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Sample records for single-particle foucault oscillator

  1. Change of the plane of oscillation of a Foucault pendulum from simple pictures

    NASA Astrophysics Data System (ADS)

    Jordan, Thomas F.; Maps, J.

    2010-11-01

    The change of the plane of oscillation of a Foucault pendulum is calculated without using equations of motion, the Gauss-Bonnet theorem, parallel transport, or assumptions that are difficult to explain.

  2. Foucault Pendulum without Driving

    NASA Astrophysics Data System (ADS)

    Yamashita, Yoshifumi

    2016-06-01

    Foucault pendulums are two-dimensional harmonic oscillators to which the Coriolis force is applied. The Foucault parameter ΩF is the ideal rate of rotation of the plane of oscillation due to the Coriolis force. Kamerlingh Onnes pointed out that the actual behavior of Foucault pendulums can be understood only by taking into account the unavoidable mechanical asymmetry, i.e., the difference between the frequency in the X-direction and that in the Y-direction, which is called the asymmetry parameter δ. Our equations of motion for Foucault pendulums are linear and their solutions are easily obtained. We are interested in slowly varying rotations of the plane of oscillation, where the angle of rotation is denoted by φ. The motion of the bob consists of rapid simple oscillations and the slow rotations mentioned above. Eliminating the rapid oscillations, we obtain an analytic expression for tan 2φ, which is a periodic function with period π /√{Ω F2 + δ 2} . The graphs of the rotation φ versus time t have two distinct appearances. Under the condition ΩF ≥ δ|cos(2θ)| (θ is the initial value of φ), φ decreases monotonically, which is the behavior expected for Foucault pendulums. Otherwise φ repeatedly increases and decreases, which is the behavior of pendulums describing Lissajous figures. The vertical component of angular momentum is also calculated analytically.

  3. Single particle calculations for a Woods-Saxon potential with triaxial deformations, and large Cartesian oscillator basis (TRIAXIAL 2014, Third version of the code Triaxial)

    NASA Astrophysics Data System (ADS)

    Mohammed-Azizi, B.; Medjadi, D. E.

    2014-11-01

    , WINDOWS 7, LINUX. RAM: 256 Mb (depending on nmax). Swap file: 4Gb (depending on nmax) Classification: 17.7. Does the new version supersede the previous version?: Yes Catalogue identifier of previous version: ADSK_v2_0 Journal reference of previous version: Comput. Phys. Comm. 176 (2007) 634 Nature of problem: The Single particle energies and the single particle wave functions are calculated from one-body Hamiltonian including a central field of Woods-Saxon type, a spin-orbit interaction, and the Coulomb potential for the protons. We consider only ellipsoidal (triaxial) shapes. The deformation of the nuclear shape is fixed by the usual Bohr parameters (β,γ). Solution method: The representative matrix of the Hamiltonian is built by means of the Cartesian basis of the anisotropic harmonic oscillator, and then diagonalized by a set of subroutines of the EISPACK library. Two quadrature methods of Gauss are employed to calculate respectively the integrals of the matrix elements of the Hamiltonian, and the integral defining the Coulomb potential. Two quantum numbers are conserved: the parity and the signature. Due to the Kramers degeneracy, only positive signature is considered. Therefore, calculations are made for positive and negative parity separately (with positive signature only). Reasons for new version: Now, there are several ways to obtain the eigenvalues and the eigenfunctions. The eigenvalues can be obtained from the subroutine ‘eigvals’ or from the array ‘energies’ or also from the formatted files ‘valuu.dat’, ‘eigenvalo.dat’, ‘eigenva.dat’ or better from the unformatted file ‘eigenvaunf.dat’. The eigenfunctions can be obtained straightforwardly in configuration space from the subroutine ‘eigfunc’ or by their components on the oscillator basis from the subroutine ‘compnts’. The latter are also recorded on a formatted file ‘componento.dat’ or on an unformatted file ‘componentounf.dat’. Summary of revisions: This version is

  4. Single particle calculations for a Woods-Saxon potential with triaxial deformations, and large Cartesian oscillator basis (TRIAXIAL 2014, Third version of the code Triaxial)

    NASA Astrophysics Data System (ADS)

    Mohammed-Azizi, B.; Medjadi, D. E.

    2014-11-01

    , WINDOWS 7, LINUX. RAM: 256 Mb (depending on nmax). Swap file: 4Gb (depending on nmax) Classification: 17.7. Does the new version supersede the previous version?: Yes Catalogue identifier of previous version: ADSK_v2_0 Journal reference of previous version: Comput. Phys. Comm. 176 (2007) 634 Nature of problem: The Single particle energies and the single particle wave functions are calculated from one-body Hamiltonian including a central field of Woods-Saxon type, a spin-orbit interaction, and the Coulomb potential for the protons. We consider only ellipsoidal (triaxial) shapes. The deformation of the nuclear shape is fixed by the usual Bohr parameters (β,γ). Solution method: The representative matrix of the Hamiltonian is built by means of the Cartesian basis of the anisotropic harmonic oscillator, and then diagonalized by a set of subroutines of the EISPACK library. Two quadrature methods of Gauss are employed to calculate respectively the integrals of the matrix elements of the Hamiltonian, and the integral defining the Coulomb potential. Two quantum numbers are conserved: the parity and the signature. Due to the Kramers degeneracy, only positive signature is considered. Therefore, calculations are made for positive and negative parity separately (with positive signature only). Reasons for new version: Now, there are several ways to obtain the eigenvalues and the eigenfunctions. The eigenvalues can be obtained from the subroutine ‘eigvals’ or from the array ‘energies’ or also from the formatted files ‘valuu.dat’, ‘eigenvalo.dat’, ‘eigenva.dat’ or better from the unformatted file ‘eigenvaunf.dat’. The eigenfunctions can be obtained straightforwardly in configuration space from the subroutine ‘eigfunc’ or by their components on the oscillator basis from the subroutine ‘compnts’. The latter are also recorded on a formatted file ‘componento.dat’ or on an unformatted file ‘componentounf.dat’. Summary of revisions: This version is

  5. A Foucault's pendulum design

    NASA Astrophysics Data System (ADS)

    Salva, Horacio R.; Benavides, Rubén E.; Perez, Julio C.; Cuscueta, Diego J.

    2010-11-01

    In this article we explain our design and their performance, of a Foucault pendulum capable of continuous operation with a following system of the oscillation plane. We have built two pendulums, one of 2.835 m length and other of 4.975 m length. The oscillation amplitudes in either case were 1.8 and 1 deg, respectively. In our latitude the precession speed (9.89 deg/h counterclockwise) can be measured within 0.5 and 0.2 deg/h. The arrangement detected some earthquakes of medium intensity that took place as far as 765 km.

  6. A New Model of the Foucault Pendulum.

    ERIC Educational Resources Information Center

    Weltner, Klaus

    1979-01-01

    Describes an elastic Foucault pendulum designed to demonstrate how the rotation of the plane of oscillation depends on geographical latitude, and shows that this rotation vanishes at the equator. (GA)

  7. Single Particle Difraction at FLASH

    SciTech Connect

    Bogan, M.; Boutet, S.; Starodub, Dmitri; Decorwin-Martin, Philippe; Chapman, H.; Bajt, S.; Schulz, J.; Hajdu, Janos; Seibert, M.M.; Iwan, Bianca; Timneanu, Nicusor; Marchesini, Stefano; Barty, Anton; Benner, W.Henry; Frank, Matthias; Hau-Riege, Stefan P.; Woods, Bruce; Rohner, Urs; /Tofwerk AG, Thun

    2010-06-11

    Single-pulse coherent diffraction patterns have been collected from randomly injected single particles with a soft X-ray free-electron laser (FEL). The intense focused FEL pulse gives a high-resolution low-noise coherent diffraction pattern of the object before that object turns into a plasma and explodes. A diffraction pattern of a single particle will only be recorded when the particle arrival into the FEL interaction region coincides with FEL pulse arrival and detector integration. The properties of the experimental apparatus coinciding with these three events set the data acquisition rate. For our single particle FLASH diffraction imaging experiments: (1) an aerodynamic lens stack prepared a particle beam that consisted of particles moving at 150-200 m/s positioned randomly in space and time, (2) the 10 fs long FEL pulses were delivered at a fixed rate, and (3) the detector was set to integrate and readout once every two seconds. The effect of these experimental parameters on the rate of data acquisition using randomly injected particles will be discussed. Overall, the ultrashort FEL pulses do not set the limit of the data acquisition, more important is the effective interaction time of the particle crossing the FEL focus, the pulse sequence structure and the detector readout rate. Example diffraction patterns of randomly injected ellipsoidal iron oxide nanoparticles in different orientations are presented. This is the first single particle diffraction data set of identical particles in different orientations collected on a shot-to-shot basis. This data set will be used to test algorithms for recovering 3D structure from single particle diffraction.

  8. Precessional Periods of Long and Short Foucault Pendulums

    ERIC Educational Resources Information Center

    Soga, Michitoshi

    1978-01-01

    Derives the precessional period of a Foucault pendulum without using small oscillation amplitudes. Shows that if the path of the pendulum passes through the origin, the periods for differing amplitudes are essentially the same. (GA)

  9. {Lambda} single-particle energies

    SciTech Connect

    Bodmer, A.R.; Usmani, Q.N.; Sami, M.

    1995-08-01

    We are continuing our work on the {Lambda} hyperon single-particle (s.p.) energies and their interpretation in terms of the basic {Lambda}-nuclear interactions. In particular we are interpreting the results obtained by S.C. Pieper, A. Usmani and Q.N. Usmani. We obtain about 30 MeV for the repulsive contribution of the three-body {Lambda}NN forces in nuclear matter. We are able to exclude purely {open_quotes}dispersive{close_quotes} {Lambda}NN forces. We are investigating the mix of dispersive and two-pion-exchange {Lambda}NN forces which provide a fit to the s.p. data. For interactions, which provide a fit to the s.p. data, the {Lambda} binding energy as a function of the nuclear matter density shows characteristic saturation features with a maximum at a density not very different from that of normal nuclear matter. We obtain a more precise measure of the space-exchange part of the {Lambda}-nuclear force than was previously available, corresponding to an exchange parameter {approx_equal} 0.32. The space-exchange force is rather directly related to the effective mass of a {Lambda} in the nuclear medium and turns out to be about 70% of its free mass. As a result, we also obtain a much better value for the p-state {Lambda}-nucleus potential which is about 40% of the s-state potential. The A binding to nuclear matter is determined to be {approx_equal} 28 MeV.

  10. [Foucault's relevance for psychology].

    PubMed

    Pastor, Juan

    2009-11-01

    In this article, we will attempt to address one of the most outstanding and influential thinkers of the past century: Michel Foucault, Philosopher, Psychologist, and above all (university) Professor. Michel Foucault is certainly versatile: Historian (of madness, clinical practice, imprisonment and sexuality), Archaeologist (of knowledge), Analyst (of discourse and power relations), Psychologist (genealogy of subjectivity) and Philosopher (of power and the subject). With this article, we eventually expect to offer some clues to be able to use the work of Michel Foucault for the problematization of Psychology.

  11. Who can resist Foucault?

    PubMed

    Bleakley, Alan; Bligh, John

    2009-08-01

    Michel Foucault's analysis of "the birth of the clinic" describes the genesis of a unified discourse that, in retrospect, has shaped western medicine for two centuries. However, in looking prospectively toward a 21st century medicine, Foucault's analysis is necessary but not sufficient. To better critically address medicine and medical education in the era of simulation, we could draw on frameworks developed by futurists such as Jean Baudrillard. Foucault's analysis does not account for contemporary, complex developments of the clinical gaze as the gaze is distributed across practitioners in increasing use of sophisticated, representational diagnostic imaging. Further, Foucault's antihumanist rhetoric sometimes strays into the antihumane, and this is disturbing for those who support the development of patient-centered medicine. Yet we are increasingly teaching aspects of medicine, such as communication, in simulated learning environments in which complex reality is absent, perhaps inadvertently creating an "inhumanity" in medical education.

  12. Foucault and physiotherapy.

    PubMed

    Nicholls, David A

    2012-08-01

    For nearly 40 years, researchers have been coming to terms with the impact of Michel Foucault's philosophical work. In fields as diverse as medical sociology, health policy, architecture, urban geography, history, and sport, scholars have made use of Foucault's notions of discourse, knowledge, truth, and power. With a few exceptions, however, Foucault's writings have yet to permeate physiotherapy. Foucault's ideas represent powerful, and highly useful analytical strategies for analyzing our past, present, and future, and his writings provide us with a set of conceptual, methodological, and philosophical approaches to help us unpack the cultural, historical, and social context in which we operate as a profession. In this paper, I attempt to introduce the reader to some of Foucault's radical ideas and show how these might be applied to physiotherapy practice. Drawing on Foucault's writings on the functions of discourse to illustrate how something as benign as a physiotherapist's treatment bed can be understood as something more than a piece of necessary medical technology, I show that by approaching seemingly obvious, everyday objects, practices, systems, and structures, we can learn much about physiotherapy's past, present, and future and apply this knowledge to think in new ways about the profession.

  13. Single particle dynamics in circular accelerators

    SciTech Connect

    Ruth, R.D.

    1986-10-01

    The purpose of this paper is to introduce the reader to the theory associated with the transverse dynamics of single particle, in circular accelerators. The discussion begins with a review of Hamiltonian dynamics and canonical transformations. The case of a single particle in a circular accelerator is considered with a discussion of non-linear terms and chromaticity. The canonical perturbation theory is presented and nonlinear resonances are considered. Finally, the concept of renormalization and residue criterion are examined. (FI)

  14. Foucault and modern medicine.

    PubMed

    Peerson, A

    1995-06-01

    Modernity as a concept or ideal, resulting from the age of Enlightenment and the French Revolution gave hope of a better future and new possibilities. To be modern means an 'enlightened' individual and society, welcoming change and development. In this paper, I will discuss Foucault's analysis (1973) of problematics in medicine in eighteenth century France. Three themes prominent in the text are: 'the birth of the clinic', 'the clinical gaze' and the power-knowledge relationship. Three problematics identified in modern medicine by Foucault and which are particularly relevant to twentieth century medicine are: (i) the extension of the clinical gaze from the individual body to the wider population; (ii) the increasing medical intervention and use of technology in fundamental life processes; and (iii) the relationship between society and medicine. I will argue that Foucault's analysis is fraught with ambiguities. It is useful, however, for establishing an explanation for medicine today and for presenting a particular interpretation of modernity.

  15. Validating maps from single particle electron cryomicroscopy.

    PubMed

    Rosenthal, Peter B; Rubinstein, John L

    2015-10-01

    Progress in single particle cryo-EM, most recently due to the introduction of direct detector devices, has made the high-resolution structure determination of biological assemblies smaller than 500kDa more routine, but has also increased attention on the need for tools to demonstrate the validity of single particle maps. Although map validation is a continuing subject of research, some consensus has been reached on procedures that reduce model bias and over-fitting during map refinement as well as specific tests that demonstrate map validity. Tilt-pair analysis may be used as a method for demonstrating the consistency at low resolution of a map with image data. For higher-resolution maps, new procedures for more robust resolution assessment and for validating the refinement of atomic coordinate models into single particle maps have been developed.

  16. Validating maps from single particle electron cryomicroscopy.

    PubMed

    Rosenthal, Peter B; Rubinstein, John L

    2015-10-01

    Progress in single particle cryo-EM, most recently due to the introduction of direct detector devices, has made the high-resolution structure determination of biological assemblies smaller than 500kDa more routine, but has also increased attention on the need for tools to demonstrate the validity of single particle maps. Although map validation is a continuing subject of research, some consensus has been reached on procedures that reduce model bias and over-fitting during map refinement as well as specific tests that demonstrate map validity. Tilt-pair analysis may be used as a method for demonstrating the consistency at low resolution of a map with image data. For higher-resolution maps, new procedures for more robust resolution assessment and for validating the refinement of atomic coordinate models into single particle maps have been developed. PMID:26605834

  17. Dual color single particle tracking via nanobodies

    NASA Astrophysics Data System (ADS)

    Albrecht, David; Winterflood, Christian M.; Ewers, Helge

    2015-06-01

    Single particle tracking is a powerful tool to investigate the function of biological molecules by following their motion in space. However, the simultaneous tracking of two different species of molecules is still difficult to realize without compromising the length or density of trajectories, the localization accuracy or the simplicity of the assay. Here, we demonstrate a simple dual color single particle tracking assay using small, bright, high-affinity labeling via nanobodies of accessible targets with widely available instrumentation. We furthermore apply a ratiometric step-size analysis method to visualize differences in apparent membrane viscosity.

  18. Foucault pendulum ``wall clock''

    NASA Astrophysics Data System (ADS)

    Crane, H. Richard

    1995-01-01

    Details are given for the construction of a 70-cm-long Foucault pendulum to be mounted on the wall, and for a simple modification that will make it display local clock time. The possibility of having a Foucault pendulum of such short length is the result of finding new or improved ways of reducing four perturbing effects that become more severe as the length is decreased. They relate to: precession due to ellipticity in the motion, the drive system for maintaining the amplitude, the means of limiting the growth of ellipticity, and the method of gripping the suspending wire at the top. With those improvements, successful Foucault operation was attained in pendulums as short as 15 cm, support to center of bob. Following that severe test, the length for the ``wall clock'' was set at a conservative 70 cm. At that length it is highly reliable, and accurate to within 2% when timed for the full revolution. Uniformity in rate when comparing different intervals of azimuth is of course less. A simple method of making the pendulum read local time is described. Two clocks, one in the author's office and one at home, have been in continuous operation for more than ten years.

  19. Twin-Foucault imaging method

    NASA Astrophysics Data System (ADS)

    Harada, Ken

    2012-02-01

    A method of Lorentz electron microscopy, which enables observation two Foucault images simultaneously by using an electron biprism instead of an objective aperture, was developed. The electron biprism is installed between two electron beams deflected by 180° magnetic domains. Potential applied to the biprism deflects the two electron beams further, and two Foucault images with reversed contrast are then obtained in one visual field. The twin Foucault images are able to extract the magnetic domain structures and to reconstruct an ordinary electron micrograph. The developed Foucault method was demonstrated with a 180° domain structure of manganite La0.825Sr0.175MnO3.

  20. Efficiency of single-particle engines.

    PubMed

    Proesmans, Karel; Driesen, Cedric; Cleuren, Bart; Van den Broeck, Christian

    2015-09-01

    We study the efficiency of a single-particle Szilard and Carnot engine. Within a first order correction to the quasistatic limit, the work distribution is found to be Gaussian and the correction factor to average work and efficiency only depends on the piston speed. The stochastic efficiency is studied for both models and the recent findings on efficiency fluctuations are confirmed numerically. Special features are revealed in the zero-temperature limit.

  1. Efficiency of single-particle engines

    NASA Astrophysics Data System (ADS)

    Proesmans, Karel; Driesen, Cedric; Cleuren, Bart; Van den Broeck, Christian

    2015-09-01

    We study the efficiency of a single-particle Szilard and Carnot engine. Within a first order correction to the quasistatic limit, the work distribution is found to be Gaussian and the correction factor to average work and efficiency only depends on the piston speed. The stochastic efficiency is studied for both models and the recent findings on efficiency fluctuations are confirmed numerically. Special features are revealed in the zero-temperature limit.

  2. Nanoscale microcavity sensor for single particle detection.

    PubMed

    Lee, Mindy R; Fauchet, Philippe M

    2007-11-15

    Recently we demonstrated a biosensor based on a two-dimensional photonic crystal microcavity for detection of proteins. We present a theoretical and experimental study of a modified structure for single particle detection. With an active sensing volume of approximately 0.15 microm(3), the device is capable of detecting approximately 1 fg of matter. Its performance is tested with latex spheres with sizes that fall in the size range of a variety of viruses. PMID:18026281

  3. Foucault pendulum and sub-Riemannian geometry

    NASA Astrophysics Data System (ADS)

    Anzaldo-Meneses, A.; Monroy-Pérez, F.

    2010-08-01

    The well known Foucault nonsymmetrical pendulum is studied as a problem of sub-Riemannian geometry on nilpotent Lie groups. It is shown that in a rotating frame a sub-Riemannian structure can be naturally introduced. For small oscillations, three dimensional horizontal trajectories are computed and displayed in detail. The fiber bundle structure is explicitly shown. The underlying Lie structure is described together with the corresponding holonomy group, which turns out to be given by the center of the Heisenberg group. Other related physical problems that can be treated in a similar way are also mentioned.

  4. Foucault pendulum through basic geometry

    NASA Astrophysics Data System (ADS)

    von Bergmann, Jens; von Bergmann, HsingChi

    2007-10-01

    We provide a thorough explanation of the Foucault pendulum that utilizes its underlying geometry on a level suitable for science students not necessarily familiar with calculus. We also explain how the geometrically understood Foucault pendulum can serve as a prototype for more advanced phenomena in physics known as Berry's phase or geometric phases.

  5. The Foucault pendulum with an ideal elastic suspension string

    NASA Astrophysics Data System (ADS)

    Stanovnik, A.

    2006-03-01

    It is interesting and instructive to compare the precession of a Foucault pendulum, which has an inextensible suspension string, to the precession of an ideal elastic pendulum, for which the string force is proportional to string length (a harmonic oscillator). For the latter case, a simple derivation is presented of the bob trajectories as seen by the local observer on the rotating earth. It is shown that the initial precession rate is equal to the precession rate of the Foucault pendulum, and that the precession period is equal to the rotation period of the earth. The different precession period of the Foucault pendulum may therefore be seen as a cumulative effect of its inextensible suspension string, which constrains the motion of the bob. It is also shown that the initial angular acceleration of the oscillation plane of the ideal elastic pendulum is opposite for opposite initial azimuth angles. If any such difference were observed for a real Foucault pendulum, it might indicate the presence of effects due to elasticity of the suspension string. Another interesting application of the present derivation would be to the precession of the spring-mass oscillator.

  6. School Foucault pendulum

    NASA Astrophysics Data System (ADS)

    Lacsny, Boris; Štubna, Igor; Teleki, Aba

    2014-11-01

    A Foucault pendulum was assembled for a university/high-school physics course. The pendulum is 2.85 m long and the mass of the bob is 4.70 kg. A new technique based on the spark burned points on a sheet of paper was used to register the pendulum’s motion. A Ruhmkorff induction coil was used as a high-voltage source. Plots of the elliptical trajectories (except the first trajectory, which is a straight line) can be created and the angles between the major axes of the ellipses can be determined after assigning the coordinates to the burned points.

  7. Single-particle study of protein assembly

    NASA Astrophysics Data System (ADS)

    Kiang, Ching-Hwa

    2001-10-01

    A study of protein assembly in solution with single-particle imaging and reconstruction techniques using cryoelectron microscopy is reported. The human glutamine synthetase enzyme, important in brain metabolism, and previously assumed to be assembled into a homogeneous quaternary structure, is found to be heterogeneous, with three oligomeric states that co-exist at room temperature. This result corrects an old structural and kinetic model determined by ensemble averaging techniques that assumed a homogeneous system. Unexpectedly fast protein dissociation kinetics results from a stabilized transition state.

  8. Carnot process with a single particle.

    PubMed

    Hoppenau, J; Niemann, M; Engel, A

    2013-06-01

    We determine the statistics of work in isothermal volume changes of a classical ideal gas consisting of a single particle. Combining our results with the findings of Lua and Grosberg [J. Chem. Phys. B 109, 6805 (2005)] on adiabatic expansions and compressions we then analyze the joint probability distribution of heat and work for a microscopic, nonequilibrium Carnot cycle. In the quasistatic limit we recover Carnot efficiency, however, combined with nontrivial distributions of work and heat. With increasing piston speed the efficiency decreases. The efficiency at maximum power stays within recently derived bounds.

  9. Carnot process with a single particle

    NASA Astrophysics Data System (ADS)

    Hoppenau, J.; Niemann, M.; Engel, A.

    2013-06-01

    We determine the statistics of work in isothermal volume changes of a classical ideal gas consisting of a single particle. Combining our results with the findings of Lua and Grosberg [J. Chem. Phys. BJPCBFK1520-610610.1021/jp0455428 109, 6805 (2005)] on adiabatic expansions and compressions we then analyze the joint probability distribution of heat and work for a microscopic, nonequilibrium Carnot cycle. In the quasistatic limit we recover Carnot efficiency, however, combined with nontrivial distributions of work and heat. With increasing piston speed the efficiency decreases. The efficiency at maximum power stays within recently derived bounds.

  10. Single particle tomography in EMAN2.

    PubMed

    Galaz-Montoya, Jesús G; Flanagan, John; Schmid, Michael F; Ludtke, Steven J

    2015-06-01

    Single particle tomography (SPT or subtomogram averaging) offers a powerful alternative to traditional 2-D single particle reconstruction for studying conformationally or compositionally heterogeneous macromolecules. It can also provide direct observation (without labeling or staining) of complexes inside cells at nanometer resolution. The development of computational methods and tools for SPT remains an area of active research. Here we present the EMAN2.1 SPT toolbox, which offers a full SPT processing pipeline, from particle picking to post-alignment analysis of subtomogram averages, automating most steps. Different algorithm combinations can be applied at each step, providing versatility and allowing for procedural cross-testing and specimen-specific strategies. Alignment methods include all-vs-all, binary tree, iterative single-model refinement, multiple-model refinement, and self-symmetry alignment. An efficient angular search, Graphic Processing Unit (GPU) acceleration and both threaded and distributed parallelism are provided to speed up processing. Finally, automated simulations, per particle reconstruction of subtiltseries, and per-particle Contrast Transfer Function (CTF) correction have been implemented. Processing examples using both real and simulated data are shown for several structures.

  11. Single Particle Tomography in EMAN2

    PubMed Central

    Galaz-Montoya, Jesús G.; Flanagan, John; Schmid, Michael F.; Ludtke, Steven J.

    2015-01-01

    Single particle tomography (SPT or subtomogram averaging) offers a powerful alternative to traditional 2-D single particle reconstruction for studying conformationally or compositionally heterogeneous macromolecules. It can also provide direct observation (without labeling or staining) of complexes inside cells at nanometer resolution. The development of computational methods and tools for SPT remains an area of active research. Here we present the EMAN2.1 SPT toolbox, which offers a full SPT processing pipeline, from particle picking to post-alignment analysis of subtomogram averages, automating most steps. Different algorithm combinations can be applied at each step, providing versatility and allowing for procedural cross-testing and specimen-specific strategies. Alignment methods include all-vs-all, binary tree, iterative single-model refinement, multiple-model refinement, and self-symmetry alignment. An efficient angular search, Graphic Processing Unit (GPU) acceleration and both threaded and distributed parallelism are provided to speed up processing. Finally, automated simulations, per particle reconstruction of subtiltseries, and per-particle Contrast Transfer Function (CTF) correction have been implemented. Processing examples using both real and simulated data are shown for several structures. PMID:25956334

  12. Multiplex single particle analysis in microfluidics.

    PubMed

    Dannhauser, D; Romeo, G; Causa, F; De Santo, I; Netti, P A

    2014-10-21

    A straightforward way to measure separated micrometric sized particles in microfluidic flow is reported. The light scattering profile (LSP) of each single particle is fully characterized by using a CMOS-camera based small angle light scattering (SALS) apparatus, ranging from 2° up to 30°. To ensure controlled particle passage through the incident laser, a viscoelastic 3D alignment effect by viscoelastic induced particle migration has been implemented in a simple and cost-effective microfluidic device. Different polystyrene particle sizes are measured in microfluidic flows and the obtained scattering signatures are matched with the Lorenz-Mie based scattering theory. The results confirm the possibility of using this apparatus for real multiplex particle analyses in microfluidic particle flows.

  13. Quantification of aerosol chemical composition using continuous single particle measurements

    NASA Astrophysics Data System (ADS)

    Jeong, C.-H.; McGuire, M. L.; Godri, K. J.; Slowik, J. G.; Rehbein, P. J. G.; Evans, G. J.

    2011-07-01

    Mass concentrations of sulphate, nitrate, ammonium, organic carbon (OC), elemental carbon (EC) were determined from real time single particle data in the size range 0.1-3.0 μm measured by an Aerosol Time-of-Flight Mass Spectrometer (ATOFMS) at urban and rural sites in Canada. To quantify chemical species within individual particles measured by an ATOFMS, ion peak intensity of m/z -97 for sulphate, -62 for nitrate, +18 for ammonium, +43 for OC, and +36 for EC were scaled using the number and size distribution data by an Aerodynamic Particle Sizer (APS) and a Fast Mobility Particle Sizer (FMPS). Hourly quantified chemical species from ATOFMS single-particle analysis were compared with collocated fine particulate matter (aerodynamic diameter < 2.5 μm, PM2.5) chemical composition measurements by an Aerosol Mass Spectrometer (AMS) at a rural site, a Gas-Particle Ion Chromatograph (GPIC) at an urban site, and a Sunset Lab field OCEC analyzer at both sites. The highest correlation was found for nitrate, with correlation coefficients (Pearson r) of 0.89 (ATOFMS vs. GPIC) and 0.85 (ATOFMS vs. AMS). ATOFMS mass calibration factors, determined for the urban site, were used to calculate mass concentrations of the major PM2.5 chemical components at the rural site near the US border in southern Ontario. Mass reconstruction using the ATOFMS mass calibration factors agreed very well with the PM2.5 mass concentrations measured by a Tapered Element Oscillating Microbalance (TEOM, r = 0.86) at the urban site and a light scattering monitor (DustTrak, r = 0.87) at the rural site. In the urban area nitrate was the largest contributor to PM2.5 mass in the winter, while organics and sulphate contributed ~64 % of the summer PM2.5 in the rural area, suggesting a strong influence of regional/trans-boundary pollution. The mass concentrations of five major species in ten size-resolved particle-types and aerosol acidity of each particle-type were determined for the rural site. On a mass basis

  14. Three-dimensional single particle tracking in dense dust clouds by stereoscopy of fluorescent particles

    SciTech Connect

    Himpel, Michael; Killer, Carsten; Buttenschoen, Birger; Melzer, Andre

    2012-12-15

    In dense dust clouds of a dusty plasma single particle trajectories are impossible to follow due to occlusion of particles and ambiguities in particle correspondences. By stereoscopic imaging of fluorescent tracer particles, we were able to reconstruct 3D single particle trajectories within dense dust clouds. Several measurements are shown that justify to regard the tracer particles as suitable representatives for the whole dust system. A first analysis of dust density waves in dense clouds already shows that these waves exhibit three-dimensional dynamics at larger wave amplitudes that cannot be resolved by 2D imaging techniques: a broad velocity distribution perpendicular to the oscillation plane due to dust-dust collisions is seen, while the velocity distribution in the oscillation direction is bimodal and shifted due to the bulk wave propagation.

  15. Plasmonic polymers unraveled through single particle spectroscopy.

    PubMed

    Slaughter, Liane S; Wang, Lin-Yung; Willingham, Britain A; Olson, Jana M; Swanglap, Pattanawit; Dominguez-Medina, Sergio; Link, Stephan

    2014-10-01

    Plasmonic polymers are quasi one-dimensional assemblies of nanoparticles whose optical responses are governed by near-field coupling of localized surface plasmons. Through single particle extinction spectroscopy correlated with electron microscopy, we reveal the effect of the composition of the repeat unit, the chain length, and extent of disorder on the energies, intensities, and line shapes of the collective resonances of individual plasmonic polymers constructed from three different sizes of gold nanoparticles. Our combined experimental and theoretical analysis focuses on the superradiant plasmon mode, which results from the most attractive interactions along the nanoparticle chain and yields the lowest energy resonance in the spectrum. This superradiant mode redshifts with increasing chain length until an infinite chain limit, where additional increases in chain length cause negligible change in the energy of the superradiant mode. We find that, among plasmonic polymers of equal width comprising nanoparticles with different sizes, the onset of the infinite chain limit and its associated energy are dictated by the number of repeat units and not the overall length of the polymer. The intensities and linewidths of the superradiant mode relative to higher energy resonances, however, differ as the size and number of nanoparticles are varied in the plasmonic polymers studied here. These findings provide general guidelines for engineering the energies, intensities, and line shapes of the collective optical response of plasmonic polymers constructed from nanoparticles with sizes ranging from a few tens to one hundred nanometers. PMID:25155111

  16. Single-particle stochastic heat engine.

    PubMed

    Rana, Shubhashis; Pal, P S; Saha, Arnab; Jayannavar, A M

    2014-10-01

    We have performed an extensive analysis of a single-particle stochastic heat engine constructed by manipulating a Brownian particle in a time-dependent harmonic potential. The cycle consists of two isothermal steps at different temperatures and two adiabatic steps similar to that of a Carnot engine. The engine shows qualitative differences in inertial and overdamped regimes. All the thermodynamic quantities, including efficiency, exhibit strong fluctuations in a time periodic steady state. The fluctuations of stochastic efficiency dominate over the mean values even in the quasistatic regime. Interestingly, our system acts as an engine provided the temperature difference between the two reservoirs is greater than a finite critical value which in turn depends on the cycle time and other system parameters. This is supported by our analytical results carried out in the quasistatic regime. Our system works more reliably as an engine for large cycle times. By studying various model systems, we observe that the operational characteristics are model dependent. Our results clearly rule out any universal relation between efficiency at maximum power and temperature of the baths. We have also verified fluctuation relations for heat engines in time periodic steady state.

  17. The domestication of Foucault

    PubMed Central

    Goddard, Roy

    2014-01-01

    Though Foucault was intrigued by the possibilities of radical social transformation, he resolutely resisted the idea that such transformation could escape the effects of power and expressed caution when it came to the question of revolution. In this article we argue that in one particularly influential line of development of Foucault’s work his exemplary caution has been exaggerated in a way that weakens the political aspirations of post-Foucaldian scholarship. The site of this reduction is a complex debate over the role of normativity in Foucaldian research, where it has been claimed that Foucault’s genealogical approach is unable to answer the question ‘Why fight?’ The terms of this debate (on the neo-Foucaldian side) are limited by a dominant though selective interpretation of Foucault’s analytics of power, where power is understood primarily in terms of government, rather than struggle. In response we suggest that if we reconfigure power-as-government to power-as-war, this adjusts the central concern. ‘Why fight?’ becomes replaced by the more immediate question, ‘How fight?’ Without denying the obvious benefits of cautious scholarly work, we argue that a reconfiguration of Foucault’s analytics of power might help Foucaldian research to transcend the self-imposed ethic of political quietism that currently dominates the field. PMID:26273130

  18. Plasmonic polymers unraveled through single particle spectroscopy

    NASA Astrophysics Data System (ADS)

    Slaughter, Liane S.; Wang, Lin-Yung; Willingham, Britain A.; Olson, Jana M.; Swanglap, Pattanawit; Dominguez-Medina, Sergio; Link, Stephan

    2014-09-01

    Plasmonic polymers are quasi one-dimensional assemblies of nanoparticles whose optical responses are governed by near-field coupling of localized surface plasmons. Through single particle extinction spectroscopy correlated with electron microscopy, we reveal the effect of the composition of the repeat unit, the chain length, and extent of disorder on the energies, intensities, and line shapes of the collective resonances of individual plasmonic polymers constructed from three different sizes of gold nanoparticles. Our combined experimental and theoretical analysis focuses on the superradiant plasmon mode, which results from the most attractive interactions along the nanoparticle chain and yields the lowest energy resonance in the spectrum. This superradiant mode redshifts with increasing chain length until an infinite chain limit, where additional increases in chain length cause negligible change in the energy of the superradiant mode. We find that, among plasmonic polymers of equal width comprising nanoparticles with different sizes, the onset of the infinite chain limit and its associated energy are dictated by the number of repeat units and not the overall length of the polymer. The intensities and linewidths of the superradiant mode relative to higher energy resonances, however, differ as the size and number of nanoparticles are varied in the plasmonic polymers studied here. These findings provide general guidelines for engineering the energies, intensities, and line shapes of the collective optical response of plasmonic polymers constructed from nanoparticles with sizes ranging from a few tens to one hundred nanometers.Plasmonic polymers are quasi one-dimensional assemblies of nanoparticles whose optical responses are governed by near-field coupling of localized surface plasmons. Through single particle extinction spectroscopy correlated with electron microscopy, we reveal the effect of the composition of the repeat unit, the chain length, and extent of

  19. Michel Foucault's Theory of Rhetoric as Epistemic.

    ERIC Educational Resources Information Center

    Foss, Sandra K.; Gill, Ann

    1987-01-01

    Formulates a middle-level theory that explains the process by which rhetroic is epistemic, using Foucault's notion of the discursive formation as a starting point. Discusses five theoretical units derived from Foucault--discursive practices, rules, roles, power, and knowledge--and relationships among them. Analyzes Disneyland, using Foucault's…

  20. Microprocessor-based single particle calibration of scintillation counter

    NASA Technical Reports Server (NTRS)

    Mazumdar, G. K. D.; Pathak, K. M.

    1985-01-01

    A microprocessor-base set-up is fabricated and tested for the single particle calibration of the plastic scintillator. The single particle response of the scintillator is digitized by an A/D converter, and a 8085 A based microprocessor stores the pulse heights. The digitized information is printed. Facilities for CRT display and cassette storing and recalling are also made available.

  1. Multipole operators in semileptonic weak and electromagnetic interactions with nuclei. II. General single-particle matrix elements

    SciTech Connect

    Donnelly, T.W.; Haxton, W.C.

    1980-01-01

    We extend our previous harmonic oscillator analysis to a treatment of general single-particle matrix elements of the multipole operators arising in studies of semileptonic weak and electromagnetic interactions with nuclei. Together with the earlier harmonic oscillator tables the present work will allow the reader to express these general matrix elements compactly in terms of specific radial integrals, which then usually must be evaluated numerically.

  2. Foucault's pendulum, a classical analog for the electron spin state

    NASA Astrophysics Data System (ADS)

    Linck, Rebecca A.

    Spin has long been regarded as a fundamentally quantum phenomena that is incapable of being described classically. To bridge the gap and show that aspects of spin's quantum nature can be described classically, this work uses a classical Lagrangian based on the coupled oscillations of Foucault's pendulum as an analog for the electron spin state in an external magnetic field. With this analog it is possible to demonstrate that Foucault's pendulum not only serves as a basis for explaining geometric phase, but is also a basis for reproducing a broad range of behavior from Zeeman-like frequency splitting to precession of the spin state. By demonstrating that unmeasured electron spin states can be fully described in classical terms, this research opens the door to using the tools of classical physics to examine an inherently quantum phenomenon.

  3. Atomic Bose-Hubbard Systems with Single-Particle Control

    NASA Astrophysics Data System (ADS)

    Preiss, Philipp Moritz

    Experiments with ultracold atoms in optical lattices provide outstanding opportunities to realize exotic quantum states due to a high degree of tunability and control. In this thesis, I present experiments that extend this control from global parameters to the level of individual particles. Using a quantum gas microscope for 87Rb, we have developed a single-site addressing scheme based on digital amplitude holograms. The system self-corrects for aberrations in the imaging setup and creates arbitrary beam profiles. We are thus able to shape optical potentials on the scale of single lattice sites and control the dynamics of individual atoms. We study the role of quantum statistics and interactions in the Bose-Hubbard model on the fundamental level of two particles. Bosonic quantum statistics are apparent in the Hong-Ou-Mandel interference of massive particles, which we observe in tailored double-well potentials. These underlying statistics, in combination with tunable repulsive interactions, dominate the dynamics in single- and two-particle quantum walks. We observe highly coherent position-space Bloch oscillations, bosonic bunching in Hanbury Brown-Twiss interference and the fermionization of strongly interacting bosons. Many-body states of indistinguishable quantum particles are characterized by large-scale spatial entanglement, which is difficult to detect in itinerant systems. Here, we extend the concept of Hong-Ou-Mandel interference from individual particles to many-body states to directly quantify entanglement entropy. We perform collective measurements on two copies of a quantum state and detect entanglement entropy through many-body interference. We measure the second order Renyi entropy in small Bose-Hubbard systems and detect the buildup of spatial entanglement across the superfluid-insulator transition. Our experiments open new opportunities for the single-particle-resolved preparation and characterization of many-body quantum states.

  4. Foucault's critique of psychiatric medicine.

    PubMed

    Dreyfus, H L

    1987-11-01

    From his earliest published work, Mental Illness and Personality (1954), to his last project, The History of Sexuality, Foucault was critical of the human sciences as a dubious and dangerous attempt to model a science of human beings on the natural sciences. He therefore preferred existential therapy, which did not attempt to give a causal account of human nature, but rather described the general structure of the human way of being and its possible distortions. Foucault focused his attack on psychiatry, which claimed to have an explanation of normal and abnormal functioning of the personality modeled on medicine. Freud typified for him this deep mistake which he traced first to the Kantian understanding of human beings as transcendental/empirical doubles which must think their own unthought, and then later to the gradually developing confessional practices which lead people in our culture to try unsuccessfully to put all their desires into words so as to conform to the norms of psychoanalysis which in turn are based on an account of sexuality as a cause of personality. Foucault proposed his genealogical account of how our culture arrived at this view of man as sexual being as a form of therapy which was to help us free ourselves from this restrictive self-interpretation.

  5. Foucault's Pendulum, Analog for an Electron Spin State

    NASA Astrophysics Data System (ADS)

    Linck, Rebecca

    2012-11-01

    The classical Lagrangian that describes the coupled oscillations of Foucault's pendulum presents an interesting analog to an electron's spin state in an external magnetic field. With a simple modification, this classical Lagrangian yields equations of motion that directly map onto the Schrodinger-Pauli Equation. This analog goes well beyond the geometric phase, reproducing a broad range of behavior from Zeeman-like frequency splitting to precession of the spin state. By demonstrating that unmeasured spin states can be fully described in classical terms, this research opens the door to using the tools of classical physics to examine an inherently quantum phenomenon.

  6. Foucault, Biopolitics and the Birth of Neoliberalism

    ERIC Educational Resources Information Center

    Peters, Michael A.

    2007-01-01

    In his governmentality studies in the late 1970s Foucault held a course at the College de France on the major forms of neoliberalism, examining the three theoretical schools of German ordoliberalism, the Austrian school characterized by Hayek, and American neoliberalism in the form of the Chicago school. Among Foucault's great insights in his work…

  7. The Foucault Pendulum as a Teaching Aid.

    ERIC Educational Resources Information Center

    Mattila, J. O.

    1991-01-01

    A technique that uses a three-meter Foucault pendulum and a laser to measure latitude is presented. A 40-meter Foucault pendulum located in Finland and the ways in which it is used are described. The technical details and the plans for a continuously driven laser pendulum are discussed. (KR)

  8. Leon Foucault: His Life, Times and Achievements

    ERIC Educational Resources Information Center

    Aczel, Amir D.

    2004-01-01

    Leon Foucault's dramatic demonstration of the rotation of the Earth using a freely-rotating pendulum in 1850 shocked the world of science. Scientists were stunned that such a simple proof of our planet's rotation had to wait so long to be developed. Foucault's public demonstration, which was repeated at many locations around the world, put an end…

  9. Extinction and the optical theorem. Part I. Single particles.

    PubMed

    Berg, Matthew J; Sorensen, Christopher M; Chakrabarti, Amitabha

    2008-07-01

    We study the extinction caused by a single particle and present a conceptual phase-based explanation for the related optical theorem. Simulations of the energy flow caused by a particle's presence in a collimated beam of light demonstrate how the extinction process occurs. It is shown that extinction does not necessarily cause a reduction of the energy flow along the exact forward direction. Implications regarding the measurement of the single-particle extinction cross section are discussed. This work is extended to noninteracting and interacting multiparticle groups in Part II [J. Opt. Soc. Am. A25, pp. 1514 (2008)].

  10. Single particle density of trapped interacting quantum gases

    SciTech Connect

    Bala, Renu; Bosse, J.; Pathak, K. N.

    2015-05-15

    An expression for single particle density for trapped interacting gases has been obtained in first order of interaction using Green’s function method. Results are easily simplified for homogeneous quantum gases and are found to agree with famous results obtained by Huang-Yang-Luttinger and Lee-Yang.

  11. Calibration of single particle sizing velocimeters using photomask reticles

    NASA Technical Reports Server (NTRS)

    Hirleman, E. D.; Holve, D. J.; Hovenac, E. A.

    1988-01-01

    The development of photomask reticle calibration standards for single particle instruments is discussed. The calibration method studied involves the use of photomask reticles where the particle artifacts are actually disks of chrome thin film in the clear field reticles produced by photolithography and etching processes. Consideration is given to various aspects of theory, design, and performance.

  12. Single-particle spectroscopic factors for spherical nuclei

    SciTech Connect

    Gnezdilov, N. V.; Saperstein, E. E. Tolokonnikov, S. V.

    2015-01-15

    Within the self-consistent theory of finite Fermi systems, the total single-particle spectroscopic factors for seven doubly magic nuclei of {sup 40}Ca, {sup 48}Ca, {sup 56}Ni, {sup 78}Ni, {sup 100}Sn, {sup 132}Sn, and {sup 208}Pb and for the {sup 188–212}Pb chain of semimagic even lead isotopes are calculated by the energy-density-functional method implemented with a functional in the form proposed by Fayans and his coauthors. The spectroscopic factor is expressed in terms of the Z factor, which is the residue of the single-particle Green’s function at the single-particle pole. The total Z factor calculated in the present study involves both effects of coupling to phonons and the volume Z factor, which is due to the fact that the mass operator features an energy dependence not associated with surface phonons. The volume Z factor is on the same order of magnitude as the phonon-coupling contribution. The volume effect depends only slightly on the nuclear species and on the single-particle state λ. On the contrary, the phonon contribution to the total spectroscopic factor changes upon going over from one state to another and from one nuclear species to another.

  13. Integrating High Temporal Resolution Single Particle Data with Atmospheric Models

    NASA Astrophysics Data System (ADS)

    Prather, K. A.; Guazzotti, S.; Sodeman, D.; Holecek, J.; Carmichael, G. R.; Tang, Y.

    2003-12-01

    Single particle analysis can provide direct insight into the evolution of the mixing state of atmospheric particles. Information at this level can be used to gain insights into particle sources as well as atmospheric processing. There are a number of instruments which have been developed in the past decade which allow one to measure the size and chemical composition of individual particles in real time. This presentation will focus on aerosol time-of-flight mass spectrometry (ATOFMS) measurements made during ACE-Asia and other locations in the United States, focusing on the size-resolved chemical information that can be acquired with single particle mass spectrometers. The ability to use single particle signatures to distinguish between elemental carbon (EC), organic carbon (OC), and various mixtures will be demonstrated. Results will be presented showing how unique mass spectral markers can be used to discriminate between dust, sea salt, fossil fuel, and biomass particles, monitoring their relative contributions and changes in chemistry on short timescales. A discussion of how single particle measurements might be used to refine current atmospheric models by adding unique information will be presented.

  14. Single Particle Orientation and Rotational Tracking (SPORT) in biopysical studies

    SciTech Connect

    Gu, Yan; Ha, Ji Won; Augspurger, Ashley E.; Chen, Kuangcai; Zhu, Shaobin; Fang, Ning

    2013-08-02

    The single particle orientation and rotational tracking (SPORT) techniques have seen rapid development in the past 5 years. Recent technical advances have greatly expanded the applicability of SPORT in biophysical studies. In this feature article, we survey the current development of SPORT and discuss its potential applications in biophysics, including cellular membrane processes and intracellular transport.

  15. Foucault and the politics of our selves.

    PubMed

    Allen, Amy

    2011-01-01

    Exploring the apparent tension between Foucault's analyses of technologies of domination -- the ways in which the subject is constituted by power-knowledge relations -- and of technologies of the self -- the ways in which individuals constitute themselves through practices of freedom -- this article endeavors to make two points: first, the interpretive claim that Foucault's own attempts to analyse both aspects of the politics of our selves are neither contradictory nor incoherent; and second, the constructive claim that Foucault's analysis of the politics of our selves, though not entirely satisfactory as it stands, provides important resources for the project of critical social theory.

  16. A Short Foucault Pendulum for Corridor Display.

    ERIC Educational Resources Information Center

    Leonard, Byron E.

    1981-01-01

    Describes the construction and operation of a short Foucault pendulum, which indicates earth's rotation with less than 2 percent error. The pendulum is suitable for display either in a classroom or hallway. (SK)

  17. Single particle electrochemical sensors and methods of utilization

    DOEpatents

    Schoeniger, Joseph; Flounders, Albert W.; Hughes, Robert C.; Ricco, Antonio J.; Wally, Karl; Kravitz, Stanley H.; Janek, Richard P.

    2006-04-04

    The present invention discloses an electrochemical device for detecting single particles, and methods for using such a device to achieve high sensitivity for detecting particles such as bacteria, viruses, aggregates, immuno-complexes, molecules, or ionic species. The device provides for affinity-based electrochemical detection of particles with single-particle sensitivity. The disclosed device and methods are based on microelectrodes with surface-attached, affinity ligands (e.g., antibodies, combinatorial peptides, glycolipids) that bind selectively to some target particle species. The electrodes electrolyze chemical species present in the particle-containing solution, and particle interaction with a sensor element modulates its electrolytic activity. The devices may be used individually, employed as sensors, used in arrays for a single specific type of particle or for a range of particle types, or configured into arrays of sensors having both these attributes.

  18. High resolution single particle refinement in EMAN2.1.

    PubMed

    Bell, James M; Chen, Muyuan; Baldwin, Philip R; Ludtke, Steven J

    2016-05-01

    EMAN2.1 is a complete image processing suite for quantitative analysis of grayscale images, with a primary focus on transmission electron microscopy, with complete workflows for performing high resolution single particle reconstruction, 2-D and 3-D heterogeneity analysis, random conical tilt reconstruction and subtomogram averaging, among other tasks. In this manuscript we provide the first detailed description of the high resolution single particle analysis pipeline and the philosophy behind its approach to the reconstruction problem. High resolution refinement is a fully automated process, and involves an advanced set of heuristics to select optimal algorithms for each specific refinement task. A gold standard FSC is produced automatically as part of refinement, providing a robust resolution estimate for the final map, and this is used to optimally filter the final CTF phase and amplitude corrected structure. Additional methods are in-place to reduce model bias during refinement, and to permit cross-validation using other computational methods.

  19. High resolution single particle refinement in EMAN2.1.

    PubMed

    Bell, James M; Chen, Muyuan; Baldwin, Philip R; Ludtke, Steven J

    2016-05-01

    EMAN2.1 is a complete image processing suite for quantitative analysis of grayscale images, with a primary focus on transmission electron microscopy, with complete workflows for performing high resolution single particle reconstruction, 2-D and 3-D heterogeneity analysis, random conical tilt reconstruction and subtomogram averaging, among other tasks. In this manuscript we provide the first detailed description of the high resolution single particle analysis pipeline and the philosophy behind its approach to the reconstruction problem. High resolution refinement is a fully automated process, and involves an advanced set of heuristics to select optimal algorithms for each specific refinement task. A gold standard FSC is produced automatically as part of refinement, providing a robust resolution estimate for the final map, and this is used to optimally filter the final CTF phase and amplitude corrected structure. Additional methods are in-place to reduce model bias during refinement, and to permit cross-validation using other computational methods. PMID:26931650

  20. Single Particle Orientation and Rotational Tracking (SPORT) in biophysical studies

    NASA Astrophysics Data System (ADS)

    Gu, Yan; Ha, Ji Won; Augspurger, Ashley E.; Chen, Kuangcai; Zhu, Shaobin; Fang, Ning

    2013-10-01

    The single particle orientation and rotational tracking (SPORT) techniques have seen rapid development in the past 5 years. Recent technical advances have greatly expanded the applicability of SPORT in biophysical studies. In this feature article, we survey the current development of SPORT and discuss its potential applications in biophysics, including cellular membrane processes and intracellular transport.The single particle orientation and rotational tracking (SPORT) techniques have seen rapid development in the past 5 years. Recent technical advances have greatly expanded the applicability of SPORT in biophysical studies. In this feature article, we survey the current development of SPORT and discuss its potential applications in biophysics, including cellular membrane processes and intracellular transport. Electronic supplementary information (ESI) available: Three supplementary movies and an experimental section. See DOI: 10.1039/c3nr02254d

  1. Single-particle cryo-electron microscopy of macromolecular complexes.

    PubMed

    Skiniotis, Georgios; Southworth, Daniel R

    2016-02-01

    Recent technological breakthroughs in image acquisition have enabled single-particle cryo-electron microscopy (cryo-EM) to achieve near-atomic resolution structural information for biological complexes. The improvements in image quality coupled with powerful computational methods for sorting distinct particle populations now also allow the determination of compositional and conformational ensembles, thereby providing key insights into macromolecular function. However, the inherent instability and dynamic nature of biological assemblies remain a tremendous challenge that often requires tailored approaches for successful implementation of the methodology. Here, we briefly describe the fundamentals of single-particle cryo-EM with an emphasis on covering the breadth of techniques and approaches, including low- and high-resolution methods, aiming to illustrate specific steps that are crucial for obtaining structural information by this method.

  2. Stereoscopy of dust density waves under microgravity: Velocity distributions and phase-resolved single-particle analysis

    SciTech Connect

    Himpel, Michael Killer, Carsten; Melzer, André; Bockwoldt, Tim; Piel, Alexander; Ole Menzel, Kristoffer

    2014-03-15

    Experiments on dust-density waves have been performed in dusty plasmas under the microgravity conditions of parabolic flights. Three-dimensional measurements of a dust density wave on a single particle level are presented. The dust particles have been tracked for many oscillation periods. A Hilbert analysis is applied to obtain trajectory parameters such as oscillation amplitude and three-dimensional velocity amplitude. While the transverse motion is found to be thermal, the velocity distribution in wave propagation direction can be explained by harmonic oscillations with added Gaussian (thermal) noise. Additionally, it is shown that the wave properties can be reconstructed by means of a pseudo-stroboscopic approach. Finally, the energy dissipation mechanism from the kinetic oscillation energy to thermal motion is discussed and presented using phase-resolved analysis.

  3. Spin resonance strength calculation through single particle tracking for RHIC

    SciTech Connect

    Luo, Y.; Dutheil, Y.; Huang, H.; Meot, F.; Ranjbar, V.

    2015-05-03

    The strengths of spin resonances for the polarized-proton operation in the Relativistic Heavy Ion Collider are currently calculated with the code DEPOL, which numerically integrates through the ring based on an analytical approximate formula. In this article, we test a new way to calculate the spin resonance strengths by performing Fourier transformation to the actual transverse magnetic fields seen by a single particle traveling through the ring. Comparison of calculated spin resonance strengths is made between this method and DEPOL.

  4. Generalized single-particle cryo-EM--a historical perspective.

    PubMed

    Frank, Joachim

    2016-02-01

    This is a brief account of the earlier history of single-particle cryo-EM of biological molecules lacking internal symmetry, which goes back to the mid-seventies. The emphasis of this review is on the mathematical concepts and computational approaches. It is written as the field experiences a turning point in the wake of the introduction of digital cameras capable of single electron counting, and near-atomic resolution can be reached even for smaller molecules. PMID:26566976

  5. Exploring dynamics in living cells by tracking single particles.

    PubMed

    Levi, Valeria; Gratton, Enrico

    2007-01-01

    In the last years, significant advances in microscopy techniques and the introduction of a novel technology to label living cells with genetically encoded fluorescent proteins revolutionized the field of Cell Biology. Our understanding on cell dynamics built from snapshots on fixed specimens has evolved thanks to our actual capability to monitor in real time the evolution of processes in living cells. Among these new tools, single particle tracking techniques were developed to observe and follow individual particles. Hence, we are starting to unravel the mechanisms driving the motion of a wide variety of cellular components ranging from organelles to protein molecules by following their way through the cell. In this review, we introduce the single particle tracking technology to new users. We briefly describe the instrumentation and explain some of the algorithms commonly used to locate and track particles. Also, we present some common tools used to analyze trajectories and illustrate with some examples the applications of single particle tracking to study dynamics in living cells. PMID:17703064

  6. Interplay between plasmon and single-particle excitations in a metal nanocluster.

    PubMed

    Ma, Jie; Wang, Zhi; Wang, Lin-Wang

    2015-01-01

    Plasmon-generated hot carriers are used in photovoltaic or photochemical applications. However, the interplays between the plasmon and single-particle excitations in nanosystems have not been theoretically addressed using ab initio methods. Here we show such interplays in a Ag55 nanocluster using real-time time-dependent density functional theory simulations. We find that the disappearance of the zero-frequency peak in the Fourier transform of the band-to-band transition coefficient is a hallmark of the plasmon. We show the importance of the d-states for hot-carrier generations. If the single-particle d-to-s excitations are resonant to the plasmon frequency, the majority of the plasmon energy will be converted into hot carriers, and the overall hot-carrier generation is enhanced by the plasmon; if such resonance does not exist, we observe an intriguing Rabi oscillation between the plasmon and hot carriers. Phonons play a minor role in plasmonic dynamics in such small systems. This study provides guidance on improving plasmonic applications. PMID:26673449

  7. Interplay between plasmon and single-particle excitations in a metal nanocluster.

    PubMed

    Ma, Jie; Wang, Zhi; Wang, Lin-Wang

    2015-12-17

    Plasmon-generated hot carriers are used in photovoltaic or photochemical applications. However, the interplays between the plasmon and single-particle excitations in nanosystems have not been theoretically addressed using ab initio methods. Here we show such interplays in a Ag55 nanocluster using real-time time-dependent density functional theory simulations. We find that the disappearance of the zero-frequency peak in the Fourier transform of the band-to-band transition coefficient is a hallmark of the plasmon. We show the importance of the d-states for hot-carrier generations. If the single-particle d-to-s excitations are resonant to the plasmon frequency, the majority of the plasmon energy will be converted into hot carriers, and the overall hot-carrier generation is enhanced by the plasmon; if such resonance does not exist, we observe an intriguing Rabi oscillation between the plasmon and hot carriers. Phonons play a minor role in plasmonic dynamics in such small systems. This study provides guidance on improving plasmonic applications.

  8. Interplay between plasmon and single-particle excitations in a metal nanocluster

    PubMed Central

    Ma, Jie; Wang, Zhi; Wang, Lin-Wang

    2015-01-01

    Plasmon-generated hot carriers are used in photovoltaic or photochemical applications. However, the interplays between the plasmon and single-particle excitations in nanosystems have not been theoretically addressed using ab initio methods. Here we show such interplays in a Ag55 nanocluster using real-time time-dependent density functional theory simulations. We find that the disappearance of the zero-frequency peak in the Fourier transform of the band-to-band transition coefficient is a hallmark of the plasmon. We show the importance of the d-states for hot-carrier generations. If the single-particle d-to-s excitations are resonant to the plasmon frequency, the majority of the plasmon energy will be converted into hot carriers, and the overall hot-carrier generation is enhanced by the plasmon; if such resonance does not exist, we observe an intriguing Rabi oscillation between the plasmon and hot carriers. Phonons play a minor role in plasmonic dynamics in such small systems. This study provides guidance on improving plasmonic applications. PMID:26673449

  9. Interplay between plasmon and single-particle excitations in a metal nanocluster

    SciTech Connect

    Ma, Jie; Wang, Zhi; Wang, Lin-Wang

    2015-12-17

    Plasmon-generated hot carriers are used in photovoltaic or photochemical applications. However, the interplays between the plasmon and single-particle excitations in nanosystems have not been theoretically addressed using ab initio methods. Here we show such interplays in a Ag55 nanocluster using real-time time-dependent density functional theory simulations. We find that the disappearance of the zero-frequency peak in the Fourier transform of the band-to-band transition coefficient is a hallmark of the plasmon. We show the importance of the d-states for hot-carrier generations. If the single-particle d-to-s excitations are resonant to the plasmon frequency, the majority of the plasmon energy will be converted into hot carriers, and the overall hot-carrier generation is enhanced by the plasmon; if such resonance does not exist, we observe an intriguing Rabi oscillation between the plasmon and hot carriers. Phonons play a minor role in plasmonic dynamics in such small systems. Ultimately, this study provides guidance on improving plasmonic applications.

  10. Interplay between plasmon and single-particle excitations in a metal nanocluster

    DOE PAGES

    Ma, Jie; Wang, Zhi; Wang, Lin-Wang

    2015-12-17

    Plasmon-generated hot carriers are used in photovoltaic or photochemical applications. However, the interplays between the plasmon and single-particle excitations in nanosystems have not been theoretically addressed using ab initio methods. Here we show such interplays in a Ag55 nanocluster using real-time time-dependent density functional theory simulations. We find that the disappearance of the zero-frequency peak in the Fourier transform of the band-to-band transition coefficient is a hallmark of the plasmon. We show the importance of the d-states for hot-carrier generations. If the single-particle d-to-s excitations are resonant to the plasmon frequency, the majority of the plasmon energy will be convertedmore » into hot carriers, and the overall hot-carrier generation is enhanced by the plasmon; if such resonance does not exist, we observe an intriguing Rabi oscillation between the plasmon and hot carriers. Phonons play a minor role in plasmonic dynamics in such small systems. Ultimately, this study provides guidance on improving plasmonic applications.« less

  11. Foucault on methadone: beyond biopower.

    PubMed

    Keane, Helen

    2009-09-01

    This essay reviews four texts which critically analyse methadone maintenance therapy using Foucault as a key theoretical framework: [Friedman, J., & Alicea, M. (2001). Surviving heroin: Interviews with women in methadone clinics. Florida: University Press of Florida], [Bourgois, P. (2000). Disciplining addictions: The bio-politics of methadone and heroin in the United States. Culture Medicine and Psychiatry, 24, 165-195], [Bull, M. (2008). Governing the heroin trade: From treaties to treatment. Ashgate: Aldershot], and [Fraser, S., & valentine, k. (2008). Substance & substitution: Methadone subjects in liberal societies. New York: Palgrave Macmillan]. Taken together these works demonstrate one trajectory in the development of critical drug studies over the past decade. While all four view MMT as a regulatory technology which aims to create productive and obedient subjects, their understandings of the power relations of the clinic are quite distinct. The first two texts emphasise the social control of drug users, the third, issues of governmentality and liberal political practice, while the fourth engages with ontological questions about substances themselves. Thus while Foucauldian analysis has become familiar in social studies of drugs and alcohol, new uses for its conceptual tools continue to emerge.

  12. Nature of single-particle states in disordered graphene

    NASA Astrophysics Data System (ADS)

    Nag, Sabyasachi; Garg, Arti; Ramakrishnan, T. V.

    2016-06-01

    We analyze the nature of the single-particle states, away from the Dirac point in the presence of long-range charge impurities in a tight-binding model for electrons on a two-dimensional honeycomb lattice which is of direct relevance for graphene. For a disorder potential V (r ⃗) =V0exp(-| r ⃗-r⃗imp|2/ξ2) , we demonstrate that not only the Dirac state but all the single-particle states remain extended for weak-enough disorder. Based on our numerical calculations of inverse participation ratio, dc conductivity, diffusion coefficient, and the localization length from time evolution dynamics of the wave packet, we show that the threshold Vth required to localize a single-particle state of energy E (k ⃗) is minimum for the states near the band edge and is maximum for states near the band center, implying a mobility edge starting from the band edge for weak disorder and moving towards the band center as the disorder strength increases. This can be explained in terms of the low-energy Hamiltonian at any point k ⃗ which has the same nature as that at the Dirac point. From the nature of the eigenfunctions, it follows that a weak long-range impurity will cause weak antilocalization effects, which can be suppressed, giving localization if the strength of impurities is sufficiently large to cause intervalley scattering. The intervalley spacing 2 | k ⃗| increases as one moves in from the band edge towards the band center, which is reflected in the behavior of Vth and the mobility edge.

  13. Dirac single particle and plasmon excitations in topological insulators

    NASA Astrophysics Data System (ADS)

    Lupi, Stefano

    Topological Insulators (TIs), like Bi2Se3 and Bi2Te3, are one of the most intriguing issues at focus in Condensed Matter Physics. TIs exhibit a band gap in the bulk like ordinary insulators, but have intrinsic 2D conducting states on their edge and surface. This means that the topology, associated with the electronic wavefunctions of the system, changes discontinuously when passing from the bulk to the surface. The edge states arise from a strong spin-orbit coupling, and they are backscattering protected, i.e. not sensitive to disorder (except that coming from magnetic impurities). Such as graphene, TIs surface charge transport is carried out by Dirac fermions, with a very high surface carrier density (n >= 1013 cm-2) , compared to typical values on metal surfaces. Apart single particle excitations, Dirac fermions in TIs sustain exotic plasmonic (collective) modes whose properties of tunability and temperature dependence can be used for photonics applications at the nanoscale. Moreover, unlike plasmons in metals, Dirac plasmons in TIs are expected to be strongly affected by an external magnetic field B due to fact that the cyclotron frequency is comparable to the the plasmon frequency, in particular when plasmons are engineered in the terahertz region of the electromagnetic spectrum. In this talk, after a general review on the properties of Topological Insulators, I will discuss the terahertz linear response of Dirac plasmons in TIs and their behavior under a strong magnetic field up to 30 T. The appearance of strong non-linear optical effects, when the THz electric field reaches values on the order of 1 MV/cm, will be also discussed. In the second part of the talk, I will discuss the sub-ps dynamics of Dirac single-particle and collective excitations as measured by optical-pump THz-probe experiments. Both the steady state and time-resolved experiments provide a unifying picture of single particle and collective electronic excitations in Topological Insulators.

  14. Relativistic symmetries in nuclear single-particle spectra

    NASA Astrophysics Data System (ADS)

    Guo, Jian-You; Liang, Hao Zhao; Meng, Jie; Zhou, Shan-Gui

    Symmetry is a fundamental concept in quantum physics. The quasi-degeneracy between single-particle orbitals (n, l, j = l + 1/2) and (n -1, l + 2, j = l + 3/2) indicates a hidden symmetry in atomic nuclei, the so-called pseudospin symmetry. Since the pseudospin symmetry was recognized as a relativistic symmetry in 1990s, many special features, including the spin symmetry for anti-nucleons, and many new concepts have been introduced. In this Chapter, we will illustrate the schematic picture of spin and pseudospin symmetries, derive the basic formalism, highlight the recent progress from several different aspects, and discuss selected open issues in this topic.

