robot was adopted as the research object in this paper, mechanical structure and control system of robot was designed and developmented. In mechanical structure design part, structure designed and positioned  were completed, including design of robot body, wheel, underpan, transmission structure and the positioning of batteries, control panel, sensors, etc, and then robot dynamics was analyzed; In control section, M30245 was used as the core, according to the characteristics of tracked tracing robot differential drive, realization scheme of motion control system was put forward, system drive circuit, detection module, control program were developed. System were discussed and checked through test. From this paper tracked tracing robot was researched, and a certain design and experimental basis can be provided in future research.

  9. Inner-Learning Mechanism Based Control Scheme for Manipulator with Multitasking and Changing Load

    Directory of Open Access Journals (Sweden)

    Fangzheng Xue

    2014-05-01

    Full Text Available With the rapid development of robot technology and its application, manipulators may face complex tasks and dynamic environments in the coming future, which leads to two challenges of control: multitasking and changing load. In this paper, a novel multicontroller strategy is presented to meet such challenges. The presented controller is composed of three parts: subcontrollers, inner-learning mechanism, and switching rules. Each subcontroller is designed with self-learning skills to fit the changing load under a special task. When a new task comes, switching rule reselects the most suitable subcontroller as the working controller to handle current task instead of the older one. Inner-learning mechanism makes the subcontrollers learn from the working controller when load changes so that the switching action causes smaller tracking error than the traditional switch controller. The results of the simulation experiments on two-degree manipulator show the proposed method effect.

  10. Innovation in Bio-disaster Prevention and Control Mechanism after Forest Tenure Reform at County Level

    Institute of Scientific and Technical Information of China (English)

    ZHAN Zu-ren

    2012-01-01

    Taking Youxi County of Fujian Province as an example,the author introduced basic situations of new bio-disaster prevention and control mechanism for forest resource protection and social service works after the forest tenure reform.Then,the author analyzed new problems faced by bio-disaster prevention and control in forestry.Finally,the author present the existing problems of bio-disaster prevention and control at the county level from five aspects:innovating upon plant quarantine management mechanism;innovation upon survey methods and service modes of bio-disaster monitoring;strengthening and improving construction of bio-disaster monitoring and forecasting network;innovating upon management system for bio-disaster prevention and control;speeding up construction of service system for social prevention and control of bio-disasters.

  11. The Electrical and Mechanical Alignment and Accuracy Detection of Numerial Control Machine Tool

    Institute of Scientific and Technical Information of China (English)

    XU Liang-xiong; ZHOU Xiang

    2012-01-01

    In the work of numerical control reformation of general machine tool, the installation and debugging of machine tool is a crucial part. For the C6132 machine tool, and make the use of electrical and mechanical alignment, parameter adjusting, numerical control lathe accuracy debugging and performance examination has been used to finish a series of tailing in the work of numerical control reformation of general machine tool. In this paper, the detailed process of electrical and mechanical alignment, parameter adjusting, numerical control lathe accuracy debugging and performance examination has been demonstrated, meanwhile, the specific operational approach of these work programs has been discussed. Therefore, the present results provides essential reference and approach for the numerical control reformation of general machine tool.

  12. Dynamic Modeling and Control of Electromechanical Coupling for Mechanical Elastic Energy Storage System

    Directory of Open Access Journals (Sweden)

    Yang Yu

    2013-01-01

    Full Text Available The structural scheme of mechanical elastic energy storage (MEES system served by permanent magnet synchronous motor (PMSM and bidirectional converters is designed. The aim of the research is to model and control the complex electromechanical system. The mechanical device of the complex system is considered as a node in generalized coordinate system, the terse nonlinear dynamic model of electromechanical coupling for the electromechanical system is constructed through Lagrange-Maxwell energy method, and the detailed deduction of the mathematical model is presented in the paper. The theory of direct feedback linearization (DFL is applied to decouple the nonlinear dynamic model and convert the developed model from nonlinear to linear. The optimal control theory is utilized to accomplish speed tracking control for the linearized system. The simulation results in three different cases show that the proposed nonlinear dynamic model of MEES system is correct; the designed algorithm has a better control performance in contrast with the conventional PI control.

  13. The universal statistical distributions of the affinity, equilibrium constants, kinetics and specificity in biomolecular recognition.

    Directory of Open Access Journals (Sweden)

    Xiliang Zheng

    2015-04-01

    Full Text Available We uncovered the universal statistical laws for the biomolecular recognition/binding process. We quantified the statistical energy landscapes for binding, from which we can characterize the distributions of the binding free energy (affinity, the equilibrium constants, the kinetics and the specificity by exploring the different ligands binding with a particular receptor. The results of the analytical studies are confirmed by the microscopic flexible docking simulations. The distribution of binding affinity is Gaussian around the mean and becomes exponential near the tail. The equilibrium constants of the binding follow a log-normal distribution around the mean and a power law distribution in the tail. The intrinsic specificity for biomolecular recognition measures the degree of discrimination of native versus non-native binding and the optimization of which becomes the maximization of the ratio of the free energy gap between the native state and the average of non-native states versus the roughness measured by the variance of the free energy landscape around its mean. The intrinsic specificity obeys a Gaussian distribution near the mean and an exponential distribution near the tail. Furthermore, the kinetics of binding follows a log-normal distribution near the mean and a power law distribution at the tail. Our study provides new insights into the statistical nature of thermodynamics, kinetics and function from different ligands binding with a specific receptor or equivalently specific ligand binding with different receptors. The elucidation of distributions of the kinetics and free energy has guiding roles in studying biomolecular recognition and function through small-molecule evolution and chemical genetics.

  14. The Universal Statistical Distributions of the Affinity, Equilibrium Constants, Kinetics and Specificity in Biomolecular Recognition

    Science.gov (United States)

    Zheng, Xiliang; Wang, Jin

    2015-01-01

    We uncovered the universal statistical laws for the biomolecular recognition/binding process. We quantified the statistical energy landscapes for binding, from which we can characterize the distributions of the binding free energy (affinity), the equilibrium constants, the kinetics and the specificity by exploring the different ligands binding with a particular receptor. The results of the analytical studies are confirmed by the microscopic flexible docking simulations. The distribution of binding affinity is Gaussian around the mean and becomes exponential near the tail. The equilibrium constants of the binding follow a log-normal distribution around the mean and a power law distribution in the tail. The intrinsic specificity for biomolecular recognition measures the degree of discrimination of native versus non-native binding and the optimization of which becomes the maximization of the ratio of the free energy gap between the native state and the average of non-native states versus the roughness measured by the variance of the free energy landscape around its mean. The intrinsic specificity obeys a Gaussian distribution near the mean and an exponential distribution near the tail. Furthermore, the kinetics of binding follows a log-normal distribution near the mean and a power law distribution at the tail. Our study provides new insights into the statistical nature of thermodynamics, kinetics and function from different ligands binding with a specific receptor or equivalently specific ligand binding with different receptors. The elucidation of distributions of the kinetics and free energy has guiding roles in studying biomolecular recognition and function through small-molecule evolution and chemical genetics. PMID:25885453

  15. Interacting with the biomolecular solvent accessible surface via a haptic feedback device

    Directory of Open Access Journals (Sweden)

    Hayward Steven

    2009-10-01

    Full Text Available Abstract Background From the 1950s computer based renderings of molecules have been produced to aid researchers in their understanding of biomolecular structure and function. A major consideration for any molecular graphics software is the ability to visualise the three dimensional structure of the molecule. Traditionally, this was accomplished via stereoscopic pairs of images and later realised with three dimensional display technologies. Using a haptic feedback device in combination with molecular graphics has the potential to enhance three dimensional visualisation. Although haptic feedback devices have been used to feel the interaction forces during molecular docking they have not been used explicitly as an aid to visualisation. Results A haptic rendering application for biomolecular visualisation has been developed that allows the user to gain three-dimensional awareness of the shape of a biomolecule. By using a water molecule as the probe, modelled as an oxygen atom having hard-sphere interactions with the biomolecule, the process of exploration has the further benefit of being able to determine regions on the molecular surface that are accessible to the solvent. This gives insight into how awkward it is for a water molecule to gain access to or escape from channels and cavities, indicating possible entropic bottlenecks. In the case of liver alcohol dehydrogenase bound to the inhibitor SAD, it was found that there is a channel just wide enough for a single water molecule to pass through. Placing the probe coincident with crystallographic water molecules suggests that they are sometimes located within small pockets that provide a sterically stable environment irrespective of hydrogen bonding considerations. Conclusion By using the software, named HaptiMol ISAS (available from http://www.haptimol.co.uk, one can explore the accessible surface of biomolecules using a three-dimensional input device to gain insights into the shape and water

  16. A novel auto-tuning PID control mechanism for nonlinear systems.

    Science.gov (United States)

    Cetin, Meric; Iplikci, Serdar

    2015-09-01

    In this paper, a novel Runge-Kutta (RK) discretization-based model-predictive auto-tuning proportional-integral-derivative controller (RK-PID) is introduced for the control of continuous-time nonlinear systems. The parameters of the PID controller are tuned using RK model of the system through prediction error-square minimization where the predicted information of tracking error provides an enhanced tuning of the parameters. Based on the model-predictive control (MPC) approach, the proposed mechanism provides necessary PID parameter adaptations while generating additive correction terms to assist the initially inadequate PID controller. Efficiency of the proposed mechanism has been tested on two experimental real-time systems: an unstable single-input single-output (SISO) nonlinear magnetic-levitation system and a nonlinear multi-input multi-output (MIMO) liquid-level system. RK-PID has been compared to standard PID, standard nonlinear MPC (NMPC), RK-MPC and conventional sliding-mode control (SMC) methods in terms of control performance, robustness, computational complexity and design issue. The proposed mechanism exhibits acceptable tuning and control performance with very small steady-state tracking errors, and provides very short settling time for parameter convergence.

  17. Comparison of adaptive algorithms for the control of tonal disturbances in mechanical systems

    Science.gov (United States)

    Zilletti, M.; Elliott, S. J.; Cheer, J.

    2016-09-01

    This paper presents a study on the performance of adaptive control algorithms designed to reduce the vibration of mechanical systems excited by a harmonic disturbance. The mechanical system consists of a mass suspended on a spring and a damper. The system is equipped with a force actuator in parallel with the suspension. The control signal driving the actuator is generated by adjusting the amplitude and phase of a sinusoidal reference signal at the same frequency as the excitation. An adaptive feedforward control algorithm is used to adapt the amplitude and phase of the control signal, to minimise the mean square velocity of the mass. Two adaptation strategies are considered in which the control signal is either updated after each period of the oscillation or at every time sample. The first strategy is traditionally used in vibration control in helicopters for example; the second strategy is normally referred to as the filtered-x least mean square algorithm and is often used to control engine noise in cars. The two adaptation strategies are compared through a parametric study, which investigates the influence of the properties of both the mechanical system and the control system on the convergence speed of the two algorithms.

  18. Stepping Control Method of Linear Displacement Mechanism Driven by TRUM Based on PSoC

    Institute of Scientific and Technical Information of China (English)

    Wang Junping; Liu Weidong; Zhu Hua; Li Yijun; Li Jianjun

    2015-01-01

    A method based on programmable system-on-chip (PSoC) is proposed to realize high resolution stepping motion control of liner displacement mechanism driven by traveling wave rotary ultrasonic motors (TRUM ) .Intel-ligent controller of stepping ultrasonic motor consists of PSoC microprocessor .Continuous square wave signal is sent out by the pulse width modulator (PWM) module inside PSoC ,and converted into sinusoidal signal which is essential to the motor′s normal working by power amplifier circuit .Subsequently ,signal impulse transmission is realized by the counter control break ,and the stepping motion of linear displacement mechanism based on TRUM is achieved .Running status of the ultrasonic motor is controlled by an upper computer .Control command is sent to PSoC through serial communication circuit of RS-232 .Relative program and control interface are written in Lab-View .Finally the mechanism is tested by XL-80 laser interferometer .Test results show that the mechanism can provide a stable motion and a fixed step pitch with the displacement resolution of 6 nm .

