arXiv subjects

Jason T. Parker

Publications and source records attributed to Jason T. Parker.

7 recordsLinked to original sources

arXiv2026

Time-Resolved Multi-Spectral X-ray Computed Tomography of Cryoprotectant Diffusion Into Biomimetic Material

Cryopreservation via vitrification requires loading cryoprotective cocktails. Insufficient loading may lead to freezing, precluding successful recovery; overloading is toxic. Yet, existing in situ measurements of cryoprotectant permeation remain largely unvalidated and do not resolve individual cryoprotectant concentrations. We introduce multi-spectral X-ray computed tomography (MSCT) to noninvasively quantify the spatiotemporal distribution of cryoprotectants diffusing into a tissue mimicking phantom. A developed photon-energy bin selection algorithm achieves sensitivity to low contrast cryoprotectants without contrast agents or fluorescence edges. The technique is validated with a dimethyl sulfoxide, glycerol, and water solution, resolving cryoprotectant volume fractions to within 5% accuracy. We observe heterogeneous diffusion of the cryoprotectants into the tissue mimicking hydrogel, a phenomenon not observable with conventional techniques. MSCT improves upon existing X ray CT methods because it is not underdetermined for multicomponent solutions and does not implicitly assume homogeneous diffusion. These advancements enable the systematic development of cryoprotectant loading protocols and provide diagnostics to assess vitrifiability before cryopreservation.

physics.med-ph↗

arXiv2023

In-Lab X-ray Particle Velocimetry for Multiphase Flows: Design Principles and Demonstration of $O$(1 kHz) XPV

We combine X-ray-specific tracer particles, a photon counting detector, and a liquid metal jet anode X-ray source to achieve $O$(1 kHz) X-ray imaging speeds in the laboratory, 15$\times$ faster than previous comparable studies with $O$(50 $μ$m) tracers. To examine the limits of this measurement technique we conduct three experiments: 2D and 3D X-ray particle velocimetry (XPV) of Poiseuille pipe flow, 3D XPV of flow around a Taylor bubble, and 3D scalar mixing with a laminar jet. These experiments demonstrate the performance improvement achievable by combining the aforementioned elements, the applicability to multiphase flows and deforming systems, and the potential to capture scalar and vector quantities simultaneously. Most importantly, these experiments are conducted with a laboratory-scale system, showing that in-lab X-ray particle velocimetry techniques are now becoming usable for a wider range of flows of interest. Furthermore, the design of XPV experiments is discussed to clarify the trade offs between achievable imaging speed, domain size and spatiotemporal resolution.

physics.flu-dyn↗

arXiv2023

Direct Comparison of Isobaric and Isochoric Vitrification of Two Aqueous Solutions with Photon Counting X-Ray Computed Tomography

Vitrification is a promising approach for ice-free cryopreservation of biological material, but progress is hindered by the limited set of experimental tools for studying processes in the interior of the vitrified matter. Isochoric cryopreservation chambers are often metallic, and their opacity prevents direct visual observation. In this study, we introduce photon counting X-ray computed tomography (CT) to compare the effects of rigid isochoric and unconfined isobaric conditions on vitrification and ice formation during cooling of two aqueous solutions: 50 wt% DMSO and a coral vitrification solution, CVS1. Previous studies have only compared vitrification in isochoric systems with isobaric systems that have an exposed air-liquid interface. We use a movable piston to replicate the surface and thermal boundary conditions of the isochoric system yet maintain isobaric conditions. When controlling for the boundary conditions we find that similar ice and vapor volume fractions form during cooling in isochoric and isobaric conditions. Interestingly, we observe distinct ice and vapor cavity morphology in the isochoric systems, possibly due to vapor outgassing or cavitation as rapid cooling causes the pressure to drop in the confined systems. These observations highlight the array of thermo-fluidic processes that occur during vitrification in confined aqueous systems and motivate the further application of imaging techniques such as photon counting X-ray CT in fundamental studies of vitrification.

physics.med-ph↗

arXiv2022

Enhanced Laboratory X-ray Particle Tracking Velocimetry With Newly Developed Tungsten-Coated O(50 $μ$m) Tracers