  15. Dosimetric Analyses of Single Particle Microbeam in Cell Irradiation Experiment

    NASA Astrophysics Data System (ADS)

    Xu, Yong Jian; Jiang, Jiang; Chen, Lianyun; Zhan, Furu; Yu, Zengliang

    2008-12-01

    Single particle microbeam (SPM) is uniquely capable of delivering precisely the predefined number of charged particles to determined individual cells or sub-cellular targets in situ. It has been recognized as a powerful technique for unveiling ionization irradiation mechanisms of organism. This article describes some investigations on the irradiation quality of SPM of major world laboratories by means of Monte Carlo method based on dosimetry and microdosimetry. Those parameters are helpful not only to improve SPM irradiating cell experiments but also to study the biological effects of cells irradiated by SPM.

  16. Calculation of inclusive probabilities from single-particle amplitudes

    NASA Astrophysics Data System (ADS)

    Kürpick, Peter; Lüdde, Hans Jürgen

    1993-04-01

    On the basis of the independent particle model, used to describe collisions between ions and atoms involving many electrons, the formalism of inclusive probabilities allows the computation of many-electron transition probabilities from single-particle amplitudes. The method presented can answer practically any experimental question formulated in terms of a certain number of vacancies and occupancies as can be measured in a typical ion-atom collision experiment. It is specialised to calculate many-particle probabilities with respect to a minimum number of vacancies or occupancies in one or more subshells as obtained e.g. in KLL- or KLM-Auger spectra.

  17. Single-particle cryo-EM at crystallographic resolution

    PubMed Central

    Cheng, Yifan

    2015-01-01

    Until only a few years ago, single-particle electron cryo-microscopy (cryo-EM) was usually not the first choice for many structural biologists due to its limited resolution in the range of nanometer to subnanometer. Now, this method rivals X-ray crystallography in terms of resolution and can be used to determine atomic structures of macromolecules that are either refractory to crystallization or difficult to crystallize in specific functional states. In this review, I discuss the recent breakthroughs in both hardware and software that transformed cryo-microscopy, enabling understanding of complex biomolecules and their functions at atomic level. PMID:25910205

  18. Tracking single particle rotation: Probing dynamics in four dimensions

    DOE PAGES

    Anthony, Stephen Michael; Yu, Yan

    2015-04-29

    Direct visualization and tracking of small particles at high spatial and temporal resolution provides a powerful approach to probing complex dynamics and interactions in chemical and biological processes. Analysis of the rotational dynamics of particles adds a new dimension of information that is otherwise impossible to obtain with conventional 3-D particle tracking. In this review, we survey recent advances in single-particle rotational tracking, with highlights on the rotational tracking of optically anisotropic Janus particles. Furthermore, strengths and weaknesses of the various particle tracking methods, and their applications are discussed.

  19. Foucault and Marxism: Rewriting the Theory of Historical Materialism

    ERIC Educational Resources Information Center

    Olssen, Mark

    2004-01-01

    This article explores the relationship of Foucault to Marxism. Although he was often critical of Marxism, Foucault's own approach bears striking parallels to Marxism, as a form of method, as an account of history, and as an analysis of social structure. Like Marxism, Foucault represents social practices as transitory and all knowledge and…

  20. "Finding Foucault": Orders of Discourse and Cultures of the Self

    ERIC Educational Resources Information Center

    Besley, A. C.

    2015-01-01

    The idea of finding Foucault first looks at the many influences on Foucault, including his Nietzschean acclamations. It examines Foucault's critical history of thought, his work on the orders of discourse with his emphasis on being a pluralist: the problem he says that he has set himself is that of the individualization of discourses. Finally, it…

  1. Foucault's strategy: knowledge, power, and the specificity of truth.

    PubMed

    Rawlinson, M C

    1987-11-01

    This paper investigates the exemplarity of medicine in Foucault's analyses of knowledge generally. By tracing the development of his concept of power and its relation to knowledge, it offers an account of Foucault's unconventional philosophical project. Finally, it specifies Foucault's strategy for undermining processes of normalisation.

  2. Two-photon single particle tracking in 3D

    NASA Astrophysics Data System (ADS)

    So, Peter T. C.; Ragan, Timothy; Gratton, Enrico; Carerro, Jenny; Voss, Edward

    1997-05-01

    Transport processes are important in biology and medicine. Examples include virus docking and infection, endocytosis of extracellular protein and phagocytosis of antigenic material. Trafficking driven by molecular motors inside a complex 3D environment is a shared common theme. The complex sequence of these events are difficult to resolve with conventional techniques where the action of many cells are asynchronously averaged. Single particle tracking (SPT) was developed by Ghosh and Webb to address this problem and has proven to be a powerful technique in understanding membrane- protein interaction. Since the traditional SPT method uses wide field illumination and area detectors, it is limited to the study of 2D systems. In this presentation, we report the development of a 3D single particle tracking technique using two-photon excitation. Using a real-time feedback system, we can dynamically position the sub-femtoliter two-photon excitation volume to follow the fluorescent particle under transport by maximizing the detected fluorescent intensity. Further, fluorescence spectroscopy can be performed in real time along the particle trajectory to monitor the underlying biochemical signals driving this transport process. The first application of this instrument will focus on the study of antigen endocytosis process of macrophages.

  3. Performance of single particle fritted capillary columns in electrochromatography.

    PubMed

    Zhang, Bo; Liu, Qing; Yang, Lijun; Wang, Qiuquan

    2013-01-11

    Development of capillary electrochromatography (CEC) largely depends on column technology. The past ten years or so have seen a great number of CEC works performed on monolithic columns, due to simplicity and robustness in column fabrication. Monolithic columns eliminate the issue of column fritting, which conventionally made particle-packed capillary columns fragile and introduced nonuniformity to the chromatographic bed. The particulate packing material, however, is still a popular type of stationary phase widely used in CEC, as the rich library of HPLC packing material provides a wide range of choices for chromatographic separations performed in electrodriven mode. In this study, we investigated a purely physical fritting method, single particle fritting technology, to immobilize particulate chromatographic material inside capillary tube in a sinter-free manner to produce robust capillary columns. Single particle fritted columns present significantly improved column-to-column reproducibility (n=10) in peak efficiency, retention factor, peak area and asymmetry (%RSD=5.4, 7.7, 6.2 and 6.1, respectively, at 26 kV), enabling their practical application in high throughput parallel analysis using multiple columns.

  4. Towards single particle imaging of human chromosomes at SACLA

    NASA Astrophysics Data System (ADS)

    Robinson, Ian; Schwenke, Joerg; Yusuf, Mohammed; Estandarte, Ana; Zhang, Fucai; Chen, Bo; Clark, Jesse; Song, Changyong; Nam, Daewoong; Joti, Yasumasa; Tono, Kensuke; Yabashi, Makina; Ratnasari, Gina; Kaneyoshi, Kohei; Takata, Hideaki; Fukui, Kiichi

    2015-12-01

    Single particle imaging (SPI) is one of the front-page opportunities which were used to motivate the construction of the first x-ray free electron lasers (XFELs). SPI’s big advantage is that it avoids radiation damage to biological samples because the diffraction takes place in femtosecond single shots before any atomic motion can take place in the sample, hence before the onset of radiation damage. This is the ‘diffract before destruction’ theme, destruction being assured from the high x-ray doses used. This article reports our collaboration’s first attempt at SPI using the SACLA XFEL facility in June 2015. The report is limited to experience with the instrumentation and examples of data because we have not yet had time to invert them to images.

  5. Horizontal deflection of single particle in a paramagnetic fluid.

    PubMed

    Liu, S; Yi, Xiang; Leaper, M; Miles, N J

    2014-06-01

    This paper describes the horizontal deflection behaviour of a single particle in paramagnetic fluids under a high-gradient superconducting magnetic field. A glass box was designed to carry out experiments and test assumptions. It was found that the particles were deflected away from the magnet bore centre and particles with different density and/or susceptibility settled at a certain position on the container floor due to the combined forces of gravity and magneto-Archimedes as well as lateral buoyant (displacement) force. Matlab was chosen to simulate the movement of the particle in the magnetic fluid, the simulation results were in good accordance with experimental data. The results presented here, though, are still very much in their infancy, which could potentially form the basis of a new approach to separating materials based on a combination of density and susceptibility. PMID:24894886

  6. Entanglement polytopes: multiparticle entanglement from single-particle information.

    PubMed

    Walter, Michael; Doran, Brent; Gross, David; Christandl, Matthias

    2013-06-01

    Entangled many-body states are an essential resource for quantum computing and interferometry. Determining the type of entanglement present in a system usually requires access to an exponential number of parameters. We show that in the case of pure, multiparticle quantum states, features of the global entanglement can already be extracted from local information alone. This is achieved by associating any given class of entanglement with an entanglement polytope-a geometric object that characterizes the single-particle states compatible with that class. Our results, applicable to systems of arbitrary size and statistics, give rise to local witnesses for global pure-state entanglement and can be generalized to states affected by low levels of noise.

  7. Sample Targeting During Single-Particle Single-Cell Irradiation

    NASA Astrophysics Data System (ADS)

    Bigelow, A. W.; Randers-Pehrson, G.; Michel, K. A.; Brenner, D. J.; Dymnikov, A. D.

    2003-08-01

    An apertured microbeam is used for single-particle single-cell irradiation to study radiobiological effects at the Radiological Research Accelerator Facility (RARAF), Center for Radiological Research, Columbia University. The present sample targeting system involves imaging techniques and a stepping motor stage to sequentially position a cell nucleus above a vertical ion beam. An interest expressed by the biology research community in targeting subnuclear components has spurred the development of microbeam II, a next-generation facility to include a focused ion beam and a more precise sample manipulator, a voice coil stage. Sample positioning precision will rely on a feedback circuit incorporating linear variable differential transformer (LVDT) position measurements. In addition, post-lens electrostatic deflection is a contender for a point-and-shoot system that could speed up the cell irradiation process for cells within an image frame. Crucial to this development is that ion beam blow up must be minimal during deflection.

  8. Sample Targeting During Single-Particle Single-Cell Irradiation

    SciTech Connect

    Bigelow, A.W.; Randers-Pehrson, G.; Michel, K.A.; Brenner, D.J.; Dymnikov, A.D.

    2003-08-26

    An apertured microbeam is used for single-particle single-cell irradiation to study radiobiological effects at the Radiological Research Accelerator Facility (RARAF), Center for Radiological Research, Columbia University. The present sample targeting system involves imaging techniques and a stepping motor stage to sequentially position a cell nucleus above a vertical ion beam. An interest expressed by the biology research community in targeting subnuclear components has spurred the development of microbeam II, a next-generation facility to include a focused ion beam and a more precise sample manipulator, a voice coil stage. Sample positioning precision will rely on a feedback circuit incorporating linear variable differential transformer (LVDT) position measurements. In addition, post-lens electrostatic deflection is a contender for a point-and-shoot system that could speed up the cell irradiation process for cells within an image frame. Crucial to this development is that ion beam blow up must be minimal during deflection.

  9. Approaching the Heisenberg Limit without Single-Particle Detection.

    PubMed

    Davis, Emily; Bentsen, Gregory; Schleier-Smith, Monika

    2016-02-01

    We propose an approach to quantum phase estimation that can attain precision near the Heisenberg limit without requiring single-particle-resolved state detection. We show that the "one-axis twisting" interaction, well known for generating spin squeezing in atomic ensembles, can also amplify the output signal of an entanglement-enhanced interferometer to facilitate readout. Applying this interaction-based readout to oversqueezed, non-Gaussian states yields a Heisenberg scaling in phase sensitivity, which persists in the presence of detection noise as large as the quantum projection noise of an unentangled ensemble. Even in dissipative implementations-e.g., employing light-mediated interactions in an optical cavity or Rydberg dressing-the method significantly relaxes the detection resolution required for spectroscopy beyond the standard quantum limit. PMID:26894711

  10. Cryogenic electron microscopy and single-particle analysis.

    PubMed

    Elmlund, Dominika; Elmlund, Hans

    2015-01-01

    About 20 years ago, the first three-dimensional (3D) reconstructions at subnanometer (<10-Å) resolution of an icosahedral virus assembly were obtained by cryogenic electron microscopy (cryo-EM) and single-particle analysis. Since then, thousands of structures have been determined to resolutions ranging from 30 Å to near atomic (<4 Å). Almost overnight, the recent development of direct electron detectors and the attendant improvement in analysis software have advanced the technology considerably. Near-atomic-resolution reconstructions can now be obtained, not only for megadalton macromolecular complexes or highly symmetrical assemblies but also for proteins of only a few hundred kilodaltons. We discuss the developments that led to this breakthrough in high-resolution structure determination by cryo-EM and point to challenges that lie ahead.

  11. Classification using diffraction patterns for single-particle analysis.

    PubMed

    Hu, Hongli; Zhang, Kaiming; Meng, Xing

    2016-05-01

    An alternative method has been assessed; diffraction patterns derived from the single particle data set were used to perform the first round of classification in creating the initial averages for proteins data with symmetrical morphology. The test protein set was a collection of Caenorhabditis elegans small heat shock protein 17 obtained by Cryo EM, which has a tetrahedral (12-fold) symmetry. It is demonstrated that the initial classification on diffraction patterns is workable as well as the real-space classification that is based on the phase contrast. The test results show that the information from diffraction patterns has the enough details to make the initial model faithful. The potential advantage using the alternative method is twofold, the ability to handle the sets with poor signal/noise or/and that break the symmetry properties.

  12. Approaching the Heisenberg Limit Without Single-Particle Detection

    NASA Astrophysics Data System (ADS)

    Bentsen, Gregory; Davis, Emily; Schleier-Smith, Monika

    2016-05-01

    Achieving Heisenberg-limited measurements with ensembles of more than a few particles remains a major outstanding challenge. The problem is two-fold: one must not only prepare a sufficiently sensitive state, but also be able to detect it. While it is commonly assumed that Heisenberg-limited measurement demands single-particle-resolved detection, we propose an alternative approach that bypasses this requirement. We show that the ``one-axis twisting'' interaction, well known for generating spin squeezing in atomic ensembles, can also amplify the output signal of an entanglement-enhanced interferometer to facilitate readout. Even in the presence of dissipation, the protocol significantly relaxes the detection resolution required for spectroscopy beyond the standard quantum limit, and achieves near-Heisenberg-limited precision in a √{ N}-times shorter evolution than is required to reach the GHZ state. AFOSR, NSF.

  13. Membrane protein structures without crystals, by single particle electron cryomicroscopy

    PubMed Central

    Vinothkumar, Kutti R

    2015-01-01

    It is an exciting period in membrane protein structural biology with a number of medically important protein structures determined at a rapid pace. However, two major hurdles still remain in the structural biology of membrane proteins. One is the inability to obtain large amounts of protein for crystallization and the other is the failure to get well-diffracting crystals. With single particle electron cryomicroscopy, both these problems can be overcome and high-resolution structures of membrane proteins and other labile protein complexes can be obtained with very little protein and without the need for crystals. In this review, I highlight recent advances in electron microscopy, detectors and software, which have allowed determination of medium to high-resolution structures of membrane proteins and complexes that have been difficult to study by other structural biological techniques. PMID:26435463

  14. Optimization of magnetic switches for single particle and cell transport

    SciTech Connect

    Abedini-Nassab, Roozbeh; Yellen, Benjamin B.; Murdoch, David M.; Kim, CheolGi

    2014-06-28

    The ability to manipulate an ensemble of single particles and cells is a key aim of lab-on-a-chip research; however, the control mechanisms must be optimized for minimal power consumption to enable future large-scale implementation. Recently, we demonstrated a matter transport platform, which uses overlaid patterns of magnetic films and metallic current lines to control magnetic particles and magnetic-nanoparticle-labeled cells; however, we have made no prior attempts to optimize the device geometry and power consumption. Here, we provide an optimization analysis of particle-switching devices based on stochastic variation in the particle's size and magnetic content. These results are immediately applicable to the design of robust, multiplexed platforms capable of transporting, sorting, and storing single cells in large arrays with low power and high efficiency.

  15. A Bayesian Adaptive Basis Algorithm for Single Particle Reconstruction

    PubMed Central

    Kucukelbir, Alp; Sigworth, Fred J.; Tagare, Hemant D.

    2012-01-01

    Traditional single particle reconstruction methods use either the Fourier or the delta function basis to represent the particle density map. This paper proposes a more flexible algorithm that adaptively chooses the basis based on the data. Because the basis adapts to the data, the reconstruction resolution and signal-to-noise ratio (SNR) is improved compared to a reconstruction with a fixed basis. Moreover, the algorithm automatically masks the particle, thereby separating it from the background. This eliminates the need for ad-hoc filtering or masking in the refinement loop. The algorithm is formulated in a Bayesian maximum-a-posteriori framework and uses an efficient optimization algorithm for the maximization. Evaluations using simulated and actual cryogenic electron microscopy data show resolution and SNR improvements as well as the effective masking of particle from background. PMID:22564910

  16. Single Particle Jumps in Sheared SiO2

    NASA Astrophysics Data System (ADS)

    McMahon, Sean; Vollmayr-Lee, Katharina; Cookmeyer, Jonathan; Horbach, Juergen

    We study the dynamics of a sheared glass via molecular dynamics simulations. Using the BKS potential we simulate the strong glass former SiO2. The system is initially well equilibrated at a high temperature, then quenched to a temperature below the glass transition, and, after a waiting time at the desired low temperature, sheared with constant strain rate. We present preliminary results of an analysis of single particle trajectories of the sheared glass. We acknowledge the support via NSF REU Grant #PHY-1156964, DoD ASSURE program, and NSF-MRI CHE-1229354 as part of the MERCURY high-performance computer consortium. We thank G.P. Shrivastav, Ch. Scherer and B. Temelso.

  17. Organic aerosol mixing observed by single-particle mass spectrometry.

    PubMed

    Robinson, Ellis Shipley; Saleh, Rawad; Donahue, Neil M

    2013-12-27

    We present direct measurements of mixing between separately prepared organic aerosol populations in a smog chamber using single-particle mass spectra from the high-resolution time-of-flight aerosol mass spectrometer (HR-ToF-AMS). Docosane and docosane-d46 (22 carbon linear solid alkane) did not show any signs of mixing, but squalane and squalane-d62 (30 carbon branched liquid alkane) mixed on the time scale expected from a condensational-mixing model. Docosane and docosane-d46 were driven to mix when the chamber temperature was elevated above the melting point for docosane. Docosane vapors were shown to mix into squalane-d62, but not the other way around. These results are consistent with low diffusivity in the solid phase of docosane particles. We performed mixing experiments on secondary organic aerosol (SOA) surrogate systems finding that SOA derived from toluene-d8 (a surrogate for anthropogenic SOA (aSOA)) does not mix into squalane (a surrogate for hydrophobic primary organic aerosol (POA)) but does mix into SOA derived from α-pinene (biogenic SOA (bSOA) surrogate). For the aSOA/POA, the volatility of either aerosol does not limit gas-phase diffusion, indicating that the two particle populations do not mix simply because they are immiscible. In the aSOA/bSOA system, the presence of toluene-d8-derived SOA molecules in the α-pinene-derived SOA provides evidence that the diffusion coefficient in α-pinene-derived SOA is high enough for mixing on the time scale of 1 min. The observations from all of these mixing experiments are generally invisible to bulk aerosol composition measurements but are made possible with single-particle composition data.

  18. Foucault's Heterotopia and Children's Everyday Lives.

    ERIC Educational Resources Information Center

    McNamee, Sara

    2000-01-01

    Discusses Foucault's notion of "heterotopia"--real places but which exist unto themselves, such as a floating ship. Considers data on children's use of computer and video games to apply "heterotopia" to children's everyday social lives. Argues that childhood is subject to increasing boundaries, and that children create "other" spaces through…

  19. Foucault, Counselling and the Aesthetics of Existence

    ERIC Educational Resources Information Center

    Peters, Michael A.

    2005-01-01

    Michel Foucault was drawn late in life to study the "arts of the self" in Greco-Roman culture as a basis, following Nietzsche, for what he called an "aesthetics of existence." By this, he meant a set of creative and experimental processes and techniques by which an individual turns him- or herself into a work of art. For Nietzsche, it was above…

  20. Pushing the limits of the Foucault Test

    NASA Astrophysics Data System (ADS)

    Swanepoel, Johann

    2010-12-01

    The processes involved in the shaping and testing of two fast 20-inch diameter thin Pyrex mirrors are briefly described. Some improvements to extend the usefulness and accuracy of the age old Foucault knife-edge test, making use of affordable and easily available modern technology, are described in some detail.

  1. Praxis and Agency in Foucault's Historiography

    ERIC Educational Resources Information Center

    Fendler, Lynn

    2004-01-01

    This paper examines the consequences for agency that Foucault's historiographical approach constructs. The analysis begins by explaining the difference between "legislative history" and "exemplary history," drawing parallels to similar theoretical distinctions offered in the works of Max Weber, J.L. Austin, and Zygmunt Bauman. The analysis…

  2. "Safeguarding" Sports Coaching: Foucault, Genealogy and Critique

    ERIC Educational Resources Information Center

    Garratt, Dean; Piper, Heather; Taylor, Bill

    2013-01-01

    This paper offers a genealogical account of safeguarding in sport. Drawing specifically on Foucault's work, it examines the "politics of touch" in relation to the social and historical formation of child protection policy in sports coaching. While the analysis has some resonance with the context of coaching as a whole, for…

  3. "Be Cruel!" Dare We Take Foucault Seriously?

    ERIC Educational Resources Information Center

    Gelb, Steven A.

    2000-01-01

    Discussion of the relevance of Michel Foucault's ideas in the provision of services to people with mental retardation focuses on the postmodernist thinker's own life including his preoccupation with "limit experiences," transgression against all societal norms, suicide, and death from AIDS. It suggests that the application of discourse analysis to…

  4. Analysis of single particle photodegradation using photothermal infrared microspectroscopy.

    PubMed

    Moffat, Jonathan G; Eddleston, Mark D; Belton, Peter S; Jones, William; Craig, Duncan Q M

    2013-04-21

    The increasing use of high throughput methods, coupled with the need to develop approaches to anticipate long term stability issues, has necessitated the introduction of testing approaches whereby extremely small samples may be rapidly analysed. A novel method is described whereby the UV light-induced degradation of single particles of a model drug, nifedipine, may be rapidly and simply monitored using photothermal infrared microspectroscopy (PTMS). The technique involves the contact attachment of individual particles to a heated probe tip composed of a modified Wollaston wire which enables temperature fluctuations to be measured. Application of a focused IR beam to excite the sample allows measurement and subsequent Fourier transformation of the resultant interferogram to produce an IR spectrum which is in good agreement with that obtained from conventional IR methods. By application of a UV source to the assembly for specified time periods, we demonstrate that it is possible to monitor the appearance of peaks associated with degradation products as a function of time. The technique is critically evaluated in terms of practical issues associated with volatilization, particle size effects and orientation to the light source as well as more general issues associated with the sensitivity, resolution and quantitative interpretation of data from the PTMS technique. Overall the method has been shown to be capable of rapid measurement of photo-instability on individual particles, with important implications for development of the approach as a rapid screening or high throughput technique, although there are practical and theoretical limitations to reliable quantitative analysis at the present time.

  5. Automated single particle detection and tracking for large microscopy datasets.

    PubMed

    Wilson, Rhodri S; Yang, Lei; Dun, Alison; Smyth, Annya M; Duncan, Rory R; Rickman, Colin; Lu, Weiping

    2016-05-01

    Recent advances in optical microscopy have enabled the acquisition of very large datasets from living cells with unprecedented spatial and temporal resolutions. Our ability to process these datasets now plays an essential role in order to understand many biological processes. In this paper, we present an automated particle detection algorithm capable of operating in low signal-to-noise fluorescence microscopy environments and handling large datasets. When combined with our particle linking framework, it can provide hitherto intractable quantitative measurements describing the dynamics of large cohorts of cellular components from organelles to single molecules. We begin with validating the performance of our method on synthetic image data, and then extend the validation to include experiment images with ground truth. Finally, we apply the algorithm to two single-particle-tracking photo-activated localization microscopy biological datasets, acquired from living primary cells with very high temporal rates. Our analysis of the dynamics of very large cohorts of 10 000 s of membrane-associated protein molecules show that they behave as if caged in nanodomains. We show that the robustness and efficiency of our method provides a tool for the examination of single-molecule behaviour with unprecedented spatial detail and high acquisition rates.

  6. Single particle fluorescence burst analysis of epsin induced membrane fission.

    PubMed

    Brooks, Arielle; Shoup, Daniel; Kustigian, Lauren; Puchalla, Jason; Carr, Chavela M; Rye, Hays S

    2015-01-01

    Vital cellular processes, from cell growth to synaptic transmission, rely on membrane-bounded carriers and vesicles to transport molecular cargo to and from specific intracellular compartments throughout the cell. Compartment-specific proteins are required for the final step, membrane fission, which releases the transport carrier from the intracellular compartment. The role of fission proteins, especially at intracellular locations and in non-neuronal cells, while informed by the dynamin-1 paradigm, remains to be resolved. In this study, we introduce a highly sensitive approach for the identification and analysis of membrane fission machinery, called burst analysis spectroscopy (BAS). BAS is a single particle, free-solution approach, well suited for quantitative measurements of membrane dynamics. Here, we use BAS to analyze membrane fission induced by the potent, fission-active ENTH domain of epsin. Using this method, we obtained temperature-dependent, time-resolved measurements of liposome size and concentration changes, even at sub-micromolar concentration of the epsin ENTH domain. We also uncovered, at 37°C, fission activity for the full-length epsin protein, supporting the argument that the membrane-fission activity observed with the ENTH domain represents a native function of the full-length epsin protein.

  7. Automated single particle detection and tracking for large microscopy datasets

    PubMed Central

    Wilson, Rhodri S.; Yang, Lei; Dun, Alison; Smyth, Annya M.; Duncan, Rory R.; Rickman, Colin

    2016-01-01

    Recent advances in optical microscopy have enabled the acquisition of very large datasets from living cells with unprecedented spatial and temporal resolutions. Our ability to process these datasets now plays an essential role in order to understand many biological processes. In this paper, we present an automated particle detection algorithm capable of operating in low signal-to-noise fluorescence microscopy environments and handling large datasets. When combined with our particle linking framework, it can provide hitherto intractable quantitative measurements describing the dynamics of large cohorts of cellular components from organelles to single molecules. We begin with validating the performance of our method on synthetic image data, and then extend the validation to include experiment images with ground truth. Finally, we apply the algorithm to two single-particle-tracking photo-activated localization microscopy biological datasets, acquired from living primary cells with very high temporal rates. Our analysis of the dynamics of very large cohorts of 10 000 s of membrane-associated protein molecules show that they behave as if caged in nanodomains. We show that the robustness and efficiency of our method provides a tool for the examination of single-molecule behaviour with unprecedented spatial detail and high acquisition rates. PMID:27293801

  8. Quantification of aerosol chemical composition using continuous single particle measurements

    NASA Astrophysics Data System (ADS)

    Jeong, C.-H.; McGuire, M. L.; Godri, K. J.; Slowik, J. G.; Rehbein, P. J. G.; Evans, G. J.

    2011-01-01

    Mass concentrations of particulate matter (PM) chemical components were determined from data for 0.3 to 3.0 μm particles measured by an Aerosol Time-of-Flight Mass Spectrometer (ATOFMS) data at an urban and rural site. Hourly-averaged concentrations of nitrate, sulphate, ammonium, organic carbon, and elemental carbon, estimated based on scaled ATOFMS peak intensities of corresponding ion marker species, were compared with collocated chemical composition measurements by an Aerosol Mass Spectrometer (AMS), a Gas-Particle Ion Chromatograph (GPIC), and a Sunset Lab field OCEC analyzer. The highest correlation was found for nitrate, with correlation coefficients (Pearson r) of 0.89 and 0.85 at the urban and rural sites, respectively. ATOFMS mass calibration factors, determined for the urban site, were used to calculate mass concentrations of the major PM chemical components at the rural site. Mass reconstruction using this ATOFMS based composition data agreed very well with the total PM mass measured at the rural site. Size distributions of the ten main types of particles were resolved for the rural site and the mass composition of each particle type was determined in terms of sulphate, nitrate, ammonium, organic carbon and elemental carbon. This is the first study to estimate hourly mass concentrations of individual aerosol components and the mass composition of individual particle-types based on ATOFMS single particle measurements.

  9. Single-particle and collective excitations in 62Ni

    NASA Astrophysics Data System (ADS)

    Albers, M.; Zhu, S.; Ayangeakaa, A. D.; Janssens, R. V. F.; Gellanki, J.; Ragnarsson, I.; Alcorta, M.; Baugher, T.; Bertone, P. F.; Carpenter, M. P.; Chiara, C. J.; Chowdhury, P.; David, H. M.; Deacon, A. N.; DiGiovine, B.; Gade, A.; Hoffman, C. R.; Kondev, F. G.; Lauritsen, T.; Lister, C. J.; McCutchan, E. A.; Nair, C.; Rogers, A. M.; Seweryniak, D.

    2016-09-01

    Background: Level sequences of rotational character have been observed in several nuclei in the A =60 mass region. The importance of the deformation-driving π f7 /2 and ν g9 /2 orbitals on the onset of nuclear deformation is stressed. Purpose: A measurement was performed in order to identify collective rotational structures in the relatively neutron-rich 62Ni isotope. Method: The 26Mg(48Ca,2 α 4 n γ )62Ni complex reaction at beam energies between 275 and 320 MeV was utilized. Reaction products were identified in mass (A ) and charge (Z ) with the fragment mass analyzer (FMA) and γ rays were detected with the Gammasphere array. Results: Two collective bands, built upon states of single-particle character, were identified and sizable deformation was assigned to both sequences based on the measured transitional quadrupole moments, herewith quantifying the deformation at high spin. Conclusions: Based on cranked Nilsson-Strutinsky calculations and comparisons with deformed bands in the A =60 mass region, the two rotational bands are understood as being associated with configurations involving multiple f7 /2 protons and g9 /2 neutrons, driving the nucleus to sizable prolate deformation.

  10. DETERMINATION OF STOKES SHAPE FACTOR FOR SINGLE PARTICLES AND AGGLOMERATES

    SciTech Connect

    Matyas, Josef; Schaible, Micah J.; Vienna, John D.

    2011-09-01

    The large octahedral crystals of spinel can precipitate from glass during the high-level waste vitrification process and potentially block the glass discharge riser of electrically heated ceramic melters. To help predict the settling behavior of spinel in the riser, the settling of single particles and agglomerates was studied in stagnant and transparent viscosity oils at room temperature with developed optical particle-dynamics-analyzer. Determined dimensions and terminal settling velocities of particles were used for calculation of their Stokes shape factors. Calculated shape factor for the glass beads was almost identical with the theoretical shape factor of 2/9 for a perfect sphere. The shape factor for single spinel crystal was about 7.6 % higher compare to the theoretically predicted value for octahedron. Stokes shape factor of irregularly shaped multi-particle agglomerates was lower than that of the glass beads and individual spinel crystals because of the higher surface drag caused by the larger surface area to volume ratio.

  11. Seismic shear waves as Foucault pendulum

    NASA Astrophysics Data System (ADS)

    Snieder, Roel; Sens-Schönfelder, Christoph; Ruigrok, Elmer; Shiomi, Katsuhiko

    2016-03-01

    Earth's rotation causes splitting of normal modes. Wave fronts and rays are, however, not affected by Earth's rotation, as we show theoretically and with observations made with USArray. We derive that the Coriolis force causes a small transverse component for P waves and a small longitudinal component for S waves. More importantly, Earth's rotation leads to a slow rotation of the transverse polarization of S waves; during the propagation of S waves the particle motion behaves just like a Foucault pendulum. The polarization plane of shear waves counteracts Earth's rotation and rotates clockwise in the Northern Hemisphere. The rotation rate is independent of the wave frequency and is purely geometric, like the Berry phase. Using the polarization of ScS and ScS2 waves, we show that the Foucault-like rotation of the S wave polarization can be observed. This can affect the determination of source mechanisms and the interpretation of observed SKS splitting.

  12. Drift correction of the dissolved signal in single particle ICPMS.

    PubMed

    Cornelis, Geert; Rauch, Sebastien

    2016-07-01

    A method is presented where drift, the random fluctuation of the signal intensity, is compensated for based on the estimation of the drift function by a moving average. It was shown using single particle ICPMS (spICPMS) measurements of 10 and 60 nm Au NPs that drift reduces accuracy of spICPMS analysis at the calibration stage and during calculations of the particle size distribution (PSD), but that the present method can again correct the average signal intensity as well as the signal distribution of particle-containing samples skewed by drift. Moreover, deconvolution, a method that models signal distributions of dissolved signals, fails in some cases when using standards and samples affected by drift, but the present method was shown to improve accuracy again. Relatively high particle signals have to be removed prior to drift correction in this procedure, which was done using a 3 × sigma method, and the signals are treated separately and added again. The method can also correct for flicker noise that increases when signal intensity is increased because of drift. The accuracy was improved in many cases when flicker correction was used, but when accurate results were obtained despite drift, the correction procedures did not reduce accuracy. The procedure may be useful to extract results from experimental runs that would otherwise have to be run again. Graphical Abstract A method is presented where a spICP-MS signal affected by drift (left) is corrected (right) by adjusting the local (moving) averages (green) and standard deviations (purple) to the respective values at a reference time (red). In combination with removing particle events (blue) in the case of calibration standards, this method is shown to obtain particle size distributions where that would otherwise be impossible, even when the deconvolution method is used to discriminate dissolved and particle signals.

  13. Chromatin dynamics during interphase explored by single-particle tracking.

    PubMed

    Levi, Valeria; Gratton, Enrico

    2008-01-01

    Our view of the structure and function of the interphase nucleus has changed drastically in recent years. It is now widely accepted that the nucleus is a well organized and highly compartmentalized organelle and that this organization is intimately related to nuclear function. In this context, chromatin-initially considered a randomly entangled polymer-has also been shown to be structurally organized in interphase and its organization was found to be very important to gene regulation. Relevant and not completely answered questions are how chromatin organization is achieved and what mechanisms are responsible for changes in the positions of chromatin loci in the nucleus. A significant advance in the field resulted from tagging chromosome sites with bacterial operator sequences, and visualizing these tags using green fluorescent protein fused with the appropriate repressor protein. Simultaneously, fluorescence imaging techniques evolved significantly during recent years, allowing observation of the time evolution of processes in living specimens. In this context, the motion of the tagged locus was observed and analyzed to extract quantitative information regarding its dynamics. This review focuses on recent advances in our understanding of chromatin dynamics in interphase with the emphasis placed on the information obtained from single-particle tracking (SPT) experiments. We introduce the basis of SPT methods and trajectory analysis, and summarize what has been learnt by using this new technology in the context of chromatin dynamics. Finally, we briefly describe a method of SPT in a two-photon excitation microscope that has several advantages over methods based on conventional microscopy and review the information obtained using this novel approach to study chromatin dynamics. PMID:18461483

  14. Chromatin dynamics during interphase explored by single particle tracking

    PubMed Central

    Levi, Valeria; Gratton, Enrico

    2009-01-01

    Our view of the structure and function of the interphase nucleus has drastically changed in the last years. It is now widely accepted that the nucleus is a well organized and highly compartmentalized organelle and that this organization is intimately related to nuclear function. In this context, chromatin -initially considered a randomly entangled polymer- has also been shown to be structurally organized in interphase and its organization was found to be very important to gene regulation. Relevant and not completely answered questions are how chromatin organization is achieved and what mechanisms are responsible for changes in the positions of chromatin loci in the nucleus. A significant advance in the field resulted from tagging chromosome sites with bacterial operator sequences, and visualizing these tags using green fluorescent protein fused with the appropriate repressor protein. Simultaneously, fluorescence imaging techniques significantly evolved during the last years allowing the observation of the time evolution of processes in living specimens. In this context, the motion of the tagged locus was observed and analyzed to extract quantitative information regarding its dynamics. This review focuses on recent advances in our understanding of chromatin dynamics in interphase with the emphasis placed on the information obtained from single particle tracking (SPT) experiments. We introduce the basis of SPT methods and trajectories analysis, and summarize what has been learnt by using this new technology in the context of chromatin dynamics. Finally, we briefly describe a method of SPT in a two-photon excitation microscope that has several advantages over methods based on conventional microscopy and review the information obtained by using this novel approach to study chromatin dynamics. PMID:18461483

  15. Proton Single-Particle States In The Heaviest Actinide Nuclei

    SciTech Connect

    Ahmad, I.; Kondev, F.G.; Moore, E.F.; Chasman, R.R.; Carpenter, M.P.; Greene, J.P.; Janssens, R.V.F.; Lauritsen, T.; Lister, C.J.; Seweryniak, D.; Hoff, R.W.; Evans, J.E.; Lougheed, R.W.; Porter, C.E.; Felker, L.K.

    2005-04-05

    The level structure of 249Bk has been investigated by measuring the {gamma}-ray spectra following the {alpha} decay of a chemically and isotopically pure 253Es sample. Alpha-gamma coincidence measurement was performed using a Si detector for {alpha} particles and a 25% Ge detector for {gamma} rays. A gamma-gamma coincidence measurement was performed with the Gammasphere spectrometer. The Es sample was obtained by extracting the 253Es which grew in a 253Cf source material produced in the High Flux Isotope Reactor (HFIR) at Oak Ridge National Laboratory. Additional information on the 249Bk levels was obtained from the study of {gamma} rays produced in the {beta}- decay of 249Cm. The 249Cm sample was produced by neutron irradiation of 248Cm. Using the results of the present study and the results of previous 248Cm({alpha},t) and 248Cm(3He,d) reaction spectra, the following single-particle states have been identified in 249Bk: 7/2+[633], 0.0 keV; 3/2-[521], 8.78 keV; 1/2+[400], 377.55 keV: 5/2+[642], 389.17 keV; 1/2-[530], 569.19 keV; 1/2-[521], 643.0 keV; 5/2-[523], 672.8 keV; 9/2+[624], 1075.1 keV. Four vibrational bands were identified at 767.9, 932.2, 1150.7 and 1223.0 keV with tentative assignments of {l_brace}7/2+[633]x1-{r_brace}9/2-, {l_brace}7/2+[633]x0-{r_brace}7/2-, {l_brace}7/2+[633]x1-{r_brace}5/2- and {l_brace}7/2+[633]x0+{r_brace}7/2+, respectively.

  16. A Microfluidic-based Hydrodynamic Trap for Single Particles

    PubMed Central

    Johnson-Chavarria, Eric M.; Tanyeri, Melikhan; Schroeder, Charles M.

    2011-01-01

    The ability to confine and manipulate single particles in free solution is a key enabling technology for fundamental and applied science. Methods for particle trapping based on optical, magnetic, electrokinetic, and acoustic techniques have led to major advancements in physics and biology ranging from the molecular to cellular level. In this article, we introduce a new microfluidic-based technique for particle trapping and manipulation based solely on hydrodynamic fluid flow. Using this method, we demonstrate trapping of micro- and nano-scale particles in aqueous solutions for long time scales. The hydrodynamic trap consists of an integrated microfluidic device with a cross-slot channel geometry where two opposing laminar streams converge, thereby generating a planar extensional flow with a fluid stagnation point (zero-velocity point). In this device, particles are confined at the trap center by active control of the flow field to maintain particle position at the fluid stagnation point. In this manner, particles are effectively trapped in free solution using a feedback control algorithm implemented with a custom-built LabVIEW code. The control algorithm consists of image acquisition for a particle in the microfluidic device, followed by particle tracking, determination of particle centroid position, and active adjustment of fluid flow by regulating the pressure applied to an on-chip pneumatic valve using a pressure regulator. In this way, the on-chip dynamic metering valve functions to regulate the relative flow rates in the outlet channels, thereby enabling fine-scale control of stagnation point position and particle trapping. The microfluidic-based hydrodynamic trap exhibits several advantages as a method for particle trapping. Hydrodynamic trapping is possible for any arbitrary particle without specific requirements on the physical or chemical properties of the trapped object. In addition, hydrodynamic trapping enables confinement of a "single" target object in

  17. Foucault, Educational Research and the Issue of Autonomy

    ERIC Educational Resources Information Center

    Olssen, Mark

    2005-01-01

    This article seeks to demonstrate a particular application of Foucault's philosophical approach to a particular issue in education: that of personal autonomy. The paper surveys and extends the approach taken by James Marshall in his book "Michel Foucault: Personal Autonomy and Education." After surveying Marshall's writing on the issue I extend…

  18. Transgression or Stasis? Challenging Foucault in LIS Theory

    ERIC Educational Resources Information Center

    Buschman, John

    2007-01-01

    Michel Foucault (1926-84) is a primary thinker informing the construction of a critical theory of library and information science (LIS), or librarianship. He is widely cited and is adapted in various ways that focus on LIS forms of power, discourse, and so on. Others have addressed Foucault's topics, but he remains central. Librarianship has taken…

  19. Foucault's Toolbox: Critical Insights for Education and Technology Researchers

    ERIC Educational Resources Information Center

    Hope, Andrew

    2015-01-01

    Despite having been a prolific academic, whose work exerts considerable cross-discipline influence, the ideas of Foucault are largely neglected in educational technology scholarship. Having provided an initial brief overview of the sparse use of Foucault's work in this sub-field, this paper then seeks to generate new understandings, arguing that…

  20. Working Model of a Foucault Pendulum at Intermediate Latitudes

    ERIC Educational Resources Information Center

    Sears, Francis W.

    1969-01-01

    Describes a working model of a Foucault pendulum at intermediate latitudes constructed of a steel drill rod with a steel ball attached at one end. The rod makes an angle of 45 degrees with the rotation axis of a horizontal turntable. The vibrating system is the same as that which led Foucault to construct his first gravity pendulum. (LC)

  1. Foucault Dissipation in a Rolling Cylinder: A Webcam Quantitative Study

    ERIC Educational Resources Information Center

    Bonanno, A.; Bozzo, G.; Camarca, M.; Sapia, P.

    2011-01-01

    In this paper we present an experimental strategy to measure the micro power dissipation due to Foucault "eddy" currents in a copper cylinder rolling on two parallel conductive rails in the presence of a magnetic field. Foucault power dissipation is obtained from kinematical measurements carried out by using a common PC webcam and video analysis…

  2. Beyond Subjection: Notes on the Later Foucault and Education

    ERIC Educational Resources Information Center

    Leask, Ian

    2012-01-01

    This article argues against the doxa that Foucault's analysis of education inevitably undermines self-originating ethical intention on the part of teachers or students. By attending to Foucault's lesser known, later work--in particular, the notion of "biopower" and the deepened level of materiality it entails--the article shows how the earlier…

  3. Single particle measurements of material line stretching in turbulence: Experiments

    NASA Astrophysics Data System (ADS)

    Kramel, Stefan; Tympel, Saskia; Toschi, Federico; Voth, Greg

    2015-11-01

    We find that particles in the shape of chiral dipoles display a preferential rotation direction in three dimensional isotropic turbulence. The particles consist of two helical ends with opposite chirality that are connected by a straight rod. They are fabricated using 3D printing and have an aspect ratio of 10 and a length in the inertial range of our flow between oscillating grids. Due to their high aspect ratio, they move like material lines. Because material lines align with the extentional eigenvectors of the velocity gradient tensor they experience a mean stretching in turbulence. The stretching of a chiral dipole produces a rotation about the dipole axis and so chiral dipoles experience a non-zero mean spinning rate in turbulence. These results provide a first direct experimental measurement of the rate of material line stretching in turbulence.

  4. Ferrimagnetism and single-particle excitations in a periodic Anderson model on the honeycomb lattice

    NASA Astrophysics Data System (ADS)

    Seki, Kazuhiro; Shirakawa, Tomonori; Zhang, Qinfang; Li, Tao; Yunoki, Seiji

    2015-04-01

    By using the variationalcluster approximation and cluster perturbation theory, we investigate the magnetism and single-particle excitations of a periodic Anderson model on the honeycomb lattice as an effective model for the single-side hydrogenated graphene, namely, graphone. We calculate the magnetic moment as a function of U (Coulomb interaction on impurity sites) with showing that the ground state is ferrimagneticfor any U > 0. We then calculate the single-particle excitations and show that the single-particle excitations are gapless and exhibit quadratic dispersion relation near the Fermi energy.

  5. [The birth of acknowledgement: Michel Foucault and Werner Leibbrand].

    PubMed

    Mildenberger, Florian

    2006-01-01

    In 1964, Werner Leibbrand (1896-1974) was the first German medical historian to present, in Sudhoffs Archiv, a review of the work of Michel Foucault (1926-1984). This paper examines some of the reasons leading to the fact that Leibbrand's own generation refused to acknowledge the importance of Foucault's ideas, while, later on, younger German medical historians, although impressed with Foucault's writings, failed to acknowledge, first, the close relationship between Leibbrand's and Foucault's world views, and, second, Leibbrand's attempts at introducing Foucault to German medical historians. Leibbrand with his Jewish wife had survived the Nazi period partly in hiding. His attempts at clearing post-war German psychiatry and medical historiography of NS-sympathizers isolated him among his colleagues, many of whom had begun their career during the Third Reich. Leibbrand enjoyed the support by the Swiss medical historian and avowed Communist Erwin Ackerknecht (1906-1988), but later turned against him, possibly because Acknerknecht had called Leibbrand's writings "unscientific". Leibbrand was unable to overcome his antagonisms with his contemporaries. At the same time, opposition to Ackerknecht made him appear a respresentative of the past in the eyes of the younger generation. Thus, when Foucault was accepted by the latter, they were not prepared to examine the work of Leibbrand and realize how close some of the ideas developed by Leibbrand and Foucault had been.

  6. Single-particle spectral density of a Bose gas in the two-fluid hydrodynamic regime

    SciTech Connect

    Arahata, Emiko; Nikuni, Tetsuro; Griffin, Allan

    2011-11-15

    In Bose superfluids, the single-particle Green's function can be directly related to the superfluid velocity-velocity correlation function in the hydrodynamic regime. An explicit expression for the single-particle spectral density was originally written down by Hohenberg and Martin in 1965, starting from the two-fluid equations for a superfluid. We give a simple derivation of their results. Using these results, we calculate the relative weights of first and second sound modes in the single-particle spectral density as a function of temperature in a uniform Bose gas. We show that the second sound mode makes a dominant contribution to the single-particle spectrum in a relatively high-temperature region. We also discuss the possibility of experimental observation of the second sound mode in a Bose gas by photoemission spectroscopy.

  7. Four-Dimensional Spatial Nanometry of Single Particles in Living Cells Using Polarized Quantum Rods

    PubMed Central

    Watanabe, Tomonobu M.; Fujii, Fumihiko; Jin, Takashi; Umemoto, Eiji; Miyasaka, Masayuki; Fujita, Hideaki; Yanagida, Toshio

    2013-01-01

    Single particle tracking is widely used to study protein movement with high spatiotemporal resolution both in vitro and in cells. Quantum dots, which are semiconductor nanoparticles, have recently been employed in single particle tracking because of their intense and stable fluorescence. Although single particles inside cells have been tracked in three spatial dimensions (X, Y, Z), measurement of the angular orientation of a molecule being tracked would significantly enhance our understanding of the molecule’s function. In this study, we synthesized highly polarized, rod-shaped quantum dots (Qrods) and developed a coating method that optimizes the Qrods for biological imaging. We describe a Qrod-based single particle tracking technique that blends optical nanometry with nanomaterial science to simultaneously measure the three-dimensional and angular movements of molecules. Using Qrods, we spatially tracked a membrane receptor in living cells in four dimensions with precision close to the single-digit range in nanometers and degrees. PMID:23931303

  8. Apparatus for Teaching Physics: A Very Short, Portable Foucault Pendulum.

    ERIC Educational Resources Information Center

    Kruglak, Haym

    1983-01-01

    Describes the construction of a small (portable), inexpensive, and easy to build Foucault pendulum. Includes photographs of the apparatus, a schematic of the electrical circuit used, and discussion of the amount of accuracy to be expected during classroom investigation. (JM)

  9. [The history of the psychiatry not told by Foucault].

    PubMed

    Freitas, Fernando Ferreira Pinto de

    2004-01-01

    The article proposes a revision of the approach to madness and the birth of the psychiatric institution taken by Foucault in History of Madness. The hypothesis is that the origins of modern Psychiatry revolutionize the approach to madness by proposing it is possible to dialogue with the insane, because the madman is not someone who has lost his reason . It is hoped that this critique of Foucault's book will be a contribution to the process of psychiatric reform currently underway in Brazil.

  10. Single-particle aerosol mass spectrometry for the detection and identification of chemical warfare agent simulants.

    PubMed

    Martin, Audrey N; Farquar, George R; Frank, Matthias; Gard, Eric E; Fergenson, David P

    2007-08-15

    Single-particle aerosol mass spectrometry (SPAMS) was used for the real-time detection of liquid nerve agent simulants. A total of 1000 dual-polarity time-of-flight mass spectra were obtained for micrometer-sized single particles each of dimethyl methyl phosphonate, diethyl ethyl phosphonate, diethyl phosphoramidate, and diethyl phthalate using laser fluences between 0.58 and 7.83 nJ/microm2, and mass spectral variation with laser fluence was studied. The mass spectra obtained allowed identification of single particles of the chemical warfare agent (CWA) simulants at each laser fluence used although lower laser fluences allowed more facile identification. SPAMS is presented as a promising real-time detection system for the presence of CWAs. PMID:17630721

  11. Analysis of proton single-particle properties of zinc and germanium isotopes

    SciTech Connect

    Bespalova, O. V. Ermakova, T. A.; Klimochkina, A. A.; Romanovsky, E. A.; Spasskaya, T. I.

    2014-12-15

    Experimental proton single-particle energies in the vicinity of the Fermi energy for stable zinc and germanium isotopes are analyzed on the basis the dispersive optical model. The values found for the parameters of the dispersive optical potential are corrected with the aim of matching the total number of protons that is calculated with the aid of the function of Bardeen-Cooper-Schrieffer theory for the occupation probability for single-particle orbits with the charge number Z of the nucleus. The parameters of the dispersive optical potential are extrapolated on the basis of physically motivated arguments to the region of unstable isotopes in which the number N ranges between 34 and 50, and single-particle spectra are predicted by means of calculations with these parameters.

  12. Improving z-tracking accuracy in the two-photon single-particle tracking microscope

    NASA Astrophysics Data System (ADS)

    Liu, C.; Liu, Y.-L.; Perillo, E. P.; Jiang, N.; Dunn, A. K.; Yeh, H.-C.

    2015-10-01

    Here, we present a method that can improve the z-tracking accuracy of the recently invented TSUNAMI (Tracking of Single particles Using Nonlinear And Multiplexed Illumination) microscope. This method utilizes a maximum likelihood estimator (MLE) to determine the particle's 3D position that maximizes the likelihood of the observed time-correlated photon count distribution. Our Monte Carlo simulations show that the MLE-based tracking scheme can improve the z-tracking accuracy of TSUNAMI microscope by 1.7 fold. In addition, MLE is also found to reduce the temporal correlation of the z-tracking error. Taking advantage of the smaller and less temporally correlated z-tracking error, we have precisely recovered the hybridization-melting kinetics of a DNA model system from thousands of short single-particle trajectories in silico. Our method can be generally applied to other 3D single-particle tracking techniques.

  13. Single-particle aerosol mass spectrometry for the detection and identification of chemical warfare agent simulants.

    PubMed

    Martin, Audrey N; Farquar, George R; Frank, Matthias; Gard, Eric E; Fergenson, David P

    2007-08-15

    Single-particle aerosol mass spectrometry (SPAMS) was used for the real-time detection of liquid nerve agent simulants. A total of 1000 dual-polarity time-of-flight mass spectra were obtained for micrometer-sized single particles each of dimethyl methyl phosphonate, diethyl ethyl phosphonate, diethyl phosphoramidate, and diethyl phthalate using laser fluences between 0.58 and 7.83 nJ/microm2, and mass spectral variation with laser fluence was studied. The mass spectra obtained allowed identification of single particles of the chemical warfare agent (CWA) simulants at each laser fluence used although lower laser fluences allowed more facile identification. SPAMS is presented as a promising real-time detection system for the presence of CWAs.

  14. Improving z-tracking accuracy in the two-photon single-particle tracking microscope

    SciTech Connect

    Liu, C.; Liu, Y.-L.; Perillo, E. P.; Jiang, N.; Dunn, A. K. E-mail: tim.yeh@austin.utexas.edu; Yeh, H.-C. E-mail: tim.yeh@austin.utexas.edu

    2015-10-12

    Here, we present a method that can improve the z-tracking accuracy of the recently invented TSUNAMI (Tracking of Single particles Using Nonlinear And Multiplexed Illumination) microscope. This method utilizes a maximum likelihood estimator (MLE) to determine the particle's 3D position that maximizes the likelihood of the observed time-correlated photon count distribution. Our Monte Carlo simulations show that the MLE-based tracking scheme can improve the z-tracking accuracy of TSUNAMI microscope by 1.7 fold. In addition, MLE is also found to reduce the temporal correlation of the z-tracking error. Taking advantage of the smaller and less temporally correlated z-tracking error, we have precisely recovered the hybridization-melting kinetics of a DNA model system from thousands of short single-particle trajectories in silico. Our method can be generally applied to other 3D single-particle tracking techniques.

  15. Analysis of proton single-particle properties of zinc and germanium isotopes

    NASA Astrophysics Data System (ADS)

    Bespalova, O. V.; Ermakova, T. A.; Klimochkina, A. A.; Romanovsky, E. A.; Spasskaya, T. I.

    2014-12-01

    Experimental proton single-particle energies in the vicinity of the Fermi energy for stable zinc and germanium isotopes are analyzed on the basis the dispersive optical model. The values found for the parameters of the dispersive optical potential are corrected with the aim of matching the total number of protons that is calculated with the aid of the function of Bardeen-Cooper-Schrieffer theory for the occupation probability for single-particle orbits with the charge number Z of the nucleus. The parameters of the dispersive optical potential are extrapolated on the basis of physically motivated arguments to the region of unstable isotopes in which the number N ranges between 34 and 50, and single-particle spectra are predicted by means of calculations with these parameters.

  16. The application of single particle hydrodynamics in continuum models of multiphase flow

    NASA Technical Reports Server (NTRS)

    Decker, Rand

    1988-01-01

    A review of the application of single particle hydrodynamics in models for the exchange of interphase momentum in continuum models of multiphase flow is presented. Considered are the equations of motion for a laminar, mechanical two phase flow. Inherent to this theory is a model for the interphase exchange of momentum due to drag between the dispersed particulate and continuous fluid phases. In addition, applications of two phase flow theory to de-mixing flows require the modeling of interphase momentum exchange due to lift forces. The applications of single particle analysis in deriving models for drag and lift are examined.

  17. Single-particle reconstruction of biological macromolecules in electron microscopy – 30 years

    PubMed Central

    Frank, Joachim

    2010-01-01

    This essay gives the author’s personal account on the development of concepts underlying single-particle reconstruction, a technique in electron microscopy of macromolecular assemblies with a remarkable record of achievements as of late. The ribosome proved to be an ideal testing ground for the development of specimen preparation methods, cryo-EM techniques, and algorithms, with discoveries along the way as a rich reward. Increasingly, cryo-EM and single-particle reconstruction, in combination with classification techniques, is revealing dynamic information on functional molecular machines uninhibited by molecular contacts. PMID:20025794

  18. Foucault test: a quantitative evaluation method.

    PubMed

    Rodríguez, Gustavo; Villa, Jesús; Ivanov, Rumen; González, Efrén; Martínez, Geminiano

    2016-08-01

    Reliable and accurate testing methods are essential to guiding the polishing process during the figuring of optical telescope mirrors. With the natural advancement of technology, the procedures and instruments used to carry out this delicate task have consistently increased in sensitivity, but also in complexity and cost. Fortunately, throughout history, the Foucault knife-edge test has shown the potential to measure transverse aberrations in the order of the wavelength, mainly when described in terms of physical theory, which allows a quantitative interpretation of its characteristic shadowmaps. Our previous publication on this topic derived a closed mathematical formulation that directly relates the knife-edge position with the observed irradiance pattern. The present work addresses the quite unexplored problem of the wavefront's gradient estimation from experimental captures of the test, which is achieved by means of an optimization algorithm featuring a proposed ad hoc cost function. The partial derivatives thereby calculated are then integrated by means of a Fourier-based algorithm to retrieve the mirror's actual surface profile. To date and to the best of our knowledge, this is the very first time that a complete mathematical-grounded treatment of this optical phenomenon is presented, complemented by an image-processing algorithm which allows a quantitative calculation of the corresponding slope at any given point of the mirror's surface, so that it becomes possible to accurately estimate the aberrations present in the analyzed concave device just through its associated foucaultgrams. PMID:27505659

  19. Foucault test: a quantitative evaluation method.

    PubMed

    Rodríguez, Gustavo; Villa, Jesús; Ivanov, Rumen; González, Efrén; Martínez, Geminiano

    2016-08-01

    Reliable and accurate testing methods are essential to guiding the polishing process during the figuring of optical telescope mirrors. With the natural advancement of technology, the procedures and instruments used to carry out this delicate task have consistently increased in sensitivity, but also in complexity and cost. Fortunately, throughout history, the Foucault knife-edge test has shown the potential to measure transverse aberrations in the order of the wavelength, mainly when described in terms of physical theory, which allows a quantitative interpretation of its characteristic shadowmaps. Our previous publication on this topic derived a closed mathematical formulation that directly relates the knife-edge position with the observed irradiance pattern. The present work addresses the quite unexplored problem of the wavefront's gradient estimation from experimental captures of the test, which is achieved by means of an optimization algorithm featuring a proposed ad hoc cost function. The partial derivatives thereby calculated are then integrated by means of a Fourier-based algorithm to retrieve the mirror's actual surface profile. To date and to the best of our knowledge, this is the very first time that a complete mathematical-grounded treatment of this optical phenomenon is presented, complemented by an image-processing algorithm which allows a quantitative calculation of the corresponding slope at any given point of the mirror's surface, so that it becomes possible to accurately estimate the aberrations present in the analyzed concave device just through its associated foucaultgrams.

  20. Errant life, molecular biology, and biopower: Canguilhem, Jacob, and Foucault.

    PubMed

    Talcott, Samuel

    2014-01-01

    This paper considers the theoretical circumstances that urged Michel Foucault to analyse modern societies in terms of biopower. Georges Canguilhem's account of the relations between science and the living forms an essential starting point for Foucault's own later explorations, though the challenges posed by the molecular revolution in biology and François Jacob's history of it allowed Foucault to extend and transform Canguilhem's philosophy of error. Using archival research into his 1955-1956 course on "Science and Error," I show that, for Canguilhem, it is inauthentic to treat a living being as an error, even if living things are capable of making errors in the domain of knowledge. The emergent molecular biology in the 1960s posed a grave challenge, however, since it suggested that individuals could indeed be errors of genetic reproduction. The paper discusses how Canguilhem and Foucault each responded to this by examining, among other texts, their respective reviews of Jacob's The Logic of the Living. For Canguilhem this was an opportunity to reaffirm the creativity of life in the living individual, which is not a thing to be evaluated, but the source of values. For Foucault, drawing on Jacob's work, this was the opportunity to develop a transformed account of valuation by posing biopower as the DNA of society. Despite their disagreements, the paper examines these three authors as different iterations of a historical epistemology attuned to errancy, error, and experimentation.

  1. Scientia sexualis versus ars erotica: Foucault, van Gulik, Needham.

    PubMed

    Rocha, Leon Antonio

    2011-09-01

    This paper begins with a discussion of the scientia sexualis/ars erotica distinction, which Foucault first advances in History of Sexuality Vol. 1, and which has been employed by many scholars to do a variety of analytical work. Though Foucault has expressed his doubts regarding his conceptualization of the differences between Western and Eastern discourses of desire, he never entirely disowns the distinction. In fact, Foucault remains convinced that China must have an ars erotica. I will explore Foucault's sources of authority. To this end, I introduce the work of famous Dutch sinologist Robert Hans van Gulik, who published the tremendously influential Sexual Life in Ancient China in 1961, and also explore Joseph Needham's view on Chinese sex. I argue that, Foucault, in his fierce polemic against the "Repressive Hypothesis", himself imagined a utopian Other where pleasure and desire were organised differently. I end on a discuss on Orientalism and the project of "Sinography" of comparative literature scholars Haun Saussy, Eric Hayot and others.

  2. Errant life, molecular biology, and biopower: Canguilhem, Jacob, and Foucault.

    PubMed

    Talcott, Samuel

    2014-01-01

    This paper considers the theoretical circumstances that urged Michel Foucault to analyse modern societies in terms of biopower. Georges Canguilhem's account of the relations between science and the living forms an essential starting point for Foucault's own later explorations, though the challenges posed by the molecular revolution in biology and François Jacob's history of it allowed Foucault to extend and transform Canguilhem's philosophy of error. Using archival research into his 1955-1956 course on "Science and Error," I show that, for Canguilhem, it is inauthentic to treat a living being as an error, even if living things are capable of making errors in the domain of knowledge. The emergent molecular biology in the 1960s posed a grave challenge, however, since it suggested that individuals could indeed be errors of genetic reproduction. The paper discusses how Canguilhem and Foucault each responded to this by examining, among other texts, their respective reviews of Jacob's The Logic of the Living. For Canguilhem this was an opportunity to reaffirm the creativity of life in the living individual, which is not a thing to be evaluated, but the source of values. For Foucault, drawing on Jacob's work, this was the opportunity to develop a transformed account of valuation by posing biopower as the DNA of society. Despite their disagreements, the paper examines these three authors as different iterations of a historical epistemology attuned to errancy, error, and experimentation. PMID:25515360

  3. Simple and accurate quantification of quantum dots via single-particle counting.

    PubMed

    Zhang, Chun-yang; Johnson, Lawrence W

    2008-03-26

    Quantification of quantum dots (QDs) is essential to the quality control of QD synthesis, development of QD-based LEDs and lasers, functionalizing of QDs with biomolecules, and engineering of QDs for biological applications. However, simple and accurate quantification of QD concentration in a variety of buffer solutions and in complex mixtures still remains a critical technological challenge. Here, we introduce a new methodology for quantification of QDs via single-particle counting, which is conceptually different from established UV-vis absorption and fluorescence spectrum techniques where large amounts of purified QDs are needed and specific absorption coefficient or quantum yield values are necessary for measurements. We demonstrate that single-particle counting allows us to nondiscriminately quantify different kinds of QDs by their distinct fluorescence burst counts in a variety of buffer solutions regardless of their composition, structure, and surface modifications, and without the necessity of absorption coefficient and quantum yield values. This single-particle counting can also unambiguously quantify individual QDs in a complex mixture, which is practically impossible for both UV-vis absorption and fluorescence spectrum measurements. Importantly, the application of this single-particle counting is not just limited to QDs but also can be extended to fluorescent microspheres, quantum dot-based microbeads, and fluorescent nano rods, some of which currently lack efficient quantification methods.

  4. Summary report of the group on single-particle nonlinear dynamics

    SciTech Connect

    Axinescu, S.; Bartolini, R.; Bazzani, A.

    1996-10-01

    This report summarizes the research on single-particle nonlinear beam dynamics. It discusses the following topics: analytical and semi-analytical tools; early prediction of the dynamic aperture; how the results are commonly presented; Is the mechanism of the dynamic aperture understand; ripple effects; and beam-beam effects.

  5. Single-Particle Laser Doppler Anemometry at 1.55 mum.

    PubMed

    Harris, M; Pearson, G N; Ridley, K D; Karlsson, C J; Olsson, F A; Letalick, D

    2001-02-20

    We demonstrate the successful operation of a cw laser Doppler wind sensor at a wavelength of 1.55 mum. At longer ranges (>100 m) the signal conforms closely to complex Gaussian statistics, consistent with the incoherent addition of contributions from a large number of scattering aerosols. As the range is reduced, the probe volume rapidly diminishes and the signal statistics are dramatically modified. At the shortest ranges (<8 m) the signal becomes dominated by short bursts, each originating from a single particle within the measurement volume. These single-particle events can have a very high signal-to-noise ratio (SNR) because (1) the signal becomes concentrated within a small time window and (2) its bandwidth is much reduced compared with multiparticle detection. Examples of wind-signal statistics at different ranges and for a variety of atmospheric backscatter conditions are presented. Results show that single-particle-scattering events play a significant role even to ranges of ~50 m, leading to results inconsistent with complex Gaussian statistics. The potential is assessed for a low-power laser Doppler wind sensor that exploits the SNR enhancement obtained with single-particle detection.

  6. Development of a Charged Particle Microbeam for Targeted and Single Particle Subcellular Irradiation

    SciTech Connect

    Yanch, Jacquelyn C.

    2004-03-12

    The development of a charged particle microbeam for single particle, subcellular irradiations at the Massachusetts Institute of Technology Laboratory for Accelerator Beam Applications (MIT LABA) was initiated under this NEER aeard. The Microbeam apparatus makes use of a pre-existing electrostatic accelerator with a horizontal beam tube.