  19. Computation and Communication Evaluation of an Authentication Mechanism for Time-Triggered Networked Control Systems.

    Science.gov (United States)

    Martins, Goncalo; Moondra, Arul; Dubey, Abhishek; Bhattacharjee, Anirban; Koutsoukos, Xenofon D

    2016-07-25

    In modern networked control applications, confidentiality and integrity are important features to address in order to prevent against attacks. Moreover, network control systems are a fundamental part of the communication components of current cyber-physical systems (e.g., automotive communications). Many networked control systems employ Time-Triggered (TT) architectures that provide mechanisms enabling the exchange of precise and synchronous messages. TT systems have computation and communication constraints, and with the aim to enable secure communications in the network, it is important to evaluate the computational and communication overhead of implementing secure communication mechanisms. This paper presents a comprehensive analysis and evaluation of the effects of adding a Hash-based Message Authentication (HMAC) to TT networked control systems. The contributions of the paper include (1) the analysis and experimental validation of the communication overhead, as well as a scalability analysis that utilizes the experimental result for both wired and wireless platforms and (2) an experimental evaluation of the computational overhead of HMAC based on a kernel-level Linux implementation. An automotive application is used as an example, and the results show that it is feasible to implement a secure communication mechanism without interfering with the existing automotive controller execution times. The methods and results of the paper can be used for evaluating the performance impact of security mechanisms and, thus, for the design of secure wired and wireless TT networked control systems.

  20. Unifying the Access Control Mechanism for the Enterprises Using XACML Policy Levels

    Directory of Open Access Journals (Sweden)

    N. Senthil Kumar

    2015-11-01

    Full Text Available —Many enterprises have intended to promote their applications with stern access control mechanism and yield the stringent authorization deployment in their individual proprietary manner. The development of this build up will result in tight coupling of authorization mechanisms within the enterprise applications. In many enterprises setup, the implicit authorization processes are embedded within the application and promote error prone accessing of requested policies. This sort of embedded authorization will let the users to carry out the specific actions without knowing the access control policy as well as its embedded setup with the help of third party involvement. But this approach has some serious effects in controlling the issues such as skipping the trust based applications, violates the policy setups and pave the way to exploit the authorized data to the end users. Many enterprises had faced serious problem in controlling its sensitive data from this implicit authorization decisions and hence decided to develop a security mechanism which can be totally controlled by centralized way of access policy. Therefore, the eXtensible Access Control Markup Language (XACML provides a very simple and powerful remedy for authorization mechanism and for the access policy set ups.

  1. Computation and Communication Evaluation of an Authentication Mechanism for Time-Triggered Networked Control Systems

    Science.gov (United States)

    Martins, Goncalo; Moondra, Arul; Dubey, Abhishek; Bhattacharjee, Anirban; Koutsoukos, Xenofon D.

    2016-01-01

    In modern networked control applications, confidentiality and integrity are important features to address in order to prevent against attacks. Moreover, network control systems are a fundamental part of the communication components of current cyber-physical systems (e.g., automotive communications). Many networked control systems employ Time-Triggered (TT) architectures that provide mechanisms enabling the exchange of precise and synchronous messages. TT systems have computation and communication constraints, and with the aim to enable secure communications in the network, it is important to evaluate the computational and communication overhead of implementing secure communication mechanisms. This paper presents a comprehensive analysis and evaluation of the effects of adding a Hash-based Message Authentication (HMAC) to TT networked control systems. The contributions of the paper include (1) the analysis and experimental validation of the communication overhead, as well as a scalability analysis that utilizes the experimental result for both wired and wireless platforms and (2) an experimental evaluation of the computational overhead of HMAC based on a kernel-level Linux implementation. An automotive application is used as an example, and the results show that it is feasible to implement a secure communication mechanism without interfering with the existing automotive controller execution times. The methods and results of the paper can be used for evaluating the performance impact of security mechanisms and, thus, for the design of secure wired and wireless TT networked control systems. PMID:27463718

  2. Force sensors based on piezoresistive and MOSFET cantilevers for biomolecular sensing

    OpenAIRE

    Tosolini, Giordano

    2013-01-01

    Los procesos de reconocimiento biomolecular entre receptores y ligandos son muy importantes en biología. Estas biomoléculas pueden desarrollar complejos muy específicos y tener una variedad de funciones como replicación y transcripción genómica, actividad enzimática, respuesta inmune, señalamiento celular, etc. La complementariedad inequívoca mostrada por estos componentes biológicos es ampliamente utilizada para desarrollar biosensores. Dependiendo de la naturaleza de las señales que se conv...

  3. Modeling and Control of the Redundant Parallel Adjustment Mechanism on a Deployable Antenna Panel

    Directory of Open Access Journals (Sweden)

    Lili Tian

    2016-10-01

    Full Text Available With the aim of developing multiple input and multiple output (MIMO coupling systems with a redundant parallel adjustment mechanism on the deployable antenna panel, a structural control integrated design methodology is proposed in this paper. Firstly, the modal information from the finite element model of the structure of the antenna panel is extracted, and then the mathematical model is established with the Hamilton principle; Secondly, the discrete Linear Quadratic Regulator (LQR controller is added to the model in order to control the actuators and adjust the shape of the panel. Finally, the engineering practicality of the modeling and control method based on finite element analysis simulation is verified.

  4. Modeling and Control of the Redundant Parallel Adjustment Mechanism on a Deployable Antenna Panel.

    Science.gov (United States)

    Tian, Lili; Bao, Hong; Wang, Meng; Duan, Xuechao

    2016-10-01

    With the aim of developing multiple input and multiple output (MIMO) coupling systems with a redundant parallel adjustment mechanism on the deployable antenna panel, a structural control integrated design methodology is proposed in this paper. Firstly, the modal information from the finite element model of the structure of the antenna panel is extracted, and then the mathematical model is established with the Hamilton principle; Secondly, the discrete Linear Quadratic Regulator (LQR) controller is added to the model in order to control the actuators and adjust the shape of the panel. Finally, the engineering practicality of the modeling and control method based on finite element analysis simulation is verified.

  5. Genetic algorithm combined with immune mechanism and its application in skill fuzzy control

    Institute of Scientific and Technical Information of China (English)

    2005-01-01

    Automation of skill fuzzy control system is an important research aspect of fuzzy control fields. It's significant for those control instances consisted in production and people's daily life. But, how to control a system not movement or behavior rules but only relied on movement parameters, that problem still had not be resolved. This paper proposes a new method used a genetic algorithm based on immune mechanism to learn the degree of membership, at same time, simplifying the corresponding movement equation; its efficiency will be indicated by an example.

  6. An extension to backstepping control for a class of underactuated mechanical system in tree structure

    Science.gov (United States)

    Choukchou-Braham, A.; Cherki, B.

    2009-03-01

    We propose in the present paper an extension via the Tora system of the well established systematic backstepping control design for underactuated mechanical systems in chain structure to a subclass in tree structure in order to generalize the systematic dealing with all underactuated systems. Designing control for such systems is a challenging task owing to the underactuation property which poses problem for example in exact linearization and most of time, these systems are dealed case by case. The transformed system verifies all assumption of application of the above backstepping control except one which is verified only on a domain rather than the hole space. This leads to a singularity in the control law that make the stability not global. To make this latter global, we propose a new control law that allows relaxation of one assumption with respect to the initial control. This control design for the Tora system is analysed theoritically and verified using numerical simulations.

  7. Q-Learning-Based Inter-Networking Mobile Number Portability Congestion Control Mechanism

    Institute of Scientific and Technical Information of China (English)

    Wang Anping; Li Yuan; Lin Lin

    2011-01-01

    Inter-networking Mobile Number Portability (MNP) is an important way to promote the development of new telecom services.For the congestion that always occurs on the MNP query nodes,this paper proposes a Q-learning-based inter-networking mobile number portability congestion control mechanism,taking the node queue delay and query service stability as the control targets,based on the optimal decision which is made over mobile user number portability query through self-adaptive connection admission control.The simulation and analysis show that,compared with tail-drop,random early detection and other mechanisms,this mechanism realizes a smoother and more regular queue size when the load is relatively light; and maintains a relatively low and stable queue size with relatively small loss when the load is relatively heavy,thus improving QoS and increasing network throughput at lower cost.

  8. Biomolecular interactions probed by fluorescence resonance energy transfer

    Science.gov (United States)

    Lange, Daniela Charlotte

    2000-09-01

    This thesis describes how a physical phenomenon, Fluorescence Resonance Energy Transfer (FRET), can be exploited for the study of interactions between biomolecules. The physical basis of this phenomenon is discussed and it is described how some of its characteristics can be exploited in measurement. A recently introduced method, photobleaching FRET microscopy, was implemented and its image analysis refined to suit our biological context. Further, a new technique is proposed, which combines FRET with confocal laser scanning microscopy to optimize resolution and to allow for 3D-studies in living cells. The first part of this thesis presents the application of FRET to the study of oligomerization of G-protein coupled receptors (GPCRs), which was performed at the Fraser Laboratories at McGill University in Montreal. It is demonstrated how FRET microscopy allowed us to circumvent problems of traditional biochemical approaches and provided the first direct evidence for GPCR oligomerization in intact cells. We found that somatostatin receptors (SSTRs) functionally interact by forming oligomers with their own kind, with different SSTR isoforms, and even with distantly related GPCRs, such as dopamine receptors, the latter of which is breaking with the dogma that GPCRs would only pair up with their own kind. The high sensitivity of the FRET technique allowed us to characterize these interactions under more physiological conditions, which lead to the observation that oligomerization is induced by receptor agonist. We further studied the differential effects of agonists and antagonists on receptor oligomerization, leading to a model for the molecular mechanism underlying agonist/antagonist function and receptor activation. The second part was carried out at the Neurobiology Laboratory of the VA Medical Center in Newington, CT. The objective was to further our understanding of Niemann- Pick type C disease, which is characterized by a defect in intracellular cholesterol

  9. Fundamental behavior of a model biomolecular amphiphile system

    Science.gov (United States)

    Haverstick, Kraig Leonard

    An interest in the fundamental interactions between protein components, in the form of either single amino acids or peptides, unifies the work represented in this thesis. These fundamental interactions drive protein folding, enzyme-substrate binding, and cell adhesion to extracellular ligands. The technology of lipidation was used to isolate these protein interactions. Lipidation of a water-soluble amino acid or peptide sequence confined the protein component to the air-water interface or to a self-assembled structure in water. Compression of the molecules at the air-water interface ordered them into a solid-like monolayer, and Langmuir-Blodgett deposition produced a surface modification with protein component presented in a controlled, orderly manner. These molecules have potential applications as biomaterials coatings or drug delivery devices. A method for determination of specific hydrogen bonding interactions through cocrystallization of two complementary peptide sequences is also described. In order to understand the effect of lipidation and lipid structure on peptide behavior, a comprehensive study of tail designs was first undertaken. Tail length, linkage group, linker, spacer length, and headgroup chirality, orientation, and terminal group were systematically varied in simple amino acid amphiphiles. Monolayer assembly, thermal stability, and structure were studied with Langmuir isotherms and Fourier transform infrared spectroscopy. Each part of the tail structure was found to affect monolayer behavior. With lipid effects better understood, peptide amphiphiles were designed, synthesized, and studied using peptide sequences of importance for cell adhesion. The sequences [IV-H1] from type IV collagen and Arg-Gly-Asp (RGD) were lipidated and characterized in monolayers by Langmuir isotherms and Fourier transform infrared spectroscopy. Biological functionality was determined by melanoma cell spreading assays. Peptide presentation was found to be critical for

  10. Benefits of Precision Farming Technologies for Mechanical Weed Control in Soybean and Sugar Beet—Comparison of Precision Hoeing with Conventional Mechanical Weed Control

    Directory of Open Access Journals (Sweden)

    Christoph Kunz

    2015-04-01

    Full Text Available Weed infestations and associated yield losses require effective weed control measures in soybean and sugar beet. Besides chemical weed control, mechanical weeding plays an important role in integrated weed management systems. Field experiments were conducted at three locations for soybean in 2013 and 2014 and at four locations for sugar beet in 2014 to investigate if automatic steering technologies for inter-row weed hoeing using a camera or RTK-GNSS increase weed control efficacy, efficiency and crop yield. Treatments using precision farming technologies were compared with conventional weed control strategies. Weed densities in the experiments ranged from 15 to 154 plants m−2 with Chenopodium album, Polygonum convolvulus, Polygonum aviculare, Matricaria chamomilla and Lamium purpureum being the most abundant species. Weed hoeing using automatic steering technologies reduced weed densities in soybean by 89% and in sugar beet by 87% compared to 85% weed control efficacy in soybean and sugar beet with conventional weeding systems. Speed of weed hoeing could be increased from 4 km h−1 with conventional hoes to 7 and 10 km·h−1, when automatic steering systems were used. Precision hoeing technologies increased soybean yield by 23% and sugar beet yield by 37%. After conventional hoeing and harrowing, soybean yields were increased by 28% and sugar beet yield by 26%.

