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  • Creator(s):
    Tianze Peng, David Richter
    Description:

    Essential data for “Sea Spray and Its Feedback Effects: Assessing Bulk Algorithms of Air-Sea Heat Fluxes via Direct Numerical Simulations” published in Journal of Physical Oceanography. DOI:10.1175/JPO-D-18-0193.1

    File 1: Flux_Data.pdf Horizontal and temporal mean of heat fluxes at the bottom surface for all cases in the paper

    File 2: Joint_PDF.zip Raw data for spray statistics (temperature and radius change vs. residence time)

    Date Created:
    2019-03-15
  • Author(s):
    Yide Zhang
    Abstract:

    Multiphoton microscopy combined with fluorescence lifetime imaging microscopy (MPM-FLIM) is a technique that allows for imaging the lifetime of fluorescence created by two-photon excitation. It not only possesses the advantages of MPM such as large imaging depth, but also the strengths of FLIM including the ability to discriminate different fluorophores with similar emission spectra. In FLIM, the frequency-domain (FD) method, which relies on periodic intensity-modulated excitation light and i…

    Date Created:
    2015-10-22
    Resource Type
    Presentation
  • Author(s):
    Yide Zhang
    Abstract:

    In cancer and all biomedical researches, we always need a microscope with better imaging precision, speed, functionality, and depth, so that the diagnostics and treatments of cancer and other diseases can be accurate, fast, and noninvasive. However, conventional fluorescence microscopes cannot satisfy these needs due to physical limits on resolution, speed, information, and depth. In this work, we aim to overcome these limits using novel super-resolution microscopy and high-speed quantitative…

    Date Created:
    2018-04-09
    Resource Type
    Presentation
  • Author(s):
    Yide Zhang
    Abstract:

    Multiphoton microscopy (MPM) is a widely used in vivo imaging technique in biological and medical applications. In the case of two-photon excitation fluorescence, two lower-energy photons excite a fluorophore which in turn emits a single higher-energy photon, whose rate depends quadratically on the excitation intensity, thus enabling higher resolution with narrower point spread function (PSF) than conventional one-photon fluorescence microscopy. Fluorescence lifetime imaging microscopy (FLIM)…

    Date Created:
    2016-04-04
    Resource Type
    Presentation
  • Author(s):
    Yide Zhang
    Abstract:

    To fundamentally understand biological and medical phenomena such as aging and diseases, we need the information of the microenvironment surrounding living cells. We propose the multiphoton fluorescence lifetime imaging microscopy (MPM-FLIM) platform with super-sensitivity and super-resolution capabilities to quantitatively obtain this information at the intracellular level. First, we present a simple MPM oxygen imaging probe compatible with aqueous biological media based on water-soluble rut…

    Date Created:
    2017-03-30
    Resource Type
    Presentation
  • Author(s):
    Yide Zhang
    Abstract:

    Super-resolution fluorescence microscopy is an important tool in biomedical research for its ability to discern features smaller than the diffraction limit, but its universal application is not feasible due to its difficult implementation and high cost. In this research, we propose and demonstrate a new kind of super-resolution fluorescence microscopy that can be easily implemented and requires neither additional hardware nor complex post-processing. The microscopy is based on the principle o…

    Date Created:
    2017-10-19
    Resource Type
    Presentation
  • Creator(s):
    Peter Ivie, Douglas Thain
    Description:

    Welcome to the preserved archive of workflows in the paper submitted to Concurrency & Computation: Practice & Experience entitled “Using PRUNE to reproducibly manage the data requirements in computational science.”

    Date Created:
    2018-03-13
  • Creator(s):
    Margaret Regan, Jonathan Hauenstein
    Description:

    A common computational problem is to compute topological information about a real surface defined by a system of polynomial equations. Our software, called polyTop, leverages numerical algebraic geometry computations from Bertini and Bertini_real with topological computations in javaPlex to compute the Euler characteristic, genus, Betti numbers, and generators of the fundamental group of a real surface. Several examples are used to demonstrate this new software.

    Date Created:
    2018-03-02
  • Author(s):
    Tianze Peng, David Richter
    Abstract:

    Sea-spray droplets ejected into the air-sea boundary layer take part in a series of complex transport processes. To model the air-sea exchange of heat under high-wind conditions, it is important yet challenging to understand influences of evaporative droplets in the atmospheric boundary layer. We implement a high-resolution Eulerian-Lagrangian algorithm with varied droplets laden in a turbulent open-channel flow to reveal the dynamic and thermodynamic characteristics of droplets. Our past num…

    Date Created:
    2017-12-14
    Resource Type
    Presentation
  • Creator(s):
    Margaret Regan, Jonathan Hauenstein
    Description:

    Three key aspects of applying homotopy continuation to parameterized systems of polynomial equations are investigated. First, for parameterized systems which are homogenized with solutions in projective space, we investigate options for selecting the affine patch where computations are performed. Second, for parameterized systems which are overdetermined, we investigate options for randomizing the system for improving the numerically stability of the computations. Finally, since one is typica…

    Date Created:
    2017-07-06
  • Creator(s):
    GENEVIEVE Vigil
    Description:

    Matlab code that computes the effective point spread functions (EPSF) that results from exciting a two level fluorescence system with modulated excitation in saturation. The model is based on solving the rate equation for the two level system accounting for two photon absorption, stimulated and spontaneous emission. Each PSF is solved for every time pulse and point in 3 dimensional space in a series of loops over sinusoidally modulated excitation signals.

    Date Created:
    2017-05-09
  • Creator(s):
    Tianze Peng, David Richter
    Description:

    This spreadsheet contains data of figures in “Influence of Evaporating Droplets in the Turbulent Marine Atmospheric Boundary Layer” published in Boundary Layer Meteorology by Springer.

    Title Influence of Evaporating Droplets in the Turbulent Marine Atmospheric Boundary Layer
    Journal Boundary-Layer Meteorology, (online first), 1-22 DOI 10.1007/s10546-017-0285-7

    Date Created:
    2017-04-26