  7. The magic nature of (132)Sn explored through the single-particle states of (133)Sn.

    PubMed

    Jones, K L; Adekola, A S; Bardayan, D W; Blackmon, J C; Chae, K Y; Chipps, K A; Cizewski, J A; Erikson, L; Harlin, C; Hatarik, R; Kapler, R; Kozub, R L; Liang, J F; Livesay, R; Ma, Z; Moazen, B H; Nesaraja, C D; Nunes, F M; Pain, S D; Patterson, N P; Shapira, D; Shriner, J F; Smith, M S; Swan, T P; Thomas, J S

    2010-05-27

    Atomic nuclei have a shell structure in which nuclei with 'magic numbers' of neutrons and protons are analogous to the noble gases in atomic physics. Only ten nuclei with the standard magic numbers of both neutrons and protons have so far been observed. The nuclear shell model is founded on the precept that neutrons and protons can move as independent particles in orbitals with discrete quantum numbers, subject to a mean field generated by all the other nucleons. Knowledge of the properties of single-particle states outside nuclear shell closures in exotic nuclei is important for a fundamental understanding of nuclear structure and nucleosynthesis (for example the r-process, which is responsible for the production of about half of the heavy elements). However, as a result of their short lifetimes, there is a paucity of knowledge about the nature of single-particle states outside exotic doubly magic nuclei. Here we measure the single-particle character of the levels in (133)Sn that lie outside the double shell closure present at the short-lived nucleus (132)Sn. We use an inverse kinematics technique that involves the transfer of a single nucleon to the nucleus. The purity of the measured single-particle states clearly illustrates the magic nature of (132)Sn. PMID:20505723

  8. Homogeneous vs heterogeneous polymerization catalysis revealed by single-particle fluorescence microscopy.

    PubMed

    Esfandiari, N Melody; Blum, Suzanne A

    2011-11-16

    A high-sensitivity and high-resolution single-particle fluorescence microscopy technique differentiated between homogeneous and heterogeneous metathesis polymerization catalysis by imaging the location of the early stages of polymerization. By imaging single polymers and single crystals of Grubbs II, polymerization catalysis was revealed to be solely homogeneous rather than heterogeneous or both.

  9. The magic nature of 132Sn explored through the single-particle states of 133Sn

    SciTech Connect

    Jones, K. L.; Adekola, Aderemi S; Bardayan, Daniel W; Blackmon, Jeff C; Chae, K. Y.; Chipps, K.; Cizewski, J. A.; Erikson, Luke; Harlin, Christopher W; Hatarik, Robert; Kapler, R.; Kozub, R. L.; Liang, J Felix; Livesay, Jake; Ma, Zhanwen; Moazen, Brian; Nesaraja, Caroline D; Nunes, F. M.; Pain, S. D.; Patterson, N. P.; Shapira, Dan; ShrinerJr., J. F.; Smith, Michael Scott; Swan, T. P.; Thomas, J. S.

    2010-05-01

    Atomic nuclei have a shell structure1 in which nuclei with magic numbers of neutrons and protons are analogous to the noble gases in atomic physics. Only ten nuclei with the standard magic numbers of both neutrons and protons have so far been observed. The nuclear shell model is founded on the precept that neutrons and protons can move as independent particles in orbitals with discrete quantum numbers, subject to a mean field generated by all the other nucleons. Knowledge of the properties of single-particle states outside nuclear shell closures in exotic nuclei is important2 5 for a fundamental understanding of nuclear structure and nucleosynthesis (for example the r-process, which is responsible for the production of about half of the heavy elements). However, as a result of their short lifetimes, there is a paucity of knowledge about the nature of single-particle states outside exotic doubly magic nuclei. Here we measure the single-particle character of the levels in 133Sn that lies outside the double shell closure present at the short-lived nucleus 132Sn. We use an inverse kinematics technique that involves the transfer of a single nucleon to the nucleus. The purity of the measured single-particle states clearly illustrates the magic nature of 132Sn.

  10. Léon Foucault: His Life, Times and Achievements

    NASA Astrophysics Data System (ADS)

    Aczel, Amir D.

    Léon Foucaults dramatic demonstration of the rotation of the Earth using a freely-rotating pendulum in 1850 shocked the world of science. Scientists were stunned that such a simple proof of our planets rotation had to wait so long to be developed. Foucaults public demonstration, which was repeated at many locations around the world, put an end to centuries of doubt about the Earths rotation - skepticism that had been bolstered since antiquity by Aristotelian philosophy and scripture. This paper puts Foucaults pendulum experiments in context, surveying the life and work of this extraordinary physicist, a man who achieved much - including work on measuring the speed of light, microscopy, astronomy, and photography - without formal training in the sciences.

  11. Foucault imaging by using non-dedicated transmission electron microscope

    NASA Astrophysics Data System (ADS)

    Taniguchi, Yoshifumi; Matsumoto, Hiroaki; Harada, Ken

    2012-08-01

    An electron optical system for observing Foucault images was constructed using a conventional transmission electron microscope without any special equipment for Lorentz microscopy. The objective lens was switched off and an electron beam was converged by a condenser optical system to the crossover on the selected area aperture plane. The selected area aperture was used as an objective aperture to select the deflected beam for Foucault mode, and the successive image-forming lenses were controlled for observation of the specimen images. The irradiation area on the specimen was controlled by selecting the appropriate diameter of the condenser aperture.

  12. Foucault imaging by using non-dedicated transmission electron microscope

    SciTech Connect

    Taniguchi, Yoshifumi; Matsumoto, Hiroaki; Harada, Ken

    2012-08-27

    An electron optical system for observing Foucault images was constructed using a conventional transmission electron microscope without any special equipment for Lorentz microscopy. The objective lens was switched off and an electron beam was converged by a condenser optical system to the crossover on the selected area aperture plane. The selected area aperture was used as an objective aperture to select the deflected beam for Foucault mode, and the successive image-forming lenses were controlled for observation of the specimen images. The irradiation area on the specimen was controlled by selecting the appropriate diameter of the condenser aperture.

  13. Cryo-EM single particle analysis with the Volta phase plate.

    PubMed

    Danev, Radostin; Baumeister, Wolfgang

    2016-01-01

    We present a method for in-focus data acquisition with a phase plate that enables near-atomic resolution single particle reconstructions. Accurate focusing is the determining factor for obtaining high quality data. A double-area focusing strategy was implemented in order to achieve the required precision. With this approach we obtained a 3.2 Å resolution reconstruction of the Thermoplasma acidophilum 20S proteasome. The phase plate matches or slightly exceeds the performance of the conventional defocus approach. Spherical aberration becomes a limiting factor for achieving resolutions below 3 Å with in-focus phase plate images. The phase plate could enable single particle analysis of challenging samples in terms of small size, heterogeneity and flexibility that are difficult to solve by the conventional defocus approach.

  14. DNA-directed assembly of gold nanohalo for quantitative plasmonic imaging of single-particle catalysis.

    PubMed

    Li, Kun; Wang, Kun; Qin, Weiwei; Deng, Suhui; Li, Di; Shi, Jiye; Huang, Qing; Fan, Chunhai

    2015-04-01

    Plasmonic imaging under a dark-field microscope (DFM) holds great promise for single-particle analysis in bioimaging, nanophotonics, and nanocatalysis. Here, we designed a DNA-directed programmable assembly strategy to fabricate a halo-like Au nanostructure (nanohalo) that couples plasmonic large gold nanoparticles (L-AuNPs) with catalytically active small AuNPs (S-AuNPs) in a single nanoarchitecture. Catalytic reaction occurring on S-AuNPs changes its permittivity, which results in a significant variation of the plasmonic resonance of the nanohalo. Hence, we can indirectly monitor catalytic reactions on a single nanohalo under DFM, on the basis of which we have obtained quantitative information on both nanocatalysis and catalyst poisoning. Our study thus provides a cost-effective means to quantitatively study metal NP-based catalysis at single-particle level.

  15. Recovering a stochastic process from super-resolution noisy ensembles of single-particle trajectories.

    PubMed

    Hoze, N; Holcman, D

    2015-11-01

    Recovering a stochastic process from noisy ensembles of single-particle trajectories is resolved here using the coarse-grained Langevin equation as a model. The massive redundancy contained in single-particle tracking data allows recovering local parameters of the underlying physical model. We use several parametric and nonparametric estimators to compute the first and second moments of the process, to recover the local drift, its derivative, and the diffusion tensor, and to deconvolve the instrumental from the physical noise. We use numerical simulations to also explore the range of validity for these estimators. The present analysis allows defining what can exactly be recovered from statistics of super-resolution microscopy trajectories used for characterizing molecular trafficking underlying cellular functions.

  16. Digital atom interferometer with single particle control on a discretized space-time geometry

    PubMed Central

    Steffen, Andreas; Alberti, Andrea; Alt, Wolfgang; Belmechri, Noomen; Hild, Sebastian; Karski, Michał; Widera, Artur; Meschede, Dieter

    2012-01-01

    Engineering quantum particle systems, such as quantum simulators and quantum cellular automata, relies on full coherent control of quantum paths at the single particle level. Here we present an atom interferometer operating with single trapped atoms, where single particle wave packets are controlled through spin-dependent potentials. The interferometer is constructed from a sequence of discrete operations based on a set of elementary building blocks, which permit composing arbitrary interferometer geometries in a digital manner. We use this modularity to devise a space-time analogue of the well-known spin echo technique, yielding insight into decoherence mechanisms. We also demonstrate mesoscopic delocalization of single atoms with a separation-to-localization ratio exceeding 500; this result suggests their utilization beyond quantum logic applications as nano-resolution quantum probes in precision measurements, being able to measure potential gradients with precision 5 × 10-4 in units of gravitational acceleration g. PMID:22665771

  17. Radiative capture of nucleons at astrophysical energies with single-particle states

    SciTech Connect

    Huang, J.T.; Bertulani, C.A.; Guimaraes, V.

    2010-11-15

    Radiative capture of nucleons at energies of astrophysical interest is one of the most important processes for nucleosynthesis. The nucleon capture can occur either by a compound nucleus reaction or by a direct process. The compound reaction cross sections are usually very small, especially for light nuclei. The direct capture proceeds either via the formation of a single-particle resonance or a non-resonant capture process. In this work we calculate radiative capture cross sections and astrophysical S-factors for nuclei in the mass region A<20 using single-particle states. We carefully discuss the parameter fitting procedure adopted in the simplified two-body treatment of the capture process. Then we produce a detailed list of cases for which the model works well. Useful quantities, such as spectroscopic factors and asymptotic normalization coefficients, are obtained and compared to published data.

  18. Detecting gamma-ray bursts with the pierre auger observatory using the single particle technique

    SciTech Connect

    Allard, Denis; Parizot, E.; Bertou, Xavier; Beatty, J.; Vernois, M.Du; Nitz, D.; Rodriguez, G.

    2005-08-01

    During the past ten years, gamma-ray Bursts (GRB) have been extensively studied in the keV-MeV energy range but the higher energy emission still remains mysterious. Ground based observatories have the possibility to investigate energy range around one GeV using the ''single particle technique''. The aim of the present study is to investigate the capability of the Pierre Auger Observatory to detect the high energy emission of GRBs with such a technique. According to the detector response to photon showers around one GeV, and making reasonable assumptions about the high energy emission of GRBs, we show that the Pierre Auger Observatory is a competitive instrument for this technique, and that water tanks are very promising detectors for the single particle technique.

  19. Single-particle fluctuations and directional correlations in driven hard-sphere glasses.

    PubMed

    Mandal, Suvendu; Chikkadi, Vijaykumar; Nienhuis, Bernard; Raabe, Dierk; Schall, Peter; Varnik, Fathollah

    2013-08-01

    Via event-driven molecular dynamics simulations and experiments, we study the packing-fraction and shear-rate dependence of single-particle fluctuations and dynamic correlations in hard-sphere glasses under shear. At packing fractions above the glass transition, correlations increase as shear rate decreases: the exponential tail in the distribution of single-particle jumps broadens and dynamic four-point correlations increase. Interestingly, however, upon decreasing the packing fraction, a broadening of the exponential tail is also observed, while dynamic heterogeneity is shown to decrease. An explanation for this behavior is proposed in terms of a competition between shear and thermal fluctuations. Building upon our previous studies [Chikkadi et al., Europhys. Lett. 100, 56001 (2012)], we further address the issue of anisotropy of the dynamic correlations.

  20. Entanglement classification of three fermions with up to nine single-particle states

    NASA Astrophysics Data System (ADS)

    Sárosi, Gábor; Lévay, Péter

    2014-04-01

    Based on results well known in the mathematics literature but not yet common knowledge in the physics literature, we conduct a study on three-fermionic systems with six, seven, eight, and nine single-particle states. Via introducing special polynomial invariants playing the role of entanglement measures the structure of the stochastic local operations and classical communication (SLOCC) entanglement classes is investigated. The SLOCC classes of the six- and seven-dimensional cases can elegantly be described by special subconfigurations of the Fano plane. Some special embedded systems containing distinguishable constituents are arising naturally in our formalism, namely, three-qubits and three-qutrits. In particular, the three fundamental invariants I6, I9, and I12 of the three-qutrits system are shown to arise as special cases of the four fundamental invariants of three-fermions with nine single-particle states.

  1. Inequivalence of single-particle and population lifetimes in a cuprate superconductor

    SciTech Connect

    Yang, Shuolong; Sobota, J. A.; Leuenberger, D.; He, Y.; Hashimoto, M.; Lu, D. H.; Eisaki, H.; Kirchmann, P. S.; Shen, Z. -X.

    2015-06-15

    We study optimally doped Bi-2212 (Tc=96 K) using femtosecond time- and angle-resolved photoelectron spectroscopy. Energy-resolved population lifetimes are extracted and compared with single-particle lifetimes measured by equilibrium photoemission. The population lifetimes deviate from the single-particle lifetimes in the low excitation limit by 1–2 orders of magnitude. Fundamental considerations of electron scattering unveil that these two lifetimes are in general distinct, yet for systems with only electron-phonon scattering they should converge in the low-temperature, low-fluence limit. As a result, the qualitative disparity in our data, even in this limit, suggests that scattering channels beyond electron-phonon interactions play a significant role in the electron dynamics of cuprate superconductors.

  2. Innovative molecular-based fluorescent nanoparticles for multicolor single particle tracking in cells

    NASA Astrophysics Data System (ADS)

    Daniel, Jonathan; Godin, Antoine G.; Palayret, Matthieu; Lounis, Brahim; Cognet, Laurent; Blanchard-Desce, Mireille

    2016-03-01

    Based on an original molecular-based design, we present bright and photostable fluorescent organic nanoparticles (FONs) showing excellent colloidal stability in various aqueous environments. Complementary near-infrared emitting and green emitting FONs were prepared using a simple, fast and robust protocol. Both types of FONs could be simultaneously imaged at the single-particle level in solution as well as in biological environments using a monochromatic excitation and a dual-color fluorescence microscope. No evidence of acute cytotoxicity was found upon incubation of live cells with mixed solutions of FONs, and both types of nanoparticles were found internalized in the cells where their motion could be simultaneously tracked at video-rate up to minutes. These fluorescent organic nanoparticles open a novel non-toxic alternative to existing nanoparticles for imaging biological structures, compatible with live-cell experiments and specially fitted for multicolor single particle tracking.

  3. Single-particle light-scattering measurement: photochemical aerosols and atmospheric particulates.

    PubMed

    Phillips, D T; Wyatt, P J

    1972-09-01

    The use of single-particle light-scattering measurements to determine the origin of atmospheric hazes has been explored by measurement of laboratory aerosols, field samples, and computer analysis of the light-scattering data. The refractive index of measured spherical particles 800 nm to 1000 nm in diameter was determined within 2%. For particles of diameter less than 500 nm the measurement of absolute scattering intensity is required for complete analysis. Distinctive nonspherical and absorbing particles were observed both in automotive exhaust and atmospheric samples. Electrostatic suspension of atmospheric particulates is demonstrated to provide a practical approach to optical measurement of single particles. The technique may be used to calibrate optical particle counters or identify particles with unique shape or refractive index.

  4. Competition between spontaneous symmetry breaking and single-particle gaps in trilayer graphene

    NASA Astrophysics Data System (ADS)

    Lee, Y.; Tran, D.; Myhro, K.; Velasco, J.; Gillgren, N.; Lau, C. N.; Barlas, Y.; Poumirol, J. M.; Smirnov, D.; Guinea, F.

    2014-12-01

    Many physical phenomena can be understood by single-particle physics; that is, treating particles as non-interacting entities. When this fails, many-body interactions lead to spontaneous symmetry breaking and phenomena such as fundamental particles’ mass generation, superconductivity and magnetism. Competition between single-particle and many-body physics leads to rich phase diagrams. Here we show that rhombohedral-stacked trilayer graphene offers an exciting platform for studying such interplay, in which we observe a giant intrinsic gap ~42 meV that can be partially suppressed by an interlayer potential, a parallel magnetic field or a critical temperature ~36 K. Among the proposed correlated phases with spatial uniformity, our results are most consistent with a layer antiferromagnetic state with broken time reversal symmetry. These results reflect the interplay between externally induced and spontaneous symmetry breaking whose relative strengths are tunable by external fields, and provide insight into other low-dimensional systems.

  5. Testing the Validity of Single-Particle Maps at Low and High Resolution.

    PubMed

    Rosenthal, P B

    2016-01-01

    Single-particle electron cryomicroscopy may be used to determine the structure of biological assemblies by aligning and averaging low-contrast projection images recorded in the electron microscope. Recent progress in both experimental and computational methods has led to higher resolution three-dimensional maps, including for more challenging low molecular weight proteins, and this has highlighted the problems of model bias and over-fitting during iterative refinement that can potentially lead to incorrect map features at low or high resolution. This chapter discusses the principles and practice of specific validation tests that demonstrate the consistency of a 3D map with projection images. In addition, the chapter describes tests that detect over-fitting during refinement and lead to more robust assessment of both global and local map resolution. Application of several of these tests together demonstrates the reliability of single-particle maps that underpins their correct biological interpretation. PMID:27572729

  6. Development of an improved method to perform single particle analysis by TIMS for nuclear safeguards.

    PubMed

    Kraiem, M; Richter, S; Kühn, H; Aregbe, Y

    2011-02-28

    A method is described that allows measuring the isotopic composition of small uranium oxide particles (less than 1μm in diameter) for nuclear safeguards purposes. In support to the development of reliable tools for the identification of uranium and plutonium signatures in trace amounts of nuclear materials, improvements in scanning electron microscopy (SEM) and thermal ionization mass spectrometry (TIMS) in combination with filament carburization and multiple ion counting (MIC) detection were investigated. The method that has been set up enables the analysis of single particles by a combination of analytical tools, thus yielding morphological, elemental and isotopic information. Hereby individual particles of certified reference materials (CRMs) containing uranium at femtogram levels were analysed. The results showed that the combination of techniques proposed in this work is suitable for the accurate determination of uranium isotope ratios in single particles with improved capabilities for the minor abundant isotopes. PMID:21296200

  7. Cryo-EM single particle analysis with the Volta phase plate

    PubMed Central

    Danev, Radostin; Baumeister, Wolfgang

    2016-01-01

    We present a method for in-focus data acquisition with a phase plate that enables near-atomic resolution single particle reconstructions. Accurate focusing is the determining factor for obtaining high quality data. A double-area focusing strategy was implemented in order to achieve the required precision. With this approach we obtained a 3.2 Å resolution reconstruction of the Thermoplasma acidophilum 20S proteasome. The phase plate matches or slightly exceeds the performance of the conventional defocus approach. Spherical aberration becomes a limiting factor for achieving resolutions below 3 Å with in-focus phase plate images. The phase plate could enable single particle analysis of challenging samples in terms of small size, heterogeneity and flexibility that are difficult to solve by the conventional defocus approach. DOI: http://dx.doi.org/10.7554/eLife.13046.001 PMID:26949259

  8. Gold nanoparticle translocation dynamics and electrical detection of single particle diffusion using solid-state nanopores.

    PubMed

    Goyal, Gaurav; Freedman, Kevin J; Kim, Min Jun

    2013-09-01

    This paper describes the use of gold nanoparticles to study particle translocation dynamics through silicon nitride solid-state nanopores. Gold nanoparticles were dispersed in 20 mM KCl solution containing nonionic surfactant Triton X-100 and their translocation was studied at different applied voltages. The use of low electrolyte concentration resulted in current enhancement upon particle translocation. The counterion cloud around the nanoparticles is proposed to be the reason for current enhancement phenomena because associated counterion cloud is believed to increase the ion density inside the pore during particle translocation. Further, single particle diffusion events were also recorded at 0 mV voltage bias and 0 pA background ionic current with high signal-to-noise ratio as the particles moved down their concentration gradient. The ability of nanopore sensors to detect single particle diffusion can be extended to field-free analysis of biomolecules in their native state and at or near physiological salt concentrations.

  9. Temperature and momentum dependence of single-particle properties in hot asymmetric nuclear matter

    SciTech Connect

    Moustakidis, Ch. C.

    2008-11-15

    We have studied the effects of momentum-dependent interactions on the single-particle properties of hot asymmetric nuclear matter. In particular, the single-particle potential of protons and neutrons as well as the symmetry potential have been studied within a self-consistent model using a momentum-dependent effective interaction. In addition, the isospin splitting of the effective mass has been derived from the above model. In each case temperature effects have been included and analyzed. The role of the specific parametrization of the effective interaction used in the present work has been investigated. It has been concluded that the behavior of the symmetry potential depends strongly on the parametrization of the interaction part of the energy density and the momentum dependence of the regulator function. The effects of the parametrization have been found to be less pronounced on the isospin mass splitting.

  10. Apparatus for studies of high-temperature chemical reactions in single particle systems

    NASA Astrophysics Data System (ADS)

    Andrzejak, Timothy A.; Shafirovich, Evgeny; Taylor, David G.; Varma, Arvind

    2007-08-01

    We report a compact microgravity flight apparatus for characterization of high-temperature chemical reactions in single particle systems. The apparatus employs an infrared CO2 laser to ignite 1-5mm samples while video images, thermocouple measurements, laser on/off status, and XYZ accelerometer signals are synchronously recorded. Different operating modes permit preignition quenching, ignition, and combustion experiments to be performed. The apparatus was successfully utilized during microgravity experiments on board NASA research aircraft.

  11. GraFix: sample preparation for single-particle electron cryomicroscopy.

    PubMed

    Kastner, Berthold; Fischer, Niels; Golas, Monika Mariola; Sander, Bjoern; Dube, Prakash; Boehringer, Daniel; Hartmuth, Klaus; Deckert, Jochen; Hauer, Florian; Wolf, Elmar; Uchtenhagen, Hannes; Urlaub, Henning; Herzog, Franz; Peters, Jan Michael; Poerschke, Dietmar; Lührmann, Reinhard; Stark, Holger

    2008-01-01

    We developed a method, named GraFix, that considerably improves sample quality for structure determination by single-particle electron cryomicroscopy (cryo-EM). GraFix uses a glycerol gradient centrifugation step in which the complexes are centrifuged into an increasing concentration of a chemical fixation reagent to prevent aggregation and to stabilize individual macromolecules. The method can be used to prepare samples for negative-stain, cryo-negative-stain and, particularly, unstained cryo-EM. PMID:18157137

  12. Single-particle correlated time-of-flight velocimeter for remote wind-speed measurement.

    PubMed

    Bartlett, K G; She, C Y

    1977-11-01

    A new technique of single-particle correlation for wind-speed measurement by determining aerosol time of flight is discussed. Using this technique, single-ended remote measurement of atmospheric wind speeds has been demonstrated at ranges up to 100 m under natural aerosol conditions with less than 0.2-W continuous-wave laser power with a measurement time of approximately 1 sec.

  13. Single-particle cryo-EM data acquisition by using direct electron detection camera.

    PubMed

    Wu, Shenping; Armache, Jean-Paul; Cheng, Yifan

    2016-02-01

    Recent advances in single-particle electron cryo-microscopy (cryo-EM) were largely facilitated by the application of direct electron detection cameras. These cameras feature not only a significant improvement in detective quantum efficiency but also a high frame rate that enables images to be acquired as 'movies' made of stacks of many frames. In this review, we discuss how the applications of direct electron detection cameras in cryo-EM have changed the way the data are acquired.

  14. Unsupervised classification of single-particle X-ray diffraction snapshots by spectral clustering

    NASA Astrophysics Data System (ADS)

    Yoon, Chun Hong; Schwander, Peter; Abergel, Chantal; Andersson, Inger; Andreasson, Jakob; Aquila, Andrew; Bajt, Saša.; Barthelmess, Miriam; Barty, Anton; Bogan, Michael J.; Bostedt, Christoph; Bozek, John; Chapman, Henry N.; Claverie, Jean-Michel; Coppola, Nicola; Deponte, Daniel P.; Ekeberg, Tomas; Epp, Sascha W.; Erk, Benjamin; Fleckenstein, Holger; Foucar, Lutz; Graafsma, Heinz; Gumprecht, Lars; Hajdu, Janos; Hampton, Christina Y.; Hartmann, Andreas; Hartmann, Elisabeth; Hartmann, Robert; Hauser, Gunter; Hirsemann, Helmut; Holl, Peter; Kassemeyer, Stephan; Kimmel, Nils; Kiskinova, Maya; Liang, Mengning; Duane Loh, Ne-Te; Lomb, Lukas; Maia, Filipe R. N. C.; Martin, Andrew V.; Nass, Karol; Pedersoli, Emanuele; Reich, Christian; Rolles, Daniel; Rudek, Benedikt; Rudenko, Artem; Schlichting, Ilme; Schulz, Joachim; Seibert, Marvin; Seltzer, Virginie; Shoeman, Robert L.; Sierra, Raymond G.; Soltau, Heike; Starodub, Dmitri; Steinbrener, Jan; Stier, Gunter; Strüder, Lothar; Svenda, Martin; Ullrich, Joachim; Weidenspointner, Georg; White, Thomas A.; Wunderer, Cornelia; Ourmazd, Abbas

    2011-08-01

    Single-particle experiments using X-ray Free Electron Lasers produce more than 105 snapshots per hour, consisting of an admixture of blank shots (no particle intercepted), and exposures of one or more particles. Experimental data sets also often contain unintentional contamination with different species. We present an unsupervised method able to sort experimental snapshots without recourse to templates, specific noise models, or user-directed learning. The results show 90% agreement with manual classification.

  15. Unsupervised classification of single-particle X-ray diffraction snapshots by spectral clustering.

    PubMed

    Yoon, Chun Hong; Schwander, Peter; Abergel, Chantal; Andersson, Inger; Andreasson, Jakob; Aquila, Andrew; Bajt, Saša; Barthelmess, Miriam; Barty, Anton; Bogan, Michael J; Bostedt, Christoph; Bozek, John; Chapman, Henry N; Claverie, Jean-Michel; Coppola, Nicola; DePonte, Daniel P; Ekeberg, Tomas; Epp, Sascha W; Erk, Benjamin; Fleckenstein, Holger; Foucar, Lutz; Graafsma, Heinz; Gumprecht, Lars; Hajdu, Janos; Hampton, Christina Y; Hartmann, Andreas; Hartmann, Elisabeth; Hartmann, Robert; Hauser, Gunter; Hirsemann, Helmut; Holl, Peter; Kassemeyer, Stephan; Kimmel, Nils; Kiskinova, Maya; Liang, Mengning; Loh, Ne-Te Duane; Lomb, Lukas; Maia, Filipe R N C; Martin, Andrew V; Nass, Karol; Pedersoli, Emanuele; Reich, Christian; Rolles, Daniel; Rudek, Benedikt; Rudenko, Artem; Schlichting, Ilme; Schulz, Joachim; Seibert, Marvin; Seltzer, Virginie; Shoeman, Robert L; Sierra, Raymond G; Soltau, Heike; Starodub, Dmitri; Steinbrener, Jan; Stier, Gunter; Strüder, Lothar; Svenda, Martin; Ullrich, Joachim; Weidenspointner, Georg; White, Thomas A; Wunderer, Cornelia; Ourmazd, Abbas

    2011-08-15

    Single-particle experiments using X-ray Free Electron Lasers produce more than 10(5) snapshots per hour, consisting of an admixture of blank shots (no particle intercepted), and exposures of one or more particles. Experimental data sets also often contain unintentional contamination with different species. We present an unsupervised method able to sort experimental snapshots without recourse to templates, specific noise models, or user-directed learning. The results show 90% agreement with manual classification.

  16. Topological invariants for interacting topological insulators. II. Breakdown of single-particle Green's function formalism

    NASA Astrophysics Data System (ADS)

    He, Yuan-Yao; Wu, Han-Qing; Meng, Zi Yang; Lu, Zhong-Yi

    2016-05-01

    Topological phase transitions in free fermion systems can be characterized by the closing of single-particle gap and the change in topological invariants. However, in the presence of electronic interactions, topological phase transitions can be more complicated. In paper I of this series [Phys. Rev. B 93, 195163 (2016), 10.1103/PhysRevB.93.195163], we have proposed an efficient scheme to evaluate the topological invariants based on the single-particle Green's function formalism. Here, in paper II, we demonstrate several interaction-driven topological phase transitions (TPTs) in two-dimensional (2D) interacting topological insulators (TIs) via large-scale quantum Monte Carlo (QMC) simulations, based on the scheme of evaluating topological invariants presented in paper I. Across these transitions, the defining symmetries of the TIs have been neither explicitly nor spontaneously broken. In the first two models, the topological invariants calculated from the Green's function formalism succeed in characterizing the topologically distinct phases and identifying interaction-driven TPTs. However, in the other two models, we find that the single-particle gap does not close and the topological invariants constructed from the single-particle Green's function acquire no change across the TPTs. Unexpected breakdown of the Green's function formalism in constructing the topological invariants is thus discovered. We thence classify the topological phase transitions in interacting TIs into two categories in practical computation: Those that have noninteracting correspondence can be characterized successfully by the topological invariants constructed from the Green's functions, while for the others that do not have noninteracting correspondence, the Green's function formalism experiences a breakdown, but more interesting and exciting phenomena, such as emergent collective critical modes at the transition, arise. Discussion on the success and breakdown of topological invariants

  17. Unsupervised classification of single-particle X-ray diffraction snapshots by spectral clustering.

    PubMed

    Yoon, Chun Hong; Schwander, Peter; Abergel, Chantal; Andersson, Inger; Andreasson, Jakob; Aquila, Andrew; Bajt, Saša; Barthelmess, Miriam; Barty, Anton; Bogan, Michael J; Bostedt, Christoph; Bozek, John; Chapman, Henry N; Claverie, Jean-Michel; Coppola, Nicola; DePonte, Daniel P; Ekeberg, Tomas; Epp, Sascha W; Erk, Benjamin; Fleckenstein, Holger; Foucar, Lutz; Graafsma, Heinz; Gumprecht, Lars; Hajdu, Janos; Hampton, Christina Y; Hartmann, Andreas; Hartmann, Elisabeth; Hartmann, Robert; Hauser, Gunter; Hirsemann, Helmut; Holl, Peter; Kassemeyer, Stephan; Kimmel, Nils; Kiskinova, Maya; Liang, Mengning; Loh, Ne-Te Duane; Lomb, Lukas; Maia, Filipe R N C; Martin, Andrew V; Nass, Karol; Pedersoli, Emanuele; Reich, Christian; Rolles, Daniel; Rudek, Benedikt; Rudenko, Artem; Schlichting, Ilme; Schulz, Joachim; Seibert, Marvin; Seltzer, Virginie; Shoeman, Robert L; Sierra, Raymond G; Soltau, Heike; Starodub, Dmitri; Steinbrener, Jan; Stier, Gunter; Strüder, Lothar; Svenda, Martin; Ullrich, Joachim; Weidenspointner, Georg; White, Thomas A; Wunderer, Cornelia; Ourmazd, Abbas

    2011-08-15

    Single-particle experiments using X-ray Free Electron Lasers produce more than 10(5) snapshots per hour, consisting of an admixture of blank shots (no particle intercepted), and exposures of one or more particles. Experimental data sets also often contain unintentional contamination with different species. We present an unsupervised method able to sort experimental snapshots without recourse to templates, specific noise models, or user-directed learning. The results show 90% agreement with manual classification. PMID:21935018

  18. Foucault on Camp: What Does His Work Offer Outdoor Education?

    ERIC Educational Resources Information Center

    Zink, Robyn; Burrows, Lisette

    2006-01-01

    In this paper we examine aspects of French social theorist, Michel Foucault's work and the contributions these can make to understanding practices in outdoor education. We look specifically at his notions of practice, discourse, power and the self and the lines of questioning that these concepts make possible in relation to outdoor education. We…

  19. Foucault at School: Discipline, Education and Agency in "Harry Potter"

    ERIC Educational Resources Information Center

    Wolosky, Shira

    2014-01-01

    The formative power of children's literature is both great and suspicious. As a resource of socialization, the construction and experience of children's literature can be seen as modes of disciplinary coercion such as Michel Foucault has anatomized. "Harry Potter", as a "craze" phenomenon, has attracted particular…

  20. Applying Foucault's "Archaeology" to the Education of School Counselors

    ERIC Educational Resources Information Center

    Shenker, Susan S.

    2008-01-01

    Counselor educators can utilize the ideas of philosopher Michel Foucault in preparing preservice school counselors for their work with K-12 students in public schools. The Foucaultian ideas of "governmentality," "technologies of domination," "received truths," "power/knowledge," "discontinuity," and "archaeology" can contribute to students'…

  1. The Pleasures of Learning at Work: Foucault and Phenomenology Compared

    ERIC Educational Resources Information Center

    Hughes, Christina

    2007-01-01

    This paper provides a comparative account of two conceptualisations of pleasure. The first draws on Foucault's analysis of bio-power. The second provides a phenomenological account where pleasure is viewed as an aspect of our immediate consciousness. These conceptualisations are illuminated through an analysis of employees' accounts of learning at…

  2. What Makes the Foucault Pendulum Move among the Stars?

    ERIC Educational Resources Information Center

    Phillips, Norman

    2004-01-01

    Foucault's pendulum exhibition in 1851 occurred in an era now known by development of the theorems of Coriolis and the formulation of dynamical meteorology by Ferrel. Yet today the behavior of the pendulum is often misunderstood. The existence of a horizontal component of Newtonian gravitation is essential for understanding the behavior with…

  3. A Critical Theory of the Self: Wittgenstein, Nietzsche, Foucault.

    ERIC Educational Resources Information Center

    Marshall, James D.

    2001-01-01

    Argues for a Foucauldean position on the self to extend critical theory. Discusses several philosophical accounts of the self, including the work of such philosophers as Descartes, Hume, Locke, Rousseau, Schopenhauer, Wittgenstein, and Nietzsche. Concludes that Foucault's philosophy provides a powerful critical conception of the self for critical…

  4. Optical Foucault Pendulum: photons and the Coriolis effect

    NASA Astrophysics Data System (ADS)

    Rogers, Charles; Selvaggi, Richard

    2012-10-01

    Consider the motion of photons within a rotating photon clock. Will light behave as a particle as it reflects back and forth between two parallel mirrors rotating in a manner similar to the motion of a Foucault pendulum? An experiment to measure the trajectory of light in a rotating cavity is presented. Implementation details for this experiment and initial data collected are also reported.

  5. Beyond Intimaphobia: Object Lessons from Foucault and Sade

    ERIC Educational Resources Information Center

    Greteman, Adam Joseph

    2014-01-01

    In this study I suggest ways of thinking through issues of intimacy that have emerged in the late twentieth and early twenty-first centuries in the USA. I propose a state of intimaphobia in education. However, I move beyond exposing this state of intimaphobia to offer particular readings of two philosophers of intimacy: Michel Foucault and the…

  6. Putting Foucault to Work: Understanding Power in a Rural School

    ERIC Educational Resources Information Center

    Freie, Carrie; Eppley, Karen

    2014-01-01

    This case study uses the work of Michel Foucault to challenge the normalization of the principal's role and to examine the complex power relations of a rural school and community in the midst of a closure/consolidation and subsequent reopening as a charter school. In so doing, we move beyond analysis of best practices and toward a more…

  7. Single Particle ICP-MS: Advances toward routine analysis of nanomaterials.

    PubMed

    Montaño, Manuel D; Olesik, John W; Barber, Angela G; Challis, Katie; Ranville, James F

    2016-07-01

    From its early beginnings in characterizing aerosol particles to its recent applications for investigating natural waters and waste streams, single particle inductively coupled plasma-mass spectrometry (spICP-MS) has proven to be a powerful technique for the detection and characterization of aqueous dispersions of metal-containing nanomaterials. Combining the high-throughput of an ensemble technique with the specificity of a single particle counting technique and the elemental specificity of ICP-MS, spICP-MS is capable of rapidly providing researchers with information pertaining to size, size distribution, particle number concentration, and major elemental composition with minimal sample perturbation. Recently, advances in data acquisition, signal processing, and the implementation of alternative mass analyzers (e.g., time-of-flight) has resulted in a wider breadth of particle analyses and made significant progress toward overcoming many of the challenges in the quantitative analysis of nanoparticles. This review provides an overview of spICP-MS development from a niche technique to application for routine analysis, a discussion of the key issues for quantitative analysis, and examples of its further advancement for analysis of increasingly complex environmental and biological samples. Graphical Abstract Single particle ICP-MS workflow for the analysis of suspended nanoparticles.

  8. High-density single-particle tracking: quantifying molecule organization and dynamics at the nanoscale.

    PubMed

    Sibarita, Jean-Baptiste

    2014-06-01

    The organization and dynamics of proteins are fundamental parameters for cellular function. Their study, at the single-molecule level, provides precise information on molecular interactions. Over the last 30 years, the single-particle tracking imaging technique has proven its capability to efficiently quantify such parameters in many biological systems, with nanometric accuracy and millisecond temporal resolutions. Nevertheless, the low concentration of labeling required for single-molecule imaging usually prevents the extraction of large statistics. The advent of high-density single-molecule-based super-resolution techniques has revolutionized the field, allowing monitoring of thousands of biomolecules in the minute timescale and providing unprecedented insight into the molecular organization and dynamics of cellular compounds. In this issue, I will review the main principles of single-particle tracking, a highly interdisciplinary technique at the interface between microscopy, image analysis and labeling strategies. I will point out the advantages brought by high-density single-particle tracking which will be illustrated with a few recent biological results.

  9. Advances in Single-Particle Electron Cryomicroscopy Structure Determination applied to Sub-tomogram Averaging.

    PubMed

    Bharat, Tanmay A M; Russo, Christopher J; Löwe, Jan; Passmore, Lori A; Scheres, Sjors H W

    2015-09-01

    Recent innovations in specimen preparation, data collection, and image processing have led to improved structure determination using single-particle electron cryomicroscopy (cryo-EM). Here we explore some of these advances to improve structures determined using electron cryotomography (cryo-ET) and sub-tomogram averaging. We implement a new three-dimensional model for the contrast transfer function, and use this in a regularized likelihood optimization algorithm as implemented in the RELION program. Using direct electron detector data, we apply both single-particle analysis and sub-tomogram averaging to analyze radiation-induced movements of the specimen. As in single-particle cryo-EM, we find that significant sample movements occur during tomographic data acquisition, and that these movements are substantially reduced through the use of ultrastable gold substrates. We obtain a sub-nanometer resolution structure of the hepatitis B capsid, and show that reducing radiation-induced specimen movement may be central to attempts at further improving tomogram quality and resolution.

  10. Single-particle structure determination by X-ray free-electron lasers: Possibilities and challenges.

    PubMed

    Hosseinizadeh, A; Dashti, A; Schwander, P; Fung, R; Ourmazd, A

    2015-07-01

    Single-particle structure recovery without crystals or radiation damage is a revolutionary possibility offered by X-ray free-electron lasers, but it involves formidable experimental and data-analytical challenges. Many of these difficulties were encountered during the development of cryogenic electron microscopy of biological systems. Electron microscopy of biological entities has now reached a spatial resolution of about 0.3 nm, with a rapidly emerging capability to map discrete and continuous conformational changes and the energy landscapes of biomolecular machines. Nonetheless, single-particle imaging by X-ray free-electron lasers remains important for a range of applications, including the study of large "electron-opaque" objects and time-resolved examination of key biological processes at physiological temperatures. After summarizing the state of the art in the study of structure and conformations by cryogenic electron microscopy, we identify the primary opportunities and challenges facing X-ray-based single-particle approaches, and possible means for circumventing them.

  11. EMAN: semiautomated software for high-resolution single-particle reconstructions.

    PubMed

    Ludtke, S J; Baldwin, P R; Chiu, W

    1999-12-01

    We present EMAN (Electron Micrograph ANalysis), a software package for performing semiautomated single-particle reconstructions from transmission electron micrographs. The goal of this project is to provide software capable of performing single-particle reconstructions beyond 10 A as such high-resolution data become available. A complete single-particle reconstruction algorithm is implemented. Options are available to generate an initial model for particles with no symmetry, a single axis of rotational symmetry, or icosahedral symmetry. Model refinement is an iterative process, which utilizes classification by model-based projection matching. CTF (contrast transfer function) parameters are determined using a new paradigm in which data from multiple micrographs are fit simultaneously. Amplitude and phase CTF correction is then performed automatically as part of the refinement loop. A graphical user interface is provided, so even those with little image processing experience will be able to begin performing reconstructions. Advanced users can directly use the lower level shell commands and even expand the package utilizing EMAN's extensive image-processing library. The package was written from scratch in C++ and is provided free of charge on our Web site. We present an overview of the package as well as several conformance tests with simulated data.

  12. Advances in Single-Particle Electron Cryomicroscopy Structure Determination applied to Sub-tomogram Averaging.

    PubMed

    Bharat, Tanmay A M; Russo, Christopher J; Löwe, Jan; Passmore, Lori A; Scheres, Sjors H W

    2015-09-01

    Recent innovations in specimen preparation, data collection, and image processing have led to improved structure determination using single-particle electron cryomicroscopy (cryo-EM). Here we explore some of these advances to improve structures determined using electron cryotomography (cryo-ET) and sub-tomogram averaging. We implement a new three-dimensional model for the contrast transfer function, and use this in a regularized likelihood optimization algorithm as implemented in the RELION program. Using direct electron detector data, we apply both single-particle analysis and sub-tomogram averaging to analyze radiation-induced movements of the specimen. As in single-particle cryo-EM, we find that significant sample movements occur during tomographic data acquisition, and that these movements are substantially reduced through the use of ultrastable gold substrates. We obtain a sub-nanometer resolution structure of the hepatitis B capsid, and show that reducing radiation-induced specimen movement may be central to attempts at further improving tomogram quality and resolution. PMID:26256537

  13. Web server for tilt-pair validation of single particle maps from electron cryomicroscopy.

    PubMed

    Wasilewski, Sebastian; Rosenthal, Peter B

    2014-04-01

    Three-dimensional structures of biological assemblies may be calculated from images of single particles obtained by electron cryomicroscopy. A key step is the correct determination of the orientation of the particle in individual image projections. A useful tool for validation of the quality of a 3D map and its consistency with images is tilt-pair analysis. In a successful tilt-pair test, the relative angle between orientations assigned to each image of a tilt-pair agrees with the known relative rotation angle of the microscope specimen holder during the experiment. To make the procedure easy to apply to the increasing number of single particle maps, we have developed software and a web server for tilt-pair analysis. The tilt-pair analysis program reports the overall agreement of the assigned orientations with the known tilt angle and axis of the experiment and the distribution of tilt transformations for individual particles recorded in a single image field. We illustrate application of the validation tool to several single particle specimens and describe how to interpret the scores.

  14. Electron Cryomicroscopy of Membrane Proteins: Specimen Preparation for Two-Dimensional Crystals and Single Particles

    PubMed Central

    Schmidt-Krey, Ingeborg; Rubinstein, John L.

    2010-01-01

    Membrane protein structure and function can be studied by two powerful and highly complementary electron cryomicroscopy (cryo-EM) methods: electron crystallography of two-dimensional (2D) crystals and single particle analysis of detergent-solubilized protein complexes. To obtain the highest-possible resolution data from membrane proteins, whether prepared as 2D crystals or single particles, cryo-EM samples must be vitrified with great care. Grid preparation for cryo-EM of 2D crystals is possible by back-injection, the carbon sandwich technique, drying in sugars before cooling in the electron microscope, or plunge-freezing. Specimen grids for single particle cryo-EM studies of membrane proteins are usually produced by plunge-freezing protein solutions, supported either by perforated or a continuous carbon film substrate. This review outlines the different techniques available and the suitability of each method for particular samples and studies. Experimental considerations in sample preparation and preservation include the protein itself and the presence of lipid or detergent. The appearance of cryo-EM samples in different conditions is also discussed. PMID:20678942

  15. [Foucault's concept of gouvernmentality: an instrument to analyse nursing science].

    PubMed

    Friesacher, Heiner

    2004-12-01

    The following article will present the concept of gouvernmentality by the French philosopher Michel Foucault (1926-1984). I will point out in which way his idea could be applied to nursing science. The notion gouvernmentality goes back to the late works of Michel Foucault. The idea of gouvernmentality continues, broadens and shifts the stress of his influential work on the analysis of power. The strategic concept of power is not sufficient to investigate from a consistent analytical perspective into the complex problems of the state and subjectivity. Only Foucault's findings of the notion and the concept of gouvernmentality has come up to an adequate analytical method. Relations of power are investigated from the point of view and hereby social technologies and self-technologies can be analysed in relation to each other The analysis of neo-liberal gouvernmentality finally succeeds by using this broadening of perspective. A new definition of state and economy can be revealed: the market turns into a regulating principle and economics grasps all kinds of human actions and proceedings. Apart from a few exceptions the hitherto Foucault-reception in nursing science does not follow the late works of Foucault and limits its research possibilities. In this article I will analyse examples of the quality discourse and the problems of an interpretation of needs. It will be shown how both areas might shape patients as well as nurses in the sense of neo-liberal subject formation and how finally the act and art of nursing will be transformed into an act of economics.

  16. Single particle electron microscopy reconstruction of the exosome complex using the random conical tilt method.

    PubMed

    Liu, Xueqi; Wang, Hong-Wei

    2011-03-28

    Single particle electron microscopy (EM) reconstruction has recently become a popular tool to get the three-dimensional (3D) structure of large macromolecular complexes. Compared to X-ray crystallography, it has some unique advantages. First, single particle EM reconstruction does not need to crystallize the protein sample, which is the bottleneck in X-ray crystallography, especially for large macromolecular complexes. Secondly, it does not need large amounts of protein samples. Compared with milligrams of proteins necessary for crystallization, single particle EM reconstruction only needs several micro-liters of protein solution at nano-molar concentrations, using the negative staining EM method. However, despite a few macromolecular assemblies with high symmetry, single particle EM is limited at relatively low resolution (lower than 1 nm resolution) for many specimens especially those without symmetry. This technique is also limited by the size of the molecules under study, i.e. 100 kDa for negatively stained specimens and 300 kDa for frozen-hydrated specimens in general. For a new sample of unknown structure, we generally use a heavy metal solution to embed the molecules by negative staining. The specimen is then examined in a transmission electron microscope to take two-dimensional (2D) micrographs of the molecules. Ideally, the protein molecules have a homogeneous 3D structure but exhibit different orientations in the micrographs. These micrographs are digitized and processed in computers as "single particles". Using two-dimensional alignment and classification techniques, homogenous molecules in the same views are clustered into classes. Their averages enhance the signal of the molecule's 2D shapes. After we assign the particles with the proper relative orientation (Euler angles), we will be able to reconstruct the 2D particle images into a 3D virtual volume. In single particle 3D reconstruction, an essential step is to correctly assign the proper orientation

  17. Geometric Phase of a Transported Oscillator

    SciTech Connect

    Dittirich, W.

    2004-02-25

    An oscillator constrained to a plane that is transported along some surface will rotate by an angle dependent only on the path and the surface, not on the speed at which it is transported. This is thus an example of a geometric phase. We analyze this phase using the methods of parallel transport. This concept plays a key role in General Relativity, but it can also be applied in classical mechanics. The Foucault pendulum can be seen as an application of this analysis, where the surface is a sphere and the curve is a line of constant latitude. In view of some considerable confusion and erroneous treatments in the recent literature, we here present a rather simple way for visualizing the motion of the Foucault pendulum using concepts that are based on Frenet's formulae and the methods of parallel displacement.

  18. Evolution of the Foucault-Secretan reflecting telescope

    NASA Astrophysics Data System (ADS)

    Tobin, William

    2016-08-01

    Léon Foucault developed the silvered-glass reflecting telescope in collaboration with the instrument maker Marc Secretan. Almost immediately, they began selling 4- and 8-(French)-inch Newtonian telescopes in wooden tubes to amateurs. Several 4-inch examples have survived. As Foucault attempted to make larger diameters he moved from spherical to paraboloidal mirrors and developed tests to determine the errors of the surfaces he was polishing, of which the knife-edge test is the most informative and sensitive. The errors were then corrected with retouches locales, i.e. local repolishing. He also introduced the concept of pouvoir optique, or optical power, to characterize the performance of his mirrors. He made several professional reflecting telescopes, culminating in the 80-cm instrument now at the Marseilles Observatory. A number of his instruments are illustrated in physics textbooks of the time. Foucault predominantly adopted an f/6 focal ratio with a prism secondary close to the prime focus and a microscope-like eyepiece assembly to bring the image to the observer. In 1865, with Marc's son Auguste, Foucault announced a metal-mounted 10-cm alt-az amateur instrument, which soon became available in larger sizes and with equatorial mounts. Several examples survive. In 1866 the head of the Secretan workshop, Wilhelm Eichens, split from the firm. Marc died in 1867, followed by Foucault in 1868. Foucault's pupil Adolphe Martin published some of Foucault's mirror- and lens-making secrets. Martin worked with both Eichens and, episodically, the Secretan firm; but though able to figure small mirrors he proved incapable of finishing 80- and 120-cm ones begun under Foucault destined for the Toulouse and Paris Observatories. Auguste Secretan associated with Paul and Prosper Henry for mirror figuring. The Secretan offering of silvered-glass telescopes reached its apogee in 1874 with advertised diameters from 10 to 80 cm. Auguste died that year and the firm was taken over by

  19. Search for d3/2 single particle strength in 15N in Unbound Levels

    NASA Astrophysics Data System (ADS)

    Mertin, C. E.; Caussyn, D. D.; Crisp, A. M.; Keeley, N.; Kemper, K. W.; Momotyuk, O.; Roeder, B. T.; Volya, A.

    2013-10-01

    The population of states in the nucleus 15N provides the opportunity to investigate both single particle and cluster structures in the 1p and 2s1d shells. Single, two, three and four particle transfer reactions selectively excite states in 15N thus providing a way to explore current nuclear structure models. Narrow structures are observed in the various transfer reactions up to at least 20 MeV in excitation well above the neutron (10.8 MeV) and proton (10.2 MeV) separation energies. In the present work new results for the reaction 14N(d,p) are presented that explore possible single particle strengths up to 18 MeV in excitation. The beam energies used in the present work were between 10.5 and 16 MeV. An early work with a beam energy of 8 MeV clearly populated strong sharp levels at 10.07 and 11.23 MeV and the present work confirms their existence. In addition, very weak broader levels are populated at 12.13 and 12.5 MeV but no other structures are found experimentally at higher excitation energies. The results of shell model calculations that include the 1p and 2s1d shells will be presented. The centroid energies for the 1d5/2 and 2s1/2 single particle strength have been obtained through comparison with FRESCO calculations. This work was supported by the NSF, DOE and Florida State University.

  20. Single particle 3D reconstruction for 2D crystal images of membrane proteins.

    PubMed

    Scherer, Sebastian; Arheit, Marcel; Kowal, Julia; Zeng, Xiangyan; Stahlberg, Henning

    2014-03-01

    In cases where ultra-flat cryo-preparations of well-ordered two-dimensional (2D) crystals are available, electron crystallography is a powerful method for the determination of the high-resolution structures of membrane and soluble proteins. However, crystal unbending and Fourier-filtering methods in electron crystallography three-dimensional (3D) image processing are generally limited in their performance for 2D crystals that are badly ordered or non-flat. Here we present a single particle image processing approach, which is implemented as an extension of the 2D crystallographic pipeline realized in the 2dx software package, for the determination of high-resolution 3D structures of membrane proteins. The algorithm presented, addresses the low single-to-noise ratio (SNR) of 2D crystal images by exploiting neighborhood correlation between adjacent proteins in the 2D crystal. Compared with conventional single particle processing for randomly oriented particles, the computational costs are greatly reduced due to the crystal-induced limited search space, which allows a much finer search space compared to classical single particle processing. To reduce the considerable computational costs, our software features a hybrid parallelization scheme for multi-CPU clusters and computer with high-end graphic processing units (GPUs). We successfully apply the new refinement method to the structure of the potassium channel MloK1. The calculated 3D reconstruction shows more structural details and contains less noise than the map obtained by conventional Fourier-filtering based processing of the same 2D crystal images.

  1. First measurement of single-particle energies in {sup 100}Sn.

    SciTech Connect

    Seweryniak, D.

    2009-01-01

    Stable doubly magic nuclei have been the cornerstones of nuclear structure since the inception of the nuclear shell model. Doubly magic nuclei located far from the line of stability serve as a guide in the pursuit to understand ever more exotic systems. Single-particle energies and nucleon-nucleon interactions in doubly magic nuclei are stringent tests of nuclear models and are critical for understanding neighboring nuclei. They will play an essential role in developing universal interactions in nuclei that will consistently describe all nuclei.

  2. Troika of single particle tracking programing: SNR enhancement, particle identification, and mapping.

    PubMed

    Shuang, Bo; Chen, Jixin; Kisley, Lydia; Landes, Christy F

    2014-01-14

    Single particle tracking (SPT) techniques provide a microscopic approach to probe in vivo and in vitro structure and reactions. Automatic analysis of SPT data with high efficiency and accuracy spurs the development of SPT algorithms. In this perspective, we review a range of available techniques used in SPT analysis programs. In addition, we present an example SPT program step-by-step to provide a guide so that researchers can use, modify, and/or write a SPT program for their own purposes. PMID:24263676

  3. Analytical Derivations of Single-Particle Matrix Elements in Nuclear Shell Model

    NASA Astrophysics Data System (ADS)

    Fatah, Aziz H.; Radhi, R. A.; Abdullah, Nzar R.

    2016-07-01

    We present analytical method to calculate single particle matrix elements used in atomic and nuclear physics. We show seven different formulas of matrix elements of the operator f(r)dr m where f(r) = rμ, rμ jJ(qr), V(r) corresponding to the Gaussian and the Yukawa potentials used in nuclear shell models and nuclear structure. In addition, we take into account a general integral formula of the matrix element that covers all seven matrix elements obtained analytically.

  4. Mode of Myosin Transportation in Living Cells Studied by Single Particle Tracking

    NASA Astrophysics Data System (ADS)

    Liang, Zhang-yi; Xu, Ning; Guan, Ying-hua; Zhang, You-yi; Zhao, Xin-sheng

    2007-08-01

    The transport of internalized α1A-adrenergic receptor (α1A-AR) by myosin protein in live cells was studied. The technique of single particle tracking by fluorescence imaging with high temporal and spatial resolution was used. The endosomes of α1A-AR were transported along actin filaments in a step-by-step mode. The average step-size in different time resolutions is consistent with the step-size of myosin assay in vitro. With the simulation of the stepwise traces in different time resolutions, we found that the kinetic process of each step is in coherence with the single myosin assay in vitro.

  5. The free-electron laser - Maxwell's equations driven by single-particle currents

    NASA Technical Reports Server (NTRS)

    Colson, W. B.; Ride, S. K.

    1980-01-01

    It is shown that if single particle currents are coupled to Maxwell's equations, the resulting set of self-consistent nonlinear equations describes the evolution of the electron beam and the amplitude and phase of the free-electron-laser field. The formulation is based on the slowly varying amplitude and phase approximation, and the distinction between microscopic and macroscopic scales, which distinguishes the microscopic bunching from the macroscopic pulse propagation. The capabilities of this new theoretical approach become apparent when its predictions for the ultrashort pulse free-electron laser are compared to experimental data; the optical pulse evolution, determined simply and accurately, agrees well with observations.

  6. Adaptive optics enables three-dimensional single particle tracking at the sub-millisecond scale

    NASA Astrophysics Data System (ADS)

    Juette, Manuel F.; Rivera-Molina, Felix E.; Toomre, Derek K.; Bewersdorf, Joerg

    2013-04-01

    We present the integration of an adaptive optics element into a feedback-driven single particle tracking microscope. Our instrument captures three-dimensional (3D) trajectories with down to 130 μs temporal resolution for dynamic studies on the nanoscale. Our 3D beam steering approach tracks particles over an axial range of >6 μm with ˜2 ms mechanical response times and isolates the sample from any tracking motion. Tracking of transport vesicles containing Alexa488-labeled transferrin glycoprotein in living cells demonstrates the speed and sensitivity of our instrument.

  7. Review of amorphous silicon based particle detectors: the quest for single particle detection

    NASA Astrophysics Data System (ADS)

    Wyrsch, N.; Ballif, C.

    2016-10-01

    Hydrogenated amorphous silicon (a-Si:H) is attractive for radiation detectors because of its radiation resistance and processability over large areas with mature Si microfabrication techniques. While the use of a-Si:H for medical imaging has been very successful, the development of detectors for particle tracking and minimum-ionizing-particle detection has lagged, with almost no practical implementation. This paper reviews the development of various types of a-Si:H-based detectors and discusses their respective achievements and limitations. It also presents more recent developments of detectors that could potentially achieve single particle detection and be integrated in a monolithic fashion into a variety of applications.

  8. Collective and Single-Particle Motion in Beyond Mean Field Approaches.

    PubMed

    Egido, J Luis; Borrajo, Marta; Rodríguez, Tomás R

    2016-02-01

    We present a novel nuclear energy density functional method to calculate spectroscopic properties of atomic nuclei. Intrinsic nuclear quadrupole deformations and rotational frequencies are considered simultaneously as the degrees of freedom within a symmetry conserving configuration mixing framework. The present method allows the study of nuclear states with collective and single-particle character. We calculate the fascinating structure of the semimagic ^{44}S nucleus as a first application of the method, obtaining an excellent quantitative agreement both with the available experimental data and with state-of-the-art shell model calculations. PMID:26894706

  9. Wavefront-error evaluation by mathematical analysis of experimental Foucault-test data

    NASA Technical Reports Server (NTRS)

    Wilson, R. G.

    1975-01-01

    The diffraction theory of the Foucault test provides an integral formula expressing the complex amplitude and irradiance distribution in the Foucault pattern of a test mirror (lens) as a function of wavefront error. Recent literature presents methods of inverting this formula to express wavefront error in terms of irradiance in the Foucault pattern. The present paper describes a study in which the inversion formulation was applied to photometric Foucault-test measurements on a nearly diffraction-limited mirror to determine wavefront errors for direct comparison with ones determined from scatter-plate interferometer measurements. The results affirm the practicability of the Foucault test for quantitative wavefront analysis of very small errors, and they reveal the fallacy of the prevalent belief that the test is limited to qualitative use only. Implications of the results with regard to optical testing and the potential use of the Foucault test for wavefront analysis in orbital space telescopes are discussed.

  10. Foucault and the 'Anti-Oedipus movement': psychoanalysis as disciplinary power.

    PubMed

    Basaure, Mauro

    2009-09-01

    What psychiatry was for the anti-psychiatry movement, psychoanalysis was for the French 'Anti-Oedipus movement' represented by Robert Castel, Gilles Deleuze and Felix Guattari. Until now, the contribution of Foucault to this critical movement has been little known. In this paper I reconstruct in a systematic and exhaustive way Foucault's critique of psychoanalysis and, in particular, of the Oedipus-complex theory. I demonstrate that this critique presupposes a very specific epistemology and social theory. On an epistemological level, Foucault focuses on the power effects of psychoanalysis as a discourse of subjectivity. On a social-theoretical level, Foucault assumes a functionalist conception of society. These two aspects of Foucault's critique of psychoanalysis have not been adequately recognized in the discussion about his relationship to psychoanalysis (Derrida, Miller, Whitebook, among others). I argue that a fruitful dialogue between a Foucault-inspired critical social theory and psychoanalysis can take place only if these two distinct aspects are taken into account.

  11. Foucault's legacy for nursing: are we beneficiaries or intestate heirs?

    PubMed

    Clinton, Michael E; Springer, Rusla Anne

    2016-04-01

    Drawing upon selected literature from the United Kingdom, Denmark, and Canada we examine how Foucault's concepts of 'episteme', 'rupture' 'parrhesia' 'care of the self', and 'problemitization' have been applied to particular contexts of leadership development, pedagogy, nursing knowledge, and the relationship between caring and politics. Our aims are threefold: to give examples of how selected Foucauldian concepts have been taken up in practice; to clarify how we are positioned today as nurses; and to invite more nurses to engage critically with historical inquiry and to engage in deep philosophical reflection about their relationship with nursing. We begin by examining the conditions and circumstances of Foucault's life, and conclude by posing the question in our subtitle to stimulate debate about the philosophical relevance of Foucauldian scholarship to nursing.

  12. Single-particle structure determination by correlations of snapshot X-ray diffraction patterns (CXIDB ID 20)

    SciTech Connect

    Starodub, D.

    2013-03-25

    This deposition includes the diffraction images generated by the paired polystyrene spheres in random orientations. These images were used to determine and phase the single particle diffraction volume from their autocorrelation functions.

  13. Structural defect induced peak splitting in gold-copper bimetallic nanorods during growth by single particle spectroscopy.

    PubMed

    Thota, Sravan; Chen, Shutang; Zhou, Yadong; Zhang, Yong; Zou, Shengli; Zhao, Jing

    2015-09-21

    A single particle level study of bimetallic nanoparticle growth provides valuable information that is usually hidden in ensemble measurements, helping to improve the understanding of a reaction mechanism and overcome the synthetic challenges. In this study, we use single particle spectroscopy to monitor the changes in the scattering spectra of Au-Cu alloy nanorods during growth. We found that the unique features of the single particle scattering spectra were due to atomic level geometric defects in the nanorods. Electrodynamics simulations have demonstrated that small structural defects of a few atomic layers split the scattering peaks, giving rise to higher order modes, which do not exist in defect-free rods of similar geometry. The study shows that single particle scattering technique is as sensitive as high-resolution electron microscopy in revealing atomic level structural defects. PMID:26268683

  14. Structural defect induced peak splitting in gold-copper bimetallic nanorods during growth by single particle spectroscopy

    NASA Astrophysics Data System (ADS)

    Thota, Sravan; Chen, Shutang; Zhou, Yadong; Zhang, Yong; Zou, Shengli; Zhao, Jing

    2015-08-01

    A single particle level study of bimetallic nanoparticle growth provides valuable information that is usually hidden in ensemble measurements, helping to improve the understanding of a reaction mechanism and overcome the synthetic challenges. In this study, we use single particle spectroscopy to monitor the changes in the scattering spectra of Au-Cu alloy nanorods during growth. We found that the unique features of the single particle scattering spectra were due to atomic level geometric defects in the nanorods. Electrodynamics simulations have demonstrated that small structural defects of a few atomic layers split the scattering peaks, giving rise to higher order modes, which do not exist in defect-free rods of similar geometry. The study shows that single particle scattering technique is as sensitive as high-resolution electron microscopy in revealing atomic level structural defects.A single particle level study of bimetallic nanoparticle growth provides valuable information that is usually hidden in ensemble measurements, helping to improve the understanding of a reaction mechanism and overcome the synthetic challenges. In this study, we use single particle spectroscopy to monitor the changes in the scattering spectra of Au-Cu alloy nanorods during growth. We found that the unique features of the single particle scattering spectra were due to atomic level geometric defects in the nanorods. Electrodynamics simulations have demonstrated that small structural defects of a few atomic layers split the scattering peaks, giving rise to higher order modes, which do not exist in defect-free rods of similar geometry. The study shows that single particle scattering technique is as sensitive as high-resolution electron microscopy in revealing atomic level structural defects. Electronic supplementary information (ESI) available. See DOI: 10.1039/c5nr03979g

  15. The power behind empowerment for staff nurses: using Foucault's concepts.

    PubMed

    Udod, Sonia A

    2008-01-01

    The concept of staff nurse empowerment is often evoked in dialogue concerning the nature of nurses' practice in improving their work environments. Nurse empowerment has been the subject of vigorous discussion in healthcare settings, and has been researched largely through an organizational perspective. In this paper, nurse empowerment is analyzed by drawing upon a critical science approach as an alternative theoretical lens. Power is integral to empowerment, and occurs in the context of relations of power. The author uses the ideas of Michel Foucault to address the different ways in which power relations shape nurses' experiences in the workplace. Foucault conceptualizes power as a form of power that envelops staff nurses and nurse managers and, more specifically, as a set of disciplinary techniques. Rather than discussing power solely as a repressive force, Foucault identifies the productive aspects of power. His analysis of where power resides suggests a thought-provoking approach to staff nurse empowerment that has the potential to change nurses' practice through points of resistance, and thus has implications for improving the quality of nurses' work life.

  16. Research on technique of wavefront retrieval based on Foucault test

    NASA Astrophysics Data System (ADS)

    Yuan, Lvjun; Wu, Zhonghua

    2010-05-01

    During finely grinding the best fit sphere and initial stage of polishing, surface error of large aperture aspheric mirrors is too big to test using common interferometer. Foucault test is widely used in fabricating large aperture mirrors. However, the optical path is disturbed seriously by air turbulence, and changes of light and dark zones can not be identified, which often lowers people's judging ability and results in making mistake to diagnose surface error of the whole mirror. To solve the problem, the research presents wavefront retrieval based on Foucault test through digital image processing and quantitative calculation. Firstly, real Foucault image can be gained through collecting a variety of images by CCD, and then average these image to eliminate air turbulence. Secondly, gray values are converted into surface error values through principle derivation, mathematical modeling, and software programming. Thirdly, linear deviation brought by defocus should be removed by least-square method to get real surface error. At last, according to real surface error, plot wavefront map, gray contour map and corresponding pseudo color contour map. The experimental results indicates that the three-dimensional wavefront map and two-dimensional contour map are able to accurately and intuitively show surface error on the whole mirrors under test, and they are beneficial to grasp surface error as a whole. The technique can be used to guide the fabrication of large aperture and long focal mirrors during grinding and initial stage of polishing the aspheric surface, which improves fabricating efficiency and precision greatly.