  11. Hot workability, microstructural control and rate-controlling mechanisms in cast-homogenized AZ31 magnesium alloy

    Energy Technology Data Exchange (ETDEWEB)

    Prasad, Yellapregada Venkata Rama Krishna; Rao, Kamineni Pitcheswara [Department of Manufacturing Engineering and Engineering Management, City University of Hong Kong, Kowloon Hong Kong (China)

    2009-03-15

    Optimum conditions for microstructural control in industrial hot working of cast and homogenized AZ31 magnesium alloys are evaluated by using a processing map. The recommended window for bulk metal working of this alloy is the domain in the temperature range 300-450 C and strain rate range 1-10 s{sup -1}, and the optimum processing parameters are 400 C and 10 s{sup -1}, where grain-boundary self diffusion is the rate-controlling mechanism. (Abstract Copyright [2009], Wiley Periodicals, Inc.)

  12. Brain mechanisms for predictive control by switching internal models: implications for higher-order cognitive functions.

    Science.gov (United States)

    Imamizu, Hiroshi; Kawato, Mitsuo

    2009-07-01

    Humans can guide their actions toward the realization of their intentions. Flexible, rapid and precise realization of intentions and goals relies on the brain learning to control its actions on external objects and to predict the consequences of this control. Neural mechanisms that mimic the input-output properties of our own body and other objects can be used to support prediction and control, and such mechanisms are called internal models. We first summarize functional neuroimaging, behavioral and computational studies of the brain mechanisms related to acquisition, modular organization, and the predictive switching of internal models mainly for tool use. These mechanisms support predictive control and flexible switching of intentional actions. We then review recent studies demonstrating that internal models are crucial for the execution of not only immediate actions but also higher-order cognitive functions, including optimization of behaviors toward long-term goals, social interactions based on prediction of others' actions and mental states, and language processing. These studies suggest that a concept of internal models can consistently explain the neural mechanisms and computational principles needed for fundamental sensorimotor functions as well as higher-order cognitive functions.

  13. Controlling Hydrogel Mechanics via Bio-Inspired Polymer-Nanoparticle Bond Dynamics.

    Science.gov (United States)

    Li, Qiaochu; Barrett, Devin G; Messersmith, Phillip B; Holten-Andersen, Niels

    2016-01-26

    Interactions between polymer molecules and inorganic nanoparticles can play a dominant role in nanocomposite material mechanics, yet control of such interfacial interaction dynamics remains a significant challenge particularly in water. This study presents insights on how to engineer hydrogel material mechanics via nanoparticle interface-controlled cross-link dynamics. Inspired by the adhesive chemistry in mussel threads, we have incorporated iron oxide nanoparticles (Fe3O4 NPs) into a catechol-modified polymer network to obtain hydrogels cross-linked via reversible metal-coordination bonds at Fe3O4 NP surfaces. Unique material mechanics result from the supra-molecular cross-link structure dynamics in the gels; in contrast to the previously reported fluid-like dynamics of transient catechol-Fe(3+) cross-links, the catechol-Fe3O4 NP structures provide solid-like yet reversible hydrogel mechanics. The structurally controlled hierarchical mechanics presented here suggest how to develop hydrogels with remote-controlled self-healing dynamics.

  14. Comparative Study of Two Flow Control Mechanisms in High Speed Networks

    Institute of Scientific and Technical Information of China (English)

    ZHANG Xiailin; DU Haimng; WU Jieyi; ZHANG Sabing

    2001-01-01

    Considerable protocol development efforts in recent ATM (Asynchronous Transfer Mode) Forum activities have been focused on the traffic management of available bit rate (ABR) service. It has been shown that ABR service enables persistent, greedy data sources to efficiently utilize ATM network resources with the help of a rate-based flow control mechanism. ATM Forum Traffic Management Specification Version 4.0 doctunent gives a complete description of the end system behavior of the flow control mechanism, but it leaves the details of the switch behavior to be vendor-implementation dependent. For the sake of compatibility and interoperation among flow control mechanisms implemented by vendors, two rate-based mechanisms EPRCA (Enhanced Proportional Rate Control Algorithm) and ERICA (Explicit Rate Indication for Congestion Avoidance) have been recommended in the specification. In this paper, the mechanisms are studied and their performance is analyzed and compared with a material network. Simulation shows that ERICA is significantly better than EPRCA in the performance of steady state and instantaneous state of source end system ACR (Allowed Cell Rate) and buffer queue of bottleneck switch.

  15. Cognitive Self-Scheduled Mechanism for Access Control in Noisy Vehicular Ad Hoc Networks

    Directory of Open Access Journals (Sweden)

    Mario Manzano

    2015-01-01

    Full Text Available Within the challenging environment of intelligent transportation systems (ITS, networked control systems such as platooning guidance of autonomous vehicles require innovative mechanisms to provide real-time communications. Although several proposals are currently under discussion, the design of a rapid, efficient, flexible, and reliable medium access control mechanism which meets the specific constraints of such real-time communications applications remains unsolved in this highly dynamic environment. However, cognitive radio (CR combines the capacity to sense the radio spectrum with the flexibility to adapt to transmission parameters in order to maximize system performance and has thus become an effective approach for the design of dynamic spectrum access (DSA mechanisms. This paper presents the enhanced noncooperative cognitive division multiple access (ENCCMA proposal combining time division multiple access (TDMA and frequency division multiple access (FDMA schemes with CR techniques to obtain a mechanism fulfilling the requirements of real-time communications. The analysis presented here considers the IEEE WAVE and 802.11p as reference standards; however, the proposed medium access control (MAC mechanism can be adapted to operate on the physical layer of different standards. The mechanism also offers the advantage of avoiding signaling, thus enhancing system autonomy as well as behavior in adverse scenarios.

  16. Control of Candida albicans morphology and pathogenicity by post-transcriptional mechanisms.

    Science.gov (United States)

    Kadosh, David

    2016-11-01

    Candida albicans is a major human fungal pathogen responsible for both systemic and mucosal infections in a wide variety of immunocompromised individuals. Because the ability of C. albicans to undergo a reversible morphological transition from yeast to filaments is important for virulence, significant research efforts have focused on mechanisms that control this transition. While transcriptional and post-translational mechanisms have been well-studied, considerably less is known about the role of post-transcriptional mechanisms. However, in recent years several discoveries have begun to shed light on this important, but understudied, area. Here, I will review a variety of post-transcriptional mechanisms that have recently been shown to control C. albicans morphology, virulence and/or virulence-related processes, including those involving alternative transcript localization, mRNA stability and translation. I will also discuss the role that these mechanisms play in other pathogens as well as the potential they may hold to serve as targets for new antifungal strategies. Ultimately, gaining a better understanding of C. albicans post-transcriptional mechanisms will significantly improve our knowledge of how morphogenesis and virulence are controlled in fungal pathogens and open new avenues for the development of novel and more effective antifungals.

  17. Postural mechanisms to control body displacements in the performance of lateral gaze shifts.

    Science.gov (United States)

    Bonnet, Cédrick T; Morio, Cédric; Szaffarczyk, Sébastien; Rougier, Patrice R

    2014-01-01

    Medialateral postural control mechanisms (bodyweight distribution and center of pressure location) have been studied in static conditions. Our objective was to determine how these mechanisms are adjusted to perform voluntary movements, in our case 80° lateral gaze shifts at 0.125 Hz and 0.25 Hz. In healthy, young adults, we expected body marker (neck, lower back) and center of pressure displacements to be significantly greater in gaze shift conditions than in the stationary gaze condition. To explain these changes in center of pressure displacement, the amplitude contribution of both mechanisms was expected to increase significantly. All these results were found accordingly. Unexpectedly, the active contribution of the bodyweight distribution mechanism was negatively related to body marker displacements in the gaze shift conditions (ns in stationary condition). Moreover, changes in the contribution of the mechanisms were statistically weaker in effect size than changes in body displacement. However, the participants were not unstable because they performed the visual tasks as requested. We propose that the strength of medialateral postural control mechanisms may not only be strengthened to control challenging ML stance conditions but also slightly weakened to allow the performance of adequate body motions in ongoing tasks.

  18. CoCoA+: an advanced congestion control mechanism for CoAP

    OpenAIRE

    Betzler, August; Gómez Montenegro, Carlos; Seyfettin Demirkol, Ilker; Paradells Aspas, Josep

    2015-01-01

    The Constrained Application Protocol (CoAP) has been designed by the Internet Engineering Task Force (IETF) for Internet of Things (IoT) devices. Due to the limited radio channel capacities and hardware resources of such devices, congestion can be a serious problem. CoAP addresses this important issue with a basic congestion control mechanism. CoCoA, an Internet-Draft proposal, introduced alternative congestion control mechanisms for CoAP. Yet, there has been limited evaluation of these conge...

  19. Mechanisms of improved glycaemic control after Roux-en-Y gastric bypass

    DEFF Research Database (Denmark)

    Dirksen, C; Jørgensen, N B; Bojsen-Møller, K N;

    2012-01-01

    Roux-en-Y gastric bypass (RYGB) greatly improves glycaemic control in morbidly obese patients with type 2 diabetes, in many even before significant weight loss. Understanding the responsible mechanisms may contribute to our knowledge of the pathophysiology of type 2 diabetes and help identify new...... drug targets or improve surgical techniques. This review summarises the present knowledge based on pathophysiological studies published during the last decade. Taken together, two main mechanisms seem to be responsible for the early improvement in glycaemic control after RYGB: (1) an increase...

  20. Introducing a novel mechanism to control heart rate in the ancestral Pacific hagfish.

    Science.gov (United States)

    Wilson, Christopher M; Roa, Jinae N; Cox, Georgina K; Tresguerres, Martin; Farrell, Anthony P

    2016-10-15

    Although neural modulation of heart rate is well established among chordate animals, the Pacific hagfish (Eptatretus stoutii) lacks any cardiac innervation, yet it can increase its heart rate from the steady, depressed heart rate seen in prolonged anoxia to almost double its normal normoxic heart rate, an almost fourfold overall change during the 1-h recovery from anoxia. The present study sought mechanistic explanations for these regulatory changes in heart rate. We provide evidence for a bicarbonate-activated, soluble adenylyl cyclase (sAC)-dependent mechanism to control heart rate, a mechanism never previously implicated in chordate cardiac control.

  1. Chaos, control and synchronization of a fractional order rotational mechanical system with a centrifugal governor

    Energy Technology Data Exchange (ETDEWEB)

    Ge Zhengming [Department of Mechanical Engineering, National Chiao Tung University, 1001 Ta Hsueh Road, Hsinchu 300, Taiwan (China)]. E-mail: zmg@cc.nctu.edu.tw; Jhuang Weiren [Department of Mechanical Engineering, National Chiao Tung University, 1001 Ta Hsueh Road, Hsinchu 300, Taiwan (China)

    2007-07-15

    Chaos, its control and synchronization for a fractional order rotational mechanical system with a centrifugal governor are studied for both the autonomous and the nonautonomous cases. It is found that chaos exists in the fractional order systems with order less than and more than the number of states of the system. Controlling the chaotic motion of a fractional order system to its equilibrium point is obtained for both the autonomous and the nonautonomous cases. The rotational mechanical systems with the same fractional order and with the different fractional orders are synchronized by linear coupling for both the autonomous and the nonautonomous cases.

  2. Virus spreading in wireless sensor networks with a medium access control mechanism

    Institute of Scientific and Technical Information of China (English)

    Wang Ya-Qi; Yang Xiao-Yuan

    2013-01-01

    In this paper,an extended version of standard susceptible-infected (SI) model is proposed to consider the influence of a medium access control mechanism on virus spreading in wireless sensor networks.Theoretical analysis shows that the medium access control mechanism obviously reduces the density of infected nodes in the networks,which has been ignored in previous studies.It is also found that by increasing the network node density or node communication radius greatly increases the number of infected nodes.The theoretical results are confirmed by numerical simulations.

  3. A statistical model of uplink inter-cell interference with slow and fast power control mechanisms

    KAUST Repository

    Tabassum, Hina

    2013-09-01

    Uplink power control is in essence an interference mitigation technique that aims at minimizing the inter-cell interference (ICI) in cellular networks by reducing the transmit power levels of the mobile users while maintaining their target received signal quality levels at base stations. Power control mechanisms directly impact the interference dynamics and, thus, affect the overall achievable capacity and consumed power in cellular networks. Due to the stochastic nature of wireless channels and mobile users\\' locations, it is important to derive theoretical models for ICI that can capture the impact of design alternatives related to power control mechanisms. To this end, we derive and verify a novel statistical model for uplink ICI in Generalized-K composite fading environments as a function of various slow and fast power control mechanisms. The derived expressions are then utilized to quantify numerically key network performance metrics that include average resource fairness, average reduction in power consumption, and ergodic capacity. The accuracy of the derived expressions is validated via Monte-Carlo simulations. Results are generated for multiple network scenarios, and insights are extracted to assess various power control mechanisms as a function of system parameters. © 1972-2012 IEEE.

  4. Co-Simulation Research of the Mechanical-Hydraulic-Control Coupling System of ITER Tractor

    Institute of Scientific and Technical Information of China (English)

    YANG Xiuqing; LUO Minzhou; MEI Tao; YAO Damao

    2009-01-01

    The virtual prototyping models of the mechanical, hydraulic and control system of the ITER tractor were built with CATIA, ADAMS and MATLAB/Simulink respectively according to its heavy load and high precision characteristics, and the data transfer between the different models was accomplished by the integration interface between different software. Consequently the virtual experimental platform for the multi-disciplinary co-simulation was established. A co-simulation study of the mechanical-hydraulic-control coupling system of the ITER tractor was carried out. The synchronization servo control of parallel hydraulic cylinders was implemented, and the tracking control of the preconcerted trajectory of the hydraulic cylinders was realized on the established experimental platform. This paper presents the optimization design and technology rebuilding for the complicated coupling system with its theoretic foundation and co-simulation virtual experimental platform.

  5. Co-Simulation Research of the Mechanical-Hydraulic-Control Coupling System of ITER Tractor

    Science.gov (United States)

    Yang, Xiuqing; Luo, Minzhou; Mei, Tao; Yao, Damao

    2009-06-01

    The virtual prototyping models of the mechanical, hydraulic and control system of the ITER tractor were built with CATIA, ADAMS and MATLAB/Simulink respectively according to its heavy load and high precision characteristics, and the data transfer between the different models was accomplished by the integration interface between different software. Consequently the virtual experimental platform for the multi-disciplinary co-simulation was established. A co-simulation study of the mechanical-hydraulic-control coupling system of the ITER tractor was carried out. The synchronization servo control of parallel hydraulic cylinders was implemented, and the tracking control of the preconcerted trajectory of the hydraulic cylinders was realized on the established experimental platform. This paper presents the optimization design and technology rebuilding for the complicated coupling system with its theoretic foundation and co-simulation virtual experimental platform.

  6. Contralesional motor deficits after unilateral stroke reflect hemisphere-specific control mechanisms

    OpenAIRE

    Mani, Saandeep; Mutha, Pratik K.; Przybyla, Andrzej; Haaland, Kathleen Y.; Good, David C.; Sainburg, Robert L.

    2013-01-01

    We have proposed a model of motor lateralization, in which the left and right hemispheres are specialized for different aspects of motor control: the left hemisphere for predicting and accounting for limb dynamics and the right hemisphere for stabilizing limb position through impedance control mechanisms. Our previous studies, demonstrating different motor deficits in the ipsilesional arm of stroke patients with left or right hemisphere damage, provided a critical test of our model. However, ...

  7. Adaptive kanban control mechanism for a single-stage hybrid system

    Science.gov (United States)

    Korugan, Aybek; Gupta, Surendra M.

    2002-02-01

    In this paper, we consider a hybrid manufacturing system with two discrete production lines. Here the output of either production line can satisfy the demand for the same type of product without any penalties. The interarrival times for demand occurrences and service completions are exponentially distributed i.i.d. variables. In order to control this type of manufacturing system we suggest a single stage pull type control mechanism with adaptive kanbans and state independent routing of the production information.

  8. Biological control mechanisms of D-pinitol against powdery mildew in cucumber

    OpenAIRE

    Chen, J; Fernandez, Diana; Wang, D. D.; Chen, Y. J.; Dai, G. H.

    2014-01-01

    D-pinitol is an effective agent for controlling powdery mildew (Podosphaera xanthii) in cucumber. In this study, we determined the mechanisms of D-pinitol in controlling powdery mildew in cucumber plants. We compared P. xanthii development on cucumber leaf surface treated with D-pinitol or water (2 mg ml(-1)) at different time points after inoculation. The germinating conidia, hyphae, and conidiophores of the pathogen were severely damaged by D-pinitol at any time of application tested. The h...

  9. Integrated Flight Mechanic and Aeroelastic Modelling and Control of a Flexible Aircraft Considering Multidimensional Gust Input

    Science.gov (United States)

    2000-05-01

    INTEGRATED FLIGHT MECHANIC AND AEROELASTIC MODELLING AND CONTROL OF A FLEXIBLE AIRCRAFT CONSIDERING MULTIDIMENSIONAL GUST INPUT Patrick Teufel, Martin Hanel...the lateral separation distance have been developed by ’ = matrix of two dimensional spectrum function Eichenbaum 4 and are described by Bessel...Journal of Aircraft, Vol. 30, No. 5, Sept.-Oct. 1993 Relations to Risk Sensitivity, System & Control Letters 11, [4] Eichenbaum F.D., Evaluation of 3D

  10. Coupling Mechanism and Decoupled Suspension Control Model of a Half Car

    Directory of Open Access Journals (Sweden)

    Hailong Zhang

    2016-01-01

    Full Text Available A structure decoupling control strategy of half-car suspension is proposed to fully decouple the system into independent front and rear quarter-car suspensions in this paper. The coupling mechanism of half-car suspension is firstly revealed and formulated with coupled damping force (CDF in a linear function. Moreover, a novel dual dampers-based controllable quarter-car suspension structure is proposed to realize the independent control of pitch and vertical motions of the half car, in which a newly added controllable damper is suggested to be installed between the lower control arm and connection rod in conventional quarter-car suspension structure. The suggested damper constantly regulates the half-car pitch motion posture in a smooth and steady operation condition meantime achieving the expected completely structure decoupled control of the half-car suspension, by compensating the evolved CDF.

  11. Nonlinear Lyapunov-based boundary control of distributed heat transfer mechanisms in membrane distillation plant

    KAUST Repository

    Eleiwi, Fadi

    2015-07-01

    This paper presents a nonlinear Lyapunov-based boundary control for the temperature difference of a membrane distillation boundary layers. The heat transfer mechanisms inside the process are modeled with a 2D advection-diffusion equation. The model is semi-descretized in space, and a nonlinear state-space representation is provided. The control is designed to force the temperature difference along the membrane sides to track a desired reference asymptotically, and hence a desired flux would be generated. Certain constraints are put on the control law inputs to be within an economic range of energy supplies. The effect of the controller gain is discussed. Simulations with real process parameters for the model, and the controller are provided. © 2015 American Automatic Control Council.

  12. Adaptively Adjusted Event-Triggering Mechanism on Fault Detection for Networked Control Systems.

    Science.gov (United States)

    Wang, Yu-Long; Lim, Cheng-Chew; Shi, Peng

    2016-12-08

    This paper studies the problem of adaptively adjusted event-triggering mechanism-based fault detection for a class of discrete-time networked control system (NCS) with applications to aircraft dynamics. By taking into account the fault occurrence detection progress and the fault occurrence probability, and introducing an adaptively adjusted event-triggering parameter, a novel event-triggering mechanism is proposed to achieve the efficient utilization of the communication network bandwidth. Both the sensor-to-control station and the control station-to-actuator network-induced delays are taken into account. The event-triggered sensor and the event-triggered control station are utilized simultaneously to establish new network-based closed-loop models for the NCS subject to faults. Based on the established models, the event-triggered simultaneous design of fault detection filter (FDF) and controller is presented. A new algorithm for handling the adaptively adjusted event-triggering parameter is proposed. Performance analysis verifies the effectiveness of the adaptively adjusted event-triggering mechanism, and the simultaneous design of FDF and controller.

  13. Photochemical functionalization of gallium nitride thin films with molecular and biomolecular layers.

    Science.gov (United States)

    Kim, Heesuk; Colavita, Paula E; Metz, Kevin M; Nichols, Beth M; Sun, Bin; Uhlrich, John; Wang, Xiaoyu; Kuech, Thomas F; Hamers, Robert J

    2006-09-12

    We demonstrate that photochemical functionalization can be used to functionalize and photopattern the surface of gallium nitride crystalline thin films with well-defined molecular and biomolecular layers. GaN(0001) surfaces exposed to a hydrogen plasma will react with organic molecules bearing an alkene (C=C) group when illuminated with 254 nm light. Using a bifunctional molecule with an alkene group at one end and a protected amine group at the other, this process can be used to link the alkene group to the surface, leaving the protected amine exposed. Using a simple contact mask, we demonstrate the ability to directly pattern the spatial distribution of these protected amine groups on the surface with a lateral resolution of <12 mum. After deprotection of the amines, single-stranded DNA oligonucleotides were linked to the surface using a bifunctional cross-linker. Measurements using fluorescently labeled complementary and noncomplementary sequences show that the DNA-modified GaN surfaces exhibit excellent selectivity, while repeated cycles of hybridization and denaturation in urea show good stability. These results demonstrate that photochemical functionalization can be used as an attractive starting point for interfacing molecular and biomolecular systems with GaN and other compound semiconductors.