  17. [Michel Foucault and the persistence of psychiatric power].

    PubMed

    Caponi, Sandra

    2009-01-01

    This article aims studying the course held by Michel Foucault at the Collège de France in 1973-1974. The records of this course were published in 2003 under the name ' Psychiatric power' . The objective was to compare the different ways in which Foucault analyzes the question of madness in ' Psychiatric power' and in ' History of Madness in the Classical Age' (1961). It is a comparative study about the different ways of analyzing madness developed by Michel Foucault during the archeological and genealogic periods of his work. The absence of the body; binary diagnosis; the description of the surface of symptoms; the classification of diseases more similar to the botanical classification than to pathology; the process of cure directly linked to restitution of behaviors and moral values; as well as the over-power of the psychiatrist, seem to speak about the persistence of an old model of power, a pre-modern and pre-capitalist model, a residue of the old sovereign power.

  18. Effect of single-particle splitting in the exact wave function of the isovectorial pairing Hamiltonian

    SciTech Connect

    Lerma H, S.

    2010-07-15

    The structure of the exact wave function of the isovectorial pairing Hamiltonian with nondegenerate single-particle levels is discussed. The way that the single-particle splittings break the quartet condensate solution found for N=Z nuclei in a single degenerate level is established. After a brief review of the exact solution, the structure of the wave function is analyzed and some particular cases are considered where a clear interpretation of the wave function emerges. An expression for the exact wave function in terms of the isospin triplet of pair creators is given. The ground-state wave function is analyzed as a function of pairing strength, for a system of four protons and four neutrons. For small and large values of the pairing strength a dominance of two-pair (quartets) scalar couplings is found, whereas for intermediate values enhancements of the nonscalar couplings are obtained. A correlation of these enhancements with the creation of Cooper-like pairs is observed.

  19. Towards atomic resolution structural determination by single-particle cryo-electron microscopy

    PubMed Central

    Zhou, Z. Hong

    2009-01-01

    Recent advances in cryo-electron microscopy and single-particle reconstruction (collectively referred to as “cryoEM”) have made it possible to determine the three-dimensional (3D) structures of several macromolecular complexes at near-atomic resolution (~3.8 – 4.5 Å). These achievements were accomplished by overcoming challenges in sample handling, instrumentation, image processing, and model building. At near-atomic resolution, many detailed structural features can be resolved, such as the turns and deep grooves of helices, strand separation in β sheets, and densities for loops and bulky amino acid side chains. Such structural data of the cytoplasmic polyhedrosis virus (CPV), the Epsilon 15 bacteriophage and the GroEL complex have provided valuable constraints for atomic model building using integrative tools, thus significantly enhancing the value of the cryoEM structures. The CPV structure revealed a drastic conformational change from a helix to a β hairpin associated with RNA packaging and replication, coupling of RNA processing and release, and the long sought-after polyhedrin-binding domain. These latest advances in single-particle cryoEM provide exciting opportunities for the 3D structural determination of viruses and macromolecular complexes that are either too large or too heterogeneous to be investigated by conventional X-ray crystallography or nuclear magnetic resonance (NMR) methods. PMID:18403197

  20. Particle migration analysis in iterative classification of cryo-EM single-particle data.

    PubMed

    Chen, Bo; Shen, Bingxin; Frank, Joachim

    2014-12-01

    Recently developed classification methods have enabled resolving multiple biological structures from cryo-EM data collected on heterogeneous biological samples. However, there remains the problem of how to base the decisions in the classification on the statistics of the cryo-EM data, to reduce the subjectivity in the process. Here, we propose a quantitative analysis to determine the iteration of convergence and the number of distinguishable classes, based on the statistics of the single particles in an iterative classification scheme. We start the classification with more number of classes than anticipated based on prior knowledge, and then combine the classes that yield similar reconstructions. The classes yielding similar reconstructions can be identified from the migrating particles (jumpers) during consecutive iterations after the iteration of convergence. We therefore termed the method "jumper analysis", and applied it to the output of RELION 3D classification of a benchmark experimental dataset. This work is a step forward toward fully automated single-particle reconstruction and classification of cryo-EM data.

  1. Revealing nonergodic dynamics in living cells from a single particle trajectory.

    PubMed

    Lanoiselée, Yann; Grebenkov, Denis S

    2016-05-01

    We propose the improved ergodicity and mixing estimators to identify nonergodic dynamics from a single particle trajectory. The estimators are based on the time-averaged characteristic function of the increments and can thus capture additional information on the process as compared to the conventional time-averaged mean-square displacement. The estimators are first investigated and validated for several models of anomalous diffusion, such as ergodic fractional Brownian motion and diffusion on percolating clusters, and nonergodic continuous-time random walks and scaled Brownian motion. The estimators are then applied to two sets of earlier published trajectories of mRNA molecules inside live Escherichia coli cells and of Kv2.1 potassium channels in the plasma membrane. These statistical tests did not reveal nonergodic features in the former set, while some trajectories of the latter set could be classified as nonergodic. Time averages along such trajectories are thus not representative and may be strongly misleading. Since the estimators do not rely on ensemble averages, the nonergodic features can be revealed separately for each trajectory, providing a more flexible and reliable analysis of single-particle tracking experiments in microbiology.

  2. Single particle tracking reveals spatial and dynamic organization of the Escherichia coli biofilm matrix

    NASA Astrophysics Data System (ADS)

    Birjiniuk, Alona; Billings, Nicole; Nance, Elizabeth; Hanes, Justin; Ribbeck, Katharina; Doyle, Patrick S.

    2014-08-01

    Biofilms are communities of surface-adherent bacteria surrounded by secreted polymers known as the extracellular polymeric substance. Biofilms are harmful in many industries, and thus it is of great interest to understand their mechanical properties and structure to determine ways to destabilize them. By performing single particle tracking with beads of varying surface functionalization it was found that charge interactions play a key role in mediating mobility within biofilms. With a combination of single particle tracking and microrheological concepts, it was found that Escherichia coli biofilms display height dependent charge density that evolves over time. Statistical analyses of bead trajectories and confocal microscopy showed inter-connecting micron scale channels that penetrate throughout the biofilm, which may be important for nutrient transfer through the system. This methodology provides significant insight into a particular biofilm system and can be applied to many others to provide comparisons of biofilm structure. The elucidation of structure provides evidence for the permeability of biofilms to microscale objects, and the ability of a biofilm to mature and change properties over time.

  3. Maskiton: Interactive, Web-based Classification of Single-Particle Electron Microscopy Images

    PubMed Central

    Yoshioka, Craig; Lyumkis, Dmitry; Carragher, Bridget; Potter, Clinton S.

    2013-01-01

    Electron microscopy (EM) is an important tool for determining the composition, arrangement and structure of biological macromolecules. When studying structurally heterogeneous samples using EM, classification is a critical step toward achieving higher resolution and identifying biologically significant conformations. We have developed an interactive, web-based tool, called Maskiton, for creating custom masks and performing 2D classifications on aligned single-particle EM images. The Maskiton interface makes it considerably easier and faster to explore the significance of heterogeneity in single-particle datasets. Maskiton features include: resumable uploads to facilitate transfer of large datasets to the server, custom mask creation in the browser, continual progress updates, and interactive viewing of classification results. To demonstrate the value of this tool, we provide examples of its use on several experimental datasets and include analyses of the independent terminus mobility within the Ltn1 E3 ubiquitin ligase, the in-vitro assembly of 30S ribosomal subunits, and classification complexity reduction within Immunoglobulin M. This work also serves as a proof-of-concept for the development of future cross-platform, interactive user interfaces for electron microscopy data processing. PMID:23428431

  4. Improved single particle localization accuracy with dual objective multifocal plane microscopy.

    PubMed

    Ram, Sripad; Prabhat, Prashant; Ward, E Sally; Ober, Raimund J

    2009-04-13

    In single particle imaging applications, the number of photons detected from the fluorescent label plays a crucial role in the quantitative analysis of the acquired data. For example, in tracking experiments the localization accuracy of the labeled entity can be improved by collecting more photons from the labeled entity. Here, we report the development of dual objective multifocal plane microscopy (dMUM) for single particle studies. The new microscope configuration uses two opposing objective lenses, where one of the objectives is in an inverted position and the other objective is in an upright position. We show that dMUM has a higher photon collection efficiency when compared to standard microscopes. We demonstrate that fluorescent labels can be localized with better accuracy in 2D and 3D when imaged through dMUM than when imaged through a standard microscope. Analytical tools are introduced to estimate the nanoprobe location from dMUM images and to characterize the accuracy with which they can be determined. PMID:19365515

  5. Improved estimation of anomalous diffusion exponents in single-particle tracking experiments

    NASA Astrophysics Data System (ADS)

    Kepten, Eldad; Bronshtein, Irena; Garini, Yuval

    2013-05-01

    The mean square displacement is a central tool in the analysis of single-particle tracking experiments, shedding light on various biophysical phenomena. Frequently, parameters are extracted by performing time averages on single-particle trajectories followed by ensemble averaging. This procedure, however, suffers from two systematic errors when applied to particles that perform anomalous diffusion. The first is significant at short-time lags and is induced by measurement errors. The second arises from the natural heterogeneity in biophysical systems. We show how to estimate and correct these two errors and improve the estimation of the anomalous parameters for the whole particle distribution. As a consequence, we manage to characterize ensembles of heterogeneous particles even for rather short and noisy measurements where regular time-averaged mean square displacement analysis fails. We apply this method to both simulations and in vivo measurements of telomere diffusion in 3T3 mouse embryonic fibroblast cells. The motion of telomeres is found to be subdiffusive with an average exponent constant in time. Individual telomere exponents are normally distributed around the average exponent. The proposed methodology has the potential to improve experimental accuracy while maintaining lower experimental costs and complexity.

  6. Low cost, high performance processing of single particle cryo-electron microscopy data in the cloud.

    PubMed

    Cianfrocco, Michael A; Leschziner, Andres E

    2015-01-01

    The advent of a new generation of electron microscopes and direct electron detectors has realized the potential of single particle cryo-electron microscopy (cryo-EM) as a technique to generate high-resolution structures. Calculating these structures requires high performance computing clusters, a resource that may be limiting to many likely cryo-EM users. To address this limitation and facilitate the spread of cryo-EM, we developed a publicly available 'off-the-shelf' computing environment on Amazon's elastic cloud computing infrastructure. This environment provides users with single particle cryo-EM software packages and the ability to create computing clusters with 16-480+ CPUs. We tested our computing environment using a publicly available 80S yeast ribosome dataset and estimate that laboratories could determine high-resolution cryo-EM structures for $50 to $1500 per structure within a timeframe comparable to local clusters. Our analysis shows that Amazon's cloud computing environment may offer a viable computing environment for cryo-EM. PMID:25955969

  7. Extending the Capabilities of Single Particle Mass Spectrometry: II. Measurements of Aerosol Particle Density without DMA

    SciTech Connect

    Vaden, Timothy D.; Imre, D.; Beranek, Josef; Zelenyuk, Alla

    2011-01-04

    Particle density is an important and useful property that is difficult to measure because it usually 5 requires separate instruments to measure two particle attributes. As density measurements are 6 often performed on size-classified particles, they are hampered by low particle numbers, and 7 hence poor temporal resolution. We present here a new method for measuring particle densities 8 using our single particle mass spectrometer, SPLAT. This method takes advantage of the fact 9 that the detection efficiency in our single particle mass spectrometer drops off very rapidly as the 10 particle size decreases below ~125 nm creating a distinct sharp feature on the small particle side 11 of the vacuum aerodynamic size distribution. Thus, the two quantities needed to determine 12 particle density, the particle diameter and vacuum aerodynamic diameter, are known. We first 13 test this method on particles of known composition and find that the densities it yields are 14 sufficiently accurate. We then apply the method to obtain the densities of particles that were 15 characterized during an airborne field campaign. In addition, we show that the distinctive 16 features of the vacuum aerodynamic size distribution can be used to characterize the instrument 17 detection efficiency as a function of particle size. In general, the method presented here reduces 18 complexity and yields information with high temporal resolution while the instrument is 19 collecting routine data on particle size and composition.

  8. Single-Particle Cryo-EM of the Ryanodine Receptor Channel in an Aqueous Environment.

    PubMed

    Baker, Mariah R; Fan, Guizhen; Serysheva, Irina I

    2015-01-01

    Ryanodine receptors (RyRs) are tetrameric ligand-gated Ca(2+) release channels that are responsible for the increase of cytosolic Ca(2+) concentration leading to muscle contraction. Our current understanding of RyR channel gating and regulation is greatly limited due to the lack of a high-resolution structure of the channel protein. The enormous size and unwieldy shape of Ca(2+) release channels make X-ray or NMR methods difficult to apply for high-resolution structural analysis of the full-length functional channel. Single-particle electron cryo-microscopy (cryo-EM) is one of the only effective techniques for the study of such a large integral membrane protein and its molecular interactions. Despite recent developments in cryo-EM technologies and break-through single-particle cryo-EM studies of ion channels, cryospecimen preparation, particularly the presence of detergent in the buffer, remains the main impediment to obtaining atomic-resolution structures of ion channels and a multitude of other integral membrane protein complexes. In this review we will discuss properties of several detergents that have been successfully utilized in cryo-EM studies of ion channels and the emergence of the detergent alternative amphipol to stabilize ion channels for structure-function characterization. Future structural studies of challenging specimen like ion channels are likely to be facilitated by cryo-EM amenable detergents or alternative surfactants.

  9. Single-particle spectral function for the classical one-component plasma

    NASA Astrophysics Data System (ADS)

    Fortmann, C.

    2009-01-01

    The spectral function for an electron one-component plasma is calculated self-consistently using the GW(0) approximation for the single-particle self-energy. In this way, correlation effects that go beyond the mean-field description of the plasma are contained, i.e., the collisional damping of single-particle states, the dynamical screening of the interaction, and the appearance of collective plasma modes. Second, a nonperturbative analytic solution for the on-shell GW(0) self-energy as a function of momentum is presented. It reproduces the numerical data for the spectral function with a relative error of less than 10% in the regime where the Debye screening parameter is smaller than the inverse Bohr radius, κ<1aB-1 . In the limit of low density, the nonperturbative self-energy behaves as n1/4 , whereas a perturbation expansion leads to the unphysical result of a density-independent self-energy [Fennel and Wilfer, Ann. Phys. (Leipzig) 32, 265 (1974)]. The derived expression will greatly facilitate the calculation of observables in correlated plasmas (transport properties, equation of state) that need the spectral function as an input quantity. This is demonstrated for the shift of the chemical potential, which is computed from the analytical formulas and compared to the GW(0) result. At a plasma temperature of 100eV and densities below 1021cm-3 , the two approaches deviate by less than 10% from each other.

  10. Revealing nonergodic dynamics in living cells from a single particle trajectory

    NASA Astrophysics Data System (ADS)

    Lanoiselée, Yann; Grebenkov, Denis S.

    2016-05-01

    We propose the improved ergodicity and mixing estimators to identify nonergodic dynamics from a single particle trajectory. The estimators are based on the time-averaged characteristic function of the increments and can thus capture additional information on the process as compared to the conventional time-averaged mean-square displacement. The estimators are first investigated and validated for several models of anomalous diffusion, such as ergodic fractional Brownian motion and diffusion on percolating clusters, and nonergodic continuous-time random walks and scaled Brownian motion. The estimators are then applied to two sets of earlier published trajectories of mRNA molecules inside live Escherichia coli cells and of Kv2.1 potassium channels in the plasma membrane. These statistical tests did not reveal nonergodic features in the former set, while some trajectories of the latter set could be classified as nonergodic. Time averages along such trajectories are thus not representative and may be strongly misleading. Since the estimators do not rely on ensemble averages, the nonergodic features can be revealed separately for each trajectory, providing a more flexible and reliable analysis of single-particle tracking experiments in microbiology.

  11. Single particle tracking reveals spatial and dynamic organization of the E. coli biofilm matrix

    PubMed Central

    Birjiniuk, Alona; Billings, Nicole; Nance, Elizabeth; Hanes, Justin; Ribbeck, Katharina; Doyle, Patrick S.

    2014-01-01

    Biofilms are communities of surface-adherent bacteria surrounded by secreted polymers known as the extracellular polymeric substance (EPS). Biofilms are harmful in many industries, and thus it is of great interest to understand their mechanical properties and structure to determine ways to destabilize them. By performing single particle tracking with beads of varying surface functionalization it was found that charge interactions play a key role in mediating mobility within biofilms. With a combination of single particle tracking and microrheological concepts, it was found that Escherichia coli biofilms display height dependent charge density that evolves over time. Statistical analyses of bead trajectories and confocal microscopy showed inter-connecting micron scale channels that penetrate throughout the biofilm, which may be important for nutrient transfer through the system. This methodology provides significant insight into a particular biofilm system and can be applied to many others to provide comparisons of biofilm structure. The elucidation of structure provides evidence for the permeability of biofilms to microscale objects, and the ability of a biofilm to mature and change properties over time. PMID:25414591

  12. Single particle cryo-electron microscopy and 3-D reconstruction of viruses.

    PubMed

    Guo, Fei; Jiang, Wen

    2014-01-01

    With fast progresses in instrumentation, image processing algorithms, and computational resources, single particle electron cryo-microscopy (cryo-EM) 3-D reconstruction of icosahedral viruses has now reached near-atomic resolutions (3-4 Å). With comparable resolutions and more predictable outcomes, cryo-EM is now considered a preferred method over X-ray crystallography for determination of atomic structure of icosahedral viruses. At near-atomic resolutions, all-atom models or backbone models can be reliably built that allow residue level understanding of viral assembly and conformational changes among different stages of viral life cycle. With the developments of asymmetric reconstruction, it is now possible to visualize the complete structure of a complex virus with not only its icosahedral shell but also its multiple non-icosahedral structural features. In this chapter, we will describe single particle cryo-EM experimental and computational procedures for both near-atomic resolution reconstruction of icosahedral viruses and asymmetric reconstruction of viruses with both icosahedral and non-icosahedral structure components. Procedures for rigorous validation of the reconstructions and resolution evaluations using truly independent de novo initial models and refinements are also introduced.

  13. Low cost, high performance processing of single particle cryo-electron microscopy data in the cloud.

    PubMed

    Cianfrocco, Michael A; Leschziner, Andres E

    2015-05-08

    The advent of a new generation of electron microscopes and direct electron detectors has realized the potential of single particle cryo-electron microscopy (cryo-EM) as a technique to generate high-resolution structures. Calculating these structures requires high performance computing clusters, a resource that may be limiting to many likely cryo-EM users. To address this limitation and facilitate the spread of cryo-EM, we developed a publicly available 'off-the-shelf' computing environment on Amazon's elastic cloud computing infrastructure. This environment provides users with single particle cryo-EM software packages and the ability to create computing clusters with 16-480+ CPUs. We tested our computing environment using a publicly available 80S yeast ribosome dataset and estimate that laboratories could determine high-resolution cryo-EM structures for $50 to $1500 per structure within a timeframe comparable to local clusters. Our analysis shows that Amazon's cloud computing environment may offer a viable computing environment for cryo-EM.

  14. Study of the comminution characteristics of coal by single particle breakage test device

    SciTech Connect

    Sahoo, R.

    2005-09-01

    Single-particle breakage tests of South Blackwater and Ensham coal from the Bowen Basin area in Queensland were conducted by a computer-monitored twin-pendulum device to measure the energy utilization pattern of the breakage particles. Three particle sizes (-16.0+13.2mm, -13.2+11.2mm, -11.2+9.5mm) of each coal were tested by a pendulum device at five input energy levels to measure the specific comminution energy. When particles were tested at constant input energy, the variation of comminution energy between the same size broken particles of Ensham coal was minimal, because Ensham coal is a softer and higher friability coal, which absorbs more input energy than harder coal during breakage tests. For different particle sizes, the specific comminution energy increases linearly with the input energy and the fineness of the breakage products increases with the specific comminution energy. The size distribution graphs are curved but approach linearity in the finer region. At a constant input energy, the twin pendulum breakage product results show that the fineness of the products increases with decrease in particle size and South Blackwater coal produced finer products than the Ensham coal. The t-curves are the family of size distribution curves, which can describe the product size distribution of the breakage particles during single-particle breakage tests.

  15. Shape Evolution and Single Particle Luminescence of Organometal Halide Perovskite Nanocrystals

    SciTech Connect

    Zhu, Feng; Men, Long; Guo, Yijun; Zhu, Qiaochu; Bhattacharjee, Ujjal; Goodwin, Peter M.; Petrich, Jacob W.; Smith, Emily A.; Vela, Javier

    2015-02-09

    Organometallic halide perovskites CH3NH3PbX3 (X = I, Br, Cl) have quickly become one of the most promising semiconductors for solar cells, with photovoltaics made of these materials reaching power conversion efficiencies of near 20%. Improving our ability to harness the full potential of organometal halide perovskites will require more controllable syntheses that permit a detailed understanding of their fundamental chemistry and photophysics. In our manuscript, we systematically synthesize CH3NH3PbX3 (X = I, Br) nanocrystals with different morphologies (dots, rods, plates or sheets) by using different solvents and capping ligands. CH3NH3PbX3 nanowires and nanorods capped with octylammonium halides show relatively higher photoluminescence (PL) quantum yields and long PL lifetimes. CH3NH3PbI3 nanowires monitored at the single particle level show shape-correlated PL emission across whole particles, with little photobleaching observed and very few off periods. Our work highlights the potential of low-dimensional organometal halide perovskite semiconductors in constructing new porous and nanostructured solar cell architectures, as well as in applying these materials to other fields such as light-emitting devices and single particle imaging and tracking.

  16. Shape Evolution and Single Particle Luminescence of Organometal Halide Perovskite Nanocrystals

    DOE PAGES

    Zhu, Feng; Men, Long; Guo, Yijun; Zhu, Qiaochu; Bhattacharjee, Ujjal; Goodwin, Peter M.; Petrich, Jacob W.; Smith, Emily A.; Vela, Javier

    2015-02-09

    Organometallic halide perovskites CH3NH3PbX3 (X = I, Br, Cl) have quickly become one of the most promising semiconductors for solar cells, with photovoltaics made of these materials reaching power conversion efficiencies of near 20%. Improving our ability to harness the full potential of organometal halide perovskites will require more controllable syntheses that permit a detailed understanding of their fundamental chemistry and photophysics. In our manuscript, we systematically synthesize CH3NH3PbX3 (X = I, Br) nanocrystals with different morphologies (dots, rods, plates or sheets) by using different solvents and capping ligands. CH3NH3PbX3 nanowires and nanorods capped with octylammonium halides show relatively highermore » photoluminescence (PL) quantum yields and long PL lifetimes. CH3NH3PbI3 nanowires monitored at the single particle level show shape-correlated PL emission across whole particles, with little photobleaching observed and very few off periods. Our work highlights the potential of low-dimensional organometal halide perovskite semiconductors in constructing new porous and nanostructured solar cell architectures, as well as in applying these materials to other fields such as light-emitting devices and single particle imaging and tracking.« less

  17. Single Particle Cryo-electron Microscopy and 3-D Reconstruction of Viruses

    PubMed Central

    Guo, Fei; Jiang, Wen

    2014-01-01

    With fast progresses in instrumentation, image processing algorithms, and computational resources, single particle electron cryo-microscopy (cryo-EM) 3-D reconstruction of icosahedral viruses has now reached near-atomic resolutions (3–4 Å). With comparable resolutions and more predictable outcomes, cryo-EM is now considered a preferred method over X-ray crystallography for determination of atomic structure of icosahedral viruses. At near-atomic resolutions, all-atom models or backbone models can be reliably built that allow residue level understanding of viral assembly and conformational changes among different stages of viral life cycle. With the developments of asymmetric reconstruction, it is now possible to visualize the complete structure of a complex virus with not only its icosahedral shell but also its multiple non-icosahedral structural features. In this chapter, we will describe single particle cryo-EM experimental and computational procedures for both near-atomic resolution reconstruction of icosahedral viruses and asymmetric reconstruction of viruses with both icosahedral and non-icosahedral structure components. Procedures for rigorous validation of the reconstructions and resolution evaluations using truly independent de novo initial models and refinements are also introduced. PMID:24357374

  18. Automated identification and classification of single particle serial femtosecond X-ray diffraction data.

    PubMed

    Andreasson, Jakob; Martin, Andrew V; Liang, Meng; Timneanu, Nicusor; Aquila, Andrew; Wang, Fenglin; Iwan, Bianca; Svenda, Martin; Ekeberg, Tomas; Hantke, Max; Bielecki, Johan; Rolles, Daniel; Rudenko, Artem; Foucar, Lutz; Hartmann, Robert; Erk, Benjamin; Rudek, Benedikt; Chapman, Henry N; Hajdu, Janos; Barty, Anton

    2014-02-10

    The first hard X-ray laser, the Linac Coherent Light Source (LCLS), produces 120 shots per second. Particles injected into the X-ray beam are hit randomly and in unknown orientations by the extremely intense X-ray pulses, where the femtosecond-duration X-ray pulses diffract from the sample before the particle structure is significantly changed even though the sample is ultimately destroyed by the deposited X-ray energy. Single particle X-ray diffraction experiments generate data at the FEL repetition rate, resulting in more than 400,000 detector readouts in an hour, the data stream during an experiment contains blank frames mixed with hits on single particles, clusters and contaminants. The diffraction signal is generally weak and it is superimposed on a low but continually fluctuating background signal, originating from photon noise in the beam line and electronic noise from the detector. Meanwhile, explosion of the sample creates fragments with a characteristic signature. Here, we describe methods based on rapid image analysis combined with ion Time-of-Flight (ToF) spectroscopy of the fragments to achieve an efficient, automated and unsupervised sorting of diffraction data. The studies described here form a basis for the development of real-time frame rejection methods, e.g. for the European XFEL, which is expected to produce 100 million pulses per hour.

  19. Automated identification and classification of single particle serial femtosecond X-ray diffraction data.

    PubMed

    Andreasson, Jakob; Martin, Andrew V; Liang, Meng; Timneanu, Nicusor; Aquila, Andrew; Wang, Fenglin; Iwan, Bianca; Svenda, Martin; Ekeberg, Tomas; Hantke, Max; Bielecki, Johan; Rolles, Daniel; Rudenko, Artem; Foucar, Lutz; Hartmann, Robert; Erk, Benjamin; Rudek, Benedikt; Chapman, Henry N; Hajdu, Janos; Barty, Anton

    2014-02-10

    The first hard X-ray laser, the Linac Coherent Light Source (LCLS), produces 120 shots per second. Particles injected into the X-ray beam are hit randomly and in unknown orientations by the extremely intense X-ray pulses, where the femtosecond-duration X-ray pulses diffract from the sample before the particle structure is significantly changed even though the sample is ultimately destroyed by the deposited X-ray energy. Single particle X-ray diffraction experiments generate data at the FEL repetition rate, resulting in more than 400,000 detector readouts in an hour, the data stream during an experiment contains blank frames mixed with hits on single particles, clusters and contaminants. The diffraction signal is generally weak and it is superimposed on a low but continually fluctuating background signal, originating from photon noise in the beam line and electronic noise from the detector. Meanwhile, explosion of the sample creates fragments with a characteristic signature. Here, we describe methods based on rapid image analysis combined with ion Time-of-Flight (ToF) spectroscopy of the fragments to achieve an efficient, automated and unsupervised sorting of diffraction data. The studies described here form a basis for the development of real-time frame rejection methods, e.g. for the European XFEL, which is expected to produce 100 million pulses per hour. PMID:24663542

  20. Low cost, high performance processing of single particle cryo-electron microscopy data in the cloud

    PubMed Central

    Cianfrocco, Michael A; Leschziner, Andres E

    2015-01-01

    The advent of a new generation of electron microscopes and direct electron detectors has realized the potential of single particle cryo-electron microscopy (cryo-EM) as a technique to generate high-resolution structures. Calculating these structures requires high performance computing clusters, a resource that may be limiting to many likely cryo-EM users. To address this limitation and facilitate the spread of cryo-EM, we developed a publicly available ‘off-the-shelf’ computing environment on Amazon's elastic cloud computing infrastructure. This environment provides users with single particle cryo-EM software packages and the ability to create computing clusters with 16–480+ CPUs. We tested our computing environment using a publicly available 80S yeast ribosome dataset and estimate that laboratories could determine high-resolution cryo-EM structures for $50 to $1500 per structure within a timeframe comparable to local clusters. Our analysis shows that Amazon's cloud computing environment may offer a viable computing environment for cryo-EM. DOI: http://dx.doi.org/10.7554/eLife.06664.001 PMID:25955969

  1. [On Michel Foucault's unpublished lectures on Ludwig Binswanger's existential analysis (Lille 1953-54)].

    PubMed

    Basso, Elisabetta

    2016-12-01

    This paper aims to analyze Michel Foucault's position toward phenomenological psychology and psychopathology during the 1950s, in light of the new documentary sources available today. Our investigation is especially focused on one of the courses given by Foucault at the University of Lille between 1952 and 1954, namely, the course on "Binswanger and phenomenology" (1953-54). The analysis of this course, which was conceived by Foucault within the context of a philosophical reflection on the anthropological problem of psychopathology, will finally allow us to re-ascribe Foucault the place he deserves in the field of "philosophy of psychiatry". PMID:27550458

  2. [On Michel Foucault's unpublished lectures on Ludwig Binswanger's existential analysis (Lille 1953-54)].

    PubMed

    Basso, Elisabetta

    2016-12-01

    This paper aims to analyze Michel Foucault's position toward phenomenological psychology and psychopathology during the 1950s, in light of the new documentary sources available today. Our investigation is especially focused on one of the courses given by Foucault at the University of Lille between 1952 and 1954, namely, the course on "Binswanger and phenomenology" (1953-54). The analysis of this course, which was conceived by Foucault within the context of a philosophical reflection on the anthropological problem of psychopathology, will finally allow us to re-ascribe Foucault the place he deserves in the field of "philosophy of psychiatry".

  3. [Analysis of Single Particle Aging and Mixing State at an Agriculture Site (Quzhou) in the North China Plain in Summer Using a Single Particle Aerosol Mass Spectrometer].

    PubMed

    Huang, Zi-long; Zeng, Li-mm; Dong, I-Iua-Bin; Li, Mei; Zhu, Tong

    2016-04-15

    To characterize the size distribution and chemical ompsitins f abiet prtices t a agicuturesit intheNorh o Chinese Plain, a single particle aerosol mass spectrometer (SPAMS) was deployed from June 30 to July 8, 2013. A total of 230,152 particles in the size range of 0.2-2.0 pm were chemically analyzed with both positive and negative ion spectra. The results revealed that aerosol could he classified into eight dominant groups, including elemental carbon (EC, 55.5%), organic carbon (OC, 10.7%), alkalis (Na-K, 17.4%), other metals (1.7%), Fe-rich (6.3%), Pb-rich (3.1%), dust (4.8%), and other (0.8%). The observed eight types of particles contained secondary components such as 46NO2-, 62NO3-, 96SO3-, 96SO4-, 97HSO4-, showing that they probably went through different aging processes. The analysis of particle size distribution showed that 700-800 nm was the peak value of all particles, and that dust and Fe particles were mainly in the coarse size range. EC particles subtype group research revealed EC particles tended to be aging with the above mentioned secondary ions and eventually led to a particle type conversion from EC to the less aging ECN and the more serious aging ECS, the diurnal variation of which was obviously negatively correlated, and there was a possibility of forming OC/EC mixture with the adsorption of secondary organic matter on EC surface.

  4. [Analysis of Single Particle Aging and Mixing State at an Agriculture Site (Quzhou) in the North China Plain in Summer Using a Single Particle Aerosol Mass Spectrometer].

    PubMed

    Huang, Zi-long; Zeng, Li-mm; Dong, I-Iua-Bin; Li, Mei; Zhu, Tong

    2016-04-15

    To characterize the size distribution and chemical ompsitins f abiet prtices t a agicuturesit intheNorh o Chinese Plain, a single particle aerosol mass spectrometer (SPAMS) was deployed from June 30 to July 8, 2013. A total of 230,152 particles in the size range of 0.2-2.0 pm were chemically analyzed with both positive and negative ion spectra. The results revealed that aerosol could he classified into eight dominant groups, including elemental carbon (EC, 55.5%), organic carbon (OC, 10.7%), alkalis (Na-K, 17.4%), other metals (1.7%), Fe-rich (6.3%), Pb-rich (3.1%), dust (4.8%), and other (0.8%). The observed eight types of particles contained secondary components such as 46NO2-, 62NO3-, 96SO3-, 96SO4-, 97HSO4-, showing that they probably went through different aging processes. The analysis of particle size distribution showed that 700-800 nm was the peak value of all particles, and that dust and Fe particles were mainly in the coarse size range. EC particles subtype group research revealed EC particles tended to be aging with the above mentioned secondary ions and eventually led to a particle type conversion from EC to the less aging ECN and the more serious aging ECS, the diurnal variation of which was obviously negatively correlated, and there was a possibility of forming OC/EC mixture with the adsorption of secondary organic matter on EC surface. PMID:27548937

  5. Foucault's points of resistance. Women in science: 1620--2000

    NASA Astrophysics Data System (ADS)

    Vitale, Cindy Gail

    In his unique method of historical research, Michel Foucault was concerned with how institutional power relations are both established and maintained through discourse, in its broadest sense. Foucault found that the character of the discourse of any given period of history serves as the foundation of knowledge which is then transformed into power by those who "appropriate," "bound," then use it as "technologies of discipline." This power operates transparently and serves to "construct" individuals to meet institutional expectations. Important for this study is that Foucault believed that where there is power there is resistance, and that "points of resistance" operate everywhere in "power networks." This study has two parts. The first is a description and an extension of Foucault's notion of resistance as it operates within institutional power relations. The second, using the extended version of Foucault's resistance, is a deconstruction of the discourse of science education in the United States. The deconstruction focused on resistance operating within the male/female power relations network. The deconstruction revealed three overlapping yet distinct historical periods in which the dominant discourse was characterized by one of Foucault's three general technologies of discipline. During the first period, 1620--1790, women were generally not allowed access to formal (institutional) education. This disciplinary technology, which Foucault called "dividing practices," was justified by the commonly accepted religious view of the period that females were both mentally and morally inferior beings. Women were, so to speak, "barred at the schoolhouse gate." In the second period, 1790--1920, female resistance to these dividing practices was parallel to their limited access to formal education. Women were "admitted at the schoolhouse gate," and the appearance of successful resistance occurred as women began to enroll in science classes. Unlike their male counterparts

  6. A single particle model to simulate the dynamics of entangled polymer melts

    NASA Astrophysics Data System (ADS)

    Kindt, P.; Briels, W. J.

    2007-10-01

    We present a computer simulation model of polymer melts representing each chain as one single particle. Besides the position coordinate of each particle, we introduce a parameter nij for each pair of particles i and j within a specified distance from each other. These numbers, called entanglement numbers, describe the deviation of the system of ignored coordinates from its equilibrium state for the given configuration of the centers of mass of the polymers. The deviations of the entanglement numbers from their equilibrium values give rise to transient forces, which, together with the conservative forces derived from the potential of mean force, govern the displacements of the particles. We have applied our model to a melt of C800H1602 chains at 450K and have found good agreement with experiments and more detailed simulations. Properties addressed in this paper are radial distribution functions, dynamic structure factors, and linear as well as nonlinear rheological properties.

  7. Automatic enumeration of gold nanomaterials at the single-particle level.

    PubMed

    Xu, Xiao; Li, Tian; Xu, Zhongxing; Wei, Hejia; Lin, Ruoyun; Xia, Bin; Liu, Feng; Li, Na

    2015-03-01

    In this study, we developed a highly sensitive automatic counting method for gold nanomaterials at the single particle level, which can serve as a general sensing platform based on counting of gold nanomaterials. This method substantially improved the sensitivity and accuracy for AuNP counting by adopting the color image processing based on the distinctive localized plasmonic light-scattering of gold nanomaterials. The 60-nm AuNPs, with concentrations down to 4 fM, can be detected with our method. As a universal counting approach for gold nanomaterials, such as gold nanospheres, nanorods, and aggregates from particles under detectable size, this quantification method should be versatile to a breadth of applications.

  8. An efficient, movable single-particle detector for use in cryogenic ultra-high vacuum environments

    SciTech Connect

    Spruck, Kaija; Becker, Arno; Fellenberger, Florian; Grieser, Manfred; Hahn, Robert von; Klinkhamer, Vincent; Vogel, Stephen; Wolf, Andreas; Krantz, Claude; Novotný, Oldřich; Schippers, Stefan

    2015-02-15

    A compact, highly efficient single-particle counting detector for ions of keV/u kinetic energy, movable by a long-stroke mechanical translation stage, has been developed at the Max-Planck-Institut für Kernphysik (Max Planck Institute for Nuclear Physics, MPIK). Both, detector and translation mechanics, can operate at ambient temperatures down to ∼10 K and consist fully of ultra-high vacuum compatible, high-temperature bakeable, and non-magnetic materials. The set-up is designed to meet the technical demands of MPIK’s Cryogenic Storage Ring. We present a series of functional tests that demonstrate full suitability for this application and characterise the set-up with regard to its particle detection efficiency.

  9. Single particle transport in two-dimensional heterojunction interlayer tunneling field effect transistor

    SciTech Connect

    Li, Mingda Snider, Gregory; Jena, Debdeep; Grace Xing, Huili; Esseni, David

    2014-02-21

    The single particle tunneling in a vertical stack consisting of monolayers of two-dimensional semiconductors is studied theoretically, and its application to a novel Two-dimensional Heterojunction Interlayer Tunneling Field Effect Transistor (Thin-TFET) is proposed and described. The tunneling current is calculated by using a formalism based on the Bardeen's transfer Hamiltonian, and including a semi-classical treatment of scattering and energy broadening effects. The misalignment between the two 2D materials is also studied and found to influence the magnitude of the tunneling current but have a modest impact on its gate voltage dependence. Our simulation results suggest that the Thin-TFETs can achieve very steep subthreshold swing, whose lower limit is ultimately set by the band tails in the energy gaps of the 2D materials produced by energy broadening. The Thin-TFET is thus very promising as a low voltage, low energy solid state electronic switch.

  10. Mechanistic understanding of surface plasmon assisted catalysis on a single particle: cyclic redox of 4-aminothiophenol

    DOE PAGES

    Xu, Ping; Kang, Leilei; Mack, Nathan H.; Schanze, Kirk S.; Han, Xijiang; Wang, Hsing-Lin

    2013-10-21

    We investigate surface plasmon assisted catalysis (SPAC) reactions of 4-aminothiophenol (4ATP) to and back from 4,4'-dimercaptoazobenzene (DMAB) by single particle surface enhanced Raman spectroscopy, using a self-designed gas flow cell to control the reductive/oxidative environment over the reactions. Conversion of 4ATP into DMAB is induced by energy transfer (plasmonic heating) from surface plasmon resonance to 4ATP, where O2 (as an electron acceptor) is essential and H2O (as a base) can accelerate the reaction. In contrast, hot electron (from surface plasmon decay) induction drives the reverse reaction of DMAB to 4ATP, where H2O (or H2) acts as the hydrogen source. Moremore » interestingly, the cyclic redox between 4ATP and DMAB by SPAC approach has been demonstrated. Finally, this SPAC methodology presents a unique platform for studying chemical reactions that are not possible under standard synthetic conditions.« less

  11. Single-Particle Refinement and Variability Analysis in EMAN2.1.

    PubMed

    Ludtke, S J

    2016-01-01

    CryoEM single-particle reconstruction has been growing rapidly over the last 3 years largely due to the development of direct electron detectors, which have provided data with dramatic improvements in image quality. It is now possible in many cases to produce near-atomic resolution structures, and yet 2/3 of published structures remain at substantially lower resolutions. One important cause for this is compositional and conformational heterogeneity, which is both a resolution-limiting factor and presenting a unique opportunity to better relate structure to function. This manuscript discusses the canonical methods for high-resolution refinement in EMAN2.12, and then considers the wide range of available methods within this package for resolving structural variability, targeting both improved resolution and additional knowledge about particle dynamics. PMID:27572727

  12. Single-Particle Refinement and Variability Analysis in EMAN2.1.

    PubMed

    Ludtke, S J

    2016-01-01

    CryoEM single-particle reconstruction has been growing rapidly over the last 3 years largely due to the development of direct electron detectors, which have provided data with dramatic improvements in image quality. It is now possible in many cases to produce near-atomic resolution structures, and yet 2/3 of published structures remain at substantially lower resolutions. One important cause for this is compositional and conformational heterogeneity, which is both a resolution-limiting factor and presenting a unique opportunity to better relate structure to function. This manuscript discusses the canonical methods for high-resolution refinement in EMAN2.12, and then considers the wide range of available methods within this package for resolving structural variability, targeting both improved resolution and additional knowledge about particle dynamics.

  13. The on-line analysis of aerosol-delivered pharmaceuticals via single particle aerosol mass spectrometry.

    PubMed

    Morrical, Bradley D; Balaxi, Maria; Fergenson, David

    2015-07-15

    The use of single particle aerosol mass spectrometry (SPAMS) was evaluated for the analysis of inhaled pharmaceuticals to determine the mass distribution of the individual active pharmaceutical ingredients (API) in both single ingredient and combination drug products. SPAMS is an analytical technique where the individual aerodynamic diameters and chemical compositions of many aerosol particles are determined in real-time. The analysis was performed using a Livermore Instruments SPAMS 3.0, which allowed the efficient analysis of aerosol particles with broad size distributions and can acquire data even under a very large particle load. Data similar to what would normally require roughly three days of experimentation and analysis was collected in a five minute period and analyzed automatically. The results were computed to be comparable to those returned by a typical Next Generation Impactor (NGI) particle size distribution experiment.

  14. 3D structure determination of protein using TEM single particle analysis.

    PubMed

    Sato, Chikara; Mio, Kazuhiro; Kawata, Masaaki; Ogura, Toshihiko

    2014-11-01

    Proteins play important roles in cell functions such as enzymes, cell trafficking, neurotransmission, muscle contraction and hormone secretion. However, some proteins are very difficult to be crystallized and their structures are undetermined. Several techniques have been developed to elucidate the structure of macromolecules; X-ray or electron crystallography, nuclear magnetic resonance spectroscopy, and high-resolution electron microscopy. Among them, electron microscopy based single particle reconstruction (SPA) technique is a computer-aided structure determination method. This method reconstructs the 3D structure from projection images of dispersed protein. A large number of two-dimensional particle images are picked up from EM films, aligned and classified to generate 2D averages, and used to reconstruct the 3D structure by assigning the Euler angle of each 2D average. Due to the necessity of elaborate collaboration between the classical biology and the innovative information technology including parallel computing, scientists needed to break unseen barriers to get a start of this analysis. However, recent progresses in electron microscopes, mathematical algorithms, and computational abilities greatly reduced the height of barriers and expanded targets that are considered to be primarily addressable using single particle analysis. Membrane proteins are one of these targets to which the single particle analysis is successfully applied for the understanding of their 3D structures. For this purpose, we have developed various SPA methods [1-5] and applied them to different proteins [6-8].Here, we introduce reconstructed proteins, and discuss the availability of this technique. The intramembrane-cleaving proteases (I-CLiPs) that sever the transmembrane domains of their substrates have been identified in a range of organisms and play a variety of roles in biological conditions. I-CLiPs have been classified into three groups: serine-, aspartyl- and metalloprotease

  15. Nanoplasmonic Photoluminescence Spectroscopy at Single-Particle Level: Sensing for Ethanol Oxidation.

    PubMed

    Zheng, Zhaoke; Majima, Tetsuro

    2016-02-18

    Surface plasmon resonances of metal nanoparticles have shown significant promise for the use of solar energy to drive catalytic chemical reactions. More importantly, understanding and monitoring such catalytic reactions at single-nanoparticle level is crucial for the study of local reaction processes. Herein, using plasmonic photoluminescence (PL) spectroscopy, we describe a novel sensing method for catalytic ethanol oxidation reactions at the single-nanoparticle level. The Au nanorod monitors the interfacial interaction with ethanol during the catalytic reaction through the PL intensity changes in the single-particle PL spectra. The analysis of energy relaxation of excited electron-hole pairs indicates the relationship between the PL quenching and ethanol oxidation reaction on the single Au nanorod.

  16. Dragonfly: an implementation of the expand–maximize–compress algorithm for single-particle imaging1

    PubMed Central

    Ayyer, Kartik; Lan, Ti-Yen; Elser, Veit; Loh, N. Duane

    2016-01-01

    Single-particle imaging (SPI) with X-ray free-electron lasers has the potential to change fundamentally how biomacromolecules are imaged. The structure would be derived from millions of diffraction patterns, each from a different copy of the macromolecule before it is torn apart by radiation damage. The challenges posed by the resultant data stream are staggering: millions of incomplete, noisy and un-oriented patterns have to be computationally assembled into a three-dimensional intensity map and then phase reconstructed. In this paper, the Dragonfly software package is described, based on a parallel implementation of the expand–maximize–compress reconstruction algorithm that is well suited for this task. Auxiliary modules to simulate SPI data streams are also included to assess the feasibility of proposed SPI experiments at the Linac Coherent Light Source, Stanford, California, USA. PMID:27504078

  17. Estimating the anomalous diffusion exponent for single particle tracking data with measurement errors - An alternative approach

    PubMed Central

    Burnecki, Krzysztof; Kepten, Eldad; Garini, Yuval; Sikora, Grzegorz; Weron, Aleksander

    2015-01-01

    Accurately characterizing the anomalous diffusion of a tracer particle has become a central issue in biophysics. However, measurement errors raise difficulty in the characterization of single trajectories, which is usually performed through the time-averaged mean square displacement (TAMSD). In this paper, we study a fractionally integrated moving average (FIMA) process as an appropriate model for anomalous diffusion data with measurement errors. We compare FIMA and traditional TAMSD estimators for the anomalous diffusion exponent. The ability of the FIMA framework to characterize dynamics in a wide range of anomalous exponents and noise levels through the simulation of a toy model (fractional Brownian motion disturbed by Gaussian white noise) is discussed. Comparison to the TAMSD technique, shows that FIMA estimation is superior in many scenarios. This is expected to enable new measurement regimes for single particle tracking (SPT) experiments even in the presence of high measurement errors. PMID:26065707

  18. Visualizing interactions between Sindbis virus and cells by single particle tracking

    NASA Astrophysics Data System (ADS)

    Williard, Mary

    2005-03-01

    Sindbis virus infects both mammalian and insect cells. Though not pathogenic in humans, Sindbis is a model for many mosquito- borne viruses that cause human disease, such as West Nile virus. We have used real-time single particle fluorescence microscopy to observe individual Sindbis virus particles as they infect living cells. Fluorescent labels were incorporated into both the viral coat proteins and the lipid envelope of the virus. Kinetics characteristic of free diffusion in solution, slower diffusion inside cells, attachment to spots on the cell surface, and motor protein transport inside cells have been observed. Dequenching of the membrane label is used to report membrane fusion events during the infection process. Tracking individual viral particles allows multiple pathways to be determined without the requirement of synchronicity.

  19. Hollow Cone Electron Imaging for Single Particle 3D Reconstruction of Proteins.

    PubMed

    Tsai, Chun-Ying; Chang, Yuan-Chih; Lobato, Ivan; Van Dyck, Dirk; Chen, Fu-Rong

    2016-01-01

    The main bottlenecks for high-resolution biological imaging in electron microscopy are radiation sensitivity and low contrast. The phase contrast at low spatial frequencies can be enhanced by using a large defocus but this strongly reduces the resolution. Recently, phase plates have been developed to enhance the contrast at small defocus but electrical charging remains a problem. Single particle cryo-electron microscopy is mostly used to minimize the radiation damage and to enhance the resolution of the 3D reconstructions but it requires averaging images of a massive number of individual particles. Here we present a new route to achieve the same goals by hollow cone dark field imaging using thermal diffuse scattered electrons giving about a 4 times contrast increase as compared to bright field imaging. We demonstrate the 3D reconstruction of a stained GroEL particle can yield about 13.5 Å resolution but using a strongly reduced number of images. PMID:27292544

  20. Interference and multiparticle effects in a Mach-Zehnder interferometer with single-particle sources

    NASA Astrophysics Data System (ADS)

    Rosselló, Guillem; Battista, Francesca; Moskalets, Michael; Splettstoesser, Janine

    2015-03-01

    We investigate a Mach-Zehnder interferometer fed by two time-dependently driven single-particle sources, one of them placed in front of the interferometer, the other in the center of one of the arms. As long as the two sources are operated independently, the signal at the output of the interferometer shows an interference pattern, which we analyze in the spectral current, in the charge and energy currents, as well as in the charge current noise. The synchronization of the two sources in this specifically designed setup allows for collisions and absorptions of particles at different points of the interferometer, which have a strong impact on the detected signals. It introduces further relevant time scales and can even lead to a full suppression of the interference in some of the discussed quantities. The complementary interpretations of this phenomenon in terms of spectral properties and tunable two-particle effects (absorptions and quantum exchange effects) are put forward in this paper.

  1. Imaging of molecular surface dynamics in brain slices using single-particle tracking.

    PubMed

    Biermann, B; Sokoll, S; Klueva, J; Missler, M; Wiegert, J S; Sibarita, J-B; Heine, M

    2014-01-01

    Organization of signalling molecules in biological membranes is crucial for cellular communication. Many receptors, ion channels and cell adhesion molecules are associated with proteins important for their trafficking, surface localization or function. These complexes are embedded in a lipid environment of varying composition. Binding affinities and stoichiometry of such complexes were so far experimentally accessible only in isolated systems or monolayers of cell culture. Visualization of molecular dynamics within signalling complexes and their correlation to specialized membrane compartments demand high temporal and spatial resolution and has been difficult to demonstrate in complex tissue like brain slices. Here we demonstrate the feasibility of single-particle tracking (SPT) in organotypic brain slices to measure molecular dynamics of lipids and transmembrane proteins in correlation to synaptic membrane compartments. This method will provide important information about the dynamics and organization of surface molecules in the complex environment of neuronal networks within brain slices. PMID:24429796

  2. Imaging of molecular surface dynamics in brain slices using single-particle tracking

    PubMed Central

    Biermann, B.; Sokoll, S.; Klueva, J.; Missler, M.; Wiegert, J. S.; Sibarita, J. -B.; Heine, M.

    2014-01-01

    Organization of signalling molecules in biological membranes is crucial for cellular communication. Many receptors, ion channels and cell adhesion molecules are associated with proteins important for their trafficking, surface localization or function. These complexes are embedded in a lipid environment of varying composition. Binding affinities and stoichiometry of such complexes were so far experimentally accessible only in isolated systems or monolayers of cell culture. Visualization of molecular dynamics within signalling complexes and their correlation to specialized membrane compartments demand high temporal and spatial resolution and has been difficult to demonstrate in complex tissue like brain slices. Here we demonstrate the feasibility of single-particle tracking (SPT) in organotypic brain slices to measure molecular dynamics of lipids and transmembrane proteins in correlation to synaptic membrane compartments. This method will provide important information about the dynamics and organization of surface molecules in the complex environment of neuronal networks within brain slices. PMID:24429796

  3. Exploring cytoplasmic dynamics in zebrafish yolk cells by single particle tracking of fluorescent nanodiamonds

    NASA Astrophysics Data System (ADS)

    Chang, Cheng-Chun; Zhang, Bailin; Li, Che-Yu; Hsieh, Chih-Chien; Duclos, Guillaume; Treussart, François; Chang, Huan-Cheng

    2012-02-01

    Fluorescent nanodiamonds (FNDs) have recently developed into an exciting new tool for bioimaging applications. The material possesses several unique features including high biocompatibility, easy bioconjugation, and perfect photostability, making it a promising optical nanoprobe in vitro as well as in vivo. This work explores the potential application of this novel nanomaterial as a photostable, nontoxic tracer in vivo using zebrafish as a model organism. We introduced FNDs into the yolk of a zebrafish embryo by microinjection at the 1-cell stage. Movements of the injected particles were investigated by using single particle tracking techniques. We observed unidirectional and stop-and-go traffic as part of the intricate cytoplasmic movements in the yolk cell. We determined a velocity in the range of 0.19 - 0.40 μm/s for 40 particles moving along with the axial streaming in the early developmental stage (1 to 2 hours post fertilization) of the zebrafish embryos.

  4. Sorting algorithms for single-particle imaging experiments at X-ray free-electron lasers.

    PubMed

    Bobkov, S A; Teslyuk, A B; Kurta, R P; Gorobtsov, O Yu; Yefanov, O M; Ilyin, V A; Senin, R A; Vartanyants, I A

    2015-11-01

    Modern X-ray free-electron lasers (XFELs) operating at high repetition rates produce a tremendous amount of data. It is a great challenge to classify this information and reduce the initial data set to a manageable size for further analysis. Here an approach for classification of diffraction patterns measured in prototypical diffract-and-destroy single-particle imaging experiments at XFELs is presented. It is proposed that the data are classified on the basis of a set of parameters that take into account the underlying diffraction physics and specific relations between the real-space structure of a particle and its reciprocal-space intensity distribution. The approach is demonstrated by applying principal component analysis and support vector machine algorithms to the simulated and measured X-ray data sets.

  5. Hollow Cone Electron Imaging for Single Particle 3D Reconstruction of Proteins

    PubMed Central

    Tsai, Chun-Ying; Chang, Yuan-Chih; Lobato, Ivan; Van Dyck, Dirk; Chen, Fu-Rong

    2016-01-01

    The main bottlenecks for high-resolution biological imaging in electron microscopy are radiation sensitivity and low contrast. The phase contrast at low spatial frequencies can be enhanced by using a large defocus but this strongly reduces the resolution. Recently, phase plates have been developed to enhance the contrast at small defocus but electrical charging remains a problem. Single particle cryo-electron microscopy is mostly used to minimize the radiation damage and to enhance the resolution of the 3D reconstructions but it requires averaging images of a massive number of individual particles. Here we present a new route to achieve the same goals by hollow cone dark field imaging using thermal diffuse scattered electrons giving about a 4 times contrast increase as compared to bright field imaging. We demonstrate the 3D reconstruction of a stained GroEL particle can yield about 13.5 Å resolution but using a strongly reduced number of images. PMID:27292544

  6. Estimating the anomalous diffusion exponent for single particle tracking data with measurement errors - An alternative approach

    NASA Astrophysics Data System (ADS)

    Burnecki, Krzysztof; Kepten, Eldad; Garini, Yuval; Sikora, Grzegorz; Weron, Aleksander

    2015-06-01

    Accurately characterizing the anomalous diffusion of a tracer particle has become a central issue in biophysics. However, measurement errors raise difficulty in the characterization of single trajectories, which is usually performed through the time-averaged mean square displacement (TAMSD). In this paper, we study a fractionally integrated moving average (FIMA) process as an appropriate model for anomalous diffusion data with measurement errors. We compare FIMA and traditional TAMSD estimators for the anomalous diffusion exponent. The ability of the FIMA framework to characterize dynamics in a wide range of anomalous exponents and noise levels through the simulation of a toy model (fractional Brownian motion disturbed by Gaussian white noise) is discussed. Comparison to the TAMSD technique, shows that FIMA estimation is superior in many scenarios. This is expected to enable new measurement regimes for single particle tracking (SPT) experiments even in the presence of high measurement errors.

  7. An efficient, movable single-particle detector for use in cryogenic ultra-high vacuum environments.

    PubMed

    Spruck, Kaija; Becker, Arno; Fellenberger, Florian; Grieser, Manfred; von Hahn, Robert; Klinkhamer, Vincent; Novotný, Oldřich; Schippers, Stefan; Vogel, Stephen; Wolf, Andreas; Krantz, Claude

    2015-02-01

    A compact, highly efficient single-particle counting detector for ions of keV/u kinetic energy, movable by a long-stroke mechanical translation stage, has been developed at the Max-Planck-Institut für Kernphysik (Max Planck Institute for Nuclear Physics, MPIK). Both, detector and translation mechanics, can operate at ambient temperatures down to ∼10 K and consist fully of ultra-high vacuum compatible, high-temperature bakeable, and non-magnetic materials. The set-up is designed to meet the technical demands of MPIK's Cryogenic Storage Ring. We present a series of functional tests that demonstrate full suitability for this application and characterise the set-up with regard to its particle detection efficiency.

  8. Evaluation of Drying Rates of Lignite Particles in Superheated Steam Using Single-Particle Model

    NASA Astrophysics Data System (ADS)

    Kiriyama, Tsuyoshi; Sasaki, Hideaki; Hashimoto, Akira; Kaneko, Shozo; Maeda, Masafumi

    2016-08-01

    Drying rates of lignite particle groups in superheated steam are evaluated using a single-particle model developed for Australian lignite. Size distributions of the particles are assumed to obey the Rosin-Rammler equation with the maximum particle diameters defined as 100, 50, and 6 mm. The results show the drying rate of a lignite group depends strongly on the maximum particle size, and removal of large particles prior to drying is shown to be effective to reduce the drying time. The calculation model is available for simulations of drying behaviors of lignite in various dryers when an appropriate heat transfer coefficient is given. This study simulates the drying of particles smaller than 6 mm using a heat transfer coefficient in a fluidized bed dryer reported elsewhere. The required drying time estimated from the calculation is comparable to the processing time reported in an actual fluidized bed dryer, supporting the validity of the calculation model.

  9. Neutron single particle structure in 131Sn and the r-process

    SciTech Connect

    Kozub, R. L.; Bardayan, Daniel W; Adekola, Aderemi S; Blackmon, Jeff C; Chae, K. Y.; Chipps, K.; Cizewski, J. A.; Erikson, Luke; Hatarik, Robert; Jones, K. L.; Krolas, W.; Liang, J Felix; Ma, Zhanwen; Matei, Catalin; Moazen, Brian; Nesaraja, Caroline D; Pain, Steven D; Shapira, Dan; ShrinerJr., J. F.; Smith, Michael Scott; Swan, T. P.

    2009-01-01

    Recent calculations suggest that, at late times in the r-process, the rate of neutron capture by {sup 130}Sn has a significant impact on nucleosynthesis. Direct capture into low-lying bound states is likely the dominant reaction in the r-process near the N=82 closed shell, so reaction rates are strongly impacted by the properties of neutron single particle states in this region. In order to investigate these properties, we have acquired (d,p) reaction data in the A{approx}132 region in inverse kinematics using {approx}630 MeV beams (4.85 MeV/u for {sup 130}Sn) and CD{sub 2} targets. An array of Si strip detectors, including SIDAR and an early implementation of the new Oak Ridge Rutgers University Barrel Array (ORRUBA), was used to detect reaction products. Preliminary results for the {sup 130}Sn(d,p){sup 131}Sn experiment are reported.

  10. Impact of ultrafast electronic damage in single-particle x-ray imaging experiments

    NASA Astrophysics Data System (ADS)

    Lorenz, U.; Kabachnik, N. M.; Weckert, E.; Vartanyants, I. A.

    2012-11-01

    In single-particle coherent x-ray diffraction imaging experiments, performed at x-ray free-electron lasers (XFELs), samples are exposed to intense x-ray pulses to obtain single-shot diffraction patterns. The high intensity induces electronic dynamics on the femtosecond time scale in the system, which can reduce the contrast of the obtained diffraction patterns and adds an isotropic background. We quantify the degradation of the diffraction pattern from ultrafast electronic damage by performing simulations on a biological sample exposed to x-ray pulses with different parameters. We find that the contrast is substantially reduced and the background is considerably strong only if almost all electrons are removed from their parent atoms. This happens at fluences of at least one order of magnitude larger than provided at currently available XFEL sources.

  11. Single-particle states in ^112Cd probed with the ^111Cd(d,p) reaction

    NASA Astrophysics Data System (ADS)

    Garrett, P. E.; Jamieson, D.; Demand, G. A.; Finlay, P.; Green, K. L.; Leach, K. G.; Phillips, A. A.; Sumithrarachchi, C. S.; Svensson, C. E.; Triambak, S.; Wong, J.; Ball, G. C.; Hertenberger, R.; Wirth, H.-F.; Kr"Ucken, R.; Faestermann, T.

    2009-10-01

    As part of a program of detailed spectroscopy of the Cd isotopes, the single-particle neutron states in ^112Cd have been probed with the ^111Cd(d,p) reaction. Beams of polarized 22 MeV deuterons, obtained from the LMU/TUM Tandem Accelerator, bombarded a target of ^111Cd. The protons from the reaction, corresponding to excitation energies up to 3 MeV in ^112Cd, were momentum analyzed with the Q3D spectrograph. Cross sections and analyzing powers were fit to results of DWBA calculations, and spectroscopic factors were determined. The results from the experiment, and implications for the structure of ^112Cd, will be presented.

  12. Fast Three-Dimensional Single-Particle Tracking in Natural Brain Tissue

    PubMed Central

    Sokoll, Stefan; Prokazov, Yury; Hanses, Magnus; Biermann, Barbara; Tönnies, Klaus; Heine, Martin

    2015-01-01

    Observation of molecular dynamics is often biased by the optical very heterogeneous environment of cells and complex tissue. Here, we have designed an algorithm that facilitates molecular dynamic analyses within brain slices. We adjust fast astigmatism-based three-dimensional single-particle tracking techniques to depth-dependent optical aberrations induced by the refractive index mismatch so that they are applicable to complex samples. In contrast to existing techniques, our online calibration method determines the aberration directly from the acquired two-dimensional image stream by exploiting the inherent particle movement and the redundancy introduced by the astigmatism. The method improves the positioning by reducing the systematic errors introduced by the aberrations, and allows correct derivation of the cellular morphology and molecular diffusion parameters in three dimensions independently of the imaging depth. No additional experimental effort for the user is required. Our method will be useful for many imaging configurations, which allow imaging in deep cellular structures. PMID:26445447

  13. Analysis and differentiation of mineral dust by single particle laser mass spectrometry

    SciTech Connect

    Gallavardin, S. J.; Lohmann, U.; Cziczo, Daniel J.

    2008-05-09

    Abstract This study evaluates the potential of single particle laser desorption/ionization mass spectrometry for the analysis of atmospherically relevant mineral dusts. Samples of hematite, goethite, calcium carbonate, calcium sulfate, silica, quartz, montmorrillonite, kaolinite, illite, hectorite, wollastonite and nephelinsyenit were investigated in positive and negative ion mode with a monopolar time-of-flight mass spectrometer where the desorption/ionization step was performed with a 193 nm excimer laser (~109 W/cm2). Particle size ranged from 500 nm to 3 μm. Positive mass spectra mainly provide elemental composition whereas negative ion spectra provide information on element speciation and of a structural nature. The iron oxide, calcium-rich and aluminosilicate nature of particles is established in positive ion mode. The differentiation of calcium materials strongly relies on the calcium counter-ions in negative mass spectra. Aluminosilicates can be differentiated in both positive and negative ion mode using the relative abundance of various aluminum and silicon ions.

  14. Exponential orthogonality catastrophe in single-particle and many-body localized systems

    NASA Astrophysics Data System (ADS)

    Deng, Dong-Ling; Pixley, J. H.; Li, Xiaopeng; Das Sarma, S.

    2015-12-01

    We investigate the statistical orthogonality catastrophe (STOC) in single-particle and many-body localized systems by studying the response of the many-body ground state to a local quench. Using scaling arguments and exact numerical calculations, we establish that the STOC gives rise to a wave function overlap between the pre- and postquench ground states that has an exponential decay with the system size, in sharp contrast to the well-known power law Anderson orthogonality catastrophe in metallic systems. This exponential decay arises from a statistical charge transfer process where a particle can be effectively "transported" to an arbitrary lattice site. In a many-body localized phase, this nonlocal transport and the associated exponential STOC phenomenon persist in the presence of interactions. We study the possible experimental consequences of the exponential STOC on the Loschmidt echo and spectral function, establishing that this phenomenon might be observable in cold atomic experiments through Ramsey interference and radio-frequency spectroscopy.

  15. Spectrally accurate numerical solution of the single-particle Schrödinger equation

    NASA Astrophysics Data System (ADS)

    Batcho, P. F.

    1998-06-01

    We have formulated a three-dimensional fully numerical (i.e., chemical basis-set free) method and applied it to the solution of the single-particle Schrödinger equation. The numerical method combines the rapid ``exponential'' convergence rates of spectral methods with the geometric flexibility of finite-element methods and can be viewed as an extension of the spectral element method. Singularities associated with multicenter systems are efficiently integrated by a Duffy transformation and the discrete operator is formulated by a variational statement. The method is applicable to molecular modeling for quantum chemical calculations on polyatomic systems. The complete system is shown to be efficiently inverted by the preconditioned conjugate gradient method and exponential convergence rates in numerical approximations are demonstrated for suitable benchmark problems including the hydrogenlike orbitals of nitrogen.

  16. Stability of Single Particle Motion with Head-On Beam-Beam Compensation in the RHIC

    SciTech Connect

    Luo,Y.; Fischer, W.; Abreu, N.

    2008-05-01

    To compensate the large tune shift and tune spread generated by the head-on beam-beam interactions in the polarized proton run in the Relativistic Heavy Ion Collider (RHIC), we proposed a low energy electron beam with a Gaussian transverse profiles to collide head-on with the proton beam. In this article, with a weak-strong beam-beam interaction model, we investigate the stability of single particle motion in the presence of head-on beam-beam compensation. Tune footprints, tune diffusion, Lyapunov exponents, and 10{sup 6} turn dynamic apertures are calculated and compared between the cases without and with beam-beam compensation. A tune scan is performed and the possibility of increasing the bunch intensity is studied. The cause of tune footprint foldings is discussed, and the tune diffusion and Lyapunov exponent analysis are compared.