  14. A new approach to implement absorbing boundary condition in biomolecular electrostatics.

    Science.gov (United States)

    Goni, Md Osman

    2013-01-01

    This paper discusses a novel approach to employ the absorbing boundary condition in conjunction with the finite-element method (FEM) in biomolecular electrostatics. The introduction of Bayliss-Turkel absorbing boundary operators in electromagnetic scattering problem has been incorporated by few researchers. However, in the area of biomolecular electrostatics, this boundary condition has not been investigated yet. The objective of this paper is twofold. First, to solve nonlinear Poisson-Boltzmann equation using Newton's method and second, to find an efficient and acceptable solution with minimum number of unknowns. In this work, a Galerkin finite-element formulation is used along with a Bayliss-Turkel absorbing boundary operator that explicitly accounts for the open field problem by mapping the Sommerfeld radiation condition from the far field to near field. While the Bayliss-Turkel condition works well when the artificial boundary is far from the scatterer, an acceptable tolerance of error can be achieved with the second order operator. Numerical results on test case with simple sphere show that the treatment is able to reach the same level of accuracy achieved by the analytical method while using a lower grid density. Bayliss-Turkel absorbing boundary condition (BTABC) combined with the FEM converges to the exact solution of scattering problems to within discretization error.

  15. Biomolecular detection at ssDNA-conjugated nanoparticles by nano-impact electrochemistry.

    Science.gov (United States)

    Karimi, Anahita; Hayat, Akhtar; Andreescu, Silvana

    2017-01-15

    We describe the use of ssDNA functionalized silver nanoparticle (AgNP) probes for quantitative investigation of biorecognition and real time detection of biomolecular targets using nano-impact electrochemistry. The method is based on measurements of the individual collision events between ssDNA aptamer-functionalized AgNPs and a carbon fiber miroelectrode (CFME). Specific binding events of target analyte induced collision frequency changes enabling ultrasensitive detection of the aptamer target in a single step. These changes are assigned to the surface coverage of the NP by the ssDNA aptamers and subsequent conformational changes of the aptamer probe which affect the electron transfer between the NP and the electrode surface. The method enables sensitive and selective detection of ochratoxin A (OTA), chosen here as a model target, with a limit of detection of 0.05nM and a relative standard deviation of 4.9%. The study provides a means of characterizing bioconjugation of AgNPs with aptamers and assessing biomolecular recognition events with high sensitivity and without the use of exogenous reagents or enzyme amplification steps. This methodology can be broadly applicable to other bioconjugated systems, biosensing and related bioanalytical applications.

  16. DockScreen: A Database of In Silico Biomolecular Interactions to Support Computational Toxicology

    Directory of Open Access Journals (Sweden)

    Michael-Rock Goldsmith

    2014-01-01

    Full Text Available We have developed DockScreen, a database of in silico biomolecular interactions designed to enable rational molecular toxicological insight within a computational toxicology framework. This database is composed of chemical/target (receptor and enzyme binding scores calculated by molecular docking of more than 1000 chemicals into 150 protein targets and contains nearly 135 thousand unique ligand/target binding scores. Obtaining this dataset was achieved using eHiTS (Simbiosys Inc., a fragment-based molecular docking approach with an exhaustive search algorithm, on a heterogeneous distributed high-performance computing framework. The chemical landscape covered in DockScreen comprises selected environmental and therapeutic chemicals. The target landscape covered in DockScreen was selected based on the availability of high-quality crystal structures that covered the assay space of phase I ToxCast in vitro assays. This in silico data provides continuous information that establishes a means for quantitatively comparing, on a structural biophysical basis, a chemical’s profile of biomolecular interactions. The combined minimum-score chemical/target matrix is provided.

  17. Characterization of a nanoscale S-layer protein based template for biomolecular patterning.

    Science.gov (United States)

    Wong, Wing Sze; Yung, Pun To

    2014-01-01

    Well organized template for biomolecular conjugation is the foundation for biosensing. Most of the current devices are fabricated using lithographic patterning processes and self-assembly monolayer (SAM) methods. However, the research toward developing a sub-10 nm patterned, self-regenerated template on various types of substrates is limited, mainly due to the limited functional groups of the building material. Bacterial surface layer proteins (S-layer proteins) can self-assemble into ordered lattice with regular pore sizes of 2-8 nm on different material supports and interfaces. The ordered structure can regenerate after extreme variations of solvent conditions. In this work, we developed a nanoscale biomolecular template based on S-layer proteins on gold surface for fabrication of sensing layer in biosensors. S-layer proteins were isolated from Bacillus cereus, Lysinibacillus sphaericus and Geobacillus stearothermophilus. Protein concentrations were measured by Bradford assay. The protein purities were verified by SDS-PAGE, showing molecular weights ranging from 97-135 kDa. The hydrophilicity of the substrate surface was measured after surface treatments of protein recrystallization. Atomic force microscopic (AFM) measurement was performed on substrate surface, indicating a successful immobilization of a monolayer of S-layer protein with 8-9 nm height on gold surface. The template can be applied on various material supports and acts as a self-regenerated sensing layer of biosensors in the future.

  18. Optimizing water hyperpolarization and dissolution for sensitivity-enhanced 2D biomolecular NMR

    Science.gov (United States)

    Olsen, Greg; Markhasin, Evgeny; Szekely, Or; Bretschneider, Christian; Frydman, Lucio

    2016-03-01

    A recent study explored the use of hyperpolarized water, to enhance the sensitivity of nuclei in biomolecules thanks to rapid proton exchanges with labile amide backbone and sidechain groups. Further optimizations of this approach have now allowed us to achieve proton polarizations approaching 25% in the water transferred into the NMR spectrometer, effective water T1 times approaching 40 s, and a reduction in the dilution demanded for the cryogenic dissolution process. Further hardware developments have allowed us to perform these experiments, repeatedly and reliably, in 5 mm NMR tubes. All these ingredients - particularly the ⩾3000× 1H polarization enhancements over 11.7 T thermal counterparts, long T1 times and a compatibility with high-resolution biomolecular NMR setups - augur well for hyperpolarized 2D NMR studies of peptides, unfolded proteins and intrinsically disordered systems undergoing fast exchanges of their protons with the solvent. This hypothesis is here explored by detailing the provisions that lead to these significant improvements over previous reports, and demonstrating 1D coherence transfer experiments and 2D biomolecular HMQC acquisitions delivering NMR spectral enhancements of 100-500× over their optimized, thermally-polarized, counterparts.

  19. Time-resolved methods in biophysics. 9. Laser temperature-jump methods for investigating biomolecular dynamics.

    Science.gov (United States)

    Kubelka, Jan

    2009-04-01

    Many important biochemical processes occur on the time-scales of nanoseconds and microseconds. The introduction of the laser temperature-jump (T-jump) to biophysics more than a decade ago opened these previously inaccessible time regimes up to direct experimental observation. Since then, laser T-jump methodology has evolved into one of the most versatile and generally applicable methods for studying fast biomolecular kinetics. This perspective is a review of the principles and applications of the laser T-jump technique in biophysics. A brief overview of the T-jump relaxation kinetics and the historical development of laser T-jump methodology is presented. The physical principles and practical experimental considerations that are important for the design of the laser T-jump experiments are summarized. These include the Raman conversion for generating heating pulses, considerations of size, duration and uniformity of the temperature jump, as well as potential adverse effects due to photo-acoustic waves, cavitation and thermal lensing, and their elimination. The laser T-jump apparatus developed at the NIH Laboratory of Chemical Physics is described in detail along with a brief survey of other laser T-jump designs in use today. Finally, applications of the laser T-jump in biophysics are reviewed, with an emphasis on the broad range of problems where the laser T-jump methodology has provided important new results and insights into the dynamics of the biomolecular processes.

  20. Biomolecular Systems of Disease Buried Across Multiple GWAS Unveiled by Information Theory and Ontology

    Science.gov (United States)

    Lee, Younghee; Li, Jianrong; Gamazon, Eric; Chen, James L.; Tikhomirov, Anna; Cox, Nancy J.; Lussier, Yves A.

    2010-01-01

    A key challenge for genome-wide association studies (GWAS) is to understand how single nucleotide polymorphisms (SNPs) mechanistically underpin complex diseases. While this challenge has been addressed partially by Gene Ontology (GO) enrichment of large list of host genes of SNPs prioritized in GWAS, these enrichment have not been formally evaluated. Here, we develop a novel computational approach anchored in information theoretic similarity, by systematically mining lists of host genes of SNPs prioritized in three adult-onset diabetes mellitus GWAS. The “gold-standard” is based on GO associated with 20 published diabetes SNPs’ host genes and on our own evaluation. We computationally identify 69 similarity-predicted GO independently validated in all three GWAS (FDR<5%), enriched with those of the gold-standard (odds ratio=5.89, P=4.81e-05), and these terms can be organized by similarity criteria into 11 groupings termed “biomolecular systems”. Six biomolecular systems were corroborated by the gold-standard and the remaining five were previously uncharacterized. http://lussierlab.org/publications/ITS-GWAS PMID:21347143

  1. The HADDOCK2.2 Web Server: User-Friendly Integrative Modeling of Biomolecular Complexes.

    Science.gov (United States)

    van Zundert, G C P; Rodrigues, J P G L M; Trellet, M; Schmitz, C; Kastritis, P L; Karaca, E; Melquiond, A S J; van Dijk, M; de Vries, S J; Bonvin, A M J J

    2016-02-22

    The prediction of the quaternary structure of biomolecular macromolecules is of paramount importance for fundamental understanding of cellular processes and drug design. In the era of integrative structural biology, one way of increasing the accuracy of modeling methods used to predict the structure of biomolecular complexes is to include as much experimental or predictive information as possible in the process. This has been at the core of our information-driven docking approach HADDOCK. We present here the updated version 2.2 of the HADDOCK portal, which offers new features such as support for mixed molecule types, additional experimental restraints and improved protocols, all of this in a user-friendly interface. With well over 6000 registered users and 108,000 jobs served, an increasing fraction of which on grid resources, we hope that this timely upgrade will help the community to solve important biological questions and further advance the field. The HADDOCK2.2 Web server is freely accessible to non-profit users at http://haddock.science.uu.nl/services/HADDOCK2.2.

  2. The interplay of intrinsic and extrinsic bounded noises in biomolecular networks.

    Directory of Open Access Journals (Sweden)

    Giulio Caravagna

    Full Text Available After being considered as a nuisance to be filtered out, it became recently clear that biochemical noise plays a complex role, often fully functional, for a biomolecular network. The influence of intrinsic and extrinsic noises on biomolecular networks has intensively been investigated in last ten years, though contributions on the co-presence of both are sparse. Extrinsic noise is usually modeled as an unbounded white or colored gaussian stochastic process, even though realistic stochastic perturbations are clearly bounded. In this paper we consider Gillespie-like stochastic models of nonlinear networks, i.e. the intrinsic noise, where the model jump rates are affected by colored bounded extrinsic noises synthesized by a suitable biochemical state-dependent Langevin system. These systems are described by a master equation, and a simulation algorithm to analyze them is derived. This new modeling paradigm should enlarge the class of systems amenable at modeling. We investigated the influence of both amplitude and autocorrelation time of a extrinsic Sine-Wiener noise on: (i the Michaelis-Menten approximation of noisy enzymatic reactions, which we show to be applicable also in co-presence of both intrinsic and extrinsic noise, (ii a model of enzymatic futile cycle and (iii a genetic toggle switch. In (ii and (iii we show that the presence of a bounded extrinsic noise induces qualitative modifications in the probability densities of the involved chemicals, where new modes emerge, thus suggesting the possible functional role of bounded noises.

  3. Application of Frontal Affinity Chromatography to Study the Biomolecular Interactions with Trypsin.

    Science.gov (United States)

    Hu, YuanYuan; Qian, Junqing; Guo, Hui; Jiang, ShengLan; Zhang, Zheng

    2015-07-01

    Trypsin is a serine protease that has been proposed as a potential therapeutic target for metabolic disorders and malignancy diseases, thus the identification of biomolecular interactions of compounds to trypsin could be of great therapeutic importance. In this study, trypsin was immobilized on a monolithic silica capillary column via sol-gel. The binding properties of four small molecules (daidzin, genistin, matrine and oxymatrine) to trypsin were examined using the trypsin affinity columns by frontal analysis. The results indicate that the matrine (dissociation constant, Kd = 7.904 μM) has stronger interaction with trypsin than the oxymatrine (Kd = 8.204 μM), whereas daidzin and genistin were nearly have no affinity with trypsin. The results demonstrated that the frontal affinity chromatography can be used for the direct determination of protein-protease inhibitor binding interactions and have several significant advantages, including easy fabricating, reproducible, minimal technological requirements and potential to become a reliable alternative for quantitative studies of biomolecular interactions.

  4. Submicrometer Hall sensors for detection of magnetic nanoparticles in biomolecular sensing

    Science.gov (United States)

    Mihajlovic, Goran; Xiong, P.; von Molnar, S.; Ohtani, K.; Ohno, H.; Field, M.; Sullivan, G. J.

    2006-03-01

    Significant progress has been made in the recent years in synthesis and biomolecular functionalization of magnetic nanoparticles. These magnetic bio-nanolabels can be utilized as protein or gene markers in biomolecular sensing assays, in contrast to the much larger micron sized magnetic beads that are usually limited to cell labeling. However, the low magnetic moments of individual nanoparticles (10^4-10^5 μB) render their sensitive detection still a challenging task. In order to address this issue we are developing miniaturized Hall sensors from InAs/AlSb quantum well semiconductor heterostructures with active Hall cross areas down to 300 nm x 300 nm. Our preliminary characterization measurements performed at room temperature show functional devices with magnetic field resolution < 100 μT/√Hz at frequencies above 100 Hz, yielding a moment sensitivity ˜ 10^5 μB. In addition to the progress in improving the moment sensitivity of the submicrometer Hall detectors, we will also present efforts in device integration with on-chip microcoils for the generation of local magnetic excitation fields. Results on nanoparticle detection will also be presented.

  5. The detection of specific biomolecular interactions with micro-Hall magnetic sensors

    Science.gov (United States)

    Manandhar, Pradeep; Chen, Kan-Sheng; Aledealat, Khaled; Mihajlović, Goran; Yun, C. Steven; Field, Mark; Sullivan, Gerard J.; Strouse, Geoffrey F.; Bryant Chase, P.; von Molnár, Stephan; Xiong, Peng

    2009-09-01

    The detection of reagent-free specific biomolecular interactions through sensing of nanoscopic magnetic labels provides one of the most promising routes to biosensing with solid-state devices. In particular, Hall sensors based on semiconductor heterostructures have shown exceptional magnetic moment sensitivity over a large dynamic field range suitable for magnetic biosensing using superparamagnetic labels. Here we demonstrate the capability of such micro-Hall sensors to detect specific molecular binding using biotin-streptavidin as a model system. We apply dip-pen nanolithography to selectively biotinylate the active areas of InAs micro-Hall devices with nanoscale precision. Specific binding of complementarily functionalized streptavidin-coated superparamagnetic beads to the Hall crosses occurs via molecular recognition, and magnetic detection of the assembled beads is achieved at room temperature using phase sensitive micro-Hall magnetometry. The experiment constitutes the first unambiguous demonstration of magnetic detection of specific biomolecular interactions with semiconductor micro-Hall sensors, and the selective molecular functionalization and resulting localized bead assembly demonstrate the possibility of multiplexed sensing of multiple target molecules using a single device with an array of micro-Hall sensors.

  6. Performance enhanced design of chaos controller for the mechanical centrifugal flywheel governor system via adaptive dynamic surface control

    Directory of Open Access Journals (Sweden)

    Shaohua Luo

    2016-09-01

    Full Text Available This paper addresses chaos suppression of the mechanical centrifugal flywheel governor system with output constraint and fully unknown parameters via adaptive dynamic surface control. To have a certain understanding of chaotic nature of the mechanical centrifugal flywheel governor system and subsequently design its controller, the useful tools like the phase diagrams and corresponding time histories are employed. By using tangent barrier Lyapunov function, a dynamic surface control scheme with neural network and tracking differentiator is developed to transform chaos oscillation into regular motion and the output constraint rule is not broken in whole process. Plugging second-order tracking differentiator into chaos controller tackles the “explosion of complexity” of backstepping and improves the accuracy in contrast with the first-order filter. Meanwhile, Chebyshev neural network with adaptive law whose input only depends on a subset of Chebyshev polynomials is derived to learn the behavior of unknown dynamics. The boundedness of all signals of the closed-loop system is verified in stability analysis. Finally, the results of numerical simulations illustrate effectiveness and exhibit the superior performance of the proposed scheme by comparing with the existing ADSC method.

  7. Performance enhanced design of chaos controller for the mechanical centrifugal flywheel governor system via adaptive dynamic surface control

    Science.gov (United States)

    Luo, Shaohua; Hou, Zhiwei; Zhang, Tao

    2016-09-01

    This paper addresses chaos suppression of the mechanical centrifugal flywheel governor system with output constraint and fully unknown parameters via adaptive dynamic surface control. To have a certain understanding of chaotic nature of the mechanical centrifugal flywheel governor system and subsequently design its controller, the useful tools like the phase diagrams and corresponding time histories are employed. By using tangent barrier Lyapunov function, a dynamic surface control scheme with neural network and tracking differentiator is developed to transform chaos oscillation into regular motion and the output constraint rule is not broken in whole process. Plugging second-order tracking differentiator into chaos controller tackles the "explosion of complexity" of backstepping and improves the accuracy in contrast with the first-order filter. Meanwhile, Chebyshev neural network with adaptive law whose input only depends on a subset of Chebyshev polynomials is derived to learn the behavior of unknown dynamics. The boundedness of all signals of the closed-loop system is verified in stability analysis. Finally, the results of numerical simulations illustrate effectiveness and exhibit the superior performance of the proposed scheme by comparing with the existing ADSC method.

  8. Examining the mechanisms of overgeneral autobiographical memory: capture and rumination, and impaired executive control.

    Science.gov (United States)

    Sumner, Jennifer A; Griffith, James W; Mineka, Susan

    2011-02-01

    Overgeneral autobiographical memory (OGM) is an important cognitive phenomenon in depression, but questions remain regarding the underlying mechanisms. The CaR-FA-X model (Williams et al., 2007) proposes three mechanisms that may contribute to OGM, but little work has examined the possible additive and/or interactive effects among them. We examined two mechanisms of CaR-FA-X: capture and rumination, and impaired executive control. We analysed data from undergraduates (N=109) scoring high or low on rumination who were presented with cues of high and low self-relevance on the Autobiographical Memory Test (AMT). Executive control was operationalised as performance on both the Stroop Colour-Word Task and the Controlled Oral Word Association Test (COWAT). Hierarchical generalised linear modelling was used to predict whether participants would generate a specific memory on a trial of the AMT. Higher COWAT scores, lower rumination, and greater cue self-relevance predicted a higher probability of a specific memory. There was also a rumination×cue self-relevance interaction: Higher (vs lower) rumination was associated with a lower probability of a specific memory primarily for low self-relevant cues. We found no evidence of interactions between these mechanisms. Findings are interpreted with respect to current autobiographical memory models. Future directions for OGM mechanism research are discussed.

  9. Limb dominance results from asymmetries in predictive and impedance control mechanisms.

    Directory of Open Access Journals (Sweden)

    Vivek Yadav

    Full Text Available Handedness is a pronounced feature of human motor behavior, yet the underlying neural mechanisms remain unclear. We hypothesize that motor lateralization results from asymmetries in predictive control of task dynamics and in control of limb impedance. To test this hypothesis, we present an experiment with two different force field environments, a field with a predictable magnitude that varies with the square of velocity, and a field with a less predictable magnitude that varies linearly with velocity. These fields were designed to be compatible with controllers that are specialized in predicting limb and task dynamics, and modulating position and velocity dependent impedance, respectively. Because the velocity square field does not change the form of the equations of motion for the reaching arm, we reasoned that a forward dynamic-type controller should perform well in this field, while control of linear damping and stiffness terms should be less effective. In contrast, the unpredictable linear field should be most compatible with impedance control, but incompatible with predictive dynamics control. We measured steady state final position accuracy and 3 trajectory features during exposure to these fields: Mean squared jerk, Straightness, and Movement time. Our results confirmed that each arm made straighter, smoother, and quicker movements in its compatible field. Both arms showed similar final position accuracies, which were achieved using more extensive corrective sub-movements when either arm performed in its incompatible field. Finally, each arm showed limited adaptation to its incompatible field. Analysis of the dependence of trajectory errors on field magnitude suggested that dominant arm adaptation occurred by prediction of the mean field, thus exploiting predictive mechanisms for adaptation to the unpredictable field. Overall, our results support the hypothesis that motor lateralization reflects asymmetries in specific motor control

  10. Control Engineering as a Part of Undergraduate Curriculum for Mechanical Engineering in India

    Science.gov (United States)

    Akhtar, Shagil; Iqbal, Syed Muneeb; Bajpai, Shrish

    2016-01-01

    In this present study we have traced the genesis of control engineering in the scope of mechanical engineering and then some analysis on its recent developments, their increasing need and how this particular subject has evolved machines functioning nowadays specifically its standard of education in India. We have probed this field right from its…

  11. Genetics of mechanisms controlling responses to two major pathogens in broiler and layer chickens

    DEFF Research Database (Denmark)

    Hamzic, Edin

    The objective of this thesis was to improve the understanding of molecular mechanisms controlling the response to two major pathogens, Eimeria maxima (coccidiosis) and infectious bronchitis virus (IBV), in broiler and layer chickens, respectively. Breeding for the improved response to the two...

  12. Universal mechanisms of sound production and control in birds and mammals

    DEFF Research Database (Denmark)

    Elemans, Coen; Rasmussen, Jeppe Have; Herbst, Christian T.

    2015-01-01

    As animals vocalize, their vocal organ transforms motor commands into vocalizations for social communication. In birds, the physical mechanisms by which vocalizations are produced and controlled remain unresolved because of the extreme difficulty in obtaining in vivo measurements. Here, we introd...

  13. Control on Crystal Forms of Ultrafine Barium Carbonate Particles and Study on its Mechanism

    Institute of Scientific and Technical Information of China (English)

    2005-01-01

    Barium carbonate particles were prepared by using homogeneous precipitation method and co-precipitation method respectively. Through adding different crystalline controlling modifiers, Barium carbonate particles in five different shapes including linear, needle-like, pillarlike, sphere-like and dumbbell-like were synthesized. These particles were characterized by SEM and XRD, and their synthetic mechanism was discussed in this paper.

  14. Hard and soft sub-time-optimal controllers for a mechanical system with uncertain mass

    DEFF Research Database (Denmark)

    Kulczycki, P.; Wisniewski, Rafal; Kowalski, P.

    2004-01-01

    by parameters selected in accordance with the rules of the statistical decision theory; however, the soft structure allows additionally to eliminate rapid changes in control values. The object is a basic mechanical system, with uncertain (also non-stationary) mass treated as a stochastic process...

  15. Hard and soft Sub-Time-Optimal Controllers for a Mechanical System with Uncertain Mass

    DEFF Research Database (Denmark)

    Kulczycki, P.; Wisniewski, Rafal; Kowalski, P.

    2005-01-01

    by parameters selected in accordance with the rules of the statistical decision theory; however, the soft structure allows additionally to eliminate rapid changes in control values. The object is a basic mechanical system, with uncertain (also non-stationary) mass treated as a stochastic process...

  16. High efficiency and simple technique for controlling mechanisms by EMG signals

    Science.gov (United States)

    Dugarte, N.; Álvarez, A.; Balacco, J.; Mercado, G.; Gonzalez, A.; Dugarte, E.; Javier, F.; Ceballos, G.; Olivares, A.