  17. Single particle momentum and angular distributions in hadron-hadron collisions at ultrahigh energies

    NASA Technical Reports Server (NTRS)

    Chou, T. T.; Chen, N. Y.

    1985-01-01

    The forward-backward charged multiplicity distribution (P n sub F, n sub B) of events in the 540 GeV antiproton-proton collider has been extensively studied by the UA5 Collaboration. It was pointed out that the distribution with respect to n = n sub F + n sub B satisfies approximate KNO scaling and that with respect to Z = n sub F - n sub B is binomial. The geometrical model of hadron-hadron collision interprets the large multiplicity fluctuation as due to the widely different nature of collisions at different impact parameters b. For a single impact parameter b, the collision in the geometrical model should exhibit stochastic behavior. This separation of the stochastic and nonstochastic (KNO) aspects of multiparticle production processes gives conceptually a lucid and attractive picture of such collisions, leading to the concept of partition temperature T sub p and the single particle momentum spectrum to be discussed in detail.

  18. Hollow Cone Electron Imaging for Single Particle 3D Reconstruction of Proteins

    NASA Astrophysics Data System (ADS)

    Tsai, Chun-Ying; Chang, Yuan-Chih; Lobato, Ivan; van Dyck, Dirk; Chen, Fu-Rong

    2016-06-01

    The main bottlenecks for high-resolution biological imaging in electron microscopy are radiation sensitivity and low contrast. The phase contrast at low spatial frequencies can be enhanced by using a large defocus but this strongly reduces the resolution. Recently, phase plates have been developed to enhance the contrast at small defocus but electrical charging remains a problem. Single particle cryo-electron microscopy is mostly used to minimize the radiation damage and to enhance the resolution of the 3D reconstructions but it requires averaging images of a massive number of individual particles. Here we present a new route to achieve the same goals by hollow cone dark field imaging using thermal diffuse scattered electrons giving about a 4 times contrast increase as compared to bright field imaging. We demonstrate the 3D reconstruction of a stained GroEL particle can yield about 13.5 Å resolution but using a strongly reduced number of images.

  19. Experimental proof of nonlocal wavefunction collapse for a single particle using homodyne measurements.

    PubMed

    Fuwa, Maria; Takeda, Shuntaro; Zwierz, Marcin; Wiseman, Howard M; Furusawa, Akira

    2015-01-01

    A single quantum particle can be described by a wavefunction that spreads over arbitrarily large distances; however, it is never detected in two (or more) places. This strange phenomenon is explained in the quantum theory by what Einstein repudiated as 'spooky action at a distance': the instantaneous nonlocal collapse of the wavefunction to wherever the particle is detected. Here we demonstrate this single-particle spooky action, with no efficiency loophole, by splitting a single photon between two laboratories and experimentally testing whether the choice of measurement in one laboratory really causes a change in the local quantum state in the other laboratory. To this end, we use homodyne measurements with six different measurement settings and quantitatively verify Einstein's spooky action by violating an Einstein-Podolsky-Rosen-steering inequality by 0.042±0.006. Our experiment also verifies the entanglement of the split single photon even when one side is untrusted.

  20. Single-particle structure determination by correlations of snapshot X-ray diffraction patterns

    NASA Astrophysics Data System (ADS)

    Starodub, D.; Aquila, A.; Bajt, S.; Barthelmess, M.; Barty, A.; Bostedt, C.; Bozek, J. D.; Coppola, N.; Doak, R. B.; Epp, S. W.; Erk, B.; Foucar, L.; Gumprecht, L.; Hampton, C. Y.; Hartmann, A.; Hartmann, R.; Holl, P.; Kassemeyer, S.; Kimmel, N.; Laksmono, H.; Liang, M.; Loh, N. D.; Lomb, L.; Martin, A. V.; Nass, K.; Reich, C.; Rolles, D.; Rudek, B.; Rudenko, A.; Schulz, J.; Shoeman, R. L.; Sierra, R. G.; Soltau, H.; Steinbrener, J.; Stellato, F.; Stern, S.; Weidenspointner, G.; Frank, M.; Ullrich, J.; Strüder, L.; Schlichting, I.; Chapman, H. N.; Spence, J. C. H.; Bogan, M. J.

    2012-12-01

    Diffractive imaging with free-electron lasers allows structure determination from ensembles of weakly scattering identical nanoparticles. The ultra-short, ultra-bright X-ray pulses provide snapshots of the randomly oriented particles frozen in time, and terminate before the onset of structural damage. As signal strength diminishes for small particles, the synthesis of a three-dimensional diffraction volume requires simultaneous involvement of all data. Here we report the first application of a three-dimensional spatial frequency correlation analysis to carry out this synthesis from noisy single-particle femtosecond X-ray diffraction patterns of nearly identical samples in random and unknown orientations, collected at the Linac Coherent Light Source. Our demonstration uses unsupported test particles created via aerosol self-assembly, and composed of two polystyrene spheres of equal diameter. The correlation analysis avoids the need for orientation determination entirely. This method may be applied to the structural determination of biological macromolecules in solution.

  1. Single-particle structure determination by correlations of snapshot X-ray diffraction patterns.

    PubMed

    Starodub, D; Aquila, A; Bajt, S; Barthelmess, M; Barty, A; Bostedt, C; Bozek, J D; Coppola, N; Doak, R B; Epp, S W; Erk, B; Foucar, L; Gumprecht, L; Hampton, C Y; Hartmann, A; Hartmann, R; Holl, P; Kassemeyer, S; Kimmel, N; Laksmono, H; Liang, M; Loh, N D; Lomb, L; Martin, A V; Nass, K; Reich, C; Rolles, D; Rudek, B; Rudenko, A; Schulz, J; Shoeman, R L; Sierra, R G; Soltau, H; Steinbrener, J; Stellato, F; Stern, S; Weidenspointner, G; Frank, M; Ullrich, J; Strüder, L; Schlichting, I; Chapman, H N; Spence, J C H; Bogan, M J

    2012-01-01

    Diffractive imaging with free-electron lasers allows structure determination from ensembles of weakly scattering identical nanoparticles. The ultra-short, ultra-bright X-ray pulses provide snapshots of the randomly oriented particles frozen in time, and terminate before the onset of structural damage. As signal strength diminishes for small particles, the synthesis of a three-dimensional diffraction volume requires simultaneous involvement of all data. Here we report the first application of a three-dimensional spatial frequency correlation analysis to carry out this synthesis from noisy single-particle femtosecond X-ray diffraction patterns of nearly identical samples in random and unknown orientations, collected at the Linac Coherent Light Source. Our demonstration uses unsupported test particles created via aerosol self-assembly, and composed of two polystyrene spheres of equal diameter. The correlation analysis avoids the need for orientation determination entirely. This method may be applied to the structural determination of biological macromolecules in solution.

  2. Single-particle structure determination by correlations of snapshot X-ray diffraction patterns.

    PubMed

    Starodub, D; Aquila, A; Bajt, S; Barthelmess, M; Barty, A; Bostedt, C; Bozek, J D; Coppola, N; Doak, R B; Epp, S W; Erk, B; Foucar, L; Gumprecht, L; Hampton, C Y; Hartmann, A; Hartmann, R; Holl, P; Kassemeyer, S; Kimmel, N; Laksmono, H; Liang, M; Loh, N D; Lomb, L; Martin, A V; Nass, K; Reich, C; Rolles, D; Rudek, B; Rudenko, A; Schulz, J; Shoeman, R L; Sierra, R G; Soltau, H; Steinbrener, J; Stellato, F; Stern, S; Weidenspointner, G; Frank, M; Ullrich, J; Strüder, L; Schlichting, I; Chapman, H N; Spence, J C H; Bogan, M J

    2012-01-01

    Diffractive imaging with free-electron lasers allows structure determination from ensembles of weakly scattering identical nanoparticles. The ultra-short, ultra-bright X-ray pulses provide snapshots of the randomly oriented particles frozen in time, and terminate before the onset of structural damage. As signal strength diminishes for small particles, the synthesis of a three-dimensional diffraction volume requires simultaneous involvement of all data. Here we report the first application of a three-dimensional spatial frequency correlation analysis to carry out this synthesis from noisy single-particle femtosecond X-ray diffraction patterns of nearly identical samples in random and unknown orientations, collected at the Linac Coherent Light Source. Our demonstration uses unsupported test particles created via aerosol self-assembly, and composed of two polystyrene spheres of equal diameter. The correlation analysis avoids the need for orientation determination entirely. This method may be applied to the structural determination of biological macromolecules in solution. PMID:23232406

  3. The single-particle structure around ^132Sn explored through the (d,p) reaction

    NASA Astrophysics Data System (ADS)

    Jones, Kate

    2007-04-01

    The nuclear shell model^1, originally developed by Maria Geoppert Mayer in 1949 (Nobel Prize 1963) has been used extensively to explain the structure of nuclei. The atomic shell model describes the increased stability observed when an electron shell is filled. Correspondingly, nuclei with magic numbers of protons or neutrons (2, 8, 20, 28, 50, 82, 126) display additional stability. Only ten nuclei to date have been observed which have these standard magic numbers for both neutrons and protons, of these, half are stable or very long-lived. Many changes have been observed in nuclei as we move away from the valley of stability and it is important, both to nuclear structure physics and to understanding the synthesis of nuclei in the cosmos, to understand how these changes affect single-particle states.One exotic doubly-magic nucleus which can be produced with sufficient intensity to perform reactions on it is ^132Sn. Recent calculations^2 have shown that the structure around ^132Sn may affect the freeze out of the rapid neutron capture (r-)process, believed to occur in supernovae, which is responsible for the production of about half the nuclear species heavier than iron. By adding a neutron to a beam of ^132Sn via a transfer reaction, it is possible to study single-particle states beyond the double-shell closure. I will present results from a recent measurement of ^133Sn via the ^132Sn(d,p) reaction in inverse kinematics. [1] Maria Goeppert Mayer, Science 145 999 (1964). [2] R. Surman and J. Engel, Phys. Rev. C 64, 035801 (2001).

  4. Aging and removal of Black Carbon measured using a Single Particle Soot Photometer in East Asia

    NASA Astrophysics Data System (ADS)

    Kanaya, Y.; Miyakawa, T.; Taketani, F.; Oshima, N.; PAN, X.; Komazaki, Y.; Kondo, Y.; Takami, A.; Yoshino, A.

    2015-12-01

    Black carbon (BC) aerosol is one of the most important aerosols, affecting the Earth's radiative budget both directly through light absorption and indirectly by acting as cloud condensation and ice nuclei. Microphysical parameters of soot aerosols are important to assess their roles in atmosphere. A single particle soot photometer (SP2, Droplet Measurement Technologies Inc.) can be used to detect and quantify the mass of refractory BC (rBC) in a soot-containing particle. We conducted ground-measurements of rBC-containing particles using the SP2 at Yokosuka (near industrial sources, early summer of 2014, Fig1) and at Fukue island (outflow from Asian continent, spring of 2015, Fig1). During Fukue observation, we measured carbon monoxide (CO) mixing ratio (by 48C, Themo Scientific, Inc.) which is useful for investigating polluted air masses. Air mass histories were analyzed with backward trajectories from the sampling point and precipitation along the trajectory calculated using the NOAA Hybrid Single-Particle Lagrangian Integrated Trajectory model with the meteorological data sets from NCEP's GDAS. We analysed number-/mass-size distributions and mixing states of rBC-containing particles considering the differences in air mass characteristics and history. The observed rBC mass concentrations (at STP) were ranging from ~50 ng m-3 at Fukue island to ~2000 ng m-3 near industrial sources. The size distributions of rBC-containing particles were systematically changed depending on the sites and air mass histories. Modal mass-equivalent diameters of the observed mass-size distributions showed minima (~0.16 μm) near source area and maxima (~0.21 μm) at Fukue island for Asian outflow period without wet removal. In the presentation, we synthetically discuss the relationship between rBC microphysics and air mass characteristics and histories.

  5. Precision Experiments with Single Particles in Ion Traps for Tests of Fundamental Interactions

    NASA Astrophysics Data System (ADS)

    Quint, Wolfgang

    2007-06-01

    Ion trap technology has made it possible to store, cool and observe single ions or ensembles of few ions under well controlled experimental conditions and at very low temperatures [1]. Single particles in traps allow for clean investigations of basic interactions and also for the determination of fundamental constants. This has been demonstrated by investigations of Quantum Electrodynamics (QED) with respect to the g-factor of the free electron [2] and of the electron bound in hydrogen-like carbon and oxygen [3], which form the most precise determinations of the fine-structure constant and of the mass of the electron, respectively. A precision test of CPT invariance has been performed in a proton-antiproton mass comparison with single particles in a Penning trap [4]. Optical quantum jump spectroscopy with single laser-cooled ions in rf traps has paved the way for optical frequency standards and for the investigation of a possible variation of fundamental constants. With the novel technique of deceleration, trapping and cooling, even high-accuracy experiments with highly charged ions up to uranium U91+ will be possible at the HITRAP facility at GSI Darmstadt [5]. [1] Observation of a Phase Transition of Stored Laser-Cooled Ions, F. Diedrich, E. Peik, J.M. Chen, W. Quint, H. Walther, Phys. Rev. Lett. 59, 2931 (1987) [2] New Determination of the Fine Structure Constant from the Electron g Value and QED, G. Gabrielse et al., Phys. Rev. Lett. 97, 030802 (2006). [3] New Determination of the Electron's Mass, T. Beier et al., Phys. Rev. Lett. 88, 011603 (2002). [4] Precision Mass Spectroscopy of the Antiproton and Proton Using Simultaneously Trapped Particles, G. Gabrielse et al., Phys. Rev. Lett. 82, 3198 (1999). [5] Trapping ions of hydrogen-like uranium: The HITRAP project at GSI, T. Beier et al., NIM B 235, 473 (2005).

  6. In-situ imaging of reacting single-particle zeolites by non-linear optical microscopy

    NASA Astrophysics Data System (ADS)

    Wrzesinski, Paul J.; Slipchenko, Mikhail N.; Zaman, Taslima A.; Rioux, Robert M.; Gord, James R.; Roy, Sukesh

    2015-03-01

    Zeolite catalysis has been exploited by the petrochemical industry since the 1940's for catalytic cracking reactions of long chain hydrocarbons. The selectivity of zeolites strongly depends on a pore size, which is controlled by the chosen structure-directing agent (SDA) and by the SDA decomposition/removal process. Although zeolites are composed of micron-sized crystals, studies of zeolite materials typically focus on bulk (i.e., ensemble) measurements to elucidate structure-function information or to optimize catalysts and/or process parameters. To examine these phenomena on the microscale, non-linear optical microscopy is used to provide real-time imaging of chemical reactions in zeolites at temperatures exceeding 400°C. The template decomposition mechanism is studied, as elucidation of the mechanism is critical to understanding the relationship between the decomposition chemistry and the nanoscale features of the zeolite (topology, Si/Al ratio, added dopants). Forward stimulated Raman scattering (SRS), forward coherent anti-Stokes Raman scattering (CARS) and epi two-photon fluorescence (TPF) modalities are acquired simultaneously providing video-rate structural and chemical information. A high-temperature cell with gas inlet system is used for the study of reactions under various temperatures and gas environments. Examining the decomposition process with single-particle resolution enables access to ensemble-level and spatially-resolved behavior. Parallel experiments on bulk zeolite powders are conducted to enable comparison of ensemble and single-particle behavior during template decomposition. Our multi-technique approach has high potential for gaining insight into the link between nanoscale structure and catalytic activity and selectivity of zeolitic materials.

  7. Quantum nonergodicity and fermion localization in a system with a single-particle mobility edge

    NASA Astrophysics Data System (ADS)

    Li, Xiaopeng; Pixley, J. H.; Deng, Dong-Ling; Ganeshan, Sriram; Das Sarma, S.

    2016-05-01

    We study the many-body localization aspects of single-particle mobility edges in fermionic systems. We investigate incommensurate lattices and random disorder Anderson models. Many-body localization and quantum nonergodic properties are studied by comparing entanglement and thermal entropy, and by calculating the scaling of subsystem particle-number fluctuations, respectively. We establish a nonergodic extended phase as a generic intermediate phase (between purely ergodic extended and nonergodic localized phases) for the many-body localization transition of noninteracting fermions where the entanglement entropy manifests a volume law (hence, "extended"), but there are large fluctuations in the subsystem particle numbers (hence, "nonergodic"). Based on the numerical results, we expect such an intermediate phase scenario may continue to hold even for the many-body localization in the presence of interactions as well. We find for many-body fermionic states in noninteracting one-dimensional Aubry-André and three-dimensional Anderson models that the entanglement entropy density and the normalized particle-number fluctuation have discontinuous jumps at the localization transition where the entanglement entropy is subthermal but obeys the "volume law." In the vicinity of the localization transition, we find that both the entanglement entropy and the particle-number fluctuations obey a single parameter scaling based on the diverging localization length. We argue using numerical and theoretical results that such a critical scaling behavior should persist for the interacting many-body localization problem with important observable consequences. Our work provides persuasive evidence in favor of there being two transitions in many-body systems with single-particle mobility edges, the first one indicating a transition from the purely localized nonergodic many-body localized phase to a nonergodic extended many-body metallic phase, and the second one being a transition

  8. Chikungunya virus fusion properties elucidated by single-particle and bulk approaches.

    PubMed

    van Duijl-Richter, Mareike K S; Blijleven, Jelle S; van Oijen, Antoine M; Smit, Jolanda M

    2015-08-01

    Chikungunya virus (CHIKV) is a rapidly spreading, enveloped alphavirus causing fever, rash and debilitating polyarthritis. No specific treatment or vaccines are available to treat or prevent infection. For the rational design of vaccines and antiviral drugs, it is imperative to understand the molecular mechanisms involved in CHIKV infection. A critical step in the life cycle of CHIKV is fusion of the viral membrane with a host cell membrane. Here, we elucidate this process using ensemble-averaging liposome-virus fusion studies, in which the fusion behaviour of a large virus population is measured, and a newly developed microscopy-based single-particle assay, in which the fusion kinetics of an individual particle can be visualised. The combination of these approaches allowed us to obtain detailed insight into the kinetics, lipid dependency and pH dependency of hemifusion. We found that CHIKV fusion is strictly dependent on low pH, with a threshold of pH 6.2 and optimal fusion efficiency below pH 5.6. At this pH, CHIKV fuses rapidly with target membranes, with typically half of the fusion occurring within 2 s after acidification. Cholesterol and sphingomyelin in the target membrane were found to strongly enhance the fusion process. By analysing our single-particle data using kinetic models, we were able to deduce that the number of rate-limiting steps occurring before hemifusion equals about three. To explain these data, we propose a mechanistic model in which multiple E1 fusion trimers are involved in initiating the fusion process.

  9. Characteristics of tyre dust in polluted air: Studies by single particle mass spectrometry (ATOFMS)

    NASA Astrophysics Data System (ADS)

    Dall'Osto, Manuel; Beddows, David C. S.; Gietl, Johanna K.; Olatunbosun, Oluremi A.; Yang, Xiaoguang; Harrison, Roy M.

    2014-09-01

    There is a paucity of quantitative knowledge on the contributions of non-exhaust (abrasion and re-suspension) sources to traffic emissions. Abrasive emissions can be broadly categorised as tyre wear, brake wear and road dust/road surface wear. Current research often considers road dust and tyre dust as externally mixed particles, the former mainly composed of mineral matter and the latter solely composed of mainly organic matter and some trace elements. The aim of this work was to characterise tyre wear from both laboratory and field studies by using Aerosol Time-Of-Flight Mass Spectrometry (ATOFMS). Real-time single particle chemical composition was obtained from a set of rubber tyres rotating on a metal surface. Bimodal particle number size distributions peaking at 35 nm and 85 nm were obtained from SMPS/APS measurements over the range 6-20,000 nm. ATOFMS mass spectra of tyre wear in the particle size range 200-3000 nm diameter show peaks due to exo-sulphur compounds, nitrate, Zn and ions of high molecular weight (m/z > 100) attributed to organic polymers. Two large ATOFMS datasets collected from a number of outdoor studies were examined. The former was constituted of 48 road dust samples collected on the roads of London. The latter consisted of ATOFMS ambient air field studies from Europe, overall composed of more than 2,000,000 single particle mass spectra. The majority (95%) of tyre wear particles present in the road dust samples and atmospheric samples are internally mixed with metals (Li, Na, Ca, Fe, Ti), as well as phosphate. It is concluded that the interaction of tyres with the road surface creates particles internally mixed from two sources: tyre rubber and road surface materials. Measurements of the tyre rubber component alone may underestimate the contribution of tyre wear to concentrations of airborne particulate matter. The results presented are especially relevant for urban aerosol source apportionment and PM2.5 exposure assessment.

  10. Evaluation strategies for isotope ratio measurements of single particles by LA-MC-ICPMS.

    PubMed

    Kappel, S; Boulyga, S F; Dorta, L; Günther, D; Hattendorf, B; Koffler, D; Laaha, G; Leisch, F; Prohaska, T

    2013-03-01

    Data evaluation is a crucial step when it comes to the determination of accurate and precise isotope ratios computed from transient signals measured by multi-collector-inductively coupled plasma mass spectrometry (MC-ICPMS) coupled to, for example, laser ablation (LA). In the present study, the applicability of different data evaluation strategies (i.e. 'point-by-point', 'integration' and 'linear regression slope' method) for the computation of (235)U/(238)U isotope ratios measured in single particles by LA-MC-ICPMS was investigated. The analyzed uranium oxide particles (i.e. 9073-01-B, CRM U010 and NUSIMEP-7 test samples), having sizes down to the sub-micrometre range, are certified with respect to their (235)U/(238)U isotopic signature, which enabled evaluation of the applied strategies with respect to precision and accuracy. The different strategies were also compared with respect to their expanded uncertainties. Even though the 'point-by-point' method proved to be superior, the other methods are advantageous, as they take weighted signal intensities into account. For the first time, the use of a 'finite mixture model' is presented for the determination of an unknown number of different U isotopic compositions of single particles present on the same planchet. The model uses an algorithm that determines the number of isotopic signatures by attributing individual data points to computed clusters. The (235)U/(238)U isotope ratios are then determined by means of the slopes of linear regressions estimated for each cluster. The model was successfully applied for the accurate determination of different (235)U/(238)U isotope ratios of particles deposited on the NUSIMEP-7 test samples. PMID:23314620

  11. Chemical characterization of freshly emitted particulate matter from aircraft exhaust using single particle mass spectrometry

    NASA Astrophysics Data System (ADS)

    Abegglen, Manuel; Brem, B. T.; Ellenrieder, M.; Durdina, L.; Rindlisbacher, T.; Wang, J.; Lohmann, U.; Sierau, B.

    2016-06-01

    Non-volatile aircraft engine emissions are an important anthropogenic source of soot particles in the upper troposphere and in the vicinity of airports. They influence climate and contribute to global warming. In addition, they impact air quality and thus human health and the environment. The chemical composition of non-volatile particulate matter emission from aircraft engines was investigated using single particle time-of-flight mass spectrometry. The exhaust from three different aircraft engines was sampled and analyzed. The soot particulate matter was sampled directly behind the turbine in a test cell at Zurich Airport. Single particle analyses will focus on metallic compounds. The particles analyzed herein represent a subset of the emissions composed of the largest particles with a mobility diameter >100 nm due to instrumental restrictions. A vast majority of the analyzed particles was shown to contain elemental carbon, and depending on the engine and the applied thrust the elemental carbon to total carbon ratio ranged from 83% to 99%. The detected metallic compounds were all internally mixed with the soot particles. The most abundant metals in the exhaust were Cr, Fe, Mo, Na, Ca and Al; V, Ba, Co, Cu, Ni, Pb, Mg, Mn, Si, Ti and Zr were also detected. We further investigated potential sources of the ATOFMS-detected metallic compounds using Inductively Coupled Plasma Mass Spectrometry. The potential sources considered were kerosene, engine lubrication oil and abrasion from engine wearing components. An unambiguous source apportionment was not possible because most metallic compounds were detected in several of the analyzed sources.

  12. Chemical characterization of freshly emitted particulate matter from aircraft exhaust using single particle mass spectrometry

    NASA Astrophysics Data System (ADS)

    Abegglen, Manuel; Brem, B. T.; Ellenrieder, M.; Durdina, L.; Rindlisbacher, T.; Wang, J.; Lohmann, U.; Sierau, B.

    2016-06-01

    Non-volatile aircraft engine emissions are an important anthropogenic source of soot particles in the upper troposphere and in the vicinity of airports. They influence climate and contribute to global warming. In addition, they impact air quality and thus human health and the environment. The chemical composition of non-volatile particulate matter emission from aircraft engines was investigated using single particle time-of-flight mass spectrometry. The exhaust from three different aircraft engines was sampled and analyzed. The soot particulate matter was sampled directly behind the turbine in a test cell at Zurich Airport. Single particle analyses will focus on metallic compounds. The particles analyzed herein represent a subset of the emissions composed of the largest particles with a mobility diameter >100 nm due to instrumental restrictions. A vast majority of the analyzed particles was shown to contain elemental carbon, and depending on the engine and the applied thrust the elemental carbon to total carbon ratio ranged from 83% to 99%. The detected metallic compounds were all internally mixed with the soot particles. The most abundant metals in the exhaust were Cr, Fe, Mo, Na, Ca and Al; V, Ba, Co, Cu, Ni, Pb, Mg, Mn, Si, Ti and Zr were also detected. We further investigated potential sources of the ATOFMS-detected metallic compounds using Inductively Coupled Plasma Mass Spectrometry. The potential sources considered were kerosene, engine lubrication oil and abrasion from engine wearing components. An unambiguous source apportionment was not possible because most metallic compounds were detected in several of the analyzed sources.

  13. ClusterSculptor: Software for Expert-Steered Classification of Single Particle Mass Spectra

    SciTech Connect

    Zelenyuk, Alla; Imre, Dan G.; Nam, Eun Ju; Han, Yiping; Mueller, Klaus

    2008-08-01

    To take full advantage of the vast amount of highly detailed data acquired by single particle mass spectrometers requires that the data be organized according to some rules that have the potential to be insightful. Most commonly statistical tools are used to cluster the individual particle mass spectra on the basis of their similarity. Cluster analysis is a powerful strategy for the exploration of high-dimensional data in the absence of a-priori hypotheses or data classification models, and the results of cluster analysis can then be used to form such models. More often than not, when examining the data clustering results we find that many clusters contain particles of different types and that many particles of one type end up in a number of separate clusters. Our experience with cluster analysis shows that we have a vast amount of non-compiled knowledge and intuition that should be brought to bear in this effort. We will present new software we call ClusterSculptor that provides comprehensive and intuitive framework to aid scientists in data classification. ClusterSculptor uses k-means as the overall clustering engine, but allows tuning its parameters interactively, based on a non-distorted compact visual presentation of the inherent characteristics of the data in high-dimensional space. ClusterSculptor provides all the tools necessary for a high-dimensional activity we call cluster sculpting. ClusterSculptor is designed to be coupled to SpectraMiner, our data mining and visualization software package. The data are first visualized with SpectraMiner and identified problems are exported to ClusterSculptor, where the user steers the reclassification and recombination of clusters of tens of thousands particle mass spectra in real-time. The resulting sculpted clusters can be then imported back into SpectraMiner. Here we will greatly improved single particle chemical speciation in an example of application of this new tool to a number of particle types of atmospheric

  14. Foucault as Complexity Theorist: Overcoming the Problems of Classical Philosophical Analysis

    ERIC Educational Resources Information Center

    Olssen, Mark

    2008-01-01

    This article explores the affinities and parallels between Foucault's Nietzschean view of history and models of complexity developed in the physical sciences in the twentieth century. It claims that Foucault's rejection of structuralism and Marxism can be explained as a consequence of his own approach which posits a radical ontology whereby the…

  15. Problematizing the "Taken for Granted" in Educational Issues: Karl Marx, Antonio Gramsci, and Michel Foucault.

    ERIC Educational Resources Information Center

    Qi, Jie

    This paper explores how educators would raise different questions about educational issues by using Karl Marx's framework, Antonio Gramsci's conception, and Michel Foucault's notions, respectively. First, the paper compares the historical perspectives of Marx and Foucault. Marx concludes that history is a progressive linear production and that…

  16. Structuralism, Post-Structuralism, and Neo-Liberalism: Assessing Foucault's Legacy.

    ERIC Educational Resources Information Center

    Olssen, Mark

    2003-01-01

    Traces Foucault's distinctive commitment to "post-structuralism." Argues that under the influence of Nietzsche, Foucault's approach marks a distinct break with structuralism in several crucial aspects. What results is a materialist post-structuralism that is also distinctively different from the post-structuralism of Derrida, Lyotard, and…

  17. The Product of Text and "Other" Statements: Discourse Analysis and the Critical Use of Foucault

    ERIC Educational Resources Information Center

    Graham, Linda J.

    2011-01-01

    Much has been written on Michel Foucault's reluctance to clearly delineate a research method, particularly with respect to genealogy (Harwood, 2000; Meadmore, Hatcher & McWilliam, 2000; Tamboukou, 1999). Foucault (1994, p. 288) himself disliked prescription stating, "I take care not to dictate how things should be" and wrote provocatively to…

  18. Foucault, Governmentality, Neoliberalism and Adult Education--Perspective on the Normalization of Social Risks

    ERIC Educational Resources Information Center

    Kopecký, Martin

    2011-01-01

    The article deals with the relevance of the work of Foucault to critical analysis of the political concept of lifelong learning that currently dominates. This concept relates to the field of adult education and learning. The article makes reference to the relatively late incorporation of Foucault's work within andragogy. It shows the…

  19. Education and/or Displacement? A Pedagogical Inquiry into Foucault's "Limit-Experience"

    ERIC Educational Resources Information Center

    Thompson, Christiane

    2010-01-01

    This paper is concerned with the educational-philosophical implications of Michel Foucault's work: It poses the question whether Michel Foucault's remarks surrounding "limit-experience" can be placed in an educational context and provide an alternative view regarding the relationship that we maintain to ourselves. As a first step, the significance…

  20. Social Education and Mental Hygiene: Foucault, Disciplinary Technologies and the Moral Constitution of Youth

    ERIC Educational Resources Information Center

    Besley, Tina

    2002-01-01

    This paper utilises some of Foucault's notions to explore the use of the "disciplinary technologies" of film/video in social guidance programmes in schools to shape, constitute and control the morality of youth. As the first section elaborates, for Foucault, "technology" is the actual practice of power that involves "the government of individuals,…

  1. The Rhetoric of Revelation: The Case of Biographical Representations of Michel Foucault.

    ERIC Educational Resources Information Center

    Nash, Susan Smith

    Scholars and educators concerned with the work of Michel Foucault should approach James Miller's biography "The Passion of Michel Foucault" with a fair degree of skepticism because the author's motives for writing the book call into question his findings. According to Miller's own preface, he enters his project with his agenda already spelled out.…

  2. Truth, Power and Pedagogy: Michel Foucault on the Rise of the Disciplines

    ERIC Educational Resources Information Center

    Deacon, Roger

    2002-01-01

    Michel Foucault sought to understand how and why it is that people in the West, in their arduous and incessant search for truth, have also built into and around themselves intricate and powerful systems intended to manage all that they know and do. While little of Foucault's work directly concerns itself with the historically recent phenomenon of…

  3. Foucault on Care of the Self: Connecting Writing with Life-long Learning.

    ERIC Educational Resources Information Center

    Faust, Mark A.

    1998-01-01

    Highlights ways of writing that enhance teachers' performance and professionalism by foregrounding their role as learners. Michel Foucault's research focusing on self-care, an ancient Greek precept, provides context for the discussion. Foucault's description of specific practices, such as self-sponsored writing, echoes successful teachers'…

  4. Individual perception and cultural development: Foucault's 1954 approach to mental illness and its history.

    PubMed

    Joranger, Line

    2016-02-01

    In his 1954 book Mental Illness and Personality Foucault combines the subjective experience of the mentally ill person with a sociocultural historical approach to mental illness and suggests that there exists a reciprocal connection between individual perception and sociocultural development. This article examines the ramifications of these connections in Foucault's 1954 works and the connection with his later historical works. The article also examines the similarities between Foucault's 1954 thoughts and contemporary intellectual thought, such as those outlined in Maurice Merleau-Ponty's existential phenomenology and in Gaston Bachelard and Georges Canguilhem's historical epistemology. In sum, my study shows that Foucault's historical analysis began long before his 1961 dissertation History of Madness. It also shows that, more than announcing the "death" of the subject, Foucault's historical analysis may have contributed to saving it.

  5. Two often disregarded aspects of Foucaultʼs pendulum

    NASA Astrophysics Data System (ADS)

    Pérez, José-Philippe; Pujol, Olivier

    2015-01-01

    This paper revisits the famous Foucault's pendulum by highlighting two often-disregarded aspects in mechanics courses. The first one concerns the existence of a local accelerated reference frame to express the law of dynamics without the Coriolis force. The second aspect deals with the geometrical phase that appears in pendulum dynamics. This last point, which could appear banal, should be related to analogous consideration in quantum physics. It is also linked to vectorial parallel transport of the pendulum angular momentum eigenvector. Numerical simulations with MATLAB are proposed.

  6. Is there evidence for a nuclear Foucault pendulum

    SciTech Connect

    Hilton, R.R. )

    1990-12-03

    Recent observations of the giant dipole resonance in states at high angular momentum and temperature have shown an effective narrowing of the resonance. It is pointed out that this may be interpreted as a signature of rotation of the nucleus about a symmetry axis. In this limit, the giant dipole orientation freezes in the plane of rotation, the analog of the Foucault pendulum positioned at the North Pole. All effects of rotation, other than those of pure deformation, cease to be present. In this region it is thus possible to probe the nuclear shape directly, uncontaminated by rotational effects.

  7. Note: A 1-m Foucault pendulum rolling on a ball.

    PubMed

    Salva, H R; Benavides, R E; Venturino, J A; Cuscueta, D J; Ghilarducci, A A

    2013-10-01

    We have built a short Foucault pendulum of 1-m length. The aim of this work was to increase the sensitivity to elliptical trajectories from other longer pendula. The design was a semi-rigid pendulum that rolls over a small ball. The measurements of the movements (azimuth and elliptical trajectory) were done by an optical method. The resulting pendulum works in a medium satisfactory way due to problems of the correct choice of the mass of the bob together with the diameter of the supporting ball. It is also important to keep the rolling surface very clean.

  8. Note: A 1-m Foucault pendulum rolling on a ball

    NASA Astrophysics Data System (ADS)

    Salva, H. R.; Benavides, R. E.; Venturino, J. A.; Cuscueta, D. J.; Ghilarducci, A. A.

    2013-10-01

    We have built a short Foucault pendulum of 1-m length. The aim of this work was to increase the sensitivity to elliptical trajectories from other longer pendula. The design was a semi-rigid pendulum that rolls over a small ball. The measurements of the movements (azimuth and elliptical trajectory) were done by an optical method. The resulting pendulum works in a medium satisfactory way due to problems of the correct choice of the mass of the bob together with the diameter of the supporting ball. It is also important to keep the rolling surface very clean.

  9. Phase-coexistence simulations of fluid mixtures by the Markov Chain Monte Carlo method using single-particle models

    NASA Astrophysics Data System (ADS)

    Li, Jun; Calo, Victor M.

    2013-09-01

    We present a single-particle Lennard-Jones (L-J) model for CO2 and N2. Simplified L-J models for other small polyatomic molecules can be obtained following the methodology described herein. The phase-coexistence diagrams of single-component systems computed using the proposed single-particle models for CO2 and N2 agree well with experimental data over a wide range of temperatures. These diagrams are computed using the Markov Chain Monte Carlo method based on the Gibbs-NVT ensemble. This good agreement validates the proposed simplified models. That is, with properly selected parameters, the single-particle models have similar accuracy in predicting gas-phase properties as more complex, state-of-the-art molecular models. To further test these single-particle models, three binary mixtures of CH4, CO2 and N2 are studied using a Gibbs-NPT ensemble. These results are compared against experimental data over a wide range of pressures. The single-particle model has similar accuracy in the gas phase as traditional models although its deviation in the liquid phase is greater. Since the single-particle model reduces the particle number and avoids the time-consuming Ewald summation used to evaluate Coulomb interactions, the proposed model improves the computational efficiency significantly, particularly in the case of high liquid density where the acceptance rate of the particle-swap trial move increases. We compare, at constant temperature and pressure, the Gibbs-NPT and Gibbs-NVT ensembles to analyze their performance differences and results consistency. As theoretically predicted, the agreement between the simulations implies that Gibbs-NVT can be used to validate Gibbs-NPT predictions when experimental data is not available.

  10. Braided oscillators

    NASA Astrophysics Data System (ADS)

    Yildiz, A.

    2002-03-01

    A generalized oscillator algebra is proposed and the braided Hopf algebra structure for this generalized oscillator is investigated. Using the solutions for the braided Hopf algebra structure, two types of braided Fibonacci oscillators are introduced. This leads to two types of braided Biedenharn-Macfarlane oscillators as special cases of the Fibonacci oscillators. We also find the braided Hopf algebra solutions for the three dimensional braided space. One of these, as a special case, gives the Hopf algebra given in the literature.

  11. Technical Note: The single particle soot photometer fails to reliably detect PALAS soot nanoparticles

    NASA Astrophysics Data System (ADS)

    Gysel, M.; Laborde, M.; Mensah, A. A.; Corbin, J. C.; Keller, A.; Kim, J.; Petzold, A.; Sierau, B.

    2012-12-01

    The single particle soot photometer (SP2) uses laser-induced incandescence (LII) for the measurement of atmospheric black carbon (BC) particles. The BC mass concentration is obtained by combining quantitative detection of BC mass in single particles with a counting efficiency of 100% above its lower detection limit. It is commonly accepted that a particle must contain at least several tenths of a femtogram BC in order to be detected by the SP2. Here we show the result that most BC particles from a PALAS spark discharge soot generator remain undetected by the SP2, even if their BC mass, as independently determined with an aerosol particle mass analyser (APM), is clearly above the typical lower detection limit of the SP2. Comparison of counting efficiency and effective density data of PALAS soot with flame generated soot (combustion aerosol standard burner, CAST), fullerene soot and carbon black particles (Cabot Regal 400R) reveals that particle morphology can affect the SP2's lower detection limit. PALAS soot particles are fractal-like agglomerates of very small primary particles with a low fractal dimension, resulting in a very low effective density. Such loosely packed particles behave like "the sum of individual primary particles" in the SP2's laser. Accordingly, most PALAS soot particles remain undetected as the SP2's laser intensity is insufficient to heat the primary particles to their vaporisation temperature because of their small size (Dpp ≈ 5-10 nm). Previous knowledge from pulsed laser-induced incandescence indicated that particle morphology might have an effect on the SP2's lower detection limit, however, an increase of the lower detection limit by a factor of ∼5-10, as reported here for PALAS soot, was not expected. In conclusion, the SP2's lower detection limit at a certain laser power depends primarily on the total BC mass per particle for compact particles with sufficiently high effective density. By contrast, the BC mass per primary particle

  12. Online single particle measurements of black carbon coatings, structure and optical properties

    NASA Astrophysics Data System (ADS)

    Allan, James; Liu, Dantong; Taylor, Jonathan; Flynn, Michael; Williams, Paul; Morgan, William; Whitehead, James; Alfarra, Rami; McFiggans, Gordon; Coe, Hugh

    2016-04-01

    The impacts of black carbon on meteorology and climate remain a major source of uncertainty, owing in part to the complex relationship between the bulk composition of the particulates and their optical properties. A particular complication stems from how light interacts with particles in response to the microphysical configuration and any 'coatings', i.e. non-black carbon material that is either co-emitted or subsequently obtained through atmospheric processing. This may cause the particle to more efficiently absorb or scatter light and may even change the sign of its radiative forcing potential. While much insight has been gained through measurements of bulk aerosol properties, either while suspended or after collection on a filter or impactor substrate, this does not provide a complete picture and thus may not adequately constrain the system. Here we present an overview of recent work to better constrain the properties of black carbon using online, in situ measurements of single particles, primarily using a Single Particle Soot Photometer (SP2). We have developed novel methods of inverting the data produced and combining the different metrics derived so as to give the most effective insights into black carbon sources, processes and properties. We have also used this measurement in conjunction with other instruments (sometimes in series) and used the data to challenge many commonly used models of optical properties such as core-shell Mie, Rayleigh-Debeye-Gans and effective medium. This work has been carried out in a variety of atmospheric environments and with laboratory-produced soots, e.g. from a diesel engine rig. Highlights include the finding that with real-world atmospheric aerosols, bulk optical measurements may be insufficient to derive brown carbon parameters without detailed morphological data. We also show that the enhancement of absorption for both ambient and laboratory generated particles only occurs after the coating mass fraction reaches a certain

  13. Technical Note: The single particle soot photometer fails to detect PALAS soot nanoparticles

    NASA Astrophysics Data System (ADS)

    Gysel, M.; Laborde, M.; Corbin, J. C.; Mensah, A. A.; Keller, A.; Kim, J.; Petzold, A.; Sierau, B.

    2012-07-01

    The single particle soot photometer (SP2) uses laser-induced incandescence (LII) for the measurement of atmospheric black carbon (BC) particles. The BC mass concentration is obtained by combining quantitative detection of BC mass in single particles with a counting efficiency of 100% above its lower detection limit (LDL). It is commonly accepted that a particle must contain at least several tenths of femtograms BC in order to be detected by the SP2. Here we show the unexpected result that BC particles from a PALAS spark discharge soot generator remain undetected by the SP2, even if their BC mass, as independently determined with an aerosol particle mass analyser (APM), is clearly above the typical LDL of the SP2. Comparison of counting efficiency and effective density data of PALAS soot with flame generated soot (combustion aerosol standard burner, CAST), fullerene soot and carbon black particles (Cabot Regal 400R) reveals that particle morphology can affect the SP2's LDL. PALAS soot particles are fractal-like agglomerates of very small primary particles with a low fractal dimension, resulting in a very low effective density. Such loosely-packed particles behave like "the sum of individual primary particles" in the SP2's laser. Accordingly, the PALAS soot particles remain undetected as the SP2's laser intensity is insufficient to heat the primary particles to vaporisation because of their small size (primary particle diameter ~5-10 nm). It is not surprising that particle morphology can have an effect on the SP2's LDL, however, such a dramatic effect as reported here for PALAS soot was not expected. In conclusion, the SP2's LDL at a certain laser power depends on total BC mass per particle for compact particles with sufficiently high effective density. However, for fractal-like agglomerates of very small primary particles and low fractal dimension, the BC mass per primary particle determines the limit of detection, independent of the total particle mass

  14. Classification of the PALMS single particle mass spectral data from Atlanta by regression tree analysis

    NASA Astrophysics Data System (ADS)

    Middlebrook, A. M.; Murphy, D. M.; Lee, S.; Lee, S.; Lee, S.; Thomson, D. S.; Thomson, D. S.

    2001-12-01

    During the Atlanta Supersites project in August 1999, the PALMS (Particle Analysis by Laser Mass Spectrometry) instrument collected over 500,000 individual particle spectra. The Atlanta data were originally analyzed by examining combinations of peaks and relative peak areas [Lee et al., 2001a,b], and a wide range of particle components such as sulfate, nitrate, mineral species, metals, organic species, and elemental carbon were detected. To further study the dataset, a classification program using regression tree analysis was developed and applied. Spectral data were compressed into a lower resolution spectrum (every 0.25 mass units) of the raw data and a list of peak areas (every mass unit). Each spectrum started as a normalized classification vector by itself. If the dot product of two classification vectors was within a certain threshold, they were combined into a new classification. The new classification vector was a normalized running average of the classifications being combined. In subsequent steps, the threshold for combining classifications was continuously lowered until a reasonable number of classifications remained. After the final iteration, each spectrum was compared individually with the entire set of classification vectors. Classifications were also combined manually. The classification results from the Atlanta data are generally consistent with those determined by peak identification. However, the classification program identified specific patterns in the mass spectra that were not found by peak identification and generated new particle types. Furthermore, rare particle types that may affect human health were studied in more detail. A description of the classification program as well as the results for the Atlanta data will be presented. Lee, S.-H., D. M. Murphy, D. S. Thomson, and A. M. Middlebrook, Chemical components of single particles measured with particle analysis by laser mass spectrometry (PALMS) during the Atlanta Supersites Project

  15. Foucault dissipation in a rolling cylinder: a webcam quantitative study

    NASA Astrophysics Data System (ADS)

    Bonanno, A.; Bozzo, G.; Camarca, M.; Sapia, P.

    2011-03-01

    In this paper we present an experimental strategy to measure the micro power dissipation due to Foucault 'eddy' currents in a copper cylinder rolling on two parallel conductive rails in the presence of a magnetic field. Foucault power dissipation is obtained from kinematical measurements carried out by using a common PC webcam and video analysis done by means of software tools freely available within Windows operating system (Paint and Movie Maker). The proposed method allows us to experimentally discern the contribution to dissipation due to the velocity-independent rolling friction from that owed to the viscous-like friction emerging from complex electrodynamic interactions among eddy currents and the external magnetic field. In this way a microdissipation of some tens of µW is measured. The easily reproducible experimental setup, the simple implementation of data analysis and the discussion on various experimental approaches and strategies make the proposed activity highly significant for university undergraduates, since involved crucial skills can be efficiently strengthened.

  16. Development of atomic layer deposition-activated microchannel plates for single particle detection at cryogenic temperatures

    SciTech Connect

    Gorelikov, Dmitry Sullivan, Neal; Rouffignac, Philippe de; Li, Huazhi; Narayanamoorthy, Jayasri; Tremsin, Anton S.

    2014-03-15

    Atomic layer deposition (ALD) technology is used to nanoengineer functional films inside the pores of microchannel plate (MCP) electron multipliers, enabling a novel MCP manufacturing technology that substantially improves performance and opens novel applications. The authors have developed custom tools and recipes for the growth of conformal films, with optimized conductance and secondary electron emission inside very long channels (∼6–20 μm diameter and >600 μm length, with tens of millions of channels per single MCP) by ALD. The unique ability to tune the characteristics of these ALD films enables their optimization to applications where time-resolved single particle imaging can be performed in extreme conditions, such as high counting rates at cryogenic temperatures. Adhesion of the conductive and emissive nanofilms to the 20 μm pore MCP glass substrates and their mechanical stability over a very wide range of temperatures (10–700 K) were confirmed experimentally. Resistance of ALD MCPs was reproducible during multiple cool-down cycles with no film degradation observed. Optimizing resistance of novel MCPs for operation at cryogenic temperature should enable high count rate event detection at temperatures below 20 K.

  17. Single Particle Transport Through Carbon Nanotube Wires: Effect of Defects and Polyhedral Cap

    NASA Technical Reports Server (NTRS)

    Anantram, M. P.; Govidan, T. R.

    1999-01-01

    The ability to manipulate carbon nanotubes with increasing precision has enabled a large number of successful electron transport experiments. These studies have primarily focussed on characterizing transport through both metallic and semiconducting wires. Tans et al. demonstrated ballistic transport in single-wall nanotubes for the first time, although the experimental configuration incurred large contact resistance. Subsequently, methods of producing low contact resistances have been developed and two terminal conductances smaller than 50 k-ohms have been repeatably demonstrated in single-wall and multi-wall nanotubes. In multi-wall nanotubes, Frank et al. demonstrated a resistance of approximately h/2e(exp 2) in a configuration where the outermost layer made contact to a liquid metal. This was followed by the work of de Pablo et al. where a resistance of h(bar)/27e(exp 2) (approximately 478 ohms) was measured in a configuration where electrical contact was made to many layers of a multi-wall nanotube. Frank et al. and Pablo et al. note that each conducting layer contributes a conductance of only 2e(exp 2)/h, instead of the 4e(exp 2)/h that a single particle mode counting picture yields. These small resistances have been obtained in microns long nanotubes, making them the best conducting molecular wires to date. The large conductance of nanotube wires stems from the fact that the crossing bands of nanotubes are robust to defect scattering.

  18. Uncoating Mechanism of Carnation Mottle Virus Revealed by Cryo-EM Single Particle Analysis.

    PubMed

    Wang, Chun-Yan; Zhang, Qin-Fen; Gao, Yuan-Zhu; Xie, Li; Li, Hong-Mei; Hong, Jian; Zhang, Chuan-Xi

    2015-01-01

    Genome uncoating is a prerequisite for the successful infection of plant viruses in host plants. Thus far, little is known about the genome uncoating of the Carnation mottle virus (CarMV). Here, we obtained two reconstructions of CarMV at pH7 in the presence (Ca-pH7) and absence (EDTA-pH7) of calcium ions by Cryo-EM single particle analysis, which achieved 6.4 Å and 8 Å resolutions respectively. Our results showed that chelation of the calcium ions under EDTA-pH7 resulted in reduced interaction between the subunits near the center of the asymmetric unit but not overall size change of the viral particles, which indicated that the role of the calcium ions in CarMV was not predominantly for the structural preservation. Part of the genomic RNA closest to the capsid was found to be located near the center of the asymmetric unit, which might result from the interaction between genomic RNA and Lys194 residues. Together with the electrostatic potential analysis on the inner surface of the asymmetric unit, the reduced interaction near the center of the asymmetric unit under EDTA-pH7 suggested that the genome release of CarMV might be realized through the center of the asymmetric unit.

  19. Optical microscopy as a comparative analytical technique for single-particle dissolution studies.

    PubMed

    Svanbäck, Sami; Ehlers, Henrik; Yliruusi, Jouko

    2014-07-20

    Novel, simple and cost effective methods are needed to replace advanced chemical analytical techniques, in small-scale dissolution studies. Optical microscopy of individual particles could provide such a method. The aim of the present work was to investigate and verify the applicability of optical microscopy as an analytical technique for drug dissolution studies. The evaluation was performed by comparing image and chemical analysis data of individual dissolving particles. It was shown that the data obtained by image analysis and UV-spectrophotometry produced practically identical dissolution curves, with average similarity and difference factors above 82 and below 4, respectively. The relative standard deviation for image analysis data, of the studied particle size range, varied between 1.9% and 3.8%. Consequently, it is proposed that image analysis can be used, on its own, as a viable analytical technique in single-particle dissolution studies. The possibility for significant reductions in sample preparation, operational cost, time and substance consumption gives optical detection a clear advantage over chemical analytical methods. Thus, image analysis could be an ideal and universal analytical technique for rapid small-scale dissolution studies.

  20. A review of progress in single particle tracking: from methods to biophysical insights.

    PubMed

    Manzo, Carlo; Garcia-Parajo, Maria F

    2015-12-01

    Optical microscopy has for centuries been a key tool to study living cells with minimum invasiveness. The advent of single molecule techniques over the past two decades has revolutionized the field of cell biology by providing a more quantitative picture of the complex and highly dynamic organization of living systems. Amongst these techniques, single particle tracking (SPT) has emerged as a powerful approach to study a variety of dynamic processes in life sciences. SPT provides access to single molecule behavior in the natural context of living cells, thereby allowing a complete statistical characterization of the system under study. In this review we describe the foundations of SPT together with novel optical implementations that nowadays allow the investigation of single molecule dynamic events with increasingly high spatiotemporal resolution using molecular densities closer to physiological expression levels. We outline some of the algorithms for the faithful reconstruction of SPT trajectories as well as data analysis, and highlight biological examples where the technique has provided novel insights into the role of diffusion regulating cellular function. The last part of the review concentrates on different theoretical models that describe anomalous transport behavior and ergodicity breaking observed from SPT studies in living cells.

  1. [Chemical Composition of the Single Particle Aerosol in Winter in Nanning Using SPAMS].

    PubMed

    Liu, Hui-lin; Song, Hong-jun; Chen, Zhi-ming; Huang, Jiong-li; Yang, Jun-chao; Mao, Jing-ying; Li, Hong; Liang, Gui-yun; Mo, Zhao-yu

    2016-02-15

    Single Particle Aerosol Mass Spectrometry (SPAMS) was performed to characterize the PM2.5 in Nanning from 15 to 24 February 2015. The correlation (R2) between the PM2.5 number concentration and the mass concentration of PM2.5 obtained using SPAMS was 0.76. The particle number concentration could reflect the atmospheric pollution situation to some degree. The Art-2a classification method was used to classify the chemical composition of PM2.5. The results showed that the principal chemical constituents were elemental carbon, organic elements carbon hybrid particles, organic carbon, rich potassium particles, mineral substance, rich sodium particles, second inorganic particles, levoglucosan and other heavy metals. Among them, the composition of elemental carbon was the highest, followed by organic carbon and rich potassium particles. The particle size of 80% of PM2.5 was mainly concentrated in the range of 0.2 microm to 1.0 microm with a peak value occurring at 0. 62 microm. The particle size distribution characteristics of different chemical components were similar. The number concentration of the chemical components in PM2.5 had the same variation tread with the mass concentration of PM2.5 over time. To a certain extent, the change in chemical composition could reflect the instantaneous pollution source.

  2. Three-dimensional reconstruction methods in Single Particle Analysis from transmission electron microscopy data.

    PubMed

    Carazo, J M; Sorzano, C O S; Otón, J; Marabini, R; Vargas, J

    2015-09-01

    The Transmission Electron Microscope provides two-dimensional (2D) images of the specimens under study. However, the architecture of these specimens is defined in a three-dimensional (3D) coordinate space, in volumetric terms, making the direct microscope output somehow "short" in terms of dimensionality. This situation has prompted the development of methods to quantitatively estimate 3D volumes from sets of 2D images, which are usually referred to as "three-dimensional reconstruction methods". These 3D reconstruction methods build on four considerations: (1) The relationship between the 2D images and the 3D volume must be of a particularly simple type, (2) many 2D images are needed to gain 3D volumetric information, (3) the 2D images and the 3D volume have to be in the same coordinate reference frame and (4), in practical terms, the reconstructed 3D volume will only be an approximation to the original 3D volume which gave raise to the 2D projections. In this work we will adopt a quite general view, trying to address a large community of interested readers, although some sections will be particularly devoted to the 3D analysis of isolated macromolecular complexes in the application area normally referred to as Single Particle Analysis (SPA).

  3. Single-particle Lagrangian and structure statistics in kinematically simulated particle-laden turbulent flows

    NASA Astrophysics Data System (ADS)

    Murray, S.; Lightstone, M. F.; Tullis, S.

    2016-03-01

    Kinematic simulation (KS) is a means of generating a turbulent-like velocity field, in a manner that enforces a desired input Eulerian energy spectrum. Such models have also been applied in particle-laden flows, due to their ability to enforce spatial organization of the fluid velocity field when simulating the trajectories of individual Lagrangian particles. A critical evaluation of KS is presented; in particular, we examine its ability to reproduce single-particle Lagrangian statistics. Also the ability of KS to reproduce the preferential concentration of inertial particles is examined. Some computational results are presented, in which particles are transported alternatively by (1) turbulence generated by direct numerical simulation (DNS) of the incompressible Navier-Stokes equations, and (2) KS. The effect of unsteadiness formulation in particular is examined. We find that even steady KS qualitatively reproduces the continuity effect, clustering of inertial particles, the elevated dispersion of inertial particles over fluid particles, and the intermittency of Lagrangian velocity signals, but generally not to the same extent as is seen in the DNS.

  4. Single particle tracking through highly scattering media with multiplexed two-photon excitation

    NASA Astrophysics Data System (ADS)

    Perillo, Evan; Liu, Yen-Liang; Liu, Cong; Yeh, Hsin-Chih; Dunn, Andrew K.

    2015-03-01

    3D single-particle tracking (SPT) has been a pivotal tool to furthering our understanding of dynamic cellular processes in complex biological systems, with a molecular localization accuracy (10-100 nm) often better than the diffraction limit of light. However, current SPT techniques utilize either CCDs or a confocal detection scheme which not only suffer from poor temporal resolution but also limit tracking to a depth less than one scattering mean free path in the sample (typically <15μm). In this report we highlight our novel design for a spatiotemporally multiplexed two-photon microscope which is able to reach sub-diffraction-limit tracking accuracy and sub-millisecond temporal resolution, but with a dramatically extended SPT range of up to 200 μm through dense cell samples. We have validated our microscope by tracking (1) fluorescent nanoparticles in a prescribed motion inside gelatin gel (with 1% intralipid) and (2) labeled single EGFR complexes inside skin cancer spheroids (at least 8 layers of cells thick) for ~10 minutes. Furthermore we discuss future capabilities of our multiplexed two-photon microscope design, specifically to the extension of (1) simultaneous multicolor tracking (i.e. spatiotemporal co-localization analysis) and (2) FRET studies (i.e. lifetime analysis). The high resolution, high depth penetration, and multicolor features of this microscope make it well poised to study a variety of molecular scale dynamics in the cell, especially related to cellular trafficking studies with in vitro tumor models and in vivo.

  5. Single particle optical investigation of gold shell enhanced upconverted fluorescence emission

    NASA Astrophysics Data System (ADS)

    Green, Kory; Lim, Shuang Fang; Hallen, Hans

    2014-03-01

    Upconverting nanoparticles (UCNPs) excited in the near IR offer novel advantages as fluorescent contrast agents, allowing for background free bio-imaging. However, their fluorescence brightness is hampered by low quantum efficiency due to the low absorption cross section of Ytterbium and Erbium ions in the near IR. We enhance the efficiency of these particles by investigating the plasmonic coupling of 30nm diameter core NaYF4: Yb, Er upconverting particles (UCNPs) with a gold shell coating. An enhancement of green emission by a factor of five and a three times overall increase in emission intensity has been achieved for single particle spectra. UV-Vis absorption has confirmed the surface plasmon resonance (SPR) of the gold shell to the near IR and transmission electron microscope (TEM) images demonstrates successful growth of a gold shell around the upconversion particle. Time-resolved spectroscopy shows that gold shell coupling changes the lifetime of the energy levels of the Erbium ion that are relevant to the emission process.

  6. Single particle tracking with sterol modulation reveals the cholesterol-mediated diffusion properties of integrin receptors

    NASA Astrophysics Data System (ADS)

    Arora, Neha; Syed, Aleem; Sander, Suzanne; Smith, Emily A.

    2014-12-01

    A combination of sterol modulation with cyclodextrins plus fluorescence microscopy revealed a biophysical mechanism behind cholesterol’s influence on the diffusion of a ubiquitous class of receptors called integrins. The heterogeneous diffusion of integrins bound to ligand-coated quantum dots was measured using single particle tracking (SPT), and the ensemble changes in integrin diffusion were measured by fluorescence recovery after photobleaching (FRAP). A 25 ± 1% reduction of membrane cholesterol resulted in three significant changes to the diffusion of ligand-bound αPS2CβPS integrins as measured by SPT. There was a 23% increase in ligand-bound mobile integrins; there was a statistically significant increase in the average diffusion coefficient inside zones of confined diffusion, and histograms of confined integrin trajectories showed an increased frequency in the range of 0.1-1 μm2 s-1 and a decreased frequency in the 0.001-0.1 μm2 s-1 range. No statistical change was measured in the duration of confinement nor the size of confined zones. Restoring the cholesterol-depleted cells with exogenous cholesterol or exogenous epicholesterol resulted in similar diffusion properties. Epicholesterol differs from cholesterol in the orientation of a single hydroxyl group. The ability of epicholesterol to substitute for cholesterol suggests a biophysical mechanism for cholesterol’s effect on integrin diffusion. Influences of bilayer thickness, viscosity and organization are discussed as possible explanations for the measured changes in integrin diffusion when the membrane cholesterol concentration is reduced.

  7. Plasmon resonances in semiconductor materials for detecting photocatalysis at the single-particle level.

    PubMed

    Yan, Jiahao; Lin, Zhaoyong; Ma, Churong; Zheng, Zhaoqiang; Liu, Pu; Yang, Guowei

    2016-08-11

    Hot carriers, generated via the non-radiative decay of localized surface plasmon, can be utilized in photovoltaic and photocatalytic devices. In recent years, most studies have focused on conventional plasmon materials like Au and Ag. However, they suffer from several drawbacks like low energy of the generated hot carriers and a high charge-carrier recombination rate. To resolve these problems, here, we propose the plasmon resonances in heavily self-doped titanium oxide (TiO1.67) to realize effective hot carrier generation. Since the plasmon resonant energy of TiO1.67 nanoparticles (2.56 eV) is larger than the bandgap (2.15 eV), plasmon resonances through interband transition can realize both the generation and separation of hot carriers and bring a new strategy for visible-light photodegradation. The photodegradation rate for methyl orange was about 0.034 min(-1). More importantly, the combination of plasmonic and catalytic properties makes it feasible to investigate the degradation process of different materials and different structures at the single particle level in situ. By detecting the scattering shift, we demonstrated that the TiO1.67 dimer (Δλ/ΔλRIU = 0.16) possesses a higher photodegradation rate than an individual nanoparticle (Δλ/ΔλRIU = 0.09). We hope this finding may be a beginning, paving the way toward the development of semiconductor plasmonic materials for new applications beyond noble metals. PMID:27469299

  8. Uncovering homo-and hetero-interactions on the cell membrane using single particle tracking approaches

    NASA Astrophysics Data System (ADS)

    Torreno-Pina, Juan A.; Manzo, Carlo; Garcia-Parajo, Maria F.

    2016-03-01

    The plasma membrane of eukaryotic cells is responsible for a myriad of functions that regulate cell physiology and plays a crucial role in a multitude of processes that include adhesion, migration, signaling recognition and cell-cell communication. This is accomplished by specific interactions between different membrane components such as lipids and proteins on the lipid bilayer but also through interactions with the underlying cortical actin cytoskeleton on the intracellular side and the glycocalyx matrix in close proximity to the extracellular side. Advanced biophysical techniques, including single particle tracking (SPT) have revealed that the lateral diffusion of molecular components on the plasma membrane represents a landmark manifestation of such interactions. Indeed, by studying changes in the diffusivity of individual membrane molecules, including sub-diffusion, confined diffusion and/or transient arrest of molecules in membrane compartments, it has been possible to gain insight on the nature of molecular interactions and to infer on its functional role for cell response. In this review, we will revise some exciting results where SPT has been crucial to reveal homo- and hetero-interactions on the cell membrane.

  9. Single Particle Laser Mass Spectrometry Applied to Differential Ice Nucleation Experiments at the AIDA Chamber

    SciTech Connect

    Gallavardin, S. J.; Froyd, Karl D.; Lohmann, U.; Moehler, Ottmar; Murphy, Daniel M.; Cziczo, Dan

    2008-08-26

    Experiments conducted at the Aerosol Interactions and Dynamics in the Atmosphere (AIDA) chamber located in Karlsruhe, Germany permit investigation of particle properties that affect the nucleation of ice at temperature and water vapor conditions relevant to cloud microphysics and climate issues. Ice clouds were generated by heterogeneous nucleation of Arizona test dust (ATD), illite, and hematite and homogeneous nucleation of sulfuric acid. Ice crystals formed in the chamber were inertially separated from unactivated, or ‘interstitial’ aerosol particles with a pumped counterflow virtual impactor (PCVI), then evaporated. The ice residue (i.e., the aerosol which initiated ice nucleation plus any material which was scavenged from the gas- and/or particle-phase), was chemically characterized at the single particle level using a laser ionization mass spectrometer. In this manner the species that first nucleated ice could be identified out of a mixed aerosol population in the chamber. Bare mineral dust particles were more effective ice nuclei (IN) than similar particles with a coating. Metallic particles from contamination in the chamber initiated ice nucleation before other species but there were few enough that they did not compromise the experiments. Nitrate, sulfate, and organics were often detected on particles and ice residue, evidently from scavenging of trace gas-phase species in the chamber. Hematite was a more effective ice nucleus than illite. Ice residue was frequently larger than unactivated test aerosol due to the formation of aggregates due to scavenging, condensation of contaminant gases, and the predominance of larger aerosol in nucleation.

  10. Single-particle measurements of phase partitioning between primary and secondary organic aerosols.

    PubMed

    Robinson, Ellis Shipley; Donahue, Neil M; Ahern, Adam T; Ye, Qing; Lipsky, Eric

    2016-07-18

    Organic aerosols provide a measure of complexity in the urban atmosphere. This is because the aerosols start as an external mixture, with many populations from varied local sources, that all interact with each other, with background aerosols, and with condensing vapors from secondary organic aerosol formation. The externally mixed particle populations start to evolve immediately after emission because the organic molecules constituting the particles also form thermodynamic mixtures - solutions - in which a large fraction of the constituents are semi-volatile. The external mixtures are thus well out of thermodynamic equilibrium, with very different activities for many constituents, and yet also have the capacity to relax toward equilibrium via gas-phase exchange of semi-volatile vapors. Here we describe experiments employing quantitative single-particle mass spectrometry designed to explore the extent to which various primary organic aerosol particle populations can interact with each other or with secondary organic aerosols representative of background aerosol populations. These methods allow us to determine when these populations will and when they will not mix with each other, and then to constrain the timescales for that mixing.

  11. Analysis of the ideal phase-Doppler System: Limitations imposed by the single-particle constraint

    SciTech Connect

    Edwards, C.F.; Marx, K.D.

    1991-06-01

    This paper explores the effects of particles statistics on the ability of a phase-Doppler system (or any single-particle diagnostic) to make accurate measurements of complex particle flows. This is accomplished by analyzing the response of an ideal phase-Doppler system to a postulated particle flux. The ideal system defined here senses particles of all sizes and velocities with perfect accuracy, but is subject to one constraint: in order for a measurement to be considered valid there must be only one particle in the probe volume at a time. A consequence of this constraint is that the measured flux of particles is similar to the true flux, but reduced by passage through two stages of filters. The first rejects particles for insufficient spacing and is controlled by a spatial Poisson process, while the second rejects particles for excessive residence time and is driven by a temporal Poisson process. The key filter parameters are the expected values of the number of particles in the probe volume and the number of particles entering the probe region during the residence time of a previous particle. Only if these values are kept below order 10{sup {minus}2} can the measured joint distribution function, flux rate, and derived quantities, be assumed to reflect the true nature of the flow. 8 refs., 30 figs., 2 tabs.