    2016-04-01

    This article reports the development of a simple and efficient system that allows control of mechanisms through electromyography (EMG) signals. The novelty about this instrument is focused on individual control of each motion vector mechanism through independent electronic circuits. Each of electronic circuit does positions a motor according to intensity of EMG signal captured. This action defines movement in one mechanical axis considered from an initial point, based on increased muscle tension. The final displacement of mechanism depends on individual’s ability to handle the levels of muscle tension at different body parts. This is the design of a robotic arm where each degree of freedom is handled with a specific microcontroller that responds to signals taken from a defined muscle. The biophysical interaction between the person and the final positioning of the robotic arm is used as feedback. Preliminary tests showed that the control operates with minimal positioning error margins. The constant use of system with the same operator showed that the person adapts and progressively improves at control technique.

  17. Motivational and control mechanisms underlying adolescent cannabis use disorders: a prospective study

    NARCIS (Netherlands)

    Cousijn, J.; van Benthem, P.; van der Schee, E.; Spijkerman, R.

    2015-01-01

    Cannabis use disorders (CUDs) are the most prevalent substance use disorders among adolescents in treatment. Yet, little is known about the neuropsychological mechanisms underlying adolescent CUDs. Studies in adult cannabis users suggest a significant role for cognitive control and cannabis-oriented

  18. Design issues of a back-pressure-based congestion control mechanism

    NARCIS (Netherlands)

    Malhotra, R.; Mandjes, M.; Scheinhardt, W.; van den Berg, H.

    2010-01-01

    Congestion control in packet-based networks is often realized by feedback protocols - in this paper we assess the performance under a back-pressure mechanism that has been proposed and standardized for Ethernet metropolitan networks. Relying on our earlier results for feedback fluid queues, we deriv

  19. Design issues of a back-pressure-based congestion control mechanism

    NARCIS (Netherlands)

    Malhotra, Richa; Mandjes, Michel; Scheinhardt, Werner; Berg, van den Hans

    2010-01-01

    Congestion control in packet-based networks is often realized by feedback protocols – in this paper we assess the performance under a back-pressure mechanism that has been proposed and standardized for Ethernet metropolitan networks. Relying on our earlier results for feedback fluid queues,we derive

  20. Sliding mode control of spatial mechanical systems decoupling translation and rotation

    NARCIS (Netherlands)

    Goeree, Barry B.; Fasse, Ernest D.; Tiernego, Martin J.L.; Broenink, Jan F.

    1997-01-01

    This paper looks at the robust trajectory control of spatial mechanical systems using sliding mode techniques. Two distinctions of the proposed method from reported methods are: (1) The measure of attitudinal error used is intrinsically defined, Euclidean-geometric, and intuitive. From Euler's theor

  1. Cascade Controller Including Back-stepping for Hydraulic-Mechanical Systems

    DEFF Research Database (Denmark)

    Choux, Martin; Hovland, Geir; Blanke, Mogens

    2012-01-01

    Development of a cascade controller structure including adaptive backstepping for a nonlinear hydraulic-mechanical system is considered in this paper where a dynamic friction (LuGre) model is included to obtain the necessary accuracy. The paper compares the performance of two variants of an adapt...

  2. Assessment of current practices in creating and using passwords as a control mechanism for information access

    Directory of Open Access Journals (Sweden)

    P. L. Wessels

    2007-11-01

    Full Text Available One of the critical issues in managing information within an organization is to ensure that proper controls exist and are applied in allowing people access to information. Passwords are used extensively as the main control mechanism to identify users wanting access to systems, applications, data files, network servers or personal information. In this article, the issues involved in selecting and using passwords are discussed and the current practices employed by users in creating and storing passwords to gain access to sensitive information are assessed. The results of this survey conclude that information managers cannot rely only on users to employ proper password control in order to protect sensitive information.

  3. Modeling Mechanical and Electrical Uncertain Systems using Functions of Robust Control MATLAB Toolbox®3

    Directory of Open Access Journals (Sweden)

    Mohammed Tawfik Hussein

    2015-04-01

    Full Text Available Uncertainty is inherent property of all real life control systems, and this is due to that there is nothing constant practically; all parameters are going to change under some environmental circumstances, therefore control engineers must not ignore this changing since it can affect the behavior and the performance of the system. In this paper a critical research method for modeling uncertain systems is demonstrated with the utilization of built in robust control Matlab Toolbox®3 functions. Good results were obtained for testing the stability of interval linear time invariant systems. Finally mechanical and electrical uncertain systems were implemented as practical example to validate the uncertainty.

  4. Strain-controlled criticality governs the nonlinear mechanics of fibre networks

    CERN Document Server

    Sharma, A; Rens, R; Sheinman, M; Jansen, K A; Koenderink, G H; MacKintosh, F C

    2015-01-01

    Disordered fibrous networks are ubiquitous in nature as major structural components of living cells and tissues. The mechanical stability of networks generally depends on the degree of connectivity: only when the average number of connections between nodes exceeds the isostatic threshold are networks stable (Maxwell, J. C., Philosophical Magazine 27, 294 (1864)). Upon increasing the connectivity through this point, such networks undergo a mechanical phase transition from a floppy to a rigid phase. However, even sub-isostatic networks become rigid when subjected to sufficiently large deformations. To study this strain-controlled transition, we perform a combination of computational modeling of fibre networks and experiments on networks of type I collagen fibers, which are crucial for the integrity of biological tissues. We show theoretically that the development of rigidity is characterized by a strain-controlled continuous phase transition with signatures of criticality. Our experiments demonstrate mechanical...

  5. Mechanisms and neuronal networks involved in reactive and proactive cognitive control of interference in working memory.

    Science.gov (United States)

    Irlbacher, Kerstin; Kraft, Antje; Kehrer, Stefanie; Brandt, Stephan A

    2014-10-01

    Cognitive control can be reactive or proactive in nature. Reactive control mechanisms, which support the resolution of interference, start after its onset. Conversely, proactive control involves the anticipation and prevention of interference prior to its occurrence. The interrelation of both types of cognitive control is currently under debate: Are they mediated by different neuronal networks? Or are there neuronal structures that have the potential to act in a proactive as well as in a reactive manner? This review illustrates the way in which integrating knowledge gathered from behavioral studies, functional imaging, and human electroencephalography proves useful in answering these questions. We focus on studies that investigate interference resolution at the level of working memory representations. In summary, different mechanisms are instrumental in supporting reactive and proactive control. Distinct neuronal networks are involved, though some brain regions, especially pre-SMA, possess functions that are relevant to both control modes. Therefore, activation of these brain areas could be observed in reactive, as well as proactive control, but at different times during information processing.

  6. Bio-Inspired Composite Interfaces: Controlling Hydrogel Mechanics via Polymer-Nanoparticle Coordination Bond Dynamics

    Science.gov (United States)

    Holten-Andersen, Niels

    2015-03-01

    In soft nanocomposite materials, the effective interaction between polymer molecules and inorganic nanoparticle surfaces plays a critical role in bulk mechanical properties. However, controlling these interfacial interactions remains a challenge. Inspired by the adhesive chemistry in mussel threads, we present a novel approach to control composite mechanics via polymer-particle interfacial dynamics; by incorporating iron oxide nanoparticles (Fe3O4 NPs) into a catechol-modified polymer network the resulting hydrogels are crosslinked via reversible coordination bonds at Fe3O4 NP surfaces thereby providing a dynamic gel network with robust self-healing properties. By studying the thermally activated composite network relaxation processes we have found that the polymer-NP binding energy can be controlled by engineering both the organic and inorganic side of the interface.

  7. Thin broadband noise absorption through acoustic reactance control by electro-mechanical coupling without sensor.

    Science.gov (United States)

    Zhang, Yumin; Chan, Yum-Ji; Huang, Lixi

    2014-05-01

    Broadband noise with profound low-frequency profile is prevalent and difficult to be controlled mechanically. This study demonstrates effective broadband sound absorption by reducing the mechanical reactance of a loudspeaker using a shunt circuit through electro-mechanical coupling, which induces reactance with different signs from that of loudspeaker. An RLC shunt circuit is connected to the moving coil to provide an electrically induced mechanical impedance which counters the cavity stiffness at low frequencies and reduces the system inertia above the resonance frequency. A sound absorption coefficient well above 0.5 is demonstrated across frequencies between 150 and 1200 Hz. The performance of the proposed device is superior to existing passive absorbers of the same depth (60 mm), which has lower frequency limits of around 300 Hz. A passive noise absorber is further proposed by paralleling a micro-perforated panel with shunted loudspeaker which shows potentials in absorbing band-limit impulse noise.

  8. A Nodal-independent and tissue-intrinsic mechanism controls heart-looping chirality

    Science.gov (United States)

    Noël, Emily S.; Verhoeven, Manon; Lagendijk, Anne Karine; Tessadori, Federico; Smith, Kelly; Choorapoikayil, Suma; den Hertog, Jeroen; Bakkers, Jeroen

    2013-11-01

    Breaking left-right symmetry in bilateria is a major event during embryo development that is required for asymmetric organ position, directional organ looping and lateralized organ function in the adult. Asymmetric expression of Nodal-related genes is hypothesized to be the driving force behind regulation of organ laterality. Here we identify a Nodal-independent mechanism that drives asymmetric heart looping in zebrafish embryos. In a unique mutant defective for the Nodal-related southpaw gene, preferential dextral looping in the heart is maintained, whereas gut and brain asymmetries are randomized. As genetic and pharmacological inhibition of Nodal signalling does not abolish heart asymmetry, a yet undiscovered mechanism controls heart chirality. This mechanism is tissue intrinsic, as explanted hearts maintain ex vivo retain chiral looping behaviour and require actin polymerization and myosin II activity. We find that Nodal signalling regulates actin gene expression, supporting a model in which Nodal signalling amplifies this tissue-intrinsic mechanism of heart looping.

  9. Optimum feedback strategy for access control mechanism modelled as stochastic differential equation in computer network

    Directory of Open Access Journals (Sweden)

    Ahmed N. U.

    2004-01-01

    Full Text Available We consider optimum feedback control strategy for computer communication network, in particular, the access control mechanism. The dynamic model representing the source and the access control system is described by a system of stochastic differential equations developed in our previous works. Simulated annealing (SA was used to optimize the parameters of the control law based on neural network. This technique was found to be computationally intensive. In this paper, we have proposed to use a more powerful algorithm known as recursive random search (RRS. By using this technique, we have been able to reduce the computation time by a factor of five without compromising the optimality. This is very important for optimization of high-dimensional systems serving a large number of aggregate users. The results show that the proposed control law can improve the network performance by improving throughput, reducing multiplexor and TB losses, and relaxing, not avoiding, congestion.

  10. Investigation of the Human Disease Osteogenesis Imperfecta: A Research-Based Introduction to Concepts and Skills in Biomolecular Analysis

    Science.gov (United States)

    Mate, Karen; Sim, Alistair; Weidenhofer, Judith; Milward, Liz; Scott, Judith

    2013-01-01

    A blended approach encompassing problem-based learning (PBL) and structured inquiry was used in this laboratory exercise based on the congenital disease Osteogenesis imperfecta (OI), to introduce commonly used techniques in biomolecular analysis within a clinical context. During a series of PBL sessions students were presented with several…

  11. Indirect adaptive output feedback control of a biorobotic AUV using pectoral-like mechanical fins

    Energy Technology Data Exchange (ETDEWEB)

    Naik, Mugdha S; Singh, Sahjendra N [Department of Electrical and Computer Engineering, University of Nevada, Las Vegas, NV 89154-4026 (United States); Mittal, Rajat [Department of Mechanical and Aerospace Engineering, George Washington University, Washington University, DC 22052 (United States)], E-mail: sahaj@egr.unlv.edu

    2009-06-01

    This paper treats the question of servoregulation of autonomous underwater vehicles (AUVs) in the yaw plane using pectoral-like mechanical fins. The fins attached to the vehicle have oscillatory swaying and yawing motion. The bias angle of the angular motion of the fin is used for the purpose of control. Of course, the design approach considered here is applicable to AUVs for other choices of oscillation patterns of the fins, which produce periodic forces and moments. It is assumed that the vehicle parameters, hydrodynamic coefficients, as well the fin forces and moments are unknown. For the trajectory control of the yaw angle, a sampled-data indirect adaptive control system using output (yaw angle) feedback is derived. The control system has a modular structure, which includes a parameter identifier and a stabilizer. For the control law derivation, an internal model of the exosignals (reference signal (constant or ramp) and constant disturbance) is included. Unlike the direct adaptive control scheme, the derived control law is applicable to minimum as well as nonminimum phase biorobotic AUVs (BAUVs). This is important, because for most of the fin locations on the vehicle, the model is a nonminimum phase. In the closed-loop system, the yaw angle trajectory tracking error converges to zero and the remaining state variables remain bounded. Simulation results are presented which show that the derived modular control system accomplishes precise set point yaw angle control and turning maneuvers in spite of the uncertainties in the system parameters using only yaw angle feedback.