  12. Numerical analysis of single particle impact in the context of Cold Spray: a new adhesion model

    NASA Astrophysics Data System (ADS)

    Profizi, P.; Combescure, A.; Ogawa, K.

    2016-03-01

    A new adhesion model for numerical simulation of single particle impact in the context of Cold Spray is introduced. As in other studies, cohesive forces are put between the particle and substrate to account for adhesion. In this study however, the forces are put only when a local physical criterion is met. The physical phenomenon most often attributed to Cold Spray adhesion is a shear stress instability. The Johnson-Cook material law is used with a shear damage softening law to enable strong localization at the interface without the need for an extremely fine mesh. This localization is then detected as a drop in local yield stress value by the algorithm, which then implements a local cohesive force. The evolution of this cohesive force is defined by an energy dissipative cohesive model, using a surface adhesion energy as a material parameter. Each cohesive link is broken once all its associated surface energy is dissipated. A criterion on the damage value is also used to break a cohesive bond prematurely, to account for the effect of erosion at higher speeds. This model is found to reproduce the Cold Spray-like adhesion behavior with observed critical and maximum speeds.

  13. Formation of nanowires via single particle-triggered linear polymerization of solid-state aromatic molecules.

    PubMed

    Horio, Akifumi; Sakurai, Tsuneaki; Lakshmi, G B V S; Kumar Avasthi, Devesh; Sugimoto, Masaki; Yamaki, Tetsuya; Seki, Shu

    2016-08-11

    Nanowires occupy a prestigious place in nanoelectronics, nanomechanics, and biomimetics. Although there are notable methods to grow nanowires via self-assembly, there is a key drawback in the need to find out the specific conditions appropriate for each system. In this sense, universal techniques to fabricate such nanowires from various organic materials have been sought for the continued progress of the related research field. Here we report one of the promising and facile methodologies to quantitatively produce nanowires with controlled geometrical parameters. In this method, referred to as "Single Particle-Triggered Linear Polymerization (STLiP)", organic thin films on a supporting substrate were irradiated with high-energy charged particles, accelerated by particle accelerators. Each particle penetrates from the top of the films to the substrate while gradually releasing kinetic energy along its trajectory (ion track), generating reactive intermediates such as radical species that eventually induce propagation reactions. The resulting polymerized products were integrated into nanowires with uniform diameter and length that can be isolated via development with appropriate organic solvents. Considering the widely applicable nature of STLiP to organic materials, the present technique opens a new door for access to a number of functional nanowires and their assembly.

  14. Canonical form of three-fermion pure-states with six single particle states

    SciTech Connect

    Chen, Lin; Ž Ðoković, Dragomir; Grassl, Markus; Zeng, Bei

    2014-08-01

    We construct a canonical form for pure states in Λ³(C⁶), the three-fermion system with six single particle states, under local unitary (LU) transformations, i.e., the unitary group U(6). We also construct a minimal set of generators of the algebra of polynomial U(6)-invariants on Λ³(C⁶). It turns out that this algebra is isomorphic to the algebra of polynomial LU-invariants of three-qubits which are additionally invariant under qubit permutations. As a consequence of this surprising fact, we deduce that there is a one-to-one correspondence between the U(6)-orbits of pure three-fermion states in Λ³(C⁶) and the LU orbits of pure three-qubit states when qubit permutations are allowed. As an important byproduct, we obtain a new canonical form for pure three-qubit states under LU transformations U(2) × U(2) × U(2) (no qubit permutations allowed)

  15. Single-Particle Spectroscopy Reveals Heterogeneity in Electrochemical Tuning of the Localized Surface Plasmon

    PubMed Central

    2015-01-01

    A hyperspectral imaging method was developed that allowed the identification of heterogeneous plasmon response from 50 nm diameter gold colloidal particles on a conducting substrate in a transparent three-electrode spectroelectrochemical cell under non-Faradaic conditions. At cathodic potentials, we identified three distinct behaviors from different nanoparticles within the same sample: irreversible chemical reactions, reversible chemical reactions, and reversible charge density tuning. The irreversible reactions in particular would be difficult to discern in alternate methodologies. Additional heterogeneity was observed when single nanoparticles demonstrating reversible charge density tuning in the cathodic regime were measured dynamically in anodic potential ranges. Some nanoparticles that showed charge density tuning in the cathodic range also showed signs of an additional chemical tuning mechanism in the anodic range. The expected changes in nanoparticle free-electron density were modeled using a charge density-modified Drude dielectric function and Mie theory, a commonly used model in colloidal spectroelectrochemistry. Inconsistencies between experimental results and predictions of this common physical model were identified and highlighted. The broad range of responses on even a simple sample highlights the rich experimental and theoretical playgrounds that hyperspectral single-particle electrochemistry opens. PMID:24971712

  16. A statistical approach to the initial volume problem in Single Particle Analysis by Electron Microscopy.

    PubMed

    Sorzano, C O S; Vargas, J; de la Rosa-Trevín, J M; Otón, J; Álvarez-Cabrera, A L; Abrishami, V; Sesmero, E; Marabini, R; Carazo, J M

    2015-03-01

    Cryo Electron Microscopy is a powerful Structural Biology technique, allowing the elucidation of the three-dimensional structure of biological macromolecules. In particular, the structural study of purified macromolecules -often referred as Single Particle Analysis(SPA)- is normally performed through an iterative process that needs a first estimation of the three-dimensional structure that is progressively refined using experimental data. It is well-known the local optimisation nature of this refinement, so that the initial choice of this first structure may substantially change the final result. Computational algorithms aiming to providing this first structure already exist. However, the question is far from settled and more robust algorithms are still needed so that the refinement process can be performed with sufficient guarantees. In this article we present a new algorithm that addresses the initial volume problem in SPA by setting it in a Weighted Least Squares framework and calculating the weights through a statistical approach based on the cumulative density function of different image similarity measures. We show that the new algorithm is significantly more robust than other state-of-the-art algorithms currently in use in the field. The algorithm is available as part of the software suite Xmipp (http://xmipp.cnb.csic.es) and Scipion (http://scipion.cnb.csic.es) under the name "Significant".

  17. Single-Particle Black Carbon Aerosol Verticle Profiles From the Boundary Layer to the Lower Stratosphere

    NASA Astrophysics Data System (ADS)

    Schwarz, J. P.; Gao, R. S.; Fahey, D. W.; Laurel, W. A.; Thomson, D. S.; Kok, G. L.; Baumgardner, D.; Wilson, J. C.; Lopez, J.; Aikin, K.; Jost, H.; Thompson, T. L.; Reeves, J. M.; Lowenstein, M.

    2005-12-01

    A single-particle soot photometer (SP2) was flown on a NASA WB-57F high-altitude research aircraft in November 2004 from Houston, TX. The SP2 uses laser-induced incandescence to directly measure the mass of individual black-carbon (BC) particles in the mass range of ~0.3-300 fg. Scattered light is used to size non-absorbing aerosols in the range of ~150 - 700 nm diameter. Data from two mid-latitude flights has been used to generate size distributions and profiles of both aerosol types from the boundary layer to the lower stratosphere. Results for scattering aerosol concentrations are in good agreement with typical particle spectrometer measurements in the same region. Mass mixing ratios of BC between 5 and 18.7 km were roughly an order of magnitude lower than typical values as reported with wire impactor measurements and as predicted by two global BC models. The impact of this discrepancy on estimates of direct radiative forcing of BC aerosol will also be discussed.

  18. Initial evaluation of a direct detection device detector for single particle cryo-electron microscopy.

    PubMed

    Milazzo, Anna-Clare; Cheng, Anchi; Moeller, Arne; Lyumkis, Dmitry; Jacovetty, Erica; Polukas, James; Ellisman, Mark H; Xuong, Nguyen-Huu; Carragher, Bridget; Potter, Clinton S

    2011-12-01

    We report on initial results of using a new direct detection device (DDD) for single particle reconstruction of vitreous ice embedded specimens. Images were acquired on a Tecnai F20 at 200keV and a nominal magnification of 29,000×. This camera has a significantly improved signal to noise ratio and modulation transfer function (MTF) at 200keV compared to a standard CCD camera installed on the same microscope. Control of the DDD has been integrated into Leginon, an automated data collection system. Using GroEL as a test specimen, we obtained images of ∼30K particles with the CCD and the DDD from the same specimen sample using essentially identical imaging conditions. Comparison of the maps reconstructed from the CCD images and the DDD images demonstrates the improved performance of the DDD. We also obtained a 3D reconstruction from ∼70K GroEL particles acquired using the DDD; the quality of the density map demonstrates the potential of this new recording device for cryoEM data acquisition.

  19. Single particle tracking. Analysis of diffusion and flow in two-dimensional systems.

    PubMed Central

    Qian, H; Sheetz, M P; Elson, E L

    1991-01-01

    Analysis of the trajectories of small particles at high spatial and temporal resolution using video enhanced contrast microscopy provides a powerful approach to characterizing the mechanisms of particle motion in living cells and in other systems. We present here the theoretical basis for the analysis of these trajectories for particles undergoing random diffusion and/or systematic transport at uniform velocity in two-dimensional systems. The single particle tracking method, based on observations of the trajectories of individual particles, is compared with methods that characterize the motions of a large collection of particles such as fluorescence photobleaching recovery. Determination of diffusion coefficients or transport velocities either from correlation of positions or of velocities of the particles is discussed. A result of practical importance is an analysis of the dependence of the expected statistical uncertainty of these determinations on the number of position measurements. This provides a way of judging the accuracy of the diffusion coefficients and transport velocities obtained using this approach. PMID:1742458

  20. Effects of macromolecular crowding on intracellular diffusion from a single particle perspective

    PubMed Central

    Hoshino, Masaru

    2010-01-01

    Compared to biochemical reactions taking place in relatively well-defined aqueous solutions in vitro, the corresponding reactions happening in vivo occur in extremely complex environments containing only 60–70% water by volume, with the remainder consisting of an undefined array of bio-molecules. In a biological setting, such extremely complex and volume-occupied solution environments are termed ‘crowded’. Through a range of intermolecular forces and pseudo-forces, this complex background environment may cause biochemical reactions to behave differently to their in vitro counterparts. In this review, we seek to highlight how the complex background environment of the cell can affect the diffusion of substances within it. Engaging the subject from the perspective of a single particle’s motion, we place the focus of our review on two areas: (1) experimental procedures for conducting single particle tracking experiments within cells along with methods for extracting information from these experiments; (2) theoretical factors affecting the translational diffusion of single molecules within crowded two-dimensional membrane and three-dimensional solution environments. We conclude by discussing a number of recent publications relating to intracellular diffusion in light of the reviewed material. PMID:21088688

  1. Ab initio Approach to Effective Single-Particle Energies in Doubly Closed Shell Nuclei

    SciTech Connect

    Duguet, T.

    2012-01-01

    The present work discusses, from an ab initio standpoint, the definition, the meaning, and the usefulness of effective single-particle energies (ESPEs) in doubly closed shell nuclei. We perform coupled-cluster calculations to quantify to what extent selected closed-shell nuclei in the oxygen and calcium isotopic chains can effectively be mapped onto an effective independent-particle picture. To do so, we revisit in detail the notion of ESPEs in the context of strongly correlated many-nucleon systems and illustrate the necessity of extracting ESPEs through the diagonalization of the centroid matrix, as originally argued by Baranger. For the purpose of illustration, we analyze the impact of correlations on observable one-nucleon separation energies and nonobservable ESPEs in selected closed-shell oxygen and calcium isotopes. We then state and illustrate the nonobservability of ESPEs. Similarly to spectroscopic factors, ESPEs can indeed be modified by a redefinition of inaccessible quantities while leaving actual observables unchanged. This leads to the absolute necessity of employing consistent structure and reaction models based on the same nuclear Hamiltonian to extract the shell structure in a meaningful fashion from experimental data.

  2. Mixing state of ambient aerosols in Nanjing city by single particle mass spectrometry

    NASA Astrophysics Data System (ADS)

    Wang, Honglei; An, Junlin; Shen, Lijuan; Zhu, Bin; Xia, Li; Duan, Qing; Zou, Jianan

    2016-05-01

    To investigate the mixing state and size-resolved aerosol in Nanjing, measurements were carried out for the period 14th January-1st February 2013 by using a Single Particle Aerosol Mass Spectrometer (SPAMS). A total of 10,864,766 particles were sized with vacuum aerodynamic diameter (dva) in the range of 0.2-2.0 μm. Of which, 1,989,725 particles were successfully ionized. Aerosol particles employed for analyzing SPAMS data utilized 96% of the hit particles to identify 5 main particle groups. The particle classes include: K-rich particles (K-CN, K-Nitrate, K-Sulfate and K-Secondary), sodium particles, ammonium particles, carbon-rich particles (OC, EC and OCEC) and heavy-metal particles (Fe-Secondary, Pb-Nitrate, Cu-Mn-Secondary and V-Secondary). EC was the largest contributor with a fraction of 21.78%, followed by K-Secondary (17.87%), K-Nitrate (12.68%) and K-CN (11.25%). High particle level and high RH (relative humidity) are two important factors decreasing visibility in Nanjing. Different particle classes have distinct extinction effects. It anti-correlated well with visibility for the K-secondary, sodium, ammonium, EC, Fe-Secondary and K-Nitrate particles. The proportion of EC particles at 0.65-1.4 μm was up to 25% on haze days and was below 10% on clean days.

  3. Double-helical ultrastructure of polycationic dendronized polymers determined by single-particle Cryo-TEM.

    PubMed

    Böttcher, Christoph; Schade, Boris; Ecker, Christof; Rabe, Jürgen P; Shu, Lijin; Schlüter, A Dieter

    2005-05-01

    The ultrastructure of cationic dendronized polymers (denpols) of third and fourth generations (PG3 and PG4) in water was determined by using single-particle cryo-transmission electron microscopy (cryo-TEM). At concentrations in the region of 50 mg L(-1), networks of double-stranded fibers were revealed that exhibit well-defined diameters of 5.9 nm+/-0.4 nm for PG3 and 7.4 nm+/-0.4 nm for PG4. The structure varies with progression along the fibers, and includes a double helix with a pitch of 7.0+/-0.4 nm for PG3 and 9.0+/-0.4 nm for PG4. The formation of the double strands is attributed to the hydrophobic effect and limited crowding in the dendron shell of the third and fourth generation denpols investigated. From solutions of lower concentrations (around 10 mg L(-1)), isolated molecular fibers were adsorbed onto high-energy surfaces and examined by performing scanning force microscopy (SFM) on mica, and after staining, TEM on glow-discharged carbon films. In both cases, characteristic undulations of single strands were observed, which are attributed largely to the adsorption process. PMID:15736148

  4. Neutron single particle structure in 131Sn and direct neutron capture cross sections.

    PubMed

    Kozub, R L; Arbanas, G; Adekola, A S; Bardayan, D W; Blackmon, J C; Chae, K Y; Chipps, K A; Cizewski, J A; Erikson, L; Hatarik, R; Hix, W R; Jones, K L; Krolas, W; Liang, J F; Ma, Z; Matei, C; Moazen, B H; Nesaraja, C D; Pain, S D; Shapira, D; Shriner, J F; Smith, M S; Swan, T P

    2012-10-26

    Recent calculations suggest that the rate of neutron capture by (130)Sn has a significant impact on late-time nucleosynthesis in the r process. Direct capture into low-lying bound states is expected to be significant in neutron capture near the N=82 closed shell, so r-process reaction rates may be strongly impacted by the properties of neutron single particle states in this region. In order to investigate these properties, the (d,p) reaction has been studied in inverse kinematics using a 630 MeV beam of (130)Sn (4.8 MeV/u) and a (CD(2))(n) target. An array of Si strip detectors, including the Silicon Detector Array and an early implementation of the Oak Ridge Rutgers University Barrel Array, was used to detect reaction products. Results for the (130)Sn(d, p)(131)Sn reaction are found to be very similar to those from the previously reported (132)Sn(d, p)(133)Sn reaction. Direct-semidirect (n,γ) cross section calculations, based for the first time on experimental data, are presented. The uncertainties in these cross sections are thus reduced by orders of magnitude from previous estimates. PMID:23215181

  5. Detection of Engineered Copper Nanoparticles in Soil Using Single Particle ICP-MS.

    PubMed

    Navratilova, Jana; Praetorius, Antonia; Gondikas, Andreas; Fabienke, Willi; von der Kammer, Frank; Hofmann, Thilo

    2015-12-10

    Regulatory efforts rely on nanometrology for the development and implementation of laws regarding the incorporation of engineered nanomaterials (ENMs) into industrial and consumer products. Copper is currently one of the most common metals used in the constantly developing and expanding sector of nanotechnology. The use of copper nanoparticles in products, such as agricultural biocides, cosmetics and paints, is increasing. Copper based ENMs will eventually be released to the environment through the use and disposal of nano-enabled products, however, the detection of copper ENMs in environmental samples is a challenging task. Single particle inductively coupled plasma mass spectroscopy (spICP-MS) has been suggested as a powerful tool for routine nanometrology efforts. In this work, we apply a spICP-MS method for the detection of engineered copper nanomaterials in colloidal extracts from natural soil samples. Overall, copper nanoparticles were successfully detected in the soil colloidal extracts and the importance of dwell time, background removal, and sample dilution for method optimization and recovery maximization is highlighted.

  6. [Chemical Composition of the Single Particle Aerosol in Winter in Nanning Using SPAMS].

    PubMed

    Liu, Hui-lin; Song, Hong-jun; Chen, Zhi-ming; Huang, Jiong-li; Yang, Jun-chao; Mao, Jing-ying; Li, Hong; Liang, Gui-yun; Mo, Zhao-yu

    2016-02-15

    Single Particle Aerosol Mass Spectrometry (SPAMS) was performed to characterize the PM2.5 in Nanning from 15 to 24 February 2015. The correlation (R2) between the PM2.5 number concentration and the mass concentration of PM2.5 obtained using SPAMS was 0.76. The particle number concentration could reflect the atmospheric pollution situation to some degree. The Art-2a classification method was used to classify the chemical composition of PM2.5. The results showed that the principal chemical constituents were elemental carbon, organic elements carbon hybrid particles, organic carbon, rich potassium particles, mineral substance, rich sodium particles, second inorganic particles, levoglucosan and other heavy metals. Among them, the composition of elemental carbon was the highest, followed by organic carbon and rich potassium particles. The particle size of 80% of PM2.5 was mainly concentrated in the range of 0.2 microm to 1.0 microm with a peak value occurring at 0. 62 microm. The particle size distribution characteristics of different chemical components were similar. The number concentration of the chemical components in PM2.5 had the same variation tread with the mass concentration of PM2.5 over time. To a certain extent, the change in chemical composition could reflect the instantaneous pollution source. PMID:27363128

  7. Orbital Single Particle Tracking on a commercial confocal microscope using piezoelectric stage feedback

    PubMed Central

    Lanzanò, Luca; Gratton, Enrico

    2014-01-01

    Single Particle Tracking (SPT) is a technique used to locate fluorescent particles with nanometer precision. In the orbital tracking method the position of a particle is obtained analyzing the distribution of intensity along a circular orbit scanned around the particle. In combination with an active feedback this method allows tracking of particles in 2D and 3D with millisecond temporal resolution. Here we describe a SPT setup based on a feedback approach implemented with minimal modification of a commercially available confocal laser scanning microscope, the Zeiss LSM 510, in combination with an external piezoelectric stage scanner. The commercial microscope offers the advantage of a user-friendly software interface and pre-calibrated hardware components. The use of an external piezo-scanner allows the addition of feedback into the system but also represents a limitation in terms of its mechanical response. We describe in detail this implementation of the orbital tracking method and discuss advantages and limitations. As an example of application to live cell experiments we perform the 3D tracking of acidic vesicles in live polarized epithelial cells. PMID:25419461

  8. Plasmon resonances in semiconductor materials for detecting photocatalysis at the single-particle level.

    PubMed

    Yan, Jiahao; Lin, Zhaoyong; Ma, Churong; Zheng, Zhaoqiang; Liu, Pu; Yang, Guowei

    2016-08-11

    Hot carriers, generated via the non-radiative decay of localized surface plasmon, can be utilized in photovoltaic and photocatalytic devices. In recent years, most studies have focused on conventional plasmon materials like Au and Ag. However, they suffer from several drawbacks like low energy of the generated hot carriers and a high charge-carrier recombination rate. To resolve these problems, here, we propose the plasmon resonances in heavily self-doped titanium oxide (TiO1.67) to realize effective hot carrier generation. Since the plasmon resonant energy of TiO1.67 nanoparticles (2.56 eV) is larger than the bandgap (2.15 eV), plasmon resonances through interband transition can realize both the generation and separation of hot carriers and bring a new strategy for visible-light photodegradation. The photodegradation rate for methyl orange was about 0.034 min(-1). More importantly, the combination of plasmonic and catalytic properties makes it feasible to investigate the degradation process of different materials and different structures at the single particle level in situ. By detecting the scattering shift, we demonstrated that the TiO1.67 dimer (Δλ/ΔλRIU = 0.16) possesses a higher photodegradation rate than an individual nanoparticle (Δλ/ΔλRIU = 0.09). We hope this finding may be a beginning, paving the way toward the development of semiconductor plasmonic materials for new applications beyond noble metals.

  9. Detection of Engineered Copper Nanoparticles in Soil Using Single Particle ICP-MS

    PubMed Central

    Navratilova, Jana; Praetorius, Antonia; Gondikas, Andreas; Fabienke, Willi; von der Kammer, Frank; Hofmann, Thilo

    2015-01-01

    Regulatory efforts rely on nanometrology for the development and implementation of laws regarding the incorporation of engineered nanomaterials (ENMs) into industrial and consumer products. Copper is currently one of the most common metals used in the constantly developing and expanding sector of nanotechnology. The use of copper nanoparticles in products, such as agricultural biocides, cosmetics and paints, is increasing. Copper based ENMs will eventually be released to the environment through the use and disposal of nano-enabled products, however, the detection of copper ENMs in environmental samples is a challenging task. Single particle inductively coupled plasma mass spectroscopy (spICP-MS) has been suggested as a powerful tool for routine nanometrology efforts. In this work, we apply a spICP-MS method for the detection of engineered copper nanomaterials in colloidal extracts from natural soil samples. Overall, copper nanoparticles were successfully detected in the soil colloidal extracts and the importance of dwell time, background removal, and sample dilution for method optimization and recovery maximization is highlighted. PMID:26690460

  10. Image processing for electron microscopy single-particle analysis using XMIPP.

    PubMed

    Scheres, Sjors H W; Núñez-Ramírez, Rafael; Sorzano, Carlos O S; Carazo, José María; Marabini, Roberto

    2008-01-01

    We describe a collection of standardized image processing protocols for electron microscopy single-particle analysis using the XMIPP software package. These protocols allow performing the entire processing workflow starting from digitized micrographs up to the final refinement and evaluation of 3D models. A particular emphasis has been placed on the treatment of structurally heterogeneous data through maximum-likelihood refinements and self-organizing maps as well as the generation of initial 3D models for such data sets through random conical tilt reconstruction methods. All protocols presented have been implemented as stand-alone, executable python scripts, for which a dedicated graphical user interface has been developed. Thereby, they may provide novice users with a convenient tool to quickly obtain useful results with minimum efforts in learning about the details of this comprehensive package. Examples of applications are presented for a negative stain random conical tilt data set on the hexameric helicase G40P and for a structurally heterogeneous data set on 70S Escherichia coli ribosomes embedded in vitrified ice. PMID:18536645

  11. Thermal desorption single particle mass spectrometry of ambient aerosol in Shanghai

    NASA Astrophysics Data System (ADS)

    Zhai, Jinghao; Wang, Xinning; Li, Jingyan; Xu, Tingting; Chen, Hong; Yang, Xin; Chen, Jianmin

    2015-12-01

    Submicron aerosol volatility, chemical composition, and mixing state were simultaneously measured using a thermodenuder (TD) in-line with a single particle aerosol mass spectrometry (SPAMS) during Nov.12 to Dec. 11 of 2014 in Shanghai. By heating up to 250 °C, the signals of refractory species such as elemental carbon, metallic compounds, and mineral dust in aerosols were enhanced in the mass spectra. At 250 °C, the main particle types present in the size range of 0.2-1.0 μm were biomass burning (37% by number) and elemental carbon (20%). From 1.0 to 2.0 μm, biomass burning (30%), dust (19%) and metal-rich (18%) were the primary particle types. CN- signal remained in the mass spectra of the heated biomass burning particles suggests the existence of some extremely low-volatility nitrogen-containing organics. Laboratory experiments were conducted by burning rice straws, the main source material of biomass burning particles in Southern China, to confirm the less volatile composition contributed by biomass burning. Strong CN- with relative area >0.21 was observed in most of the laboratory-made biomass burning particles when heated above 200 °C and was selected as a new marker to identify the biomass burning particles in the field. The TD-SPAMS measured the size-resolved chemical composition of the individual particle residues at different temperatures and offered more information on the aging processes of primary particles and their sources.

  12. Neutron single particle structure in 131Sn and direct neutron capture cross sections

    SciTech Connect

    Kozub, R. L.; Arbanas, Goran; Adekola, A. S.; Bardayan, Daniel W; Blackmon, Jeffery C; Chae, Kyung Yuk; Chipps, K.; Cizewski, J. A.; Erikson, Luke; Hatarik, Robert; Hix, William Raphael; Jones, K. L.; Krolas, W.; Liang, J Felix; Ma, Z.; Matei, Catalin; Moazen, Brian; Nesaraja, Caroline D; Pain, Steven D; Shapira, Dan; ShrinerJr., J. F.; Smith, Michael Scott; Swan, T. P.

    2012-01-01

    Recent calculations suggest that the rate of neutron capture by 130Sn has a significant impact on late-time nucleosynthesis in the r-process. Direct capture into low-lying bound states is expected to be significant in neutron capture near the N=82 closed shell, so r- process reaction rates may be strongly impacted by the properties of neutron single particle states in this region. In order to investigate these properties, the (d, p) reaction has been studied in inverse kinematics using a 630 MeV beam of 130Sn (4.8 MeV/u) and a (CD2)n target. An array of Si strip detectors, including SIDAR and an early implementation of the ORRUBA, was used to detect reaction products. Results for the 130Sn(d, p)131Sn reaction are found to be very similar to those from the previously reported 132Sn(d, p)133Sn reaction. Direct-semidirect (n, ) cross section calculations, based for the first time on experimental data, are presented. The uncertainties in these cross sections are thus reduced by orders of magnitude from previous estimates.

  13. Exponential Orthogonality Catastrophe in Single-Particle and Many-Body Localized Systems

    NASA Astrophysics Data System (ADS)

    Deng, Dong-Ling; Pixley, J. H.; Li, Xiaopeng

    We investigate the statistical orthogonality catastrophe (StOC) in single-particle and many-body localized systems by studying the response of the many-body ground state to a local quench. Using scaling arguments and exact numerical calculations, we establish that the StOC gives rise to a wave function overlap between the pre- and post-quench ground states that has an exponential decay with the system size, in sharp contrast to the well-known power law Anderson orthogonality catastrophe in metallic systems. This exponential decay arises from a statistical charge transfer process where a particle can be effectively ``transported'' to an arbitrary lattice site. We show that in a many-body localized phase, this non-local transport and the associated exponential StOC phenomenon persist in the presence of interactions. We study the possible experimental consequences of the exponential StOC on the Loschmidt echo and spectral function, establishing that this phenomenon might be observable in cold atomic experiments through Ramsey interference and radio-frequency spectroscopy. We thank S.-T. Wang, Z.-X. Gong, Y.-L. Wu, J. D. Sau, and Z. Ovadyahu for discussions. This work is supported by LPS-MPO-CMTC, JQI-NSF-PFC, and ARO-Atomtronics-MURI. The authors acknowledge the University of Maryland supercomputing resources.

  14. Melting of stripe phases and its signature in the single-particle spectral function

    NASA Astrophysics Data System (ADS)

    Raczkowski, Marcin; Assaad, Fakher F.

    2010-12-01

    Motivated by the recent experimental data [J. Fink, E. Schierle, E. Weschke, J. Geck, D. Hawthorn, V. Soltwisch, H. Wadati, H.-H. Wu, H. A. Dürr, N. Wizent, B. Büchner, and G. A. Sawatzky, Phys. Rev. B 79, 100502 (2009)10.1103/PhysRevB.79.100502] indicating the existence of a pure stripe charge order over unprecedently wide temperature range in La1.8-xEu0.2SrxCuO4 , we investigate the temperature-induced melting of the metallic stripe phase. In spite of taking into account local dynamic correlations within a real-space dynamical mean-field theory of the Hubbard model, we observe a mean-field-like melting of the stripe order irrespective of the choice of the next-nearest-neighbor hopping. The temperature dependence of the single-particle spectral function shows the stripe induced formation of a flat band around the antinodal points accompanied by the opening a gap in the nodal direction.

  15. Accelerators for critical experiments involving single-particle upset in solid-state microcircuits

    NASA Technical Reports Server (NTRS)

    Zoutendyk, J. A.

    1985-01-01

    Charged-particle interactions in microelectronic circuit chips (integrated circuits) present a particularly insidious problem for solid-state electronic systems due to the generation of soft errors or single-particle event upset (SEU) by either cosmic rays or other radiation sources. Particle accelerators are used to provide both light and heavy ions in order to assess the propensity of integrated circuit chips for SEU. Critical aspects of this assessment involve the ability to analytically model SEU for the prediction of error rates in known radiation environments. In order to accurately model SEU, the measurement and prediction of energy deposition in the form of an electron-hole plasma generated along an ion track is of paramount importance. This requires the use of accelerators which allow for ease in both energy control (change of energy) and change of ion species. This and other aspects of ion-beam control and diagnostics (e.g., uniformity and flux) are of critical concern for the experimental verification of theoretical SEU models.

  16. Mechanistic understanding of surface plasmon assisted catalysis on a single particle: cyclic redox of 4-aminothiophenol

    SciTech Connect

    Xu, Ping; Kang, Leilei; Mack, Nathan H.; Schanze, Kirk S.; Han, Xijiang; Wang, Hsing-Lin

    2013-10-21

    We investigate surface plasmon assisted catalysis (SPAC) reactions of 4-aminothiophenol (4ATP) to and back from 4,4'-dimercaptoazobenzene (DMAB) by single particle surface enhanced Raman spectroscopy, using a self-designed gas flow cell to control the reductive/oxidative environment over the reactions. Conversion of 4ATP into DMAB is induced by energy transfer (plasmonic heating) from surface plasmon resonance to 4ATP, where O2 (as an electron acceptor) is essential and H2O (as a base) can accelerate the reaction. In contrast, hot electron (from surface plasmon decay) induction drives the reverse reaction of DMAB to 4ATP, where H2O (or H2) acts as the hydrogen source. More interestingly, the cyclic redox between 4ATP and DMAB by SPAC approach has been demonstrated. Finally, this SPAC methodology presents a unique platform for studying chemical reactions that are not possible under standard synthetic conditions.

  17. Three-dimensional single-particle tracking in live cells: news from the third dimension

    NASA Astrophysics Data System (ADS)

    Dupont, A.; Gorelashvili, M.; Schüller, V.; Wehnekamp, F.; Arcizet, D.; Katayama, Y.; Lamb, D. C.; Heinrich, D.

    2013-07-01

    Single-particle tracking (SPT) is of growing importance in the biophysical community. It is used to investigate processes such as drug and gene delivery, viral uptake, intracellular trafficking or membrane-bound protein mobility. Traditionally, SPT is performed in two dimensions (2D) because of its technical simplicity. However, life occurs in three dimensions (3D) and many methods have been recently developed to track particles in 3D. Now, is the third dimension worth the effort? Here we investigate the differences between the 2D and 3D analyses of intracellular transport with the 3D development of a time-resolved mean square displacement (MSD) analysis introduced previously. The 3D trajectories, and the 2D projections, of fluorescent nanoparticles were obtained with an orbital tracking microscope in two different cell types: in Dictyostelium discoideum ameba and in adherent, more flattened HuH-7 human cells. As expected from the different 3D organization of both cells’ cytoskeletons, a third of the active transport was lost upon projection in the ameba whereas the identification of the active phases was barely affected in the HuH-7 cells. In both cell types, we found intracellular diffusion to be anisotropic and the diffusion coefficient values derived from the 2D analysis were therefore biased.

  18. A review of progress in single particle tracking: from methods to biophysical insights

    NASA Astrophysics Data System (ADS)

    Manzo, Carlo; Garcia-Parajo, Maria F.

    2015-12-01

    Optical microscopy has for centuries been a key tool to study living cells with minimum invasiveness. The advent of single molecule techniques over the past two decades has revolutionized the field of cell biology by providing a more quantitative picture of the complex and highly dynamic organization of living systems. Amongst these techniques, single particle tracking (SPT) has emerged as a powerful approach to study a variety of dynamic processes in life sciences. SPT provides access to single molecule behavior in the natural context of living cells, thereby allowing a complete statistical characterization of the system under study. In this review we describe the foundations of SPT together with novel optical implementations that nowadays allow the investigation of single molecule dynamic events with increasingly high spatiotemporal resolution using molecular densities closer to physiological expression levels. We outline some of the algorithms for the faithful reconstruction of SPT trajectories as well as data analysis, and highlight biological examples where the technique has provided novel insights into the role of diffusion regulating cellular function. The last part of the review concentrates on different theoretical models that describe anomalous transport behavior and ergodicity breaking observed from SPT studies in living cells.

  19. Single particle refuse-derived fuel devolatilization: Experimental measurements of reaction products

    SciTech Connect

    Lai, Weichuan; Krieger-Brockett, B. . Dept. of Chemical Engineering)

    1993-11-01

    The authors present experimentally measured devolatilization product yields from single particles of refuse-derived fuel (RDF), a more uniform, transportable municipal solid waste. Disposal costs and environmental concerns have stimulated interest in thermochemical conversion of this material to chemicals and fuels. The composition, reaction conditions, and particle properties were systematically varied over the range found in practice to develop quantitative measures that rank the process controllables' influence on altering the product slate. Specialized regression methods and experimental designs enhanced the accuracy in view of the feed heterogeneity and offer a general method to extract real effects from experimental and sample noise''. The results have been verified successfully using actual commercial RDF and fabricated compositions that surpass those normally found in municipal waste to anticipate the influence of trends in recycling. The results show that the reaction conditions have a greater influence on altering fuel utilization and the relative yields of char, condensibles, and gases than does the composition over the range found in MSW and RDF.

  20. Protein domain mapping by internal labeling and single particle electron microscopy.

    PubMed

    Ciferri, Claudio; Lander, Gabriel C; Nogales, Eva

    2015-11-01

    In recent years, electron microscopy (EM) and single particle analysis have emerged as essential tools for investigating the architecture of large biological complexes. When high resolution is achievable, crystal structure docking and de-novo modeling allows for precise assignment of individual protein domain sequences. However, the achievable resolution may limit the ability to do so, especially when small or flexible complexes are under study. In such cases, protein labeling has emerged as an important complementary tool to characterize domain architecture and elucidate functional mechanistic details. All labeling strategies proposed to date are either focused on the identification of the position of protein termini or require multi-step labeling strategies, potentially interfering with the final labeling efficiency. Here we describe a strategy for determining the position of internal protein domains within EM maps using a recombinant one-step labeling approach named Efficient Mapping by Internal Labeling (EMIL). EMIL takes advantage of the close spatial proximity of the GFP's N- and C-termini to generate protein chimeras containing an internal GFP at desired locations along the main protein chain. We apply this method to characterize the subunit domain localization of the human Polycomb Repressive Complex 2. PMID:26431894

  1. Qualitatively different collective and single-particle dynamics in a supercooled liquid.

    PubMed

    Priya, Madhu; Bidhoodi, Neeta; Das, Shankar P

    2015-12-01

    The equations of fluctuating nonlinear hydrodynamics for a two component mixture are obtained with a proper choice of slow variables which correspond to the conservation laws in the system. Using these nonlinear equations we construct the basic equations of the mode coupling theory (MCT) and consequent ergodic-nonergodic (ENE) transition in a binary mixture. The model is also analyzed in the one component limit of the mixture to study the dynamics of a tagged particle in the sea of identical particles. According to the existing MCT, dynamics of the single-particle correlation is slaved to that of the collective density fluctuations and, hence, both correlations freeze simultaneously at the ENE transition. We show here from a nonperturbative approach that at the ENE transition, characterized by the freezing of the long time limit of the dynamic correlation of collective density fluctuations to a nonzero value, the tagged-particle correlation still decays to zero. Our result implies that the point at which simulation or experimental data of the self-diffusion constant extrapolate to zero would not correspond to the ENE transition of simple MCT. PMID:26764693

  2. Pick-off annihilation of positronium in matter using full correlation single particle potentials: solid He.

    PubMed

    Zubiaga, A; Tuomisto, F; Puska, M J

    2015-01-29

    We investigate the modeling of positronium (Ps) states and their pick-off annihilation trapped at open volumes pockets in condensed molecular matter. Our starting point is the interacting many-body system of Ps and a He atom because it is the smallest entity that can mimic the energy gap between the highest occupied and lowest unoccupied molecular orbitals of molecules, and yet the many-body structure of the HePs system can be calculated accurately enough. The exact-diagonalization solution of the HePs system enables us to construct a pairwise full-correlation single-particle potential for the Ps-He interaction, and the total potential in solids is obtained as a superposition of the pairwise potentials. We study in detail Ps states and their pick-off annihilation rates in voids inside solid He and analyze experimental results for Ps-induced voids in liquid He obtaining the radii of the voids. More importantly, we generalize our conclusions by testing the validity of the Tao-Eldrup model, widely used to analyze ortho-Ps annihilation measurements for voids in molecular matter, against our theoretical results for the solid He. Moreover, we discuss the influence of the partial charges of polar molecules and the strength of the van der Waals interaction on the pick-off annihilation rate. PMID:25523231

  3. Qualitatively different collective and single-particle dynamics in a supercooled liquid

    NASA Astrophysics Data System (ADS)

    Priya, Madhu; Bidhoodi, Neeta; Das, Shankar P.

    2015-12-01

    The equations of fluctuating nonlinear hydrodynamics for a two component mixture are obtained with a proper choice of slow variables which correspond to the conservation laws in the system. Using these nonlinear equations we construct the basic equations of the mode coupling theory (MCT) and consequent ergodic-nonergodic (ENE) transition in a binary mixture. The model is also analyzed in the one component limit of the mixture to study the dynamics of a tagged particle in the sea of identical particles. According to the existing MCT, dynamics of the single-particle correlation is slaved to that of the collective density fluctuations and, hence, both correlations freeze simultaneously at the ENE transition. We show here from a nonperturbative approach that at the ENE transition, characterized by the freezing of the long time limit of the dynamic correlation of collective density fluctuations to a nonzero value, the tagged-particle correlation still decays to zero. Our result implies that the point at which simulation or experimental data of the self-diffusion constant extrapolate to zero would not correspond to the ENE transition of simple MCT.

  4. Formation of nanowires via single particle-triggered linear polymerization of solid-state aromatic molecules.

    PubMed

    Horio, Akifumi; Sakurai, Tsuneaki; Lakshmi, G B V S; Kumar Avasthi, Devesh; Sugimoto, Masaki; Yamaki, Tetsuya; Seki, Shu

    2016-08-11

    Nanowires occupy a prestigious place in nanoelectronics, nanomechanics, and biomimetics. Although there are notable methods to grow nanowires via self-assembly, there is a key drawback in the need to find out the specific conditions appropriate for each system. In this sense, universal techniques to fabricate such nanowires from various organic materials have been sought for the continued progress of the related research field. Here we report one of the promising and facile methodologies to quantitatively produce nanowires with controlled geometrical parameters. In this method, referred to as "Single Particle-Triggered Linear Polymerization (STLiP)", organic thin films on a supporting substrate were irradiated with high-energy charged particles, accelerated by particle accelerators. Each particle penetrates from the top of the films to the substrate while gradually releasing kinetic energy along its trajectory (ion track), generating reactive intermediates such as radical species that eventually induce propagation reactions. The resulting polymerized products were integrated into nanowires with uniform diameter and length that can be isolated via development with appropriate organic solvents. Considering the widely applicable nature of STLiP to organic materials, the present technique opens a new door for access to a number of functional nanowires and their assembly. PMID:27355341

  5. Single-cell/Single-particle Irradiation Using Heavy-ion Microbeams

    NASA Astrophysics Data System (ADS)

    Kobayashi, Yasuhiko

    Heavy charged particles transfer their energy to biological organisms through high-density ionization along the particle trajectories. The population of cells exposed to a very low dose of heavy-ion beams contains a few cells hit by a particle, while the majority of the cells receive no radiation damage. At somewhat higher doses, some of the cells receive two or more events according to the Poisson distribution of ion injections. This fluctuation of particle trajectories through individual cells makes interpretation of radiological effects of heavy ions difficult. Furthermore, there has recently been an increasing interest in ionizing radiation-induced “bystander effects”, that is, radiation effects transmitted from hit cells to neighboring un-hit cells. Therefore, we have established a single-cell/single-particle irradiation system using a heavy-ion microbeam apparatus at JAEA-Takasaki to study radiobiological processes in hit cells and bystander cells exposed to low dose and low dose-rate high-LET radiations, in ways that cannot be achieved using conventional broad-field exposures.

  6. Imaging Whole Escherichia Coli Bacteria by Using Single-Particle X-Ray Diffraction

    SciTech Connect

    Miao, J.

    2004-06-04

    We report the first experimental recording, to our knowledge, of the diffraction pattern from intact Escherichia coli bacteria using coherent x-rays with a wavelength of 2 {angstrom}. By using the over-sampling phasing method, a real space image at a resolution of 30 nm was directly reconstructed from the diffraction pattern. An R factor used for characterizing the quality of the reconstruction was in the range of 5%, which demonstrated the reliability of the reconstruction process. The distribution of proteins inside the bacteria labeled with manganese oxide has been identified and this distribution confirmed by fluorescence microscopy images. Compared with lens-based microscopy, this diffraction-based imaging approach can examine thicker samples, such as whole cultured cells, in three dimensions with resolution limited only by radiation damage. Looking forward, the successful recording and reconstruction of diffraction patterns from biological samples reported here represent an important step toward the potential of imaging single biomolecules at near-atomic resolution by combining single-particle diffraction with x-ray free electron lasers.

  7. Deblurring of Class-Averaged Images in Single-Particle Electron Microscopy

    PubMed Central

    Park, Wooram; Madden, Dean R.; Rockmore, Daniel N.; Chirikjian, Gregory S.

    2010-01-01

    This paper proposes a method for deblurring of class-averaged images in single-particle electron microscopy (EM). Since EM images of biological samples are very noisy, the images which are nominally identical projection images are often grouped, aligned and averaged in order to cancel or reduce the background noise. However, the noise in the individual EM images generates errors in the alignment process, which creates an inherent limit on the accuracy of the resulting class averages. This inaccurate class average due to the alignment errors can be viewed as the result of a convolution of an underlying clear image with a blurring function. In this work, we develop a deconvolution method that gives an estimate for the underlying clear image from a blurred class-averaged image using precomputed statistics of misalignment. Since this convolution is over the group of rigid body motions of the plane, SE(2), we use the Fourier transform for SE(2) in order to convert the convolution into a matrix multiplication in the corresponding Fourier space. For practical implementation we use a Hermite-function-based image modeling technique, because Hermite expansions enable lossless Cartesian-polar coordinate conversion using the Laguerre-Fourier expansions, and Hermite expansion and Laguerre-Fourier expansion retain their structures under the Fourier transform. Based on these mathematical properties, we can obtain the deconvolution of the blurred class average using simple matrix multiplication. Tests of the proposed deconvolution method using synthetic and experimental EM images confirm the performance of our method. PMID:20221416

  8. Inert gases in a terra sample - Measurements in six grain-size fractions and two single particles from Lunar 20.

    NASA Technical Reports Server (NTRS)

    Heymann, D.; Lakatos, S.; Walton, J. R.

    1973-01-01

    Review of the results of inert gas measurements performed on six grain-size fractions and two single particles from four samples of Luna 20 material. Presented and discussed data include the inert gas contents, element and isotope systematics, radiation ages, and Ar-36/Ar-40 systematics.

  9. Molecularly linked 3D plasmonic nanoparticle core/satellite assemblies: SERS nanotags with single-particle Raman sensitivity.

    PubMed

    Schütz, Max; Schlücker, Sebastian

    2015-10-01

    A fast, generic, and suspension-based route to highly SERS-active assemblies of noble metal nanoparticles (Au, Ag) with small core-satellite gaps and single-particle Raman sensitivity is presented. Rationally designed, heterobifunctional Raman reporters serve as molecular linkers for electrostatic conjugation of the small satellites to the large core.

  10. Single particle characterization using a light scattering module coupled to a time-of-flight aerosol mass spectrometer

    NASA Astrophysics Data System (ADS)

    Cross, E. S.; Onasch, T. B.; Canagaratna, M.; Jayne, J. T.; Kimmel, J.; Yu, X.-Y.; Alexander, M. L.; Worsnop, D. R.; Davidovits, P.

    2008-12-01

    We present the first single particle results obtained using an Aerodyne time-of-flight aerosol mass spectrometer coupled with a light scattering module (LS-ToF-AMS). The instrument was deployed at the T1 ground site approximately 40 km northeast of the Mexico City Metropolitan Area (MCMA) as part of the MILAGRO field study in March of 2006. The instrument was operated as a standard AMS from 12-30 March, acquiring average chemical composition and size distributions for the ambient aerosol, and in single particle mode from 27-30 March. Over a 75-h sampling period, 12 853 single particle mass spectra were optically triggered, saved, and analyzed. The correlated optical and chemical detection allowed detailed examination of single particle collection and quantification within the LS-ToF-AMS. The single particle data enabled the mixing states of the ambient aerosol to be characterized within the context of the size-resolved ensemble chemical information. The particulate mixing states were examined as a function of sampling time and most of the particles were found to be internal mixtures containing many of the organic and inorganic species identified in the ensemble analysis. The single particle mass spectra were deconvolved, using techniques developed for ensemble AMS data analysis, into HOA, OOA, NH4NO3, (NH4)2SO4, and NH4Cl fractions. Average single particle mass and chemistry measurements are shown to be in agreement with ensemble MS and PTOF measurements. While a significant fraction of ambient particles were internal mixtures of varying degrees, single particle measurements of chemical composition allowed the identification of time periods during which the ambient ensemble was externally mixed. In some cases the chemical composition of the particles suggested a likely source. Throughout the full sampling period, the ambient ensemble was an external mixture of combustion-generated HOA particles from local sources (e.g. traffic), with number concentrations peaking

  11. [Foucault, Derrida, and the history of madness: notes on a controversy].

    PubMed

    Pereira Neto, A F

    1998-01-01

    The publication of the book Folie et Déraison. Histoire de la Folie à l'Age Classique (1961), by Michel Foucault, sparked a debate between the author and philosopher Jacques Derrida during the 1960s and 70s. Derrida criticized the methodological proposal and organization of the History of Madness presented by Foucault in the foreword to the first edition. The controversy appears to have motivated the author to withdraw this same foreword from the second edition. The purpose of this article is to analyze some current points in this controversy. It also presents a research agenda for an understanding of the reasons leading Foucault to take this stance. PMID:9761619

  12. [Foucault, Derrida, and the history of madness: notes on a controversy].

    PubMed

    Pereira Neto, A F

    1998-01-01

    The publication of the book Folie et Déraison. Histoire de la Folie à l'Age Classique (1961), by Michel Foucault, sparked a debate between the author and philosopher Jacques Derrida during the 1960s and 70s. Derrida criticized the methodological proposal and organization of the History of Madness presented by Foucault in the foreword to the first edition. The controversy appears to have motivated the author to withdraw this same foreword from the second edition. The purpose of this article is to analyze some current points in this controversy. It also presents a research agenda for an understanding of the reasons leading Foucault to take this stance.

  13. Principles and biophysical applications of single particle super-localization and rotational tracking

    SciTech Connect

    Gu, Yan

    2013-01-01

    While conventional Single Particle Tracking (SPT) techniques acquire 2D or 3D trajectories of particle probes, we have developed Single Particle Orientation and Rotational Tracking (SPORT) techniques to extract orientation and rotational information. Combined with DIC microscopy, the SPORT technique has been applied in biophysical studies, including membrane diffusion and intracellular transport. The rotational dynamics of nanoparticle vectors on live cell membranes was recorded and its influence on the fate of these nanoparticle vectors was elucidated. The rotational motions of gold nanorods with various surface modifiers were tracked continuously at a temporal resolution of 5 ms under a DIC microscope. We found that the rotational behaviors of gold nanorod vectors are strongly related to their surface charge, specific surface functional groups, and the availability of receptors on cell membranes. The study of rotational Brownian motion of nanoparticles on cell membranes will lead to a better understanding of the mechanisms of drug delivery and provide guidance in designing surface modification strategies for drug delivery vectors under various circumstances. To characterize the rotation mode of surface functionalized gold nanorods on cell membranes, the SPORT technique is combined with the correlation analysis of the bright and dark DIC intensities. The unique capabilities of visualizing and understanding rotational motions of functionalized nanoparticles on live cell membranes allow us to correlate rotational and translational dynamics in unprecedented detail and provide new insights for complex membrane processes, including electrostatic interactions, ligand-receptor binding, and lateral (confined and hopping) diffusion of membrane receptors. Surface-functionalized nanoparticles interact with the membrane in fundamentally different ways and exhibit distinct rotational modes. The early events of particle-membrane approach and attachment are directly visualized

  14. Principles and biophysical applications of single particle super-localization and rotational tracking

    NASA Astrophysics Data System (ADS)

    Gu, Yan

    While conventional Single Particle Tracking (SPT) techniques acquire 2D or 3D trajectories of particle probes, we have developed Single Particle Orientation and Rotational Tracking (SPORT) techniques to extract orientation and rotational information. Combined with DIC microscopy, the SPORT technique has been applied in biophysical studies, including membrane diffusion and intracellular transport. The rotational dynamics of nanoparticle vectors on live cell membranes was recorded and its influence on the fate of these nanoparticle vectors was elucidated. The rotational motions of gold nanorods with various surface modifiers were tracked continuously at a temporal resolution of 5 ms under a DIC microscope. We found that the rotational behaviors of gold nanorod vectors are strongly related to their surface charge, specific surface functional groups, and the availability of receptors on cell membranes. The study of rotational Brownian motion of nanoparticles on cell membranes will lead to a better understanding of the mechanisms of drug delivery and provide guidance in designing surface modification strategies for drug delivery vectors under various circumstances. To characterize the rotation mode of surface functionalized gold nanorods on cell membranes, the SPORT technique is combined with the correlation analysis of the bright and dark DIC intensities. The unique capabilities of visualizing and understanding rotational motions of functionalized nanoparticles on live cell membranes allow us to correlate rotational and translational dynamics in unprecedented detail and provide new insights for complex membrane processes, including electrostatic interactions, ligand-receptor binding, and lateral (confined and hopping) diffusion of membrane receptors. Surface-functionalized nanoparticles interact with the membrane in fundamentally different ways and exhibit distinct rotational modes. The early events of particle-membrane approach and attachment are directly visualized

  15. Principles and biophysical applications of single particle super-localization and rotational tracking

    NASA Astrophysics Data System (ADS)

    Gu, Yan

    While conventional Single Particle Tracking (SPT) techniques acquire 2D or 3D trajectories of particle probes, we have developed Single Particle Orientation and Rotational Tracking (SPORT) techniques to extract orientation and rotational information. Combined with DIC microscopy, the SPORT technique has been applied in biophysical studies, including membrane diffusion and intracellular transport. The rotational dynamics of nanoparticle vectors on live cell membranes was recorded and its influence on the fate of these nanoparticle vectors was elucidated. The rotational motions of gold nanorods with various surface modifiers were tracked continuously at a temporal resolution of 5 ms under a DIC microscope. We found that the rotational behaviors of gold nanorod vectors are strongly related to their surface charge, specific surface functional groups, and the availability of receptors on cell membranes. The study of rotational Brownian motion of nanoparticles on cell membranes will lead to a better understanding of the mechanisms of drug delivery and provide guidance in designing surface modification strategies for drug delivery vectors under various circumstances. To characterize the rotation mode of surface functionalized gold nanorods on cell membranes, the SPORT technique is combined with the correlation analysis of the bright and dark DIC intensities. The unique capabilities of visualizing and understanding rotational motions of functionalized nanoparticles on live cell membranes allow us to correlate rotational and translational dynamics in unprecedented detail and provide new insights for complex membrane processes, including electrostatic interactions, ligand-receptor binding, and lateral (confined and hopping) diffusion of membrane receptors. Surface-functionalized nanoparticles interact with the membrane in fundamentally different ways and exhibit distinct rotational modes. The early events of particle-membrane approach and attachment are directly visualized

  16. The effect of model fidelity on prediction of char burnout for single-particle coal combustion

    DOE PAGES

    McConnell, Josh; Sutherland, James C.

    2016-07-09

    In this study, practical simulation of industrial-scale coal combustion relies on the ability to accurately capture the dynamics of coal subprocesses while also ensuring the computational cost remains reasonable. The majority of the residence time occurs post-devolatilization, so it is of great importance that a balance between the computational efficiency and accuracy of char combustion models is carefully considered. In this work, we consider the importance of model fidelity during char combustion by comparing combinations of simple and complex gas and particle-phase chemistry models. Detailed kinetics based on the GRI 3.0 mechanism and infinitely-fast chemistry are considered in the gas-phase.more » The Char Conversion Kinetics model and nth-Order Langmuir–Hinshelwood model are considered for char consumption. For devolatilization, the Chemical Percolation and Devolatilization and Kobayashi-Sarofim models are employed. The relative importance of gasification versus oxidation reactions in air and oxyfuel environments is also examined for various coal types. Results are compared to previously published experimental data collected under laminar, single-particle conditions. Calculated particle temperature histories are strongly dependent on the choice of gas phase and char chemistry models, but only weakly dependent on the chosen devolatilization model. Particle mass calculations were found to be very sensitive to the choice of devolatilization model, but only somewhat sensitive to the choice of gas chemistry and char chemistry models. High-fidelity models for devolatilization generally resulted in particle temperature and mass calculations that were closer to experimentally observed values.« less

  17. Wavelength resolved polarized elastic scatter measurements from micron-sized single particles

    NASA Astrophysics Data System (ADS)

    Sivaprakasam, Vasanthi; Czege, Jozsef; Eversole, Jay D.

    2013-05-01

    The goal of this project is to investigate correlations of polarimetric angular scattering patterns from individual aerosol particles with the particles' physical structure and composition. Such signature patterns may be able to provide particle classification capability, such as, for example, discrimination between man-made and naturally occurring aerosols. If successful, this effort could improve current detection methods for biological warfare (BW) agent aerosols. So far, we have demonstrated an experimental arrangement to measure polarization-state resolved, multi-angle, scattering intensities from single aerosol particles on-the-fly. Our novel approach is a radical departure from conventional polarimetric measurement methods, and a key factor is the use of a multiple-order retarder to prepare different polarization states, depending on the wavelength of the incident light. This novel experimental technique uses a supercontinuum light source, an array of optical fibers, an imaging spectrometer and an EMCCD camera to simultaneously acquire wavelength and angle dependent particle light scattering data as a two-dimensional snapshot. Mueller matrix elements were initially measured from individual particles held in an optical trap (at 405 nm). Since particles can be stably trapped for long periods (hours), we were able to change the optical configuration to acquire multiple Mueller matrix element measurements on a single particle. We have computationally modeled these measurements at specific angles, and the comparison with experimental measurements shows good agreement. Similar measurements have also been made on slowly falling particles, and our current efforts are focused on improving experimental technique sufficiently to make such measurements on flowing particles.

  18. A Bayesian approach for suppression of limited angular sampling artifacts in single particle 3D reconstruction.

    PubMed

    Moriya, Toshio; Acar, Erman; Cheng, R Holland; Ruotsalainen, Ulla

    2015-09-01

    In the single particle reconstruction, the initial 3D structure often suffers from the limited angular sampling artifact. Selecting 2D class averages of particle images generally improves the accuracy and efficiency of the reference-free 3D angle estimation, but causes an insufficient angular sampling to fill the information of the target object in the 3D frequency space. Similarly, the initial 3D structure by the random-conical tilt reconstruction has the well-known "missing cone" artifact. Here, we attempted to solve the limited angular sampling problem by sequentially applying maximum a posteriori estimate with expectation maximization algorithm (sMAP-EM). Using both simulated and experimental cryo-electron microscope images, the sMAP-EM was compared to the direct Fourier method on the basis of reconstruction error and resolution. To establish selection criteria of the final regularization weight for the sMAP-EM, the effects of noise level and sampling sparseness on the reconstructions were examined with evenly distributed sampling simulations. The frequency information filled in the missing cone of the conical tilt sampling simulations was assessed by developing new quantitative measurements. All the results of visual and numerical evaluations showed the sMAP-EM performed better than the direct Fourier method, regardless of the sampling method, noise level, and sampling sparseness. Furthermore, the frequency domain analysis demonstrated that the sMAP-EM can fill the meaningful information in the unmeasured angular space without detailed a priori knowledge of the objects. The current research demonstrated that the sMAP-EM has a high potential to facilitate the determination of 3D protein structures at near atomic-resolution.

  19. Characterization of Silver Nanoparticles Internalized by Arabidopsis Plants Using Single Particle ICP-MS Analysis.

    PubMed

    Bao, Dongping; Oh, Zhen Guo; Chen, Zhong

    2016-01-01

    Plants act as a crucial interface between humans and their environment. The wide use of nanoparticles (NPs) has raised great concerns about their potential impacts on crop health and food safety, leading to an emerging research theme about the interaction between plants and NPs. However, up to this day even the basic issues concerning the eventual fate and characteristics of NPs after internalization are not clearly delineated due to the lack of a well-established technique for the quantitative analysis of NPs in plant tissues. We endeavored to combine a quantitative approach for NP analysis in plant tissues with TEM to localize the NPs. After using an enzymatic digestion to release the NPs from plant matrices, single particle-inductively coupled plasma-mass spectrometry (SP-ICP-MS) is employed to determine the size distribution of silver nanoparticles (Ag NPs) in tissues of the model plant Arabidopsis thaliana after exposure to 10 nm Ag NPs. Our results show that Macerozyme R-10 treatment can release Ag NPs from Arabidopsis plants without changing the size of Ag NPs. The characteristics of Ag NPs obtained by SP-ICP-MS in both roots and shoots are in agreement with our transmission electron micrographs, demonstrating that the combination of an enzymatic digestion procedure with SP-ICP-MS is a powerful technique for quantitative determination of NPs in plant tissues. Our data reveal that Ag NPs tend to accumulate predominantly in the apoplast of root tissues whereby a minor portion is transported to shoot tissues. Furthermore, the fact that the measured size distribution of Ag NPs in plant tissue is centered at around 20.70 nm, which is larger than the initial 12.84 nm NP diameter, strongly implies that many internalized Ag NPs do not exist as intact individual particles anymore but are aggregated and/or biotransformed in the plant instead.

  20. Single-particle speciation of alkylamines in ambient aerosol at five European sites.

    PubMed

    Healy, Robert M; Evans, Greg J; Murphy, Michael; Sierau, Berko; Arndt, Jovanna; McGillicuddy, Eoin; O'Connor, Ian P; Sodeau, John R; Wenger, John C

    2015-08-01

    Alkylamines are associated with both natural and anthropogenic sources and have been detected in ambient aerosol in a variety of environments. However, little is known about the ubiquity or relative abundance of these species in Europe. In this work, ambient single-particle mass spectra collected at five sampling sites across Europe have been analysed for their alkylamine content. The aerosol time-of-flight mass spectrometer (ATOFMS) data used were collected in Ireland (Cork), France (Paris, Dunkirk and Corsica) and Switzerland (Zurich) between 2008 and 2013. Each dataset was queried for mass spectral marker ions associated with the following ambient alkylamines: dimethylamine (DMA), trimethylamine (TMA), diethylamine (DEA), triethylamine (TEA), dipropylamine (DPA) and tripropylamine (TPA). The fraction of ambient particles that contained detectable alkylamines ranged from 1 to 17 % depending on location, with the highest fractions observed in Paris and Zurich in the winter months. The lowest fractions were observed at coastal sites, where the influence of animal husbandry-related alkylamine emissions is also expected to be lowest. TMA was the most ubiquitous particle phase alkylamine detected and was observed at all locations. Alkylamines were found to be internally mixed with both sulphate and nitrate for each dataset, suggesting that aminium salt formation may be important at all sites investigated. Interestingly, in Corsica, all alkylamine particles detected were also found to be internally mixed with methanesulphonic acid (MSA), indicating that aminium methanesulphonate salts may represent a component of marine ambient aerosol in the summer months. Internal mixing of alkylamines with sea salt was not observed, however. Alkylamine-containing particle composition was found to be reasonably homogeneous at each location, with the exception of the Corsica and Dunkirk sites, where two and four distinct mixing states were observed, respectively.

  1. Single particle analysis integrated with microscopy: a high-throughput approach for reconstructing icosahedral particles.

    PubMed

    Yan, Xiaodong; Cardone, Giovanni; Zhang, Xing; Zhou, Z Hong; Baker, Timothy S

    2014-04-01

    In cryo-electron microscopy and single particle analysis, data acquisition and image processing are generally carried out in sequential steps and computation of a three-dimensional reconstruction only begins once all the micrographs have been acquired. We are developing an integrated system for processing images of icosahedral particles during microscopy to provide reconstructed density maps in real-time at the highest possible resolution. The system is designed as a combination of pipelines to run in parallel on a computer cluster and analyzes micrographs as they are acquired, handling automatically all the processing steps from defocus estimation and particle picking to origin/orientation determination. An ab initio model is determined independently from the first micrographs collected, and new models are generated as more particles become available. As a proof of concept, we simulated data acquisition sessions using three sets of micrographs of good to excellent quality that were previously recorded from different icosahedral viruses. Results show that the processing of single micrographs can keep pace with an acquisition rate of about two images per minute. The reconstructed density map improves steadily during the image acquisition phase and its quality at the end of data collection is only moderately inferior to that obtained by expert users who processed semi-automatically all the micrographs after the acquisition. The current prototype demonstrates the advantages of integrating three-dimensional image processing with microscopy, which include an ability to monitor acquisition in terms of the final structure and to predict how much data and microscope resources are needed to achieve a desired resolution.

  2. Single particle analysis integrated with microscopy: a high-throughput approach for reconstructing icosahedral particles

    PubMed Central

    Zhang, Xing; Zhou, Z. Hong; Baker, Timothy S.

    2014-01-01

    In cryo-electron microscopy and single particle analysis, data acquisition and image processing are generally carried out in sequential steps and computation of a three-dimensional reconstruction only begins once all the micrographs have been acquired. We are developing an integrated system for processing images of icosahedral particles during microscopy to provide reconstructed density maps in real-time at the highest possible resolution. The system is designed as a combination of pipelines to run in parallel on a computer cluster and analyzes micrographs as they are acquired, handling automatically all the processing steps from defocus estimation and particle picking to origin/orientation determination. An ab-initio model is determined independently from the first micrographs collected, and new models are generated as more particles become available. As a proof of concept, we simulated data acquisition sessions using three sets of micrographs of good to excellent quality that were previously recorded from different icosahedral viruses. Results show that the processing of single micrographs can keep pace with an acquisition rate of about two images per minute. The reconstructed density map improves steadily during the image acquisition phase and its quality at the end of data collection is only moderately inferior to that obtained by expert users who processed semi-automatically all the micrographs after the acquisition. The current prototype demonstrates the advantages of integrating three-dimensional image processing with microscopy, which include an ability to monitor acquisition in terms of the final structure and to predict how much data and microscope resources are needed to achieve a desired resolution. PMID:24613762

  3. A Stochastic Kinematic Model of Class Averaging in Single-Particle Electron Microscopy

    PubMed Central

    Park, Wooram; Midgett, Charles R.; Madden, Dean R.; Chirikjian, Gregory S.

    2011-01-01

    Single-particle electron microscopy is an experimental technique that is used to determine the 3D structure of biological macromolecules and the complexes that they form. In general, image processing techniques and reconstruction algorithms are applied to micrographs, which are two-dimensional (2D) images taken by electron microscopes. Each of these planar images can be thought of as a projection of the macromolecular structure of interest from an a priori unknown direction. A class is defined as a collection of projection images with a high degree of similarity, presumably resulting from taking projections along similar directions. In practice, micrographs are very noisy and those in each class are aligned and averaged in order to reduce the background noise. Errors in the alignment process are inevitable due to noise in the electron micrographs. This error results in blurry averaged images. In this paper, we investigate how blurring parameters are related to the properties of the background noise in the case when the alignment is achieved by matching the mass centers and the principal axes of the experimental images. We observe that the background noise in micrographs can be treated as Gaussian. Using the mean and variance of the background Gaussian noise, we derive equations for the mean and variance of translational and rotational misalignments in the class averaging process. This defines a Gaussian probability density on the Euclidean motion group of the plane. Our formulation is validated by convolving the derived blurring function representing the stochasticity of the image alignments with the underlying noiseless projection and comparing with the original blurry image. PMID:21660125

  4. Probing Black Carbon-containing Particle Microphysics with the Single-Particle Soot Photometer (SP2)

    NASA Astrophysics Data System (ADS)

    Sedlacek, A. J.; Lewis, E. R.; Onasch, T. B.; Lambe, A. T.; Davidovits, P.; Kleinman, L. I.

    2012-12-01

    Knowledge of the structure and mixing state of black-carbon containing particles is important for calculating their radiative forcing and provides insight into their source and life cycle. Recently analysis of black carbon-containing particles has demonstrated that for a fraction of such particles, the black carbon may reside on or near the surface of the particle as opposed to the traditional core-shell configuration typically assumed in which the black carbon core is surrounded by a shell of non-refractory material. During the DOE-sponsored Aerosol Lifecycle field campaign held in summer, 2011 at Brookhaven National Laboratory on Long Island, NY, episodes were encountered in which a high fraction of particles containing black carbon had such configurations, and these episodes corresponded to air masses that contained biomass burning plumes (Sedlacek et al., 2012). Subsequent analysis found other episodes in field campaigns in Colorado and California in which high fractions this configuration corresponded to biomass burning plumes. In an effort to evaluate this interpretation and explore formation mechanisms, a series of laboratory-based experiments examining the coagulation of regal black (surrogate for collapsed soot) with model non-refractory coatings [dioctyl sebacate (surrogate for organic aerosols with liquid-like character) and deliquesced ammonium sulfate (solid)] were carried out. The results of these experiments and their potential implications on black carbon radiative forcing will be discussed. Sedlacek, III, Arthur, E. R. Lewis, L. I. Kleinman, J. Xu and Q. Zhang (2012), Determination of and Evidence for Non-core-shell structure of particles containing black carbon using the single particle soot photometer (SP2). Geophys. Res. Lett., 39 L06802, doi:10.1029/2012GL050905

  5. Tying Biological Activity to Changes in Sea Spray Aerosol Chemical Composition via Single Particle Analyses

    NASA Astrophysics Data System (ADS)

    Sultana, C. M.; Lee, C.; Collins, D. B.; Axson, J. L.; Laskina, O.; Grandquist, J. R.; Grassian, V. H.; Prather, K. A.

    2014-12-01

    In remote marine environments, sea spray aerosols (SSA) often represent the greatest aerosol burden, thus having significant impacts on direct radiative interactions and cloud processes. Previous studies have shown that SSA is a complex mixture of inorganic salts and an array of dissolved and particulate organic components. Enrichment of SSA organic content is often correlated to seawater chlorophyll concentrations, a measure of oceanic biological activity. As the physical and chemical properties of aerosols control their radiative effects, recent studies conducted by the Center for Aerosol Impacts on Climate and the Environment have endeavored to further elucidate the ties between marine biological activity and primary SSA chemical composition using highly time resolved single particle analyses. A series of experiments performed in the recently developed Marine Aerosol Reference Tank evaluated the effect of changing marine microbial populations on SSA chemical composition, which was monitored via an aerosol time-of-flight mass spectrometer and a variety of offline spectroscopic and microscopic techniques. Each experiment was initiated using unfiltered and untreated seawater, thus maintaining a high level of biogeochemical complexity. This study is the first of its kind to capture daily changes in the primary SSA mixing state over the growth and death of a natural phytoplankton bloom. Increases in organic aerosol types (0.4-3 μm), internally and externally mixed with sea salt, could not be correlated to chlorophyll concentrations. Maximum production of these populations occurred two to four days after the in vivo chlorophyll fluorescence peaked in intensity. This work is in contrast to the current paradigm of correlating SSA organic content to seawater chlorophyll concentration.

  6. Chemical compositions of subway particles in Seoul, Korea determined by a quantitative single particle analysis.

    PubMed

    Kang, Sunni; Hwang, HeeJin; Park, YooMyung; Kim, HyeKyoung; Ro, Chul-Un

    2008-12-15

    A novel single particle analytical technique, low-Z particle electron probe X-ray microanalysis, was applied to characterize seasonal subway samples collected at a subway station in Seoul, Korea. For all 8 samples collected twice in each season, 4 major types of subway particles, based on their chemical compositions, are significantly encountered: Fe-containing; soil-derived; carbonaceous; and secondary nitrate and/or sulfate particles. Fe-containing particles are generated indoors from wear processes at rail-wheel-brake interfaces while the others may be introduced mostly from the outdoor urban atmosphere. Fe-containing particles are the most frequently encountered with relative abundances in the range of 61-79%. In this study, it is shown that Fe-containing subway particles almost always exist either as partially or fully oxidized forms in underground subway microenvironments. Their relative abundances of Fe-containing particles increase as particle sizes decrease. Relative abundances of Fe-containing particles are higher in morning samples than in afternoon samples because of heavier train traffic in the morning. In the summertime samples, Fe-containing particles are the most abundantly encountered, whereas soil-derived and nitrate/sulfate particles are the least encountered, indicating the air-exchange between indoor and outdoor environments is limited in the summer, owing to the air-conditioning in the subway system. In our work, it was observed that the relative abundances of the particles of outdoor origin vary somewhat among seasonal samples to a lesser degree, reflecting that indoor emission sources predominate. PMID:19174870

  7. Silver speciation and characterization of nanoparticles released from plastic food containers by single particle ICPMS.

    PubMed

    Ramos, K; Gómez-Gómez, M M; Cámara, C; Ramos, L

    2016-05-01

    Silver migration from a commercial baby feeding bottle and a food box containing AgNPs, as confirmed by SEM-EDX analysis, was evaluated using food simulant solutions [i.e., water, 3% (v/v) acetic acid, and 10% and 90% (v/v) ethanol]. Silver release was investigated at temperatures in the 20-70°C range using contact times of up to 10 days. Migration of silver from the food box was in all cases 2 to 3 orders of magnitude higher than that observed for the baby bottle, although the total silver content in the original box material was half of that found in the baby bottle. As expected, for both food containers, silver migration depended on both the nature of the tested solution and the applied conditions. The highest release was observed for 3% acetic acid at 70°C for 2h, corresponding to 62ngdm(2) and 1887ngdm(-2) of silver for the baby bottle and the food box, respectively. Single particle-inductively coupled plasma mass spectrometry (SP-ICPMS) was used to characterise and quantify AgNPs in the food simulants extracts. Sample preparation was optimized to preserve AgNPs integrity. The experimental parameters affecting AgNPs detection, sizing and quantification by SP-ICPMS were also optimised. Analyses of water and acidic extracts revealed the presence of both dissolved silver and AgNPs. Small AgNPs (in the 18-30nm range) and particle number concentrations within the 4-1510 10(6)L(-1) range were detected, corresponding to only 0.1-8.6% of the total silver released from these materials. The only exception was AgNPs migrated into water at 40°C and 70°C from the food box, which accounted for as much as 34% and 69% of the total silver content, respectively.

  8. Alignment algorithms and per-particle CTF correction for single particle cryo-electron tomography.

    PubMed

    Galaz-Montoya, Jesús G; Hecksel, Corey W; Baldwin, Philip R; Wang, Eryu; Weaver, Scott C; Schmid, Michael F; Ludtke, Steven J; Chiu, Wah

    2016-06-01

    Single particle cryo-electron tomography (cryoSPT) extracts features from cryo-electron tomograms, followed by 3D classification, alignment and averaging to generate improved 3D density maps of such features. Robust methods to correct for the contrast transfer function (CTF) of the electron microscope are necessary for cryoSPT to reach its resolution potential. Many factors can make CTF correction for cryoSPT challenging, such as lack of eucentricity of the specimen stage, inherent low dose per image, specimen charging, beam-induced specimen motions, and defocus gradients resulting both from specimen tilting and from unpredictable ice thickness variations. Current CTF correction methods for cryoET make at least one of the following assumptions: that the defocus at the center of the image is the same across the images of a tiltseries, that the particles all lie at the same Z-height in the embedding ice, and/or that the specimen, the cryo-electron microscopy (cryoEM) grid and/or the carbon support are flat. These experimental conditions are not always met. We have developed a CTF correction algorithm for cryoSPT without making any of the aforementioned assumptions. We also introduce speed and accuracy improvements and a higher degree of automation to the subtomogram averaging algorithms available in EMAN2. Using motion-corrected images of isolated virus particles as a benchmark specimen, recorded with a DE20 direct detection camera, we show that our CTF correction and subtomogram alignment routines can yield subtomogram averages close to 4/5 Nyquist frequency of the detector under our experimental conditions. PMID:27016284

  9. Development of a Bioaerosol single particle detector (BIO IN) for the Fast Ice Nucleus CHamber FINCH

    NASA Astrophysics Data System (ADS)

    Bundke, U.; Reimann, B.; Nillius, B.; Jaenicke, R.; Bingemer, H.

    2010-02-01

    In this work we present the setup and first tests of our new BIO IN detector. This detector was constructed to classify atmospheric ice nuclei (IN) for their biological content. It is designed to be coupled to the Fast Ice Nucleus CHamber FINCH. If one particle acts as an ice nucleus, it will be at least partly covered with ice at the end of the development section of the FINCH chamber. The device combines an auto-fluorescence detector and a circular depolarization detector for simultaneous detection of biological material and discrimination between water droplets, ice crystals and non activated large aerosol particles. The excitation of biological material with UV light and analysis of auto-fluorescence is a common principle used for flow cytometry, fluorescence microscopy, spectroscopy and imaging. The detection of auto-fluorescence of airborne single particles demands some more experimental effort. However, expensive commercial sensors are available for special purposes, e.g. size distribution measurements. But these sensors will not fit the specifications needed for the FINCH IN counter (e.g. high sample flow of up 10 LPM). The newly developed -low cost- BIO IN sensor uses a single high-power UV LED for the electronic excitation instead of much more expensive UV lasers. Other key advantages of the new sensor are the low weight, compact size, and the little effect on the aerosol sample, which allows it to be coupled with other instruments for further analysis. The instrument will be flown on one of the first missions of the new German research aircraft "HALO" (High Altitude and LOng range).

  10. Understanding particle size and distance driven competition of interparticle interactions and effective single-particle anisotropy

    NASA Astrophysics Data System (ADS)

    Pacakova, B.; Mantlikova, A.; Niznansky, D.; Kubickova, S.; Vejpravova, J.

    2016-05-01

    Magnetic response of single-domain nanoparticles (NPs) in concentrated systems is strongly affected by mutual interparticle interactions. However, particle proximity significantly influences single-particle effective anisotropy. To solve which of these two phenomena plays a dominant role in the magnetic response of real NP systems, systematic study on samples with well-defined parameters is required. In our work, we prepared a series of nanocomposites constituted of highly-crystalline and well-isolated CoFe2O4 NPs embedded in an amorphous SiO2 matrix using a single-molecule precursor method. This preparation method enabled us to reach a wide interval of particle size and concentration. We observed that the characteristic parameters of the single-domain state (coercivity, blocking temperature) and dipole-dipole interaction energy ({{E}\\text{d-\\text{d}}} ) scaled with each other and increased with increasing {{≤ft({{d}\\text{XRD}}/r\\right)}3} , where d XRD was the NP diameter and r was the interparticle distance. Our results are in excellent agreement with Monte-Carlo simulations of the particle growth. Moreover, we demonstrated that the contribution of {{E}\\text{d-\\text{d}}} acting as an additional energetic barrier to the superspin reversal or as an average static field did not sufficiently explain how the concentrated NP systems responded to an external magnetic field. Alternations in the blocking temperature and coercivity of our NP systems accounted for reformed relaxations of the NP superspins and modified effective anisotropy energy of the interacting NPs. Therefore, the concept of modified NP effective anisotropy explains the magnetic response of our concentrated NP systems better than the concept of the energy barrier influenced by interparticle interactions.

  11. Ultrafast dynamics and single particle spectroscopy of Au-CdSe nanorods.

    PubMed

    Sagarzazu, Gabriel; Inoue, Kohki; Saruyama, Masaki; Sakamoto, Masanori; Teranishi, Toshiharu; Masuo, Sadahiro; Tamai, Naoto

    2013-02-14

    Time-resolved photoluminescence (PL) and transient absorption (TA) spectroscopy are conducted in order to get knowledge on the excited state of CdSe nanorods (NR), and to assess the impact of Au nanoparticles (NP) on the carrier dynamics of hybrid Au-CdSe NRs. The decay dynamics measured in solution show an increase of non-radiative decay channels in the presence of Au NPs, whose characteristic lifetimes vary from a few ps to tens of ps. The ultrafast electron transfer from CdSe NRs to Au NPs efficiently competes with intraband relaxation dynamics, allowing observation of the hot-electron transfer process. Furthermore, the time-averaged PL decay of CdSe NRs shows a strongly multiexponential feature that was analyzed by single-particle spectroscopy. The PL decay of individual NRs fluctuates in time and is correlated with the PL intensity. We show that the time-averaged decay of bare CdSe NRs is composed of (i) a long lifetime component corresponding to bright CdSe NRs (ON state) and (ii) a short lifetime component corresponding to charged NRs that open additional fast non-radiative channels (OFF state). When Au NPs are attached to CdSe NRs, the ON state PL decays still show a long lifetime component, suggesting that the length of the NRs may hinder electron transfer if the exciton is formed far from the Au NPs. Finally, quantitative analysis of the OFF state decays shows that electron transfer occurs even in the presence of fast non-radiative pathways in charged systems.

  12. Alignment algorithms and per-particle CTF correction for single particle cryo-electron tomography.

    PubMed

    Galaz-Montoya, Jesús G; Hecksel, Corey W; Baldwin, Philip R; Wang, Eryu; Weaver, Scott C; Schmid, Michael F; Ludtke, Steven J; Chiu, Wah

    2016-06-01

    Single particle cryo-electron tomography (cryoSPT) extracts features from cryo-electron tomograms, followed by 3D classification, alignment and averaging to generate improved 3D density maps of such features. Robust methods to correct for the contrast transfer function (CTF) of the electron microscope are necessary for cryoSPT to reach its resolution potential. Many factors can make CTF correction for cryoSPT challenging, such as lack of eucentricity of the specimen stage, inherent low dose per image, specimen charging, beam-induced specimen motions, and defocus gradients resulting both from specimen tilting and from unpredictable ice thickness variations. Current CTF correction methods for cryoET make at least one of the following assumptions: that the defocus at the center of the image is the same across the images of a tiltseries, that the particles all lie at the same Z-height in the embedding ice, and/or that the specimen, the cryo-electron microscopy (cryoEM) grid and/or the carbon support are flat. These experimental conditions are not always met. We have developed a CTF correction algorithm for cryoSPT without making any of the aforementioned assumptions. We also introduce speed and accuracy improvements and a higher degree of automation to the subtomogram averaging algorithms available in EMAN2. Using motion-corrected images of isolated virus particles as a benchmark specimen, recorded with a DE20 direct detection camera, we show that our CTF correction and subtomogram alignment routines can yield subtomogram averages close to 4/5 Nyquist frequency of the detector under our experimental conditions.

  13. A Bayesian approach for suppression of limited angular sampling artifacts in single particle 3D reconstruction.

    PubMed

    Moriya, Toshio; Acar, Erman; Cheng, R Holland; Ruotsalainen, Ulla

    2015-09-01

    In the single particle reconstruction, the initial 3D structure often suffers from the limited angular sampling artifact. Selecting 2D class averages of particle images generally improves the accuracy and efficiency of the reference-free 3D angle estimation, but causes an insufficient angular sampling to fill the information of the target object in the 3D frequency space. Similarly, the initial 3D structure by the random-conical tilt reconstruction has the well-known "missing cone" artifact. Here, we attempted to solve the limited angular sampling problem by sequentially applying maximum a posteriori estimate with expectation maximization algorithm (sMAP-EM). Using both simulated and experimental cryo-electron microscope images, the sMAP-EM was compared to the direct Fourier method on the basis of reconstruction error and resolution. To establish selection criteria of the final regularization weight for the sMAP-EM, the effects of noise level and sampling sparseness on the reconstructions were examined with evenly distributed sampling simulations. The frequency information filled in the missing cone of the conical tilt sampling simulations was assessed by developing new quantitative measurements. All the results of visual and numerical evaluations showed the sMAP-EM performed better than the direct Fourier method, regardless of the sampling method, noise level, and sampling sparseness. Furthermore, the frequency domain analysis demonstrated that the sMAP-EM can fill the meaningful information in the unmeasured angular space without detailed a priori knowledge of the objects. The current research demonstrated that the sMAP-EM has a high potential to facilitate the determination of 3D protein structures at near atomic-resolution. PMID:26193484

  14. Microfabricated high-bandpass foucault aperture for electron microscopy

    DOEpatents

    Glaeser, Robert; Cambie, Rossana; Jin, Jian

    2014-08-26

    A variant of the Foucault (knife-edge) aperture is disclosed that is designed to provide single-sideband (SSB) contrast at low spatial frequencies but retain conventional double-sideband (DSB) contrast at high spatial frequencies in transmission electron microscopy. The aperture includes a plate with an inner open area, a support extending from the plate at an edge of the open area, a half-circle feature mounted on the support and located at the center of the aperture open area. The radius of the half-circle portion of reciprocal space that is blocked by the aperture can be varied to suit the needs of electron microscopy investigation. The aperture is fabricated from conductive material which is preferably non-oxidizing, such as gold, for example.

  15. Ethics, government and sexual health: insights from Foucault.

    PubMed

    Winch, Sarah

    2005-03-01

    The work of Michel Foucault, the French philosopher who was interested in power relationships, has resonated with many nurses who seek a radically analytical view of nursing practice. The purpose of this article is to explore 'ethics' through a Foucauldian lens, in a conceptual and methodological sense. The intention is to provide a useful framework that will help researchers critically to explore aspects of nursing practice that relate to the construction of the self, morality and identity, be that nurse or patient related. The fundamentals of the research method of genealogy and the methods of ethics are reviewed. Using an example taken from the sexual health practice area, advice is given on how to structure data collection, incorporate interview data, avoid discourse determinism and measure resistance.

  16. [Madness in Foucault: art and madness, madness and unreason].

    PubMed

    Providello, Guilherme Gonzaga Duarte; Yasui, Silvio

    2013-10-01

    After presenting the ideas on madness and its interface with art as expressed in the writings of Michel Foucault, Peter Pál Pelbart, and Gilles Deleuze, the article explores how these authors question the relationship between art and madness. It begins with the notion that madness does not tell the truth about art, and vice versa, but that there are links between both that must be delved into if we are to engage in deeper reflection on the topic. The text problematizes the statement that madness is the absence of an oeuvre and examines how this impacts the possibility of achieving an artistic oeuvre. It further problematizes the idea of madness as excluded language, that is, the idea that madness implies not only the exclusion of the body but also the disqualification of discourse.

  17. Doing Foucault: inquiring into nursing knowledge with Foucauldian discourse analysis.

    PubMed

    Springer, Rusla Anne; Clinton, Michael E

    2015-04-01

    Foucauldian discourse analysis (FDA) is a methodology that is well suited to inquiring into nursing knowledge and its organization. It is a critical analytic approach derived from Foucault's histories of science, madness, medicine, incarceration and sexuality, all of which serve to exteriorize or make visible the 'positive unconscious of knowledge' penetrating bodies and minds. Foucauldian discourse analysis (FDA) holds the potential to reveal who we are today as nurses and as a profession of nursing by facilitating our ability to identify and trace the effects of the discourses that determine the conditions of possibility for nursing practice that are continuously shaping and (re)shaping the knowledge of nursing and the profession of nursing as we know it. In making visible the chain of knowledge that orders the spaces nurses occupy, no less than their subjectivities, FDA is a powerful methodology for inquiring into nursing knowledge based on its provocation of deep critical reflection on the normalizing power of discourse.

  18. A testimony to Muzil: Hervé Guibert, Foucault, and the medical gaze.

    PubMed

    Rendell, Joanne

    2004-01-01

    Testimony to Muzil: Hervé Guibert, Michel Foucault, and the "Medical Gaze" examines the fictional/autobiographical AIDS writings of the French writer Hervé Guibert. Locating Guibert's writings alongside the work of his friend Michel Foucault, the article explores how they echo Foucault's evolving notions of the "medical gaze." The article also explores how Guilbert's narrators and Guibert himself (as writer) resist and challenge the medical gaze; a gaze which particularly in the era of AIDS has subjected, objectified, and even sometimes punished the body of the gay man. It is argued that these resistances to the gaze offer a literary extension to Foucault's later work on power and resistance strategies.

  19. Interrogating discourse: the application of Foucault's methodological discussion to specific inquiry.

    PubMed

    Fadyl, Joanna K; Nicholls, David A; McPherson, Kathryn M

    2013-09-01

    Discourse analysis following the work of Michel Foucault has become a valuable methodology in the critical analysis of a broad range of topics relating to health. However, it can be a daunting task, in that there seems to be both a huge number of possible approaches to carrying out this type of project, and an abundance of different, often conflicting, opinions about what counts as 'Foucauldian'. This article takes the position that methodological design should be informed by ongoing discussion and applied as appropriate to a particular area of inquiry. The discussion given offers an interpretation and application of Foucault's methodological principles, integrating a reading of Foucault with applications of his work by other authors, showing how this is then applied to interrogate the practice of vocational rehabilitation. It is intended as a contribution to methodological discussion in this area, offering an interpretation of various methodological elements described by Foucault, alongside specific application of these aspects.

  20. Fractional Bloch oscillations in photonic lattices.

    PubMed

    Corrielli, Giacomo; Crespi, Andrea; Della Valle, Giuseppe; Longhi, Stefano; Osellame, Roberto

    2013-01-01

    Bloch oscillations, the oscillatory motion of a quantum particle in a periodic potential, are one of the most fascinating effects of coherent quantum transport. Originally studied in the context of electrons in crystals, Bloch oscillations manifest the wave nature of matter and are found in a wide variety of different physical systems. Here we report on the first experimental observation of fractional Bloch oscillations, using a photonic lattice as a model system of a two-particle extended Bose-Hubbard Hamiltonian. In our photonic simulator, the dynamics of two correlated particles hopping on a one-dimensional lattice is mapped into the motion of a single particle in a two-dimensional lattice with engineered defects and mimicked by light transport in a square waveguide lattice with a bent axis.

  1. Strategies for single particle manipulation using acoustic radiation forces and external tools

    NASA Astrophysics Data System (ADS)

    Oberti, Stefano; Neild, Adrian; Möller, Dirk; Dual, Jurg

    2010-01-01

    The use of primary acoustic radiation forces has been shown to be a valid technique for the handling of micron sized suspended particles, such as beads or biological cells. These forces arise as a nonlinear effect when an acoustic wave or vibration, which is set up in the fluid by exciting to resonance the system containing the suspension, interacts with the particles. The typical frequencies (upper kHz - lower MHz range) and the periodicity (in the range of hundreds of micrometers) of the acoustic field make this technique particularly suited for the handling of particles within microfluidic systems. A variety of devices for separation, fractionation, trapping and positioning of beads or biological cells, working both in batch or fluid flow mode, have been proposed. With the exception of the ports used to inject or remove the sample or the carrier medium, these systems can be considered as closed systems. Nevertheless, access to the particles with external tools is sometimes needed after acoustic manipulation has been performed. For instance, particles or cells pre-positioned in a sequence along the centerline of a channel using acoustic radiation forces need to be removed from it using a microgripper for further handling. Furthermore, in the field of crystallography research protein crystals have to be placed one by one onto a nylon loop prior to X-ray analysis with synchrotron radiation. This is usually done using the loop to pick up the crystal from the solution where it has been growing with other ones. As this process is sometimes repeated for a large number of crystals there are efforts to automate it. To this purpose it would be advantageous to bring the crystals spatially separated into a known position where they than can be sequentially collected with the loop. Here strategies for single particle manipulation are presented combining the effects of acoustic fields, fluid flow, surface tension and external tools. They are discussed by means of numerical

  2. Radiation damage in single-particle cryo-electron microscopy: effects of dose and dose rate

    PubMed Central

    Karuppasamy, Manikandan; Karimi Nejadasl, Fatemeh; Vulovic, Milos; Koster, Abraham J.; Ravelli, Raimond B. G.

    2011-01-01

    combined with an improved understanding of the effects of dose and dose rate will aid single-particle cryo-electron microscopists to have better control of the outcome of their experiments. PMID:21525648

  3. Radiation damage in single-particle cryo-electron microscopy: effects of dose and dose rate.

    PubMed

    Karuppasamy, Manikandan; Karimi Nejadasl, Fatemeh; Vulovic, Milos; Koster, Abraham J; Ravelli, Raimond B G

    2011-05-01

    an improved understanding of the effects of dose and dose rate will aid single-particle cryo-electron microscopists to have better control of the outcome of their experiments. PMID:21525648

  4. Nanoparticle size detection limits by single particle ICP-MS for 40 elements.

    PubMed

    Lee, Sungyun; Bi, Xiangyu; Reed, Robert B; Ranville, James F; Herckes, Pierre; Westerhoff, Paul

    2014-09-01

    The quantification and characterization of natural, engineered, and incidental nano- to micro-size particles are beneficial to assessing a nanomaterial's performance in manufacturing, their fate and transport in the environment, and their potential risk to human health. Single particle inductively coupled plasma mass spectrometry (spICP-MS) can sensitively quantify the amount and size distribution of metallic nanoparticles suspended in aqueous matrices. To accurately obtain the nanoparticle size distribution, it is critical to have knowledge of the size detection limit (denoted as Dmin) using spICP-MS for a wide range of elements (other than a few available assessed ones) that have been or will be synthesized into engineered nanoparticles. Herein is described a method to estimate the size detection limit using spICP-MS and then apply it to nanoparticles composed of 40 different elements. The calculated Dmin values correspond well for a few of the elements with their detectable sizes that are available in the literature. Assuming each nanoparticle sample is composed of one element, Dmin values vary substantially among the 40 elements: Ta, U, Ir, Rh, Th, Ce, and Hf showed the lowest Dmin values, ≤10 nm; Bi, W, In, Pb, Pt, Ag, Au, Tl, Pd, Y, Ru, Cd, and Sb had Dmin in the range of 11-20 nm; Dmin values of Co, Sr, Sn, Zr, Ba, Te, Mo, Ni, V, Cu, Cr, Mg, Zn, Fe, Al, Li, and Ti were located at 21-80 nm; and Se, Ca, and Si showed high Dmin values, greater than 200 nm. A range of parameters that influence the Dmin, such as instrument sensitivity, nanoparticle density, and background noise, is demonstrated. It is observed that, when the background noise is low, the instrument sensitivity and nanoparticle density dominate the Dmin significantly. Approaches for reducing the Dmin, e.g., collision cell technology (CCT) and analyte isotope selection, are also discussed. To validate the Dmin estimation approach, size distributions for three engineered nanoparticle samples were

  5. Foucault and the 'Anti-Oedipus movement': psychoanalysis as disciplinary power.

    PubMed

    Basaure, Mauro

    2009-09-01

    What psychiatry was for the anti-psychiatry movement, psychoanalysis was for the French 'Anti-Oedipus movement' represented by Robert Castel, Gilles Deleuze and Felix Guattari. Until now, the contribution of Foucault to this critical movement has been little known. In this paper I reconstruct in a systematic and exhaustive way Foucault's critique of psychoanalysis and, in particular, of the Oedipus-complex theory. I demonstrate that this critique presupposes a very specific epistemology and social theory. On an epistemological level, Foucault focuses on the power effects of psychoanalysis as a discourse of subjectivity. On a social-theoretical level, Foucault assumes a functionalist conception of society. These two aspects of Foucault's critique of psychoanalysis have not been adequately recognized in the discussion about his relationship to psychoanalysis (Derrida, Miller, Whitebook, among others). I argue that a fruitful dialogue between a Foucault-inspired critical social theory and psychoanalysis can take place only if these two distinct aspects are taken into account. PMID:20030163

  6. [Application of on-line single particle aerosol mass spectrometry (SPAMS) for studying major components in fine particulate matter].

    PubMed

    Fu, Huai-yu; Yan, Cai-qing; Zheng, Mei; Cai, Jing; Li, Xiao-ying; Zhang, Yan-jun; Zhou Zhen; Fu, Zhong; Li, Mei; Li, Lei; Zhang, Yuan-Hang

    2014-11-01

    Based on preliminary studies by aerosol time-of-flight mass spectrometer (ATOFMS) and single particle aerosol mass spectrometer (SPAMS), typical methods for identifying the number of particles (or particle count) for five major components including sulfate, nitrate, ammonium, organic carbon (OC), and elemental carbon (EC) in China and abroad were summarized. In this study, combined with the characteristics of single particle mass spectrum by SPAMS, an optimized method is proposed. With field measurement using SPAMS during January 2013 in Beijing, particle counts of sulfate, nitrate, ammonium, OC, and EC determined by different methods were compared. The comparison with results of off-line filter analyses for these five components proved that the method proposed in this study is comparable and optimized. We also suggest factors needed to be considered in future application of SPAMS and other areas that require in-depth research. PMID:25639078

  7. Continuous changes in structure mapped by manifold embedding of single-particle data in cryo-EM.

    PubMed

    Frank, Joachim; Ourmazd, Abbas

    2016-05-01

    Cryo-electron microscopy, when combined with single-particle reconstruction, is a powerful method for studying macromolecular structure. Recent developments in detector technology have pushed the resolution into a range comparable to that of X-ray crystallography. However, cryo-EM is able to separate and thus recover the structure of each of several discrete structures present in the sample. For the more general case involving continuous structural changes, a novel technique employing manifold embedding has been recently demonstrated. Potentially, the entire work-cycle of a molecular machine may be observed as it passes through a continuum of states, and its free-energy landscape may be mapped out. This technique will be outlined and discussed in the context of its application to a large single-particle dataset of yeast ribosomes. PMID:26884261

  8. [Application of on-line single particle aerosol mass spectrometry (SPAMS) for studying major components in fine particulate matter].

    PubMed

    Fu, Huai-yu; Yan, Cai-qing; Zheng, Mei; Cai, Jing; Li, Xiao-ying; Zhang, Yan-jun; Zhou Zhen; Fu, Zhong; Li, Mei; Li, Lei; Zhang, Yuan-Hang

    2014-11-01

    Based on preliminary studies by aerosol time-of-flight mass spectrometer (ATOFMS) and single particle aerosol mass spectrometer (SPAMS), typical methods for identifying the number of particles (or particle count) for five major components including sulfate, nitrate, ammonium, organic carbon (OC), and elemental carbon (EC) in China and abroad were summarized. In this study, combined with the characteristics of single particle mass spectrum by SPAMS, an optimized method is proposed. With field measurement using SPAMS during January 2013 in Beijing, particle counts of sulfate, nitrate, ammonium, OC, and EC determined by different methods were compared. The comparison with results of off-line filter analyses for these five components proved that the method proposed in this study is comparable and optimized. We also suggest factors needed to be considered in future application of SPAMS and other areas that require in-depth research.

  9. Continuous changes in structure mapped by manifold embedding of single-particle data in cryo-EM.

    PubMed

    Frank, Joachim; Ourmazd, Abbas

    2016-05-01

    Cryo-electron microscopy, when combined with single-particle reconstruction, is a powerful method for studying macromolecular structure. Recent developments in detector technology have pushed the resolution into a range comparable to that of X-ray crystallography. However, cryo-EM is able to separate and thus recover the structure of each of several discrete structures present in the sample. For the more general case involving continuous structural changes, a novel technique employing manifold embedding has been recently demonstrated. Potentially, the entire work-cycle of a molecular machine may be observed as it passes through a continuum of states, and its free-energy landscape may be mapped out. This technique will be outlined and discussed in the context of its application to a large single-particle dataset of yeast ribosomes.

  10. Synthesis of micro-sized shell-isolated 3D plasmonic superstructures for in situ single-particle SERS monitoring

    NASA Astrophysics Data System (ADS)

    Zhang, Kun; Zhao, Jingjing; Ji, Ji; Liu, Baohong

    2016-04-01

    A single-particle SERS system enabling real-time and in situ observation of Au-catalyzed reactions has been developed. Both the catalytic activity and the SERS effect are coupled into a single bi-functional 3D superstructure comprising Au nanosatellites self-assembled onto a shell-insulated Ag microflower core, which eliminates the interference from photocatalysis.A single-particle SERS system enabling real-time and in situ observation of Au-catalyzed reactions has been developed. Both the catalytic activity and the SERS effect are coupled into a single bi-functional 3D superstructure comprising Au nanosatellites self-assembled onto a shell-insulated Ag microflower core, which eliminates the interference from photocatalysis. Electronic supplementary information (ESI) available: Details of the synthesis and characterization of the Ag@SiO2@Au superstructures (SEM and TEM images, UV/vis and SERS spectra). See DOI: 10.1039/c6nr00278a

  11. Importance of the single-particle continuum in BCS pairing with a pseudostate basis

    NASA Astrophysics Data System (ADS)

    Lay, J. A.; Alonso, C. E.; Fortunato, L.; Vitturi, A.

    2016-05-01

    In a recent work [arXiv:1510.03185] the use of the Transformed Harmonic Oscillator (THO) basis for the discretization of the singleparticle continuum into a Generalized Bardeen-Cooper-Schrieffer (BCS) formalism was proposed for the description of weakly bound nuclei. We make use of the flexibility of this formalism to study the evolution of the pairing when the nucleus becomes more and more weakly bound. Specifically we focus on the evolution of the occupation of the different partial waves in 22O when the Fermi level approaches zero.

  12. Neurodynamic oscillators

    NASA Technical Reports Server (NTRS)

    Espinosa, Ismael; Gonzalez, Hortensia; Quiza, Jorge; Gonazalez, J. Jesus; Arroyo, Ruben; Lara, Ritaluz

    1995-01-01

    Oscillation of electrical activity has been found in many nervous systems, from invertebrates to vertebrates including man. There exists experimental evidence of very simple circuits with the capability of oscillation. Neurons with intrinsic oscillation have been found and also neural circuits where oscillation is a property of the network. These two types of oscillations coexist in many instances. It is nowadays hypothesized that behind synchronization and oscillation there is a system of coupled oscillators responsible for activities that range from locomotion and feature binding in vision to control of sleep and circadian rhythms. The huge knowledge that has been acquired on oscillators from the times of Lord Rayleigh has made the simulation of neural oscillators a very active endeavor. This has been enhanced with more recent physiological findings about small neural circuits by means of intracellular and extracellular recordings as well as imaging methods. The future of this interdisciplinary field looks very promising; some researchers are going into quantum mechanics with the idea of trying to provide a quantum description of the brain. In this work we describe some simulations using neuron models by means of which we form simple neural networks that have the capability of oscillation. We analyze the oscillatory activity with root locus method, cross-correlation histograms, and phase planes. In the more complicated neural network models there is the possibility of chaotic oscillatory activity and we study that by means of Lyapunov exponents. The companion paper shows an example of that kind.

  13. Calculated fission properties of the heaviest elements: Vol. 2, Calculated single-particle levels in heavy nuclei

    SciTech Connect

    Moeller, P.; Nix, J.R.; Swiatecki, W.

    1986-09-01

    The decay properties of nuclei in many cases depend strongly on the quantum numbers of the single-particle levels in the vicinity of the Fermi surface. A striking illustration is the prolonged fission half-lives of odd nuclei relative to their even neighbors. The hindrance factor depends on the spin of unpaired odd particle and increases with increasing spin of the odd particle. The effect has been studied theoretically. For /sup 257/Fm the hindrance factor is almost ten orders of magnitude. The computer code for calculating nuclear masses calculates single-particle levels at the deformations considered as one step in the calculations. This code has been run for all nuclei considered in the 1981 mass study and the calculated single-particle levels were stored on permanent mass storage. This is actually point (I.D.1) in the research plan ('UNIFIED MODEL ...'). A computer code has been constructed for extracting levels of nuclei that are specified to the program and plotting them. Four such plots are included in this report as figs. 1-4. The levels are plotted relative to the Fermi surface of each nucleus. It is clear from the pictures that for /sup 257/Fm the calculations predict the N = 157 neutron orbital to have spin 9/2+ as is also found experimentally. The high spin is the reason for the large hindrance factor for fission of /sup 257/Fm. Figures of the type included here may be used to quickly survey larger regions of nuclei for candidates for special properties, such as unusually large hindrance factors in fission. More detailed calculations are usually required to determine the magnitude of the effects. We also include tables of the plotted single-particle levels since it is not always possible to determine the spin from an inspection of the plots, when levels are overlapping. 4 figs.

  14. Facilitating model reconstruction for single-particle scattering using small-angle X-ray scattering methods1

    PubMed Central

    Ma, Shufen; Liu, Haiguang

    2016-01-01

    X-ray free-electron lasers generate intense femtosecond X-ray pulses, so that high-resolution structure determination becomes feasible from noncrystalline samples, such as single particles or single molecules. At the moment, the orientation of sample particles cannot be precisely controlled, and consequently the unknown orientation needs to be recovered using computational algorithms. This delays the model reconstruction until all the scattering patterns have been re-oriented, which often entails a long elapse of time and until the completion of the experiment. The scattering patterns from single particles or multiple particles can be summed to form a virtual powder diffraction pattern, and the low-resolution region, corresponding to the small-angle X-ray scattering (SAXS) regime, can be analysed using existing SAXS methods. This work presents a pipeline that converts single-particle data sets into SAXS data, from which real-time model reconstruction is achieved using the model retrieval approach implemented in the software package SASTBX [Liu, Hexemer & Zwart (2012). J. Appl. Cryst.45, 587–593]. To illustrate the applications, two case studies are presented with real experimental data sets collected at the Linac Coherent Light Source. PMID:27047310

  15. A local-optimization refinement algorithm in single particle analysis for macromolecular complex with multiple rigid modules.

    PubMed

    Shan, Hong; Wang, Zihao; Zhang, Fa; Xiong, Yong; Yin, Chang-Cheng; Sun, Fei

    2016-01-01

    Single particle analysis, which can be regarded as an average of signals from thousands or even millions of particle projections, is an efficient method to study the three-dimensional structures of biological macromolecules. An intrinsic assumption in single particle analysis is that all the analyzed particles must have identical composition and conformation. Thus specimen heterogeneity in either composition or conformation has raised great challenges for high-resolution analysis. For particles with multiple conformations, inaccurate alignments and orientation parameters will yield an averaged map with diminished resolution and smeared density. Besides extensive classification approaches, here based on the assumption that the macromolecular complex is made up of multiple rigid modules whose relative orientations and positions are in slight fluctuation around equilibriums, we propose a new method called as local optimization refinement to address this conformational heterogeneity for an improved resolution. The key idea is to optimize the orientation and shift parameters of each rigid module and then reconstruct their three-dimensional structures individually. Using simulated data of 80S/70S ribosomes with relative fluctuations between the large (60S/50S) and the small (40S/30S) subunits, we tested this algorithm and found that the resolutions of both subunits are significantly improved. Our method provides a proof-of-principle solution for high-resolution single particle analysis of macromolecular complexes with dynamic conformations.

  16. A tilt-pair based method for assigning the projection directions of randomly oriented single-particle molecules.

    PubMed

    Ueno, Yutaka; Mine, Shouhei; Kawasaki, Kazunori

    2015-04-01

    In this article, we describe an improved method to assign the projection angle for averaged images using tilt-pair images for three-dimensional reconstructions from randomly oriented single-particle molecular images. Our study addressed the so-called 'initial volume problem' in the single-particle reconstruction, which involves estimation of projection angles of the particle images. The projected images of the particles in different tilt observations were mixed and averaged for the characteristic views. After the ranking of these group average images in terms of reliable tilt angle information, mutual tilt angles between images are assigned from the constituent tilt-pair information. Then, multiples of the conical tilt series are made and merged to construct a network graph of the particle images in terms of projection angles, which are optimized for the three-dimensional reconstruction. We developed the method with images of a synthetic object and applied it to a single-particle image data set of the purified deacetylase from archaea. With the introduction of low-angle tilt observations to minimize unfavorable imaging conditions due to tilting, the results demonstrated reasonable reconstruction models without imposing symmetry to the structure. This method also guides its users to discriminate particle images of different conformational state of the molecule.

  17. Spin, charge, and single-particle spectral functions of the one-dimensional quarter filled Holstein model

    NASA Astrophysics Data System (ADS)

    Assaad, F. F.

    2008-10-01

    We use a recently developed extension of the weak-coupling diagrammatic determinantal quantum Monte Carlo method to investigate the spin, charge, and single-particle spectral functions of the one-dimensional quarter filled Holstein model with phonon frequency ω0=0.1t . As a function of the dimensionless electron-phonon coupling we observe a transition from a Luttinger to a Luther-Emery liquid with dominant 2kf charge fluctuations. Emphasis is placed on the temperature dependence of the single-particle spectral function. At high temperatures and in both phases it is well accounted for within a self-consistent Born approximation. In the low-temperature Luttinger liquid phase we observe features that compare favorably with a bosonization approach retaining only forward scattering. In the Luther-Emery phase, the spectral function at low temperatures shows a quasiparticle gap that matches half the spin gap, whereas at temperatures above which this quasiparticle gap closes characteristic features of the Luttinger liquid model are apparent. Our results are based on lattice simulations on chains up to L=20 for two-particle properties and on cluster dynamical mean-field theory calculations with clusters up to 12 sites for the single-particle spectral function.

  18. Single-Particle Cryo-EM and 3D Reconstruction of Hybrid Nanoparticles with Electron-Dense Components.

    PubMed

    Yu, Guimei; Yan, Rui; Zhang, Chuan; Mao, Chengde; Jiang, Wen

    2015-10-01

    Single-particle cryo-electron microscopy (cryo-EM), accompanied with 3D reconstruction, is a broadly applicable tool for the structural characterization of macromolecules and nanoparticles. Recently, the cryo-EM field has pushed the limits of this technique to higher resolutions and samples of smaller molecular mass, however, some samples still present hurdles to this technique. Hybrid particles with electron-dense components, which have been studied using single-particle cryo-EM yet with limited success in 3D reconstruction due to the interference caused by electron-dense elements, constitute one group of such challenging samples. To process such hybrid particles, a masking method is developed in this work to adaptively remove pixels arising from electron-dense portions in individual projection images while maintaining maximal biomass signals for subsequent 2D alignment, 3D reconstruction, and iterative refinements. As demonstrated by the success in 3D reconstruction of an octahedron DNA/gold hybrid particle, which has been previously published without a 3D reconstruction, the devised strategy that combines adaptive masking and standard single-particle 3D reconstruction approach has overcome the hurdle of electron-dense elements interference, and is generally applicable to cryo-EM structural characterization of most, if not all, hybrid nanomaterials with electron-dense components.

  19. Bloch-Landau-Zener dynamics in single-particle Wannier-Zeeman systems

    NASA Astrophysics Data System (ADS)

    Ke, Yongguan; Qin, Xizhou; Zhong, Honghua; Huang, Jiahao; He, Chunshan; Lee, Chaohong

    2015-05-01

    Stimulated by the experimental realization of spin-dependent tunneling via a gradient magnetic field [C. J. Kennedy et al., Phys. Rev. Lett. 111, 225301 (2013);, 10.1103/PhysRevLett.111.225301 M. Aidelsburger et al., Phys. Rev. Lett. 111, 185301 (2013), 10.1103/PhysRevLett.111.185301], we investigate the dynamics of Bloch oscillations and Landau-Zener tunneling of single spin-half particles in a periodic potential under the influence of a spin-dependent constant force. In analogy to the Wannier-Stark system, we call our system the Wannier-Zeeman system. If there is no coupling between the two spin states, the system can be described by two crossing Wannier-Stark ladders with opposite tilts. The spatial crossing between two Wannier-Stark ladders becomes a spatial anticrossing if the two spin states are coupled by external fields. For a wave packet away from the spatial anticrossing, due to the spin-dependent constant force, it will undergo spatial Landau-Zener transitions assisted by the intrinsic intraband Bloch oscillations, which we call the Bloch-Landau-Zener dynamics. If the interspin coupling is sufficiently strong, the system undergoes adiabatic Bloch-Landau-Zener dynamics, in which the spin dynamics follows the local dressed states. Otherwise, for nonstrong interspin couplings, the system undergoes nonadiabatic Bloch-Landau-Zener dynamics.

  20. Enrichment of Mineral Dust Storm Particles with Sea Salt Elements - Using bulk and Single Particle Analyses

    NASA Astrophysics Data System (ADS)

    Mamane, Y.; Perrino, C.; Yossef, O.

    2009-12-01

    Mineral aerosol emitted from African and Asian deserts plays an important role in the atmosphere. During their long-range transport, the physical and chemical properties of mineral dust particles change due to heterogeneous reactions with trace gases, coagulation with other particles, and in-cloud processing. These processes affect the optical and hygroscopic properties of dust particles, and in general influencing the physics and chemistry of the atmosphere. Four African and Arabian dust storm episodes affecting the East Mediterranean Coast in the spring of 2006 have been characterized, to determine if atmospheric natural dust particles are enriched with sea salt and anthropogenic pollution. Particle samplers included PM10 and manual dichotomous sampler that collected fine and coarse particles. Three sets of filters were used: Teflon filters for gravimetric, elemental and ionic analyses; Pre-fired Quartz-fiber filters for elemental and organic carbon; and Nuclepore filters for scanning electron microscopy analysis. Computer-controlled scanning electron microscopy (Philips XL 30 ESEM) was used to analyze single particle, for morphology, size and chemistry of selected filter samples. A detailed chemical and microscopical characterization has been performed for the particles collected during dust event days and during clear days. The Saharan and Arabian air masses increased significantly the daily mass concentrations of the coarse and the fine particle fractions. Carbonates, mostly as soil calcites mixed with dolomites, and silicates are the major components of the coarse fraction, followed by sea salt particles. In addition, the levels of anthropogenic heavy metals and sea salt elements registered during the dust episode were considerably higher than levels recorded during clear days. Sea salt elements contain Na and Cl, and smaller amounts of Mg, K, S and Br. Cl ranges from 300 to 5500 ng/m3 and Na from 100 to almost 2400 ng/m3. The Cl to Na ratio on dusty days in

  1. Developing new optical imaging techniques for single particle and molecule tracking in live cells

    SciTech Connect

    Sun, Wei

    2010-01-01

    Differential interference contrast (DIC) microscopy is a far-field as well as wide-field optical imaging technique. Since it is non-invasive and requires no sample staining, DIC microscopy is suitable for tracking the motion of target molecules in live cells without interfering their functions. In addition, high numerical aperture objectives and condensers can be used in DIC microscopy. The depth of focus of DIC is shallow, which gives DIC much better optical sectioning ability than those of phase contrast and dark field microscopies. In this work, DIC was utilized to study dynamic biological processes including endocytosis and intracellular transport in live cells. The suitability of DIC microscopy for single particle tracking in live cells was first demonstrated by using DIC to monitor the entire endocytosis process of one mesoporous silica nanoparticle (MSN) into a live mammalian cell. By taking advantage of the optical sectioning ability of DIC, we recorded the depth profile of the MSN during the endocytosis process. The shape change around the nanoparticle due to the formation of a vesicle was also captured. DIC microscopy was further modified that the sample can be illuminated and imaged at two wavelengths simultaneously. By using the new technique, noble metal nanoparticles with different shapes and sizes were selectively imaged. Among all the examined metal nanoparticles, gold nanoparticles in rod shapes were found to be especially useful. Due to their anisotropic optical properties, gold nanorods showed as diffraction-limited spots with disproportionate bright and dark parts that are strongly dependent on their orientation in the 3D space. Gold nanorods were developed as orientation nanoprobes and were successfully used to report the self-rotation of gliding microtubules on kinesin coated substrates. Gold nanorods were further used to study the rotational motions of cargoes during the endocytosis and intracellular transport processes in live mammalian

  2. The development of optical microscopy techniques for the advancement of single-particle studies

    SciTech Connect

    Marchuk, Kyle

    2013-05-15

    Single particle orientation and rotational tracking (SPORT) has recently become a powerful optical microscopy tool that can expose many molecular motions. Unfortunately, there is not yet a single microscopy technique that can decipher all particle motions in all environmental conditions, thus there are limitations to current technologies. Within, the two powerful microscopy tools of total internal reflection and interferometry are advanced to determine the position, orientation, and optical properties of metallic nanoparticles in a variety of environments. Total internal reflection is an optical phenomenon that has been applied to microscopy to produce either fluorescent or scattered light. The non-invasive far-field imaging technique is coupled with a near-field illumination scheme that allows for better axial resolution than confocal microscopy and epi-fluorescence microscopy. By controlling the incident illumination angle using total internal reflection fluorescence (TIRF) microscopy, a new type of imaging probe called “non-blinking” quantum dots (NBQDs) were super-localized in the axial direction to sub-10-nm precision. These particles were also used to study the rotational motion of microtubules being propelled by the motor protein kinesin across the substrate surface. The same instrument was modified to function under total internal reflection scattering (TIRS) microscopy to study metallic anisotropic nanoparticles and their dynamic interactions with synthetic lipid bilayers. Utilizing two illumination lasers with opposite polarization directions at wavelengths corresponding to the short and long axis surface plasmon resonance (SPR) of the nanoparticles, both the in-plane and out-of-plane movements of many particles could be tracked simultaneously. When combined with Gaussian point spread function (PSF) fitting for particle super-localization, the binding status and rotational movement could be resolved without degeneracy. TIRS microscopy was also used to

  3. The development of optical microscopy techniques for the advancement of single-particle studies

    NASA Astrophysics Data System (ADS)

    Marchuk, Kyle

    Single particle orientation and rotational tracking (SPORT) has recently become a powerful optical microscopy tool that can expose many molecular motions. Unfortunately, there is not yet a single microscopy technique that can decipher all particle motions in all environmental conditions, thus there are limitations to current technologies. Within, the two powerful microscopy tools of total internal reflection and interferometry are advanced to determine the position, orientation, and optical properties of metallic nanoparticles in a variety of environments. Total internal reflection is an optical phenomenon that has been applied to microscopy to produce either fluorescent or scattered light. The non-invasive far-field imaging technique is coupled with a near-field illumination scheme that allows for better axial resolution than confocal microscopy and epi-fluorescence microscopy. By controlling the incident illumination angle using total internal reflection fluorescence (TIRF) microscopy, a new type of imaging probe called "non-blinking" quantum dots (NBQDs) were super-localized in the axial direction to sub-10-nm precision. These particles were also used to study the rotational motion of microtubules being propelled by the motor protein kinesin across the substrate surface. The same instrument was modified to function under total internal reflection scattering (TIRS) microscopy to study metallic anisotropic nanoparticles and their dynamic interactions with synthetic lipid bilayers. Utilizing two illumination lasers with opposite polarization directions at wavelengths corresponding to the short and long axis surface plasmon resonance (SPR) of the nanoparticles, both the in-plane and out-of-plane movements of many particles could be tracked simultaneously. When combined with Gaussian point spread function (PSF) fitting for particle super-localization, the binding status and rotational movement could be resolved without degeneracy. TIRS microscopy was also used to

  4. Sensitivity of the Single Particle Soot Photometer to different black carbon types

    NASA Astrophysics Data System (ADS)

    Laborde, M.; Mertes, P.; Zieger, P.; Dommen, J.; Baltensperger, U.; Gysel, M.

    2012-05-01

    Black carbon (BC) is now mainly of anthropogenic origin. It is the dominant light absorbing component of atmospheric aerosols, playing an important role in the earth's radiative balance and therefore relevant to climate change studies. In addition, BC is known to be harmful to human beings making it relevant to policy makers. Nevertheless, the measurement of BC remains biased by the instrument-based definition of BC. The Single Particle Soot Photometer (SP2), allows the measurement of the refractory BC (rBC) mass of individual particles using laser-induced incandescence. However, the SP2 needs an empirical calibration to retrieve the rBC mass from the incandescence signal and the sensitivity of the SP2 differs between different BC types. Ideally, for atmospheric studies, the SP2 should be calibrated using ambient particles containing a known mass of ambient rBC. However, such "ambient BC" calibration particles cannot easily be obtained and thus commercially available BC particles are commonly used for SP2 calibration instead. In this study we tested the sensitivity of the SP2 to different BC types in order to characterize the potential error introduced by using non-ambient BC for calibration. The sensitivity of the SP2 was determined, using an aerosol particle mass analyzer, for rBC from thermodenuded diesel exhaust, wood burning exhaust and ambient particles as well as for commercially available products: Aquadag® and fullerene soot. Thermodenuded, fresh diesel exhaust has been found to be ideal for SP2 calibration for two reasons. First, the small amount of non-BC matter upon emission reduces the risk of bias due to incomplete removal of non-BC matter and second, it is considered to represent atmospheric rBC in urban locations where diesel exhaust is the main source of BC. The SP2 was found to be up to 16% less sensitive to rBC from thermodenuded ambient particles (≤15 fg) than rBC from diesel exhaust, however, at least part of this difference can be explained

  5. Oscillations of a spring-magnet system damped by a conductive plate

    NASA Astrophysics Data System (ADS)

    Ladera, C. L.; Donoso, G.

    2013-09-01

    We study the motion of a spring-magnet system that oscillates with very low frequencies above a circular horizontal non-magnetizable conductive plate. The magnet oscillations couple with the plate via the Foucault currents induced therein. We develop a simple theoretical model for this magneto-mechanical oscillator, a model that leads to the equation of a damped harmonic oscillator, whose weak attenuation constant depends upon the system parameters, e.g. the electrical conductivity of the constituent material of the plate and its thickness. We present a set of validating experiments, the results of which are predicted with good accuracy by our analytical model. Additional experiments can be performed with this oscillating system or its variants. This oscillator is simple and low-cost, easy to assemble, and can be used in experiments or project works in physics teaching laboratories at the undergraduate level.

  6. Mobilizing Foucault: history, subjectivity and autonomous learners in nurse education.

    PubMed

    Darbyshire, Chris; Fleming, Valerie E M

    2008-12-01

    In the past 20, years the impact of progressive educational theories have become influential in nurse education particularly in relation to partnership and empowerment between lecturers and students and the development of student autonomy. The introduction of these progressive theories was in response to the criticisms that nurse education was characterized by hierarchical and asymmetrical power relationships between lecturers and students that encouraged rote learning and stifled student autonomy. This article explores how the work of Michel Foucault can be mobilized to think about autonomy in three different yet overlapping ways: as a historical event; as a discursive practice; and as part of an overall strategy to produce a specific student subject position. The implications for educational practice are that, rather than a site where students are empowered, nurse education is both a factory and a laboratory where new subjectivities are continually being constructed. This suggests that empowering practices and disciplinary practices uneasily co-exist. Critical reflection needs to be directed not only at structural dimensions of power but also on ourselves as students and lecturers by asking a Foucauldian question: How are you interested in autonomy?

  7. Foucault and nursing: a history of the present.

    PubMed

    Gastaldo, D; Holmes, D

    1999-12-01

    While a commitment to the development of nursing theory has been a significant force in nursing scholarship, particularly in the US, the authors have noted a recent trend among nurses in different countries to develop Foucauldian interpretations of nursing. The objective of this paper is to identify those publications by nurses that employ a Foucauldian perspective and to provide a useful summative review of these works to date, which illustrate the potential contribution of a Foucauldian reading of nursing. The authors have reviewed 27 publications written by nurses which present a Foucauldian analysis. These publications were issued between 1987 and 1998 in English, Portuguese and German. The most frequent concepts treated in the literature reviewed are power/knowledge, surveillance, discourse, discipline, resistance, docile bodies, clinical gaze, and panopticon. The literature reviewed illustrates that Foucault's concepts can have a profound impact on the way we conceive of nursing as a discipline and as a profession. Nursing care becomes a political event, nursing knowledge contributes to the dissemination of regimes of truth, and nurses, rather than being powerless, are perceived as professionals who exercise power over life in society. A Foucauldian reading of nursing enables nurses to move into a broader interdisciplinary and critical scholarship.

  8. Foucault's and Arendt's "insider view" of biopolitics: a critique of Agamben.

    PubMed

    Blencowe, Claire

    2010-01-01

    This article revisits Arendt's and Foucault's converging accounts of modern (bio)politics and the entry of biological life into politics. Agamben's influential account of these ideas is rejected as a misrepresentation both because it de-historicizes biological/organic life and because it occludes the positivity of that life and thus the discursive appeal and performative force of biopolitics. Through attention to the genealogy of Arendt's and Foucault's own ideas we will see that the major point of convergence in their thinking is their insistence upon understanding biological thinking from the inside, in terms of its positivity. Agamben's assessment of modern politics is closer to Arendt's than it is to Foucault's and this marks a fascinating point of disagreement between Arendt and Foucault. Whereas Arendt sees the normalizing force of modern society as being in total opposition to individuality, Foucault posits totalization and individuation as processes of normation, which casts a light upon the relative import they place upon politics and ethics.

  9. Evaluation of number concentration quantification by single-particle inductively coupled plasma mass spectrometry: microsecond vs. millisecond dwell times.

    PubMed

    Abad-Álvaro, Isabel; Peña-Vázquez, Elena; Bolea, Eduardo; Bermejo-Barrera, Pilar; Castillo, Juan R; Laborda, Francisco

    2016-07-01

    The quality of the quantitative information in single-particle inductively coupled plasma mass spectrometry (SP-ICP-MS) depends directly on the number concentration of the nanoparticles in the sample analyzed, which is proportional to the flux of nanoparticles through the plasma. Particle number concentrations must be selected in accordance with the data acquisition frequency, to control the precision from counting statistics and the bias, which is produced by the occurrence of multiple-particle events recorded as single-particle events. With quadrupole mass spectrometers, the frequency of data acquisition is directly controlled by the dwell time. The effect of dwell times from milli- to microseconds (10 ms, 5 ms, 100 μs, and 50 μs) on the quality of the quantitative data has been studied. Working with dwell times in the millisecond range, precision figures about 5 % were achieved, whereas using microsecond dwell times, the suitable fluxes of nanoparticles are higher and precision was reduced down to 1 %; this was independent of the dwell time selected. Moreover, due to the lower occurrence of multiple-nanoparticle events, linear ranges are wider when dwell times equal to or shorter than 100 μs are used. A calculation tool is provided to determine the optimal concentration for any instrument or experimental conditions selected. On the other hand, the use of dwell times in the microsecond range reduces significantly the contribution of the background and/or the presence of dissolved species, in comparison with the use of millisecond dwell times. Although the use of dwell times equal to or shorter than 100 μs offers improved performance working in single-particle mode, the use of conventional dwell times (3-10 ms) should not be discarded, once their limitations are known.

  10. Correlated motion of electrons on the Au(111) surface: anomalous acoustic surface-plasmon dispersion and single-particle excitations.

    PubMed

    Vattuone, L; Smerieri, M; Langer, T; Tegenkamp, C; Pfnür, H; Silkin, V M; Chulkov, E V; Echenique, P M; Rocca, M

    2013-03-22

    The linear dispersion of the low-dimensional acoustic surface plasmon (ASP) opens perspectives in energy conversion, transport, and confinement far below optical frequencies. Although the ASP exists in a wide class of materials, ranging from metal surfaces and ultrathin films to graphene and topological insulators, its properties are still largely unexplored. Taking Au(111) as a model system, our combined experimental and theoretical study revealed an intriguing interplay between collective and single particle excitations, causing the ASP associated with the Shockley surface state to be embedded within the intraband transitions without losing its sharp character and linear dispersion. PMID:25166849

  11. Transformation of a Foucault shadowgram into the geometrical model of a shear interferogram by means of isophotometry

    NASA Astrophysics Data System (ADS)

    Zhevlakov, A. P.; Zatsepina, M. E.; Kirillovskii, V. K.

    2014-06-01

    The principles of transformation of a Foucault shadowgram into a quantitative map of wave-front deformation based on creation of a system of isophotes are unveiled. The presented studies and their results prove that there is a high degree of correspondence between a Foucault shadowgram and the geometrical model of a shear interferogram with respect to displaying wave-front deformations.

  12. Single-particle structure of neutron-rich N = 40 isotopes: A new Island of Inversion

    NASA Astrophysics Data System (ADS)

    Wimmer, Kathrin; e12012 Collaboration

    2014-09-01

    The region around neutron-rich N = 40 nuclei has recently attracted a lot of interest. The high-lying 2+ state in 68Ni and its small transition probability to the ground state are a result of the N = 40 harmonic oscillator shell gap between the fp shell and the 1g9/2 orbital. This shell gap is reduced for the more neutron-rich Fe and Cr isotopes. In the shell model the increase in B(E2) values and the decrease in 2+ excitation energy can only be reproduced if the neutron 1g9/2 and 2d5/2 intruder orbitals are included in the model space. Spectroscopic studies of neutron-rich nuclei around N = 40 have been performed at the NSCL utilizing the S800 spectrometer and the GRETINA gamma detector array. The study focused on the one-neutron removal reactions from 64,66Fe. This experiment employed a new technique of combined prompt and delayed gamma-spectroscopy allowing to quantify the occupancy of the intruder neutron 1g9/2 and 2d5/2 orbitals in 64,66Fe. Comparison of the measured spectroscopic factors with large-scale shell model calculations show a significant occupation of the intruder orbitals across the N = 40 sub-shell gap. Therefore the existence of a new Island of Inversion at N = 40 as been experimentally verified for the first time. The region around neutron-rich N = 40 nuclei has recently attracted a lot of interest. The high-lying 2+ state in 68Ni and its small transition probability to the ground state are a result of the N = 40 harmonic oscillator shell gap between the fp shell and the 1g9/2 orbital. This shell gap is reduced for the more neutron-rich Fe and Cr isotopes. In the shell model the increase in B(E2) values and the decrease in 2+ excitation energy can only be reproduced if the neutron 1g9/2 and 2d5/2 intruder orbitals are included in the model space. Spectroscopic studies of neutron-rich nuclei around N = 40 have been performed at the NSCL utilizing the S800 spectrometer and the GRETINA gamma detector array. The study focused on the one

  13. A Method for Oscillation Errors Restriction of SINS Based on Forecasted Time Series.

    PubMed

    Zhao, Lin; Li, Jiushun; Cheng, Jianhua; Jia, Chun; Wang, Qiufan

    2015-01-01

    Continuity, real-time, and accuracy are the key technical indexes of evaluating comprehensive performance of a strapdown inertial navigation system (SINS). However, Schuler, Foucault, and Earth periodic oscillation errors significantly cut down the real-time accuracy of SINS. A method for oscillation error restriction of SINS based on forecasted time series is proposed by analyzing the characteristics of periodic oscillation errors. The innovative method gains multiple sets of navigation solutions with different phase delays in virtue of the forecasted time series acquired through the measurement data of the inertial measurement unit (IMU). With the help of curve-fitting based on least square method, the forecasted time series is obtained while distinguishing and removing small angular motion interference in the process of initial alignment. Finally, the periodic oscillation errors are restricted on account of the principle of eliminating the periodic oscillation signal with a half-wave delay by mean value. Simulation and test results show that the method has good performance in restricting the Schuler, Foucault, and Earth oscillation errors of SINS. PMID:26193283

  14. A Method for Oscillation Errors Restriction of SINS Based on Forecasted Time Series

    PubMed Central

    Zhao, Lin; Li, Jiushun; Cheng, Jianhua; Jia, Chun; Wang, Qiufan

    2015-01-01

    Continuity, real-time, and accuracy are the key technical indexes of evaluating comprehensive performance of a strapdown inertial navigation system (SINS). However, Schuler, Foucault, and Earth periodic oscillation errors significantly cut down the real-time accuracy of SINS. A method for oscillation error restriction of SINS based on forecasted time series is proposed by analyzing the characteristics of periodic oscillation errors. The innovative method gains multiple sets of navigation solutions with different phase delays in virtue of the forecasted time series acquired through the measurement data of the inertial measurement unit (IMU). With the help of curve-fitting based on least square method, the forecasted time series is obtained while distinguishing and removing small angular motion interference in the process of initial alignment. Finally, the periodic oscillation errors are restricted on account of the principle of eliminating the periodic oscillation signal with a half-wave delay by mean value. Simulation and test results show that the method has good performance in restricting the Schuler, Foucault, and Earth oscillation errors of SINS. PMID:26193283

  15. Occupation probabilities of single particle levels using the microscopic interacting boson model: Application to some nuclei of interest in neutrinoless double-β decay

    NASA Astrophysics Data System (ADS)

    Kotila, J.; Barea, J.

    2016-09-01

    We have developed a new method to calculate the occupancies of single particle levels in atomic nuclei. This method has been developed in the context of the microscopic interacting boson model, in which neutron and proton degrees of freedom are treated explicitly. The energies of the single particle levels constitute a very important input for the calculation of the occupancies in this method. In principle these energies can be considered as input parameters that can be fitted to reproduce the experimental occupancies. Instead of fitting, in this study we have extracted the single particle energies from experimental data on nuclei with a particle more or one particle less than a shell closure. We provide the sets of these single particle energies suitable for several major shells and apply our method to calculate the occupancies of several nuclei of interest in neutrinoless double-β decay using these sets. Our results are compared with other theoretical calculations and experimental occupancies, when available.

  16. Power oscillator

    DOEpatents

    Gitsevich, Aleksandr

    2001-01-01

    An oscillator includes an amplifier having an input and an output, and an impedance transformation network connected between the input of the amplifier and the output of the amplifier, wherein the impedance transformation network is configured to provide suitable positive feedback from the output of the amplifier to the input of the amplifier to initiate and sustain an oscillating condition, and wherein the impedance transformation network is configured to protect the input of the amplifier from a destructive feedback signal. One example of the oscillator is a single active element device capable of providing over 70 watts of power at over 70% efficiency. Various control circuits may be employed to match the driving frequency of the oscillator to a plurality of tuning states of the lamp.

  17. Raindrop oscillations

    NASA Technical Reports Server (NTRS)

    Beard, K. V.

    1982-01-01

    A model of the change in shape of a raindrop is presented. Raindrops measured by two orthogonal cameras were classified by shape and orientation to determine the nature of the oscillation. A physical model based on potential energy was then developed to study the amplitude variation of oscillating drops. The model results show that oscillations occur about the equilibrium axis ratio, but the time average axis ratio if significantly more spherical for large amplitudes because of asymmetry in the surface potential energy. A generalization of the model to oscillations produced by turbulence yields average axis ratios that are consistent with the camera measurements. The model results for average axis ratios were applied to rainfall studies with a dual polarized radar.