  12. Indirect adaptive output feedback control of a biorobotic AUV using pectoral-like mechanical fins.

    Science.gov (United States)

    Naik, Mugdha S; Singh, Sahjendra N; Mittal, Rajat

    2009-06-01

    This paper treats the question of servoregulation of autonomous underwater vehicles (AUVs) in the yaw plane using pectoral-like mechanical fins. The fins attached to the vehicle have oscillatory swaying and yawing motion. The bias angle of the angular motion of the fin is used for the purpose of control. Of course, the design approach considered here is applicable to AUVs for other choices of oscillation patterns of the fins, which produce periodic forces and moments. It is assumed that the vehicle parameters, hydrodynamic coefficients, as well the fin forces and moments are unknown. For the trajectory control of the yaw angle, a sampled-data indirect adaptive control system using output (yaw angle) feedback is derived. The control system has a modular structure, which includes a parameter identifier and a stabilizer. For the control law derivation, an internal model of the exosignals (reference signal (constant or ramp) and constant disturbance) is included. Unlike the direct adaptive control scheme, the derived control law is applicable to minimum as well as nonminimum phase biorobotic AUVs (BAUVs). This is important, because for most of the fin locations on the vehicle, the model is a nonminimum phase. In the closed-loop system, the yaw angle trajectory tracking error converges to zero and the remaining state variables remain bounded. Simulation results are presented which show that the derived modular control system accomplishes precise set point yaw angle control and turning maneuvers in spite of the uncertainties in the system parameters using only yaw angle feedback.

  13. Strain-controlled criticality governs the nonlinear mechanics of fibre networks

    Science.gov (United States)

    Sharma, A.; Licup, A. J.; Jansen, K. A.; Rens, R.; Sheinman, M.; Koenderink, G. H.; Mackintosh, F. C.

    2016-06-01

    Disordered fibrous networks are ubiquitous in nature as major structural components of living cells and tissues. The mechanical stability of networks generally depends on the degree of connectivity: only when the average number of connections between nodes exceeds the isostatic threshold are networks stable. On increasing the connectivity through this point, such networks undergo a mechanical phase transition from a floppy to a rigid phase. However, even sub-isostatic networks become rigid when subjected to sufficiently large deformations. To study this strain-controlled transition, we perform a combination of computational modelling of fibre networks and experiments on networks of type I collagen fibres, which are crucial for the integrity of biological tissues. We show theoretically that the development of rigidity is characterized by a strain-controlled continuous phase transition with signatures of criticality. Our experiments demonstrate mechanical properties consistent with our model, including the predicted critical exponents. We show that the nonlinear mechanics of collagen networks can be quantitatively captured by the predictions of scaling theory for the strain-controlled critical behaviour over a wide range of network concentrations and strains up to failure of the material.

  14. Dynamic analysis and control of lightweight manipulators with flexible parallel link mechanisms

    Science.gov (United States)

    Lee, Jeh Won

    1991-01-01

    The flexible parallel link mechanism is designed for increased rigidity to sustain the buckling when it carries a heavy payload. Compared to a one link flexible manipulator, a two link flexible manipulator, especially the flexible parallel mechanism, has more complicated characteristics in dynamics and control. The objective of this research is the theoretical analysis and the experimental verification of dynamics and control of a two link flexible manipulator with a flexible parallel link mechanism. Nonlinear equations of motion of the lightweight manipulator are derived by the Lagrangian method in symbolic form to better understand the structure of the dynamic model. A manipulator with a flexible parallel link mechanism is a constrained dynamic system whose equations are sensitive to numerical integration error. This constrained system is solved using singular value decomposition of the constraint Jacobian matrix. The discrepancies between the analytical model and the experiment are explained using a simplified and a detailed finite element model. The step response of the analytical model and the TREETOPS model match each other well. The nonlinear dynamics is studied using a sinusoidal excitation. The actuator dynamic effect on a flexible robot was investigated. The effects are explained by the root loci and the Bode plot theoretically and experimentally. For the base performance for the advanced control scheme, a simple decoupled feedback scheme is applied.

  15. Control Engineering as a Part of Undergraduate Curriculum for Mechanical Engineering in India

    Directory of Open Access Journals (Sweden)

    Akhtar Shagil

    2016-09-01

    Full Text Available In this present study we have traced the genesis of control engineering in the scope of mechanical engineering and then some analysis on its recent developments, their increasing need and how this particular subject has evolved machines functioning nowadays specifically its standard of education in India. We have probed this field right from its starting. We have examined how it is required as a proper course for mechanical engineering students and in which order the evolution in this field is expanding and, at the same time, its level of education in India and where we are in confronting the business need in terms of quality and quantity of students. The point is that it holds significance in near future. Over the years control engineering has been expanding its perimeter in various branches such mechanics, electronics, instrumentation, electrics, chemistry, aeronautics, mechatronics, etc. As a result, numerous interactive feedback structure from the output and the ability to alter the input accordingly have given the world a new era of equipment commonly termed as “smart devices” which have changed the lifestyle of common people. Furthermore, its various applications in different industry have also favored its development. So, some views from the industry prospective have been included to find out about the skills that are required for aspiring and practicing control engineers having mechanical engineering background.

  16. The comparison of manual and LabVIEW-based fuzzy control on mechanical ventilation.

    Science.gov (United States)

    Guler, Hasan; Ata, Fikret

    2014-09-01

    The aim of this article is to develop a knowledge-based therapy for management of rats with respiratory distress. A mechanical ventilator was designed to achieve this aim. The designed ventilator is called an intelligent mechanical ventilator since fuzzy logic was used to control the pneumatic equipment according to the rat's status. LabVIEW software was used to control all equipments in the ventilator prototype and to monitor respiratory variables in the experiment. The designed ventilator can be controlled both manually and by fuzzy logic. Eight female Wistar-Albino rats were used to test the designed ventilator and to show the effectiveness of fuzzy control over manual control on pressure control ventilation mode. The anesthetized rats were first ventilated for 20 min manually. After that time, they were ventilated for 20 min by fuzzy logic. Student's t-test for p < 0.05 was applied to the measured minimum, maximum and mean peak inspiration pressures to analyze the obtained results. The results show that there is no statistical difference in the rat's lung parameters before and after the experiments. It can be said that the designed ventilator and developed knowledge-based therapy support artificial respiration of living things successfully.

  17. "Peak tracking chip" for label-free optical detection of bio-molecular interaction and bulk sensing.

    Science.gov (United States)

    Bougot-Robin, Kristelle; Li, Shunbo; Zhang, Yinghua; Hsing, I-Ming; Benisty, Henri; Wen, Weijia

    2012-10-21

    A novel imaging method for bulk refractive index sensing or label-free bio-molecular interaction sensing is presented. This method is based on specially designed "Peak tracking chip" (PTC) involving "tracks" of adjacent resonant waveguide gratings (RWG) "micropads" with slowly evolving resonance position. Using a simple camera the spatial information robustly retrieves the diffraction efficiency, which in turn transduces either the refractive index of the liquids on the tracks or the effective thickness of an immobilized biological layer. Our intrinsically multiplex chip combines tunability and versatility advantages of dielectric guided wave biochips without the need of costly hyperspectral instrumentation. The current success of surface plasmon imaging techniques suggests that our chip proposal could leverage an untapped potential to routinely extend such techniques in a convenient and sturdy optical configuration toward, for instance for large analytes detection. PTC design and fabrication are discussed with challenging process to control micropads properties by varying their period (step of 2 nm) or their duty cycle through the groove width (steps of 4 nm). Through monochromatic imaging of our PTC, we present experimental demonstration of bulk index sensing on the range [1.33-1.47] and of surface biomolecule detection of molecular weight 30 kDa in aqueous solution using different surface densities. A sensitivity of the order of 10(-5) RIU for bulk detection and a sensitivity of the order of ∼10 pg mm(-2) for label-free surface detection are expected, therefore opening a large range of application of our chip based imaging technique. Exploiting and chip design, we expect as well our chip to open new direction for multispectral studies through imaging.

  18. Efficacy and possible mechanisms of perillaldehyde in control of Aspergillus niger causing grape decay.

    Science.gov (United States)

    Tian, Jun; Wang, Yanzhen; Zeng, Hong; Li, Zongyun; Zhang, Peng; Tessema, Akalate; Peng, Xue

    2015-06-02

    A variety of plant products have been recognized for their antifungal activity and recently have attracted food industry attention for their efficacy in controlling postharvest fungal decay of fruits. The antifungal activity of perillaldehyde (PAE) was evaluated against Aspergillus niger, a known cause of grape spoilage, and possible mechanisms were explored. PAE showed notable antifungal activity against A. niger, with a minimum inhibitory concentration (MIC) and a minimum fungicidal concentration (MFC) of 0.25 and 1 μl/ml, respectively. The accumulation of mycelial biomass was also inhibited by PAE in a dose-dependent manner, completely inhibiting mycelial growth at 1 μl/ml. In vivo data confirmed that the vapour treatment of grapes with various concentrations of PAE markedly improved control of A. niger and suppressed natural decay. Concentrations of PAE of 0.075 μl/ml air showed the greatest inhibition of fungal growth compared to the controls. Further experiments indicated that PAE activated a membrane-active mechanism that inhibits ergosterol synthesis, increases membrane permeability (as evidenced by extracellular pH and conductivity measurements), and disrupts membrane integrity, leading to cell death. Our findings suggest that this membrane-active mechanism makes PAE a promising potential antifungal agent for postharvest control of grape spoilage.

  19. Controllable synthesis and formation mechanism of carbon micro/nano-structural materials

    Science.gov (United States)

    Zhang, Chang'an; Lv, Meijiao; Wang, Xianbao; Li, Jing; Yang, Xuyu; Yang, Jia; Hu, Hao

    2013-10-01

    Three different structures of carbon materials, including carbon spheres, bamboo-like carbon nanotubes and straight carbon nanotubes, were obtained by pyrolysis of iron(II) phthalocyanine with different flow rates of H2 at 1000 °C. The suitable mechanism for formation process of the carbon nanomaterials from spheres to straight nanotubes was suggested. The competing processes between the catalyst forward and the shell growth have been used to explain the formation mechanism of three materials. The controllable synthesis of carbon materials was achieved only by changing the H2 flow rates, and it is important to explore applications of carbon materials with different shapes.

  20. Understanding the mechanism of nanotube synthesis for controlled production of specific (n,m) structures

    Energy Technology Data Exchange (ETDEWEB)

    Resasco, Daniel E.

    2010-02-11

    This report shows the extensive research on the mechanism responsible for the formation of single walled carbon nanotubes in order to get control over their structural parameters (diameter and chirality). Catalyst formulations, pre-treatment conditions, and reaction conditions are described in detail as well as mechanisms to produce nanotubes structures of specific arrays (vertical forest, nanotube pillars). Applications of SWNT in different fields are also described in this report. In relation to this project five students have graduated (3 PhD and 2 MS) and 35 papers have been published.