  18. Excitation of the 4d shell in Sb, Te, and BaF2 with inelastic electron scattering: Collective or single particle?

    NASA Astrophysics Data System (ADS)

    Franck, Carl; Schnatterly, S. E.

    1982-06-01

    Simple models suggest that the momentum-transfer (q) dependence of inelastic electron scattering is sensitive to the difference between collective and single-particle behavior in atomic dynamics. We measured the energy centroid of the 4d continuum peak for 0single-particle description is favored.

  19. Interplay between single-particle and collective effects in the odd-A Cu isotopes beyond N=40.

    PubMed

    Stefanescu, I; Georgiev, G; Balabanski, D L; Blasi, N; Blazhev, A; Bree, N; Cederkäll, J; Cocolios, T E; Davinson, T; Diriken, J; Eberth, J; Ekström, A; Fedorov, D; Fedosseev, V N; Fraile, L M; Franchoo, S; Gladnishki, K; Huyse, M; Ivanov, O; Ivanov, V; Iwanicki, J; Jolie, J; Konstantinopoulos, T; Kröll, Th; Krücken, R; Köster, U; Lagoyannis, A; Lo Bianco, G; Maierbeck, P; Marsh, B A; Napiorkowski, P; Patronis, N; Pauwels, D; Rainovski, G; Reiter, P; Riisager, K; Seliverstov, M; Sletten, G; Van de Walle, J; Van Duppen, P; Voulot, D; Warr, N; Wenander, F; Wrzosek, K

    2008-03-21

    Collective properties of the low-lying levels in the odd-A 67-73Cu were investigated by Coulomb excitation with radioactive beams. The beams were produced at ISOLDE and postaccelerated by REX-ISOLDE up to 2.99 MeV/u. In 67,69Cu, low-lying 1/2(-), 5/2(-), and 7/2(-) states were populated. In 71,73Cu, besides the known transitions deexciting the single-particle-like 5/2(-) and core-coupled 7/2(-) levels, gamma rays of 454 and 135 keV, respectively, were observed for the first time. Based on a reanalysis of beta-decay work and comparison with the systematics, a spin 1/2(-) is suggested for these excited states. Three B(E2) values were determined in each of the four isotopes. The results indicate a significant change in the structure of the odd-A Cu isotopes beyond N=40 where single-particle-like and collective levels are suggested to coexist at very low excitation energies.

  20. Interplay between Single-Particle and Collective Effects in the Odd-A Cu Isotopes beyond N=40

    NASA Astrophysics Data System (ADS)

    Stefanescu, I.; Georgiev, G.; Balabanski, D. L.; Blasi, N.; Blazhev, A.; Bree, N.; Cederkäll, J.; Cocolios, T. E.; Davinson, T.; Diriken, J.; Eberth, J.; Ekström, A.; Fedorov, D.; Fedosseev, V. N.; Fraile, L. M.; Franchoo, S.; Gladnishki, K.; Huyse, M.; Ivanov, O.; Ivanov, V.; Iwanicki, J.; Jolie, J.; Konstantinopoulos, T.; Kröll, Th.; Krücken, R.; Köster, U.; Lagoyannis, A.; Lo Bianco, G.; Maierbeck, P.; Marsh, B. A.; Napiorkowski, P.; Patronis, N.; Pauwels, D.; Rainovski, G.; Reiter, P.; Riisager, K.; Seliverstov, M.; Sletten, G.; van de Walle, J.; van Duppen, P.; Voulot, D.; Warr, N.; Wenander, F.; Wrzosek, K.

    2008-03-01

    Collective properties of the low-lying levels in the odd-A Cu67 73 were investigated by Coulomb excitation with radioactive beams. The beams were produced at ISOLDE and postaccelerated by REX-ISOLDE up to 2.99MeV/u. In Cu67,69, low-lying 1/2-, 5/2-, and 7/2- states were populated. In Cu71,73, besides the known transitions deexciting the single-particle-like 5/2- and core-coupled 7/2- levels, γ rays of 454 and 135 keV, respectively, were observed for the first time. Based on a reanalysis of β-decay work and comparison with the systematics, a spin 1/2- is suggested for these excited states. Three B(E2) values were determined in each of the four isotopes. The results indicate a significant change in the structure of the odd-A Cu isotopes beyond N=40 where single-particle-like and collective levels are suggested to coexist at very low excitation energies.

  1. Single-particle cryoEM analysis at near-atomic resolution from several thousand asymmetric subunits.

    PubMed

    Passos, Dario Oliveira; Lyumkis, Dmitry

    2015-11-01

    A single-particle cryoEM reconstruction of the large ribosomal subunit from Saccharomyces cerevisiae was obtained from a dataset of ∼75,000 particles. The gold-standard and frequency-limited approaches to single-particle refinement were each independently used to determine orientation parameters for the final reconstruction. Both approaches showed similar resolution curves and nominal resolution values for the 60S dataset, estimated at 2.9 Å. The amount of over-fitting present during frequency-limited refinement was quantitatively analyzed using the high-resolution phase-randomization test, and the results showed no apparent over-fitting. The number of asymmetric subunits required to reach specific resolutions was subsequently analyzed by refining subsets of the data in an ab initio manner. With our data collection and processing strategies, sub-nanometer resolution was obtained with ∼200 asymmetric subunits (or, equivalently for the ribosomal subunit, particles). Resolutions of 5.6 Å, 4.5 Å, and 3.8 Å were reached with ∼1000, ∼1600, and ∼5000 asymmetric subunits, respectively. At these resolutions, one would expect to detect alpha-helical pitch, separation of beta-strands, and separation of Cα atoms, respectively. Using this map, together with strategies for ab initio model building and model refinement, we built a region of the ribosomal protein eL6, which was missing in previous models of the yeast ribosome. The relevance for more routine high-resolution structure determination is discussed.

  2. Massively parallel and highly quantitative single-particle analysis on interactions between nanoparticles on supported lipid bilayer.

    PubMed

    Lee, Young Kwang; Kim, Sungi; Oh, Jeong-Wook; Nam, Jwa-Min

    2014-03-12

    Observation of individual single-nanoparticle reactions provides direct information and insight for many complex chemical, physical, and biological processes, but this is utterly challenging with conventional high-resolution imaging techniques on conventional platforms. Here, we developed a photostable plasmonic nanoparticle-modified supported lipid bilayer (PNP-SLB) platform that allows for massively parallel in situ analysis of the interactions between nanoparticles with single-particle resolution on a two-dimensional (2D) fluidic surface. Each particle-by-particle PNP clustering process was monitored in real time and quantified via analysis of individual particle diffusion trajectories and single-particle-level plasmonic coupling. Importantly, the PNP-SLB-based nanoparticle cluster growth kinetics result was fitted well. As an application example, we performed a DNA detection assay, and the result suggests that our approach has very promising sensitivity and dynamic range (high attomolar to high femtomolar) without optimization, as well as remarkable single-base mismatch discrimination capability. The method shown herein can be readily applied for many different types of intermolecular and interparticle interactions and provide convenient tools and new insights for studying dynamic interactions on a highly controllable and analytical platform.

  3. Problems in obtaining perfect images by single-particle electron cryomicroscopy of biological structures in amorphous ice.

    PubMed

    Henderson, Richard; McMullan, Greg

    2013-02-01

    Theoretical considerations together with simulations of single-particle electron cryomicroscopy images of biological assemblies in ice demonstrate that atomic structures should be obtainable from images of a few thousand asymmetric units, provided the molecular weight of the whole assembly being studied is greater than the minimum needed for accurate position and orientation determination. However, with present methods of specimen preparation and current microscope and detector technologies, many more particles are needed, and the alignment of smaller assemblies is difficult or impossible. Only larger structures, with enough signal to allow good orientation determination and with enough images to allow averaging of many hundreds of thousands or even millions of asymmetric units, have successfully produced high-resolution maps. In this review, we compare the contrast of experimental electron cryomicroscopy images of two smaller molecular assemblies, namely apoferritin and beta-galactosidase, with that expected from perfect simulated images calculated from their known X-ray structures. We show that the contrast and signal-to-noise ratio of experimental images still require significant improvement before it will be possible to realize the full potential of single-particle electron cryomicroscopy. In particular, although reasonably good orientations can be obtained for beta-galactosidase, we have been unable to obtain reliable orientation determination from experimental images of apoferritin. Simulations suggest that at least 2-fold improvement of the contrast in experimental images at ~10 Å resolution is needed and should be possible.

  4. A comprehensive simulation framework for imaging single particles and biomolecules at the European X-ray Free-Electron Laser

    PubMed Central

    Yoon, Chun Hong; Yurkov, Mikhail V.; Schneidmiller, Evgeny A.; Samoylova, Liubov; Buzmakov, Alexey; Jurek, Zoltan; Ziaja, Beata; Santra, Robin; Loh, N. Duane; Tschentscher, Thomas; Mancuso, Adrian P.

    2016-01-01

    The advent of newer, brighter, and more coherent X-ray sources, such as X-ray Free-Electron Lasers (XFELs), represents a tremendous growth in the potential to apply coherent X-rays to determine the structure of materials from the micron-scale down to the Angstrom-scale. There is a significant need for a multi-physics simulation framework to perform source-to-detector simulations for a single particle imaging experiment, including (i) the multidimensional simulation of the X-ray source; (ii) simulation of the wave-optics propagation of the coherent XFEL beams; (iii) atomistic modelling of photon-material interactions; (iv) simulation of the time-dependent diffraction process, including incoherent scattering; (v) assembling noisy and incomplete diffraction intensities into a three-dimensional data set using the Expansion-Maximisation-Compression (EMC) algorithm and (vi) phase retrieval to obtain structural information. We demonstrate the framework by simulating a single-particle experiment for a nitrogenase iron protein using parameters of the SPB/SFX instrument of the European XFEL. This exercise demonstrably yields interpretable consequences for structure determination that are crucial yet currently unavailable for experiment design. PMID:27109208

  5. Single particle and molecular assembly analysis of polyribosomes by single- and double-tilt cryo electron tomography.

    PubMed

    Myasnikov, Alexander G; Afonina, Zhanna A; Klaholz, Bruno P

    2013-03-01

    Cryo electron tomography (cryo-ET) can provide cellular and molecular structural information on various biological samples. However, the detailed interpretation of tomograms reconstructed from single-tilt data tends to suffer from low signal-to-noise ratio and artefacts caused by some systematically missing angular views. While these can be overcome by sub-tomogram averaging, they remain limiting for the analysis of unique structures. Double-tilt ET can improve the tomogram quality by acquiring a second tilt series after an in-plane rotation, but its usage is not widespread yet because it is considered technically demanding and it is rarely used under cryo conditions. Here we show that double-tilt cryo-ET improves the quality of 3D reconstructions so significantly that even single particle analysis can be envisaged despite of the intrinsically low image contrast obtained from frozen-hydrated specimens. This is illustrated by the analysis of eukaryotic polyribosomes in which individual ribosomes were reconstructed using single-tilt, partial and full double-tilt geometries. The improved tomograms favour the faster convergence of iterative sub-tomogram averaging and allow a better 3D classification using multivariate statistical analysis. Our study of single particles and molecular assemblies within polysomes illustrates that the dual-axis approach is particularly useful for cryo applications of ET, both for unique objects and for structures that can be classified and averaged.

  6. A comprehensive simulation framework for imaging single particles and biomolecules at the European X-ray Free-Electron Laser.

    PubMed

    Yoon, Chun Hong; Yurkov, Mikhail V; Schneidmiller, Evgeny A; Samoylova, Liubov; Buzmakov, Alexey; Jurek, Zoltan; Ziaja, Beata; Santra, Robin; Loh, N Duane; Tschentscher, Thomas; Mancuso, Adrian P

    2016-01-01

    The advent of newer, brighter, and more coherent X-ray sources, such as X-ray Free-Electron Lasers (XFELs), represents a tremendous growth in the potential to apply coherent X-rays to determine the structure of materials from the micron-scale down to the Angstrom-scale. There is a significant need for a multi-physics simulation framework to perform source-to-detector simulations for a single particle imaging experiment, including (i) the multidimensional simulation of the X-ray source; (ii) simulation of the wave-optics propagation of the coherent XFEL beams; (iii) atomistic modelling of photon-material interactions; (iv) simulation of the time-dependent diffraction process, including incoherent scattering; (v) assembling noisy and incomplete diffraction intensities into a three-dimensional data set using the Expansion-Maximisation-Compression (EMC) algorithm and (vi) phase retrieval to obtain structural information. We demonstrate the framework by simulating a single-particle experiment for a nitrogenase iron protein using parameters of the SPB/SFX instrument of the European XFEL. This exercise demonstrably yields interpretable consequences for structure determination that are crucial yet currently unavailable for experiment design. PMID:27109208

  7. A comprehensive simulation framework for imaging single particles and biomolecules at the European X-ray Free-Electron Laser

    DOE PAGES

    Yoon, Chun Hong; Yurkov, Mikhail V.; Schneidmiller, Evgeny A.; Samoylova, Liubov; Buzmakov, Alexey; Jurek, Zoltan; Ziaja, Beata; Santra, Robin; Loh, N. Duane; Tschentscher, Thomas; et al

    2016-04-25

    The advent of newer, brighter, and more coherent X-ray sources, such as X-ray Free-Electron Lasers (XFELs), represents a tremendous growth in the potential to apply coherent X-rays to determine the structure of materials from the micron-scale down to the Angstrom-scale. There is a significant need for a multi-physics simulation framework to perform source-to-detector simulations for a single particle imaging experiment, including (i) the multidimensional simulation of the X-ray source; (ii) simulation of the wave-optics propagation of the coherent XFEL beams; (iii) atomistic modelling of photon-material interactions; (iv) simulation of the time-dependent diffraction process, including incoherent scattering; (v) assembling noisy andmore » incomplete diffraction intensities into a three-dimensional data set using the Expansion-Maximisation-Compression (EMC) algorithm and (vi) phase retrieval to obtain structural information. Furthermore, we demonstrate the framework by simulating a single-particle experiment for a nitrogenase iron protein using parameters of the SPB/SFX instrument of the European XFEL. This exercise demonstrably yields interpretable consequences for structure determination that are crucial yet currently unavailable for experiment design.« less

  8. A comprehensive simulation framework for imaging single particles and biomolecules at the European X-ray Free-Electron Laser

    NASA Astrophysics Data System (ADS)

    Yoon, Chun Hong; Yurkov, Mikhail V.; Schneidmiller, Evgeny A.; Samoylova, Liubov; Buzmakov, Alexey; Jurek, Zoltan; Ziaja, Beata; Santra, Robin; Loh, N. Duane; Tschentscher, Thomas; Mancuso, Adrian P.

    2016-04-01

    The advent of newer, brighter, and more coherent X-ray sources, such as X-ray Free-Electron Lasers (XFELs), represents a tremendous growth in the potential to apply coherent X-rays to determine the structure of materials from the micron-scale down to the Angstrom-scale. There is a significant need for a multi-physics simulation framework to perform source-to-detector simulations for a single particle imaging experiment, including (i) the multidimensional simulation of the X-ray source; (ii) simulation of the wave-optics propagation of the coherent XFEL beams; (iii) atomistic modelling of photon-material interactions; (iv) simulation of the time-dependent diffraction process, including incoherent scattering; (v) assembling noisy and incomplete diffraction intensities into a three-dimensional data set using the Expansion-Maximisation-Compression (EMC) algorithm and (vi) phase retrieval to obtain structural information. We demonstrate the framework by simulating a single-particle experiment for a nitrogenase iron protein using parameters of the SPB/SFX instrument of the European XFEL. This exercise demonstrably yields interpretable consequences for structure determination that are crucial yet currently unavailable for experiment design.

  9. Automated Single-Particle SEM/EDX Analysis of Submicron Particles down to 0.1 mu m

    SciTech Connect

    Laskin, Alexander ); Cowin, James P. )

    2000-12-01

    An automated single particle SEM/EDX analysis of aerosols deposited onto grid supported carbon film of 15-25 nm thickness is demonstrated. Use of the carbon film gives exceptionally low background in the SEM/EDAX and allows satisfied automated analysis of particles down to 0.1 mm size, including analysis of low-Z elements (C, O and N). In this work, six lab-generated 0.1-2 mm aerosols were tested for their elemental composition. The EDAX yields reasonably accurate quantitative results featuring all the elements presented in the tested compounds, namely C, O, N, Na, S, Al, Si and Cl. Furthermore, the carbon film has very low backscattered electron (BSE) yield compared to that from the particle, so in the BSE mode the particle image is seen with very high contrast. This greatly improves quality and speed of the automated mapping of particles by SEM prior to EDAX. The presented approach is believed to be a significant improvement over the automated single particle analysis in the elect ron microprobe based techniques, which usually provide limited information on low-Z elements and usually could not go below {approx}0.5 mm.

  10. The application of single particle aerosol mass spectrometry for the detection and identification of high explosives and chemical warfare agents

    SciTech Connect

    Martin, Audrey Noreen

    2006-01-01

    Single Particle Aerosol Mass Spectrometry (SPAMS) was evaluated as a real-time detection technique for single particles of high explosives. Dual-polarity time-of-flight mass spectra were obtained for samples of 2,4,6-trinitrotoluene (TNT), 1,3,5-trinitro-1,3,5-triazinane (RDX), and pentaerythritol tetranitrate (PETN); peaks indicative of each compound were identified. Composite explosives, Comp B, Semtex 1A, and Semtex 1H were also analyzed, and peaks due to the explosive components of each sample were present in each spectrum. Mass spectral variability with laser fluence is discussed. The ability of the SPAMS system to identify explosive components in a single complex explosive particle (~1 pg) without the need for consumables is demonstrated. SPAMS was also applied to the detection of Chemical Warfare Agent (CWA) simulants in the liquid and vapor phases. Liquid simulants for sarin, cyclosarin, tabun, and VX were analyzed; peaks indicative of each simulant were identified. Vapor phase CWA simulants were adsorbed onto alumina, silica, Zeolite, activated carbon, and metal powders which were directly analyzed using SPAMS. The use of metal powders as adsorbent materials was especially useful in the analysis of triethyl phosphate (TEP), a VX stimulant, which was undetectable using SPAMS in the liquid phase. The capability of SPAMS to detect high explosives and CWA simulants using one set of operational conditions is established.

  11. Programmable Oscillator

    NASA Technical Reports Server (NTRS)

    Quirk, Kevin J.; Patawaran, Ferze D.; Nguyen, Danh H.; Lee, Clement G.; Nguyen, Huy

    2011-01-01

    A programmable oscillator is a frequency synthesizer with an output phase that tracks an arbitrary function. An offset, phase-locked loop circuit is used in combination with an error control feedback loop to precisely control the output phase of the oscillator. To down-convert the received signal, several stages of mixing may be employed with the compensation for the time-base distortion of the carrier occurring at any one of those stages. In the Goldstone Solar System Radar (GSSR), the compensation occurs in the mixing from an intermediate frequency (IF), whose value is dependent on the station and band, to a common IF used in the final stage of down-conversion to baseband. The programmable oscillator (PO) is used in the final stage of down-conversion to generate the IF, along with a time-varying phase component that matches the time-base distortion of the carrier, thus removing it from the final down-converted signal.

  12. Validation of Gold and Silver Nanoparticle Analysis in Fruit Juices by Single-Particle ICP-MS without Sample Pretreatment.

    PubMed

    Witzler, Markus; Küllmer, Fabian; Hirtz, Annika; Günther, Klaus

    2016-05-25

    With the increasing use of nanoparticles in consumer products, the need for validated quantitation methods also rises. This becomes even more urgent because the risks of nanomaterials are still not conclusively assessed. Fast, accurate, and robust single-particle (sp) ICP-MS is a promising technique as it is capable of counting and sizing particles at very low concentrations at the same time. Another feature is the simultaneous distinction between dissolved and particulate analytes. The present study shows, for the first time to our knowledge, a method validation for the rapid analysis of silver and gold nanoparticles with sp-ICP-MS in fruit juices without sample preparation. The investigated matrices water, orange juice, and apple juice were spiked with particles and only diluted prior to measurement without using a digestion reagent. The validations regarding particle size are successful according to the German GTFCh's guideline with deviations of accuracy and precision below 15%.

  13. Single-particle tracking of immunoglobulin E receptors (FcεRI) in micron-sized clusters and receptor patches.

    PubMed

    Spendier, Kathrin; Lidke, Keith A; Lidke, Diane S; Thomas, James L

    2012-02-17

    When mast cells contact a monovalent antigen-bearing fluid lipid bilayer, IgE-loaded FcεRI receptors aggregate at contact points and trigger degranulation and the release of immune activators. We used two-color total internal reflection fluorescence microscopy and single-particle tracking to show that most fluorescently labeled receptor complexes diffuse freely within these micron-size clusters, with a diffusion coefficient comparable to free receptors in resting cells. At later times, when the small clusters coalesce to form larger patches, receptors diffuse even more rapidly. In all cases, Monte Carlo diffusion simulations ensured that the tracking results were free of bias, and distinguished biological from statistical variation. These results show the diversity in receptor mobility in mast cells, demonstrating at least three distinct states of receptor diffusivity.

  14. Single Particle Deformation and Analysis of Silica-Coated Gold Nanorods before and after Femtosecond Laser Pulse Excitation

    PubMed Central

    2016-01-01

    We performed single particle deformation experiments on silica-coated gold nanorods under femtosecond (fs) illumination. Changes in the particle shape were analyzed by electron microscopy and associated changes in the plasmon resonance by electron energy loss spectroscopy. Silica-coated rods were found to be more stable compared to uncoated rods but could still be deformed via an intermediate bullet-like shape for silica shell thicknesses of 14 nm. Changes in the size ratio of the rods after fs-illumination resulted in blue-shifting of the longitudinal plasmon resonances. Two-dimensional spatial mapping of the plasmon resonances revealed that the flat side of the bullet-like particles showed a less pronounced longitudinal plasmonic electric field enhancement. These findings were confirmed by finite-difference time-domain (FDTD) simulations. Furthermore, at higher laser fluences size reduction of the particles was found as well as for particles that were not completely deformed yet. PMID:26871607

  15. Single Particle Deformation and Analysis of Silica-Coated Gold Nanorods before and after Femtosecond Laser Pulse Excitation.

    PubMed

    Albrecht, Wiebke; Deng, Tian-Song; Goris, Bart; van Huis, Marijn A; Bals, Sara; van Blaaderen, Alfons

    2016-03-01

    We performed single particle deformation experiments on silica-coated gold nanorods under femtosecond (fs) illumination. Changes in the particle shape were analyzed by electron microscopy and associated changes in the plasmon resonance by electron energy loss spectroscopy. Silica-coated rods were found to be more stable compared to uncoated rods but could still be deformed via an intermediate bullet-like shape for silica shell thicknesses of 14 nm. Changes in the size ratio of the rods after fs-illumination resulted in blue-shifting of the longitudinal plasmon resonances. Two-dimensional spatial mapping of the plasmon resonances revealed that the flat side of the bullet-like particles showed a less pronounced longitudinal plasmonic electric field enhancement. These findings were confirmed by finite-difference time-domain (FDTD) simulations. Furthermore, at higher laser fluences size reduction of the particles was found as well as for particles that were not completely deformed yet.

  16. Insight into the three-dimensional structure of maize chlorotic mottle virus revealed by Cryo-EM single particle analysis.

    PubMed

    Wang, Chun-Yan; Zhang, Qin-Fen; Gao, Yuan-Zhu; Zhou, Xue-Ping; Ji, Gang; Huang, Xiao-Jun; Hong, Jian; Zhang, Chuan-Xi

    2015-11-01

    Maize chlorotic mottle virus (MCMV) is the only member of the Machlomovirus genus in the family Tombusviridae. Here, we obtained the Cryo-EM structure of MCMV by single particle analysis with most local resolution at approximately 4 Å. The Cα backbone was built based on residues with bulky side chains. The resolved C-terminus of the capsid protein subunit and obvious openings at the 2-fold axis demonstrated the compactness of the asymmetric unit, which indicates an important role in the stability of MCMV. The Asp116 residue from each subunit around the 5-fold and 3-fold axes contributed to the negative charges in the centers of the pentamers and hexamers, which might serve as a solid barrier against the leakage of genomic RNA. Finally, the loops most exposed on the surface were analyzed and are proposed to be potential functional sites related to MCMV transmission.

  17. Expansion-maximization-compression algorithm with spherical harmonics for single particle imaging with x-ray lasers.

    PubMed

    Flamant, Julien; Le Bihan, Nicolas; Martin, Andrew V; Manton, Jonathan H

    2016-05-01

    In three-dimensional (3D) single particle imaging with x-ray free-electron lasers, particle orientation is not recorded during measurement but is instead recovered as a necessary step in the reconstruction of a 3D image from the diffraction data. Here we use harmonic analysis on the sphere to cleanly separate the angular and radial degrees of freedom of this problem, providing new opportunities to efficiently use data and computational resources. We develop the expansion-maximization-compression algorithm into a shell-by-shell approach and implement an angular bandwidth limit that can be gradually raised during the reconstruction. We study the minimum number of patterns and minimum rotation sampling required for a desired angular and radial resolution. These extensions provide new avenues to improve computational efficiency and speed of convergence, which are critically important considering the very large datasets expected from experiment.

  18. Electron counting and beam-induced motion correction enable near atomic resolution single particle cryoEM

    PubMed Central

    Li, Xueming; Mooney, Paul; Zheng, Shawn; Booth, Chris; Braunfeld, Michael B.; Gubbens, Sander; Agard, David A.; Cheng, Yifan

    2013-01-01

    In recent work with large high symmetry viruses, single particle electron cryomicroscopy (cryoEM) has reached the milestone of determining near atomic resolution structures by allowing direct fitting of atomic models into experimental density maps. However, achieving this goal with smaller particles of lower symmetry remains extraordinarily challenging. Using a newly developed single electron counting detector, we confirm that electron beam induced motion significantly degrades resolution and, importantly, show how the combination of rapid readout and nearly noiseless electron counting allow image blurring to be corrected to subpixel accuracy. Thus, intrinsic image information can be restored to high resolution (Thon rings visible to ~3 Å). Using this approach we determined a 3.3 Å resolution structure of a ~700 kDa protein with D7 symmetry showing clear side chain density. Our method greatly enhances image quality and data acquisition efficiency - key bottlenecks in applying near atomic resolution cryoEM to a broad range of protein samples. PMID:23644547

  19. Super-resolution imaging-based single particle tracking reveals dynamics of nanoparticle internalization by live cells.

    PubMed

    Li, Yiming; Shang, Li; Nienhaus, G Ulrich

    2016-04-14

    By combining super-resolution photoactivation localization microscopy with single particle tracking, we have visualized the endocytic process in the live-cell environment with nanoparticles (NPs) of different size and surface functionalization. This allowed us to analyze the dynamics of NPs interacting with cells with high spatial and temporal resolution. We identified two distinctly different types of pathways by which NPs are internalized via clathrin-coated pits (CCPs). Predominantly, NPs first bind to the membrane and, subsequently, CCPs form at this site. However, there are also instances where a NP diffuses on the membrane and utilizes a preformed CCP. Moreover, we have applied this new method to further explore the effects of size and surface functionalization on the NP dynamics on the plasma membrane and the ensuing endocytosis. PMID:27001905

  20. Fluidity evaluation of cell membrane model formed on graphene oxide with single particle tracking using quantum dot

    NASA Astrophysics Data System (ADS)

    Okamoto, Yoshiaki; Motegi, Toshinori; Iwasa, Seiji; Sandhu, Adarsh; Tero, Ryugo

    2015-04-01

    The lipid bilayer is the fundamental structure of plasma membranes, and artificial lipid bilayer membranes are used as model systems of cell membranes. Recently we reported the formation of a supported lipid bilayer (SLB) on graphene oxide (GO) by the vesicle fusion method. In this study, we conjugated a quantum dot (Qdot) on the SLB surface as a fluorescence probe brighter than dye-labeled lipid molecules, to qualitatively evaluate the fluidity of the SLB on GO by the single particle tracking method. We obtained the diffusion coefficient of the Qdot-conjugated lipids in the SLB on GO. We also performed the Qdot conjugation on the SLB containing a lipid conjugated with polyethylene glycol, to prevent the nonspecific adsorption of Qdots. The difference in the diffusion coefficients between the SLBs on the GO and the bare SiO2 regions was evaluated from the trajectory of single Qdot-conjugated lipid diffusing between the two regions.

  1. ORBXYZ: a 3D single-particle orbit code for following charged-particle trajectories in equilibrium magnetic fields

    SciTech Connect

    Anderson, D.V.; Cohen, R.H.; Ferguson, J.R.; Johnston, B.M.; Sharp, C.B.; Willmann, P.A.

    1981-06-30

    The single particle orbit code, TIBRO, has been modified extensively to improve the interpolation methods used and to allow use of vector potential fields in the simulation of charged particle orbits on a 3D domain. A 3D cubic B-spline algorithm is used to generate spline coefficients used in the interpolation. Smooth and accurate field representations are obtained. When vector potential fields are used, the 3D cubic spline interpolation formula analytically generates the magnetic field used to push the particles. This field has del.BETA = 0 to computer roundoff. When magnetic induction is used the interpolation allows del.BETA does not equal 0, which can lead to significant nonphysical results. Presently the code assumes quadrupole symmetry, but this is not an essential feature of the code and could be easily removed for other applications. Many details pertaining to this code are given on microfiche accompanying this report.

  2. On-chip optofluidic single-particle method for rapid microscale equilibrium solubility screening of biologically active substances.

    PubMed

    Svanbäck, Sami; Ehlers, Henrik; Antikainen, Osmo; Yliruusi, Jouko

    2015-01-01

    Solubility is the primary physicochemical property determining the absorption and bioavailability of substances. Here, we present an optofluidic single-particle technique for microscale equilibrium solubility determination, based on on-chip hydrodynamic particle trapping and optical particle size monitoring. The method combines the rapidity, universality, and substance sparing nature of physical analysis, with the accuracy traditionally associated with chemical analysis. Applying the diffusion layer theory, we determined the equilibrium solubility from individual pure substance microparticles of as little as 14 μg in initial mass, in a matter of seconds to minutes. The reduction in time and substance consumption, when compared to the golden standard method, is above 2 orders of magnitude. With a simultaneous improvement above 3-fold in accuracy of the solubility data, the applicability of optofluidics based analytics for small-scale high-throughput quantitative solubility and biological activity screening is demonstrated.

  3. Strong reduction of spectral heterogeneity in gold bipyramids for single-particle and single-molecule plasmon sensing.

    PubMed

    Peters, S M E; Verheijen, M A; Prins, M W J; Zijlstra, P

    2016-01-15

    Single metal nanoparticles are attractive biomolecular sensors. Binding of analyte to a functional particle results in a plasmon shift that can be conveniently monitored in a far-field optical microscope. Heterogeneities in spectral properties of individual particles in an ensemble affect the reliability of a single-particle plasmon sensor, especially when plasmon shifts are monitored in real-time using a fixed irradiation wavelength. We compare the spectral heterogeneity of different plasmon sensor geometries (gold nanospheres, nanorods, and bipyramids) and correlate this to their size and aspect-ratio dispersion. We show that gold bipyramids exhibit a strongly reduced heterogeneity in aspect ratio and plasmon wavelength compared to commonly used gold nanorods. We show that this translates into a significantly improved homogeneity of the response to molecular binding without compromising single-molecule sensitivity.

  4. Impact of and correction for instrument sensitivity drift on nanoparticle size measurements by single-particle ICP-MS.

    PubMed

    El Hadri, Hind; Petersen, Elijah J; Winchester, Michael R

    2016-07-01

    The effect of ICP-MS instrument sensitivity drift on the accuracy of nanoparticle (NP) size measurements using single particle (sp)ICP-MS is investigated. Theoretical modeling and experimental measurements of the impact of instrument sensitivity drift are in agreement and indicate that drift can impact the measured size of spherical NPs by up to 25 %. Given this substantial bias in the measured size, a method was developed using an internal standard to correct for the impact of drift and was shown to accurately correct for a decrease in instrument sensitivity of up to 50 % for 30 and 60 nm gold nanoparticles. Graphical Abstract Correction of nanoparticle size measurement by spICP-MS using an internal standard.

  5. Comment on ‘The effect of single-particle charge limits on charge distributions in dusty plasmas’

    NASA Astrophysics Data System (ADS)

    Heijmans, L. C. J.; van de Wetering, F. M. J. H.; Nijdam, S.

    2016-09-01

    It was recently suggested that the electron affinity may pose an additional upper limit on the charge of a single particle in a plasma, in addition to the electron field emission limit. Here we will, however, show that these two limits both rely on the same physical process and that the limit is only relevant for small particles, because it relies on electron tunneling. Plasma-produced particles of only several nanometres (≲ 10~\\text{nm} ) in size are actively studied, for example in the application of quantum dots and the implications of the proposed charge limit are certainly significant there. However, care must be taken to extend the results to larger particles, which are also actively studied in the field of dusty plasma physics, where typically the limit can be neglected, as we will also show.

  6. Intra-Nuclear Single-Particle Tracking (I-SPT) to Reveal the Functional Architecture of Chromosomes.

    PubMed

    Récamier, Vincent

    2016-01-01

    Chromosome architecture needs to be investigated in relation with the chemical function of DNA. The kinetics of gene expression, DNA replication, and repair are driven by the mechanisms by which a functional nuclear protein finds its substrate in the nucleus. Single-particle tracking (SPT) is a method to quantify fluorescent molecules dynamics from the tracks of the single molecules recorded by high-resolution microscopes. SPT offers direct observation of the movement and single-molecule resolution. Usually SPT is performed on membranes because of higher contrast. Here, we introduce a novel method to record the trajectories of weakly fluorescent molecules in the nucleus of living cells. I-SPT uses some specific detection and analysis tools to enable the computation of reliable statistics on nuclear particle movement. PMID:27283314

  7. Intra-Nuclear Single-Particle Tracking (I-SPT) to Reveal the Functional Architecture of Chromosomes.

    PubMed

    Récamier, Vincent

    2016-01-01

    Chromosome architecture needs to be investigated in relation with the chemical function of DNA. The kinetics of gene expression, DNA replication, and repair are driven by the mechanisms by which a functional nuclear protein finds its substrate in the nucleus. Single-particle tracking (SPT) is a method to quantify fluorescent molecules dynamics from the tracks of the single molecules recorded by high-resolution microscopes. SPT offers direct observation of the movement and single-molecule resolution. Usually SPT is performed on membranes because of higher contrast. Here, we introduce a novel method to record the trajectories of weakly fluorescent molecules in the nucleus of living cells. I-SPT uses some specific detection and analysis tools to enable the computation of reliable statistics on nuclear particle movement.

  8. Cell Locating with the Image Analysis System of the CAS-LIBB Single-Particle Microbeam Facility

    NASA Astrophysics Data System (ADS)

    Wang, Xiaohua; Wang, Shaohu; Yu, Zengliang

    2005-06-01

    A single-particle microbeam facility has been constructed at the Key Laboratory of Ion Beam Bioengineering (LIBB), Chinese Academy of Sciences (CAS). At the CAS-LIBB microbeam facility, we have developed protocols to place exact numbers of charged particles through nuclear centroids of cells, at defined positions in the cytoplasm relative to the nucleus, and through defined fractions of cells in a population. In this paper, we address the methods for nucleus, cytoplasm and bystander (either a single or an exact number of ions is delivered to a certain percentage of cells in a population to study the bystander effects of radiation) irradiation in detail from the precision of target finding and cell locating in the image analysis system. Moreover, for cells touching slightly in an image, a watershed method is used to separate these touching objects; after that, the number of objects in an image is counted accurately and the irradiation points are located precisely.

  9. SubspaceEM: A Fast Maximum-a-posteriori Algorithm for Cryo-EM Single Particle Reconstruction

    PubMed Central

    Dvornek, Nicha C.; Sigworth, Fred J.; Tagare, Hemant D.

    2015-01-01

    Single particle reconstruction methods based on the maximum-likelihood principle and the expectation-maximization (E–M) algorithm are popular because of their ability to produce high resolution structures. However, these algorithms are computationally very expensive, requiring a network of computational servers. To overcome this computational bottleneck, we propose a new mathematical framework for accelerating maximum-likelihood reconstructions. The speedup is by orders of magnitude and the proposed algorithm produces similar quality reconstructions compared to the standard maximum-likelihood formulation. Our approach uses subspace approximations of the cryo-electron microscopy (cryo-EM) data and projection images, greatly reducing the number of image transformations and comparisons that are computed. Experiments using simulated and actual cryo-EM data show that speedup in overall execution time compared to traditional maximum-likelihood reconstruction reaches factors of over 300. PMID:25839831

  10. Implementation of a quantitative Foucault knife-edge method by means of isophotometry

    NASA Astrophysics Data System (ADS)

    Zhevlakov, A. P.; Zatsepina, M. E.; Kirillovskii, V. K.

    2014-06-01

    Detailed description of stages of computer processing of the shadowgrams during implementation of a modern quantitative Foucault knife-edge method is presented. The map of wave-front aberrations introduced by errors of an optical surface or a system, along with the results of calculation of the set of required characteristics of image quality, are shown.

  11. Making Use of Foucault in a Study of Specific Parrhesiastic Scholars

    ERIC Educational Resources Information Center

    Huckaby, M. Francyne

    2008-01-01

    In this article, I describe how I made use of Foucault theoretically and methodologically in a study of five specific parrhesiastic scholars. Such scholars challenge hegemony in educational policies and practices, and advocate for educational reform and societal structures that move toward equity instead of marginalization. The article begins by…

  12. The production of the psychiatric subject: power, knowledge and Michel Foucault.

    PubMed

    Roberts, Marc

    2005-01-01

    The issue of power has become increasingly important within psychiatry, psychotherapy and mental health nursing generally. This paper will suggest that the work of Michel Foucault, the French philosopher and historian, has much to contribute to the discussion about the nature, existence and exercise of power within contemporary mental health care. As well as examining his original and challenging account of power, Foucault's emphasis on the intimate relationship between power and knowledge will be explored within the context of psychiatry and mental health nursing. This is to say that the paper will investigate Foucault's account of how power and knowledge are central to the process by which human beings are 'made subjects' and therefore how 'psychiatric identities' are produced. In doing so, it will be suggested that Foucault's work can not only make a valuable contribution to contemporary discussions about power and knowledge, but can also provide a significant critique and reconceptualization of the theoretical foundations and associated diagnostic and therapeutic practices of psychiatry and mental health nursing.

  13. Marx and Foucault: Subjectivity, Employability and the Crisis of Youth Unemployment in the Great Global Recession

    ERIC Educational Resources Information Center

    Peters, Michael A.; Besley, Tina

    2013-01-01

    This article explores the different approaches taken to the concepts of work or labour by Marx and Foucault, examining in particular the question of subjectivity in relation to youth unemployment and the current crisis of youth unemployment as part of the aftermath of the global recession of 2008.

  14. Quantitative phase tomography by using x-ray microscope with Foucault knife-edge scanning filter

    NASA Astrophysics Data System (ADS)

    Watanabe, Norio; Tsuburaya, Yuji; Shimada, Akihiro; Aoki, Sadao

    2016-01-01

    Quantitative phase tomography was evaluated by using a differential phase microscope with a Foucault knife-edge scanning filter. A 3D x-ray phase image of polystyrene beads was obtained at 5.4 keV. The reconstructed refractive index was fairly good agreement with the Henke's tabulated data.

  15. Autonomy, Candour and Professional Teacher Practice: A Discussion Inspired by the Later Works of Michel Foucault

    ERIC Educational Resources Information Center

    Raaen, Finn Daniel

    2011-01-01

    Autonomy is considered to be an important feature of professionals and to provide a necessary basis for their informed judgments. In this article these notions will be challenged. In this article I use Michel Foucault's deconstruction of the idea of the autonomous citizen, and his later attempts to reconstruct that idea, in order to bring some new…

  16. Foucault and the Use of Critique: Breaching the Self-Evidence of Educational Practices

    ERIC Educational Resources Information Center

    Bye, Jayne

    2015-01-01

    This paper poses methodological questions about the role and limits of Foucault's concept of governmentality in education research. Firstly, it argues for the utility of governmentality as a means of exploring questions of power regardless of domain or scale. Secondly, it explores the boundary between the tasks of formulating critique and…

  17. Michel Foucault Goes Outside: Discipline and Control in the Practice of Outdoor Education

    ERIC Educational Resources Information Center

    Bowdridge, Michael; Blenkinsop, Sean

    2011-01-01

    This paper is concerned with if, and how, measures of discipline and control are involved in outdoor and experiential education. Using the work of the French philosopher Michel Foucault, author of Discipline and Punish (1975), we shall explore how educational practice may be used to control people and to render them into "docile bodies." We follow…

  18. The ethics of Foucault and Ricoeur: an underrepresented discussion in nursing.

    PubMed

    Flaming, Don

    2006-09-01

    Paul Ricoeur and Michel Foucault enjoy a privileged status in nursing academia as two thinkers who influence both nursing research and philosophical explorations of nursing practice. Most nurse authors, however, focus only on the earlier works of these two philosophers and, for example, base qualitative research methodologies on Foucault's genealogy and Ricoeur's hermeneutics. In their later years, both these writers talk more explicitly about being an ethical self. Ideas from their earlier writing is evident in their writing on ethics and both writers could not discuss ethics without also exploring their ideas of the self and the other. I suggest that some of their thoughts on ethics connect with or complement each other quite well. I will first give an overview of Foucault's ethics, self and the other, and then do the same with Ricoeur's thought. In the third part of the paper I will describe how Foucault and Ricoeur complement each other, and conclude the paper by briefly suggesting how these writers influence my own practice as a nurse educator.

  19. Short Foucault Pendulum: A Way to Eliminate the Precession Due to Ellipticity.

    ERIC Educational Resources Information Center

    Crane, H. Richard

    1981-01-01

    Discusses the problem of ellipticity in the motion of the ordinary Foucault pendulum and the error caused by it. Presents a simple method of slightly modifying the force-displacement relation in such a way that precession does not result from ellipticity. (Author/SK)

  20. Power/Knowledge for Educational Theory: Stephen Ball and the Reception of Foucault

    ERIC Educational Resources Information Center

    Wang, Chia-Ling

    2011-01-01

    This paper explores the significance of the concept of power/knowledge in educational theory. The argument proceeds in two main parts. In the first, I consider aspects of Stephen J. Ball's highly influential work in educational theory. I examine his reception of Foucault's concept of power/knowledge and suggest that there are problems in his…

  1. Derrida, Foucault and Critical Pedagogies of Friendship in Conflict-Troubled Societies

    ERIC Educational Resources Information Center

    Zembylas, Michalinos

    2015-01-01

    The aim of this paper is to place Derrida's and Foucault's ideas on friendship in conversation and then discuss how those ideas provide a pedagogical space in which critical educators in conflict-troubled societies can promote new modes of being and living with others. In particular, the notion of critical pedagogies of friendship is…

  2. Human Science for Human Freedom? Piaget's Developmental Research and Foucault's Ethical Truth Games

    ERIC Educational Resources Information Center

    Zhao, Guoping

    2012-01-01

    The construction of the modern subject and the pursuit of human freedom and autonomy, as well as the practice of human science has been pivotal in the development of modern education. But for Foucault, the subject is only the effect of discourses and power-knowledge arrangements, and modern human science is part of the very arrangement that has…

  3. Truth Telling in Foucault and Arendt: Parrhesia, the Pariah and Academics in Dark Times

    ERIC Educational Resources Information Center

    Tamboukou, Maria

    2012-01-01

    In this paper, I consider the problem of truth telling through the notion of parrhesia as developed and explicated in Foucault's last lectures at the College de France (1982-1983 and 1983-1984) and the figure of the pariah that runs throughout Arendt's work. In tracing connections and tensions in the way the two thinkers explore questions and…

  4. Foucault's "fearless speech" and the transformation and mentoring of medical students

    PubMed Central

    Papadimos, Thomas J; Murray, Stuart J

    2008-01-01

    In his six 1983 lectures published under the title, Fearless Speech (2001), Michel Foucault developed the theme of free speech and its relation to frankness, truth-telling, criticism, and duty. Derived from the ancient Greek word parrhesia, Foucault's analysis of free speech is relevant to the mentoring of medical students. This is especially true given the educational and social need to transform future physicians into able citizens who practice a fearless freedom of expression on behalf of their patients, the public, the medical profession, and themselves in the public and political arena. In this paper, we argue that Foucault's understanding of free speech, or parrhesia, should be read as an ethical response to the American Medical Association's recent educational effort, Initiative to Transform Medical Education (ITME): Recommendations for change in the system of medical education (2007). In this document, the American Medical Association identifies gaps in medical education, emphasizing the need to enhance health system safety and quality, to improve education in training institutions, and to address the inadequacy of physician preparedness in new content areas. These gaps, and their relationship to the ITME goal of promoting excellence in patient care by implementing reform in the US system of medical education, call for a serious consideration and use of Foucault's parrhesia in the way that medical students are trained and mentored. PMID:18419809

  5. Braverman, Foucault and the Labor Process: Framing the Current High-Skills Debate

    ERIC Educational Resources Information Center

    Lewis, Theodore

    2007-01-01

    This article examines the current high-skills discourse against the backdrop of labor process theory. It draws on the theoretical debate between Harry Braverman and Michael Foucault, supplementing the traditional treatment of the labor process with Foucauldian insights. The primary argument is that especially in the market-led economies, current…

  6. Foucault and Human Rights: Seeking the Renewal of Human Rights Education

    ERIC Educational Resources Information Center

    Zembylas, Michalinos

    2016-01-01

    This article takes up Foucault's politics of human rights and suggests that it may constitute a point of departure for the renewal of HRE, not only because it rejects the moral superiority of humanism--the grounding for the dominant liberal framework of international human rights--but also because it makes visible the complexities of human rights…

  7. Power Matters: Foucault's "Pouvoir/Savoir" as a Conceptual Lens in Information Research and Practice

    ERIC Educational Resources Information Center

    Olsson, Michael; Heizmann, Helena

    2015-01-01

    Introduction: This paper advocates Foucault's notion of pouvoir/savoir (power/knowledge) as a conceptual lens that information researchers might fruitfully use to develop a richer understanding of the relationship between knowledge and power. Methods: Three of the authors' earlier studies are employed to illustrate the use of this conceptual lens.…

  8. Criticising with Foucault: Towards a Guiding Framework for Socio-Political Studies in Mathematics Education

    ERIC Educational Resources Information Center

    Kollosche, David

    2016-01-01

    Socio-political studies in mathematics education often touch complex fields of interaction between education, mathematics and the political. In this paper I present a Foucault-based framework for socio-political studies in mathematics education which may guide research in that area. In order to show the potential of such a framework, I discuss the…

  9. Single-particle analysis reveals shutoff control of the Arabidopsis ammonium transporter AMT1;3 by clustering and internalization.

    PubMed

    Wang, Qinli; Zhao, Yuanyuan; Luo, Wangxi; Li, Ruili; He, Qihua; Fang, Xiaohong; Michele, Roberto De; Ast, Cindy; von Wirén, Nicolaus; Lin, Jinxing

    2013-08-01

    Ammonium is a preferred source of nitrogen for plants but is toxic at high levels. Plant ammonium transporters (AMTs) play an essential role in NH4(+) uptake, but the mechanism by which AMTs are regulated remains unclear. To study how AMTs are regulated in the presence of ammonium, we used variable-angle total internal reflection fluorescence microscopy and fluorescence cross-correlation spectroscopy for single-particle fluorescence imaging of EGFP-tagged AMT1;3 on the plasma membrane of Arabidopsis root cells at various ammonium levels. We demonstrated that AMT1;3-EGFP dynamically appeared and disappeared on the plasma membrane as moving fluorescent spots in low oligomeric states under N-deprived and N-sufficient conditions. Under external high-ammonium stress, however, AMT1;3-EGFPs were found to amass into clusters, which were then internalized into the cytoplasm. A similar phenomenon also occurred in the glutamine synthetase mutant gln1;2 background. Single-particle analysis of AMT1;3-EGFPs in the clathrin heavy chain 2 mutant (chc2 mutant) and Flotllin1 artificial microRNA (Flot1 amiRNA) backgrounds, together with chemical inhibitor treatments, demonstrated that the endocytosis of AMT1;3 clusters induced by high-ammonium stress could occur mainly through clathrin-mediated endocytic pathways, but the contribution of microdomain-associated endocytic pathway cannot be excluded in the internalization. Our results revealed that the clustering and endocytosis of AMT1;3 provides an effective mechanism by which plant cells can avoid accumulation of toxic levels of ammonium by eliminating active AMT1;3 from the plasma membrane.

  10. Single particle size and fluorescence spectra from emissions of burning materials in a tube furnace to simulate burn pits

    NASA Astrophysics Data System (ADS)

    Pan, Yong-Le; Houck, Joshua D. T.; Clark, Pamela A.; Pinnick, Ronald G.

    2013-08-01

    A single-particle fluorescence spectrometer (SPFS) and an aerodynamic particle sizer were used to measure the fluorescence spectra and particle size distribution from the particulate emissions of 12 different burning materials in a tube furnace to simulate open-air burning of garbage. Although the particulate emissions are likely dominated by particles <1 μm diameter, only the spectra of supermicron particles were measured here. The overall fluorescence spectral profiles exhibit either one or two broad bands peaked around 300-450 nm within the 280-650 nm spectral range, when the particles are illuminated with a 263-nm laser. Different burning materials have different profiles, some of them (cigarette, hair, uniform, paper, and plastics) show small changes during the burning process, and while others (beef, bread, carrot, Styrofoam, and wood) show big variations, which initially exhibit a single UV peak (around 310-340 nm) and a long shoulder in visible, and then gradually evolve into a bimodal spectrum with another visible peak (around 430-450 nm) having increasing intensity during the burning process. These spectral profiles could mainly derive from polycyclic aromatic hydrocarbons with the combinations of tyrosine-like, tryptophan-like, and other humic-like substances. About 68 % of these single-particle fluorescence spectra can be grouped into 10 clustered spectral templates that are derived from the spectra of millions of atmospheric aerosol particles observed in three locations; while the others, particularly these bimodal spectra, do not fall into any of the 10 templates. Therefore, the spectra from particulate emissions of burning materials can be easily discriminated from that of common atmospheric aerosol particles. The SFFS technology could be a good tool for monitoring burning pit emissions and possibly for distinguishing them from atmospheric aerosol particles.

  11. Detection of zinc oxide and cerium dioxide nanoparticles during drinking water treatment by rapid single particle ICP-MS methods.

    PubMed

    Donovan, Ariel R; Adams, Craig D; Ma, Yinfa; Stephan, Chady; Eichholz, Todd; Shi, Honglan

    2016-07-01

    Nanoparticles (NPs) entering water systems are an emerging concern as NPs are more frequently manufactured and used. Single particle inductively coupled plasma-mass spectrometry (SP-ICP-MS) methods were validated to detect Zn- and Ce-containing NPs in surface and drinking water using a short dwell time of 0.1 ms or lower, ensuring precision in single particle detection while eliminating the need for sample preparation. Using this technique, information regarding NP size, size distribution, particle concentration, and dissolved ion concentrations was obtained simultaneously. The fates of Zn- and Ce-NPs, including those found in river water and added engineered NPs, were evaluated by simulating a typical drinking water treatment process. Lime softening, alum coagulation, powdered activated carbon sorption, and disinfection by free chlorine were simulated sequentially using river water. Lime softening removed 38-53 % of Zn-containing and ZnO NPs and >99 % of Ce-containing and CeO2 NPs. Zn-containing and ZnO NP removal increased to 61-74 % and 77-79 % after alum coagulation and disinfection, respectively. Source and drinking water samples were collected from three large drinking water treatment facilities and analyzed for Zn- and Ce-containing NPs. Each facility had these types of NPs present. In all cases, particle concentrations were reduced by a minimum of 60 % and most were reduced by >95 % from source water to finished drinking water. This study concludes that uncoated ZnO and CeO2 NPs may be effectively removed by conventional drinking water treatments including lime softening and alum coagulation. PMID:26960902

  12. Single-particle cryoEM analysis at near-atomic resolution from several thousand asymmetric subunits.

    PubMed

    Passos, Dario Oliveira; Lyumkis, Dmitry

    2015-11-01

    A single-particle cryoEM reconstruction of the large ribosomal subunit from Saccharomyces cerevisiae was obtained from a dataset of ∼75,000 particles. The gold-standard and frequency-limited approaches to single-particle refinement were each independently used to determine orientation parameters for the final reconstruction. Both approaches showed similar resolution curves and nominal resolution values for the 60S dataset, estimated at 2.9 Å. The amount of over-fitting present during frequency-limited refinement was quantitatively analyzed using the high-resolution phase-randomization test, and the results showed no apparent over-fitting. The number of asymmetric subunits required to reach specific resolutions was subsequently analyzed by refining subsets of the data in an ab initio manner. With our data collection and processing strategies, sub-nanometer resolution was obtained with ∼200 asymmetric subunits (or, equivalently for the ribosomal subunit, particles). Resolutions of 5.6 Å, 4.5 Å, and 3.8 Å were reached with ∼1000, ∼1600, and ∼5000 asymmetric subunits, respectively. At these resolutions, one would expect to detect alpha-helical pitch, separation of beta-strands, and separation of Cα atoms, respectively. Using this map, together with strategies for ab initio model building and model refinement, we built a region of the ribosomal protein eL6, which was missing in previous models of the yeast ribosome. The relevance for more routine high-resolution structure determination is discussed. PMID:26470814

  13. Super-resolution imaging-based single particle tracking reveals dynamics of nanoparticle internalization by live cells

    NASA Astrophysics Data System (ADS)

    Li, Yiming; Shang, Li; Nienhaus, G. Ulrich

    2016-03-01

    By combining super-resolution photoactivation localization microscopy with single particle tracking, we have visualized the endocytic process in the live-cell environment with nanoparticles (NPs) of different size and surface functionalization. This allowed us to analyze the dynamics of NPs interacting with cells with high spatial and temporal resolution. We identified two distinctly different types of pathways by which NPs are internalized via clathrin-coated pits (CCPs). Predominantly, NPs first bind to the membrane and, subsequently, CCPs form at this site. However, there are also instances where a NP diffuses on the membrane and utilizes a preformed CCP. Moreover, we have applied this new method to further explore the effects of size and surface functionalization on the NP dynamics on the plasma membrane and the ensuing endocytosis.By combining super-resolution photoactivation localization microscopy with single particle tracking, we have visualized the endocytic process in the live-cell environment with nanoparticles (NPs) of different size and surface functionalization. This allowed us to analyze the dynamics of NPs interacting with cells with high spatial and temporal resolution. We identified two distinctly different types of pathways by which NPs are internalized via clathrin-coated pits (CCPs). Predominantly, NPs first bind to the membrane and, subsequently, CCPs form at this site. However, there are also instances where a NP diffuses on the membrane and utilizes a preformed CCP. Moreover, we have applied this new method to further explore the effects of size and surface functionalization on the NP dynamics on the plasma membrane and the ensuing endocytosis. Electronic supplementary information (ESI) available: Experimental section, supporting figures and videos. See DOI: 10.1039/c6nr01495j

  14. Physical and chemical characterization of marine atmospheric aerosols over the North and South Pacific Oceans using single particle mass spectrometry

    NASA Astrophysics Data System (ADS)

    Furutani, H.; Jung, J.; Miura, K.; Uematsu, M.

    2010-12-01

    Physical and chemical properties of marine atmospheric aerosols were characterized and compared over the North and South Pacific Ocean during two trans-Pacific cruises (from Japan to Chile and Australia to Japan) during the period of January-June 2009, which cover broad region of Pacific Ocean from 40°N to 55°S and 140°E to 70°W. The measured parameters of aerosol properties were single particle size-resolved chemical composition (D = 100 ~ 1500 nm), cloud condensation nuclei (CCN) and condensation nuclei (CN) concentrations, size distribution from 10 nm to 5 μm, total aerosol nitrate and sulfate concentrations, and filter-based chemical composition. Trace gas concentrations of O3 and CO were also measured to aid air parcel categorization during the cruises. Reflecting larger anthropogenic emission in the Northern Hemisphere, pronounced concentration gradient between the North and South Pacific Ocean was observed for aerosol nitrate, CO, and O3. Aerosol sulfate also showed a similar concentration drop in the equatorial region, relatively higher sulfate concentration was observed in 30°S-40°S and 55°S regions, which was associated with increased aerosol methanesulfonic acid (MSA) concentration but little increase in local marine chlorophyll concentration, suggesting contribution of long-range transported marine biogenic sulfur from the high primary production area over the South Pacific high latitude region. Aerosol chemical classification by single particle chemical analysis revealed that certain aerosol types, such as biomass burning, elemental carbon, and elemental/organic carbon mixed type, were mainly observed in the North Pacific region, while several specific organic aerosol types with abundant aged organic and disulfur composition were identified in the South Pacific region. Further comparison of aerosol properties, aerosol sources, and atmospheric aerosol processing in the North and South Pacific Oceans will be discussed.

  15. Detection of zinc oxide and cerium dioxide nanoparticles during drinking water treatment by rapid single particle ICP-MS methods.

    PubMed

    Donovan, Ariel R; Adams, Craig D; Ma, Yinfa; Stephan, Chady; Eichholz, Todd; Shi, Honglan

    2016-07-01

    Nanoparticles (NPs) entering water systems are an emerging concern as NPs are more frequently manufactured and used. Single particle inductively coupled plasma-mass spectrometry (SP-ICP-MS) methods were validated to detect Zn- and Ce-containing NPs in surface and drinking water using a short dwell time of 0.1 ms or lower, ensuring precision in single particle detection while eliminating the need for sample preparation. Using this technique, information regarding NP size, size distribution, particle concentration, and dissolved ion concentrations was obtained simultaneously. The fates of Zn- and Ce-NPs, including those found in river water and added engineered NPs, were evaluated by simulating a typical drinking water treatment process. Lime softening, alum coagulation, powdered activated carbon sorption, and disinfection by free chlorine were simulated sequentially using river water. Lime softening removed 38-53 % of Zn-containing and ZnO NPs and >99 % of Ce-containing and CeO2 NPs. Zn-containing and ZnO NP removal increased to 61-74 % and 77-79 % after alum coagulation and disinfection, respectively. Source and drinking water samples were collected from three large drinking water treatment facilities and analyzed for Zn- and Ce-containing NPs. Each facility had these types of NPs present. In all cases, particle concentrations were reduced by a minimum of 60 % and most were reduced by >95 % from source water to finished drinking water. This study concludes that uncoated ZnO and CeO2 NPs may be effectively removed by conventional drinking water treatments including lime softening and alum coagulation.

  16. Single-particle irradiation of mammalian cells at the radiological research accelerator facility: induction of chromosomal changes

    NASA Astrophysics Data System (ADS)

    Geard, C. R.; Brenner, D. J.; Randers-Pehrson, G.; Marino, S. A.

    1991-03-01

    Ionizing radiations have been shown to be able to induce the death of mammalian cells and initiate mutagenic or carcinogenic change. While all three end points are related through chromosomal changes, the latter in particular is of profound concern to human populations. We have undertaken a series of studies wherein mammalian cells were irradiated with low fluences of charged particles (protons, deuterons, helium ions) of defined LET from 10 to about 200 keV per micrometer. Frequencies of induced chromosomal changes were related to fluence at each LET, such that the induction of chromosomal changes per cell per charged particle could be estimated. However, for human exposures from densely ionizing radiation, such as the alpha particles from radon daughters, effects are dominated by the traversal of cells by single particles. Conventional experiments inevitably result in cells being exposed to a distribution (Poisson) of particle traversals. As the effect is unlikely to be a linear function of the number of traversals, a preferred approach would be to irradiate cells with exactly one (or any known number) of particles. To this end we are developing a dedicated beam line (microbeam) on a 4.2 MV Van de Graaff accelerator such that individual particles will vertically traverse individual living mammalian cells positioned by a microscope-based imaging system under computer control. "Conventional" low-fluence and "single-particle" studies will be compared, allowing critical evaluations of the potential of individual high LET charged particles to initiate change. This will have particular relevance both to consideration of the human health risks of radon daughter alpha particles and of basic mechanisms of chromosome aberration formation.

  17. Tilt-Pair Analysis of Images from a Range of Different Specimens in Single-Particle Electron Cryomicroscopy

    PubMed Central

    Henderson, Richard; Chen, Shaoxia; Chen, James Z.; Grigorieff, Nikolaus; Passmore, Lori A.; Ciccarelli, Luciano; Rubinstein, John L.; Crowther, R. Anthony; Stewart, Phoebe L.; Rosenthal, Peter B.

    2011-01-01

    The comparison of a pair of electron microscope images recorded at different specimen tilt angles provides a powerful approach for evaluating the quality of images, image-processing procedures, or three-dimensional structures. Here, we analyze tilt-pair images recorded from a range of specimens with different symmetries and molecular masses and show how the analysis can produce valuable information not easily obtained otherwise. We show that the accuracy of orientation determination of individual single particles depends on molecular mass, as expected theoretically since the information in each particle image increases with molecular mass. The angular uncertainty is less than 1° for particles of high molecular mass (∼ 50 MDa), several degrees for particles in the range 1–5 MDa, and tens of degrees for particles below 1 MDa. Orientational uncertainty may be the major contributor to the effective temperature factor (B-factor) describing contrast loss and therefore the maximum resolution of a structure determination. We also made two unexpected observations. Single particles that are known to be flexible showed a wider spread in orientation accuracy, and the orientations of the largest particles examined changed by several degrees during typical low-dose exposures. Smaller particles presumably also reorient during the exposure; hence, specimen movement is a second major factor that limits resolution. Tilt pairs thus enable assessment of orientation accuracy, map quality, specimen motion, and conformational heterogeneity. A convincing tilt-pair parameter plot, where 60% of the particles show a single cluster around the expected tilt axis and tilt angle, provides confidence in a structure determined using electron cryomicroscopy. PMID:21939668

  18. NIR-emitting molecular-based nanoparticles as new two-photon absorbing nanotools for single particle tracking

    NASA Astrophysics Data System (ADS)

    Daniel, J.; Godin, A. G.; Clermont, G.; Lounis, B.; Cognet, L.; Blanchard-Desce, M.

    2015-07-01

    In order to provide a green alternative to QDs for bioimaging purposes and aiming at designing bright nanoparticles combining both large one- and two-photon brightness, a bottom-up route based on the molecular engineering of dedicated red to NIR emitting dyes that spontaneously form fluorescent organic nanoparticles (FONs) has been implemented. These fully organic nanoparticles built from original quadrupolar dyes are prepared using a simple, expeditious and green protocol that yield very small molecular-based nanoparticles (radius ~ 7 nm) suspension in water showing a nice NIR emission (λem=710 nm). These FONs typically have absorption coefficient more than two orders larger than popular NIR-emitting dyes (such as Alexa Fluor 700, Cy5.5 ….) and much larger Stokes shift values (i.e. up to over 5500 cm-1). They also show very large two-photon absorption response in the 800-1050 nm region (up to about 106 GM) of major promise for two-photon excited fluorescence microscopy. Thanks to their brightness and enhanced photostability, these FONs could be imaged as isolated nanoparticles and tracked using wide-field imaging. As such, thanks to their size and composition (absence of heavy metals), they represent highly promising alternatives to NIR-emitting QDs for use in bioimaging and single particle tracking applications. Moreover, efficient FONs coating was achieved by using a polymeric additive built from a long hydrophobic (PPO) and a short hydrophilic (PEO) segment and having a cationic head group able to interact with the highly negative surface of FONs. This electrostatically-driven interaction promotes both photoluminescence and two-photon absorption enhancement leading to an increase of two-photon brightness of about one order of magnitude. This opens the way to wide-field single particle tracking under two-photon excitation

  19. Rotational friction of dipolar colloids measured by driven torsional oscillations

    PubMed Central

    Steinbach, Gabi; Gemming, Sibylle; Erbe, Artur

    2016-01-01

    Despite its prominent role in the dynamics of soft materials, rotational friction remains a quantity that is difficult to determine for many micron-sized objects. Here, we demonstrate how the Stokes coefficient of rotational friction can be obtained from the driven torsional oscillations of single particles in a highly viscous environment. The idea is that the oscillation amplitude of a dipolar particle under combined static and oscillating fields provides a measure for the Stokes friction. From numerical studies we derive a semi-empirical analytic expression for the amplitude of the oscillation, which cannot be calculated analytically from the equation of motion. We additionally demonstrate that this expression can be used to experimentally determine the rotational friction coefficient of single particles. Here, we record the amplitudes of a field-driven dipolar Janus microsphere with optical microscopy. The presented method distinguishes itself in its experimental and conceptual simplicity. The magnetic torque leaves the local environment unchanged, which contrasts with other approaches where, for example, additional mechanical (frictional) or thermal contributions have to be regarded. PMID:27680399

  20. Rotational friction of dipolar colloids measured by driven torsional oscillations

    NASA Astrophysics Data System (ADS)

    Steinbach, Gabi; Gemming, Sibylle; Erbe, Artur

    2016-09-01

    Despite its prominent role in the dynamics of soft materials, rotational friction remains a quantity that is difficult to determine for many micron-sized objects. Here, we demonstrate how the Stokes coefficient of rotational friction can be obtained from the driven torsional oscillations of single particles in a highly viscous environment. The idea is that the oscillation amplitude of a dipolar particle under combined static and oscillating fields provides a measure for the Stokes friction. From numerical studies we derive a semi-empirical analytic expression for the amplitude of the oscillation, which cannot be calculated analytically from the equation of motion. We additionally demonstrate that this expression can be used to experimentally determine the rotational friction coefficient of single particles. Here, we record the amplitudes of a field-driven dipolar Janus microsphere with optical microscopy. The presented method distinguishes itself in its experimental and conceptual simplicity. The magnetic torque leaves the local environment unchanged, which contrasts with other approaches where, for example, additional mechanical (frictional) or thermal contributions have to be regarded.