Tracer particles designed specifically for X-ray particle tracking and imaging velocimetry (XPTV and XPIV) are necessary to widen the range of flows that can be studied with these techniques. In this study, we demonstrate in-lab XPTV using new, custom-designed $O$(50 $μ$m) diameter tungsten-coated hollow carbon spheres and a single energy threshold photon counting detector. To explore the measurement quality enhancement enabled by the new tracer particles and photon counting detector, a well understood Poiseulle pipe flow is measured. The data show agreement with the analytical solution for the depth-averaged velocity profile. The experiment also shows that the tungsten-coated particles achieve higher contrast and are better localized than previously available silver-coated particles, making faster and more precise measurements attainable. The particles are manufactured with a readily scalable chemical vapor deposition process. We further show that laboratory XPTV is practical with currently available energy-resolving photon counting detectors (PCDs), despite their presently lower spatiotemporal resolution compared to scintillating detectors. This finding suggests that energy-thresholding identification of different classes of tracers is feasible, further motivating the exploration of the X-ray tracer particle design space. The latest generation of PCDs are incorporating multiple energy thresholds, and have higher count rate limits. In the near future one could potentially expand on the work presented and track multiple tracer species and scalar fields simultaneously.

physics.flu-dyn↗

arXiv2022

Experimentally Validated Simulations of 50 μm X-ray PIV Tracer Particles

We evaluate Beer-Lambert (BL) ray-tracing and Monte Carlo N-Particle (MCNP) photon tracking simulations for prediction and comparison of X-ray imaging system performance. These simulation tools can aid the methodical design of laboratory-scale X-ray particle image velocimetry (XPIV) experiments and tracer particles by predicting image quality. Particle image signal-to-noise ratio (SNR) is used as the metric of system performance. Simulated and experiment data of hollow, silver-coated, glass sphere tracer particles (AGSF-33) are compared. As predicted by the simulations, the AGSF-33 particles are visible with a SNR greater than unity in 100~ms exposure time images, demonstrating their potential as X-ray PIV or particle tracking velocimetry (XPTV) tracers. The BL approach predicts the image contrast, is computationally inexpensive, and enables the exploration of a vast parameter space for system design. MCNP simulations, on the other hand, predict experiment images slightly more accurately, but are more than an order of magnitude more computationally expensive than BL simulations. For most practical XPIV system design applications, the higher computational expense of MCNP is likely not justified by the modest accuracy improvement compared to BL.

physics.flu-dyn↗

arXiv2015

Parametric Bilinear Generalized Approximate Message Passing

We propose a scheme to estimate the parameters $b_i$ and $c_j$ of the bilinear form $z_m=\sum_{i,j} b_i z_m^{(i,j)} c_j$ from noisy measurements $\{y_m\}_{m=1}^M$, where $y_m$ and $z_m$ are related through an arbitrary likelihood function and $z_m^{(i,j)}$ are known. Our scheme is based on generalized approximate message passing (G-AMP): it treats $b_i$ and $c_j$ as random variables and $z_m^{(i,j)}$ as an i.i.d.\ Gaussian 3-way tensor in order to derive a tractable simplification of the sum-product algorithm in the large-system limit. It generalizes previous instances of bilinear G-AMP, such as those that estimate matrices $\boldsymbol{B}$ and $\boldsymbol{C}$ from a noisy measurement of $\boldsymbol{Z}=\boldsymbol{BC}$, allowing the application of AMP methods to problems such as self-calibration, blind deconvolution, and matrix compressive sensing. Numerical experiments confirm the accuracy and computational efficiency of the proposed approach.

cs.IT↗

arXiv2014

Bilinear Generalized Approximate Message Passing

We extend the generalized approximate message passing (G-AMP) approach, originally proposed for high-dimensional generalized-linear regression in the context of compressive sensing, to the generalized-bilinear case, which enables its application to matrix completion, robust PCA, dictionary learning, and related matrix-factorization problems. In the first part of the paper, we derive our Bilinear G-AMP (BiG-AMP) algorithm as an approximation of the sum-product belief propagation algorithm in the high-dimensional limit, where central-limit theorem arguments and Taylor-series approximations apply, and under the assumption of statistically independent matrix entries with known priors. In addition, we propose an adaptive damping mechanism that aids convergence under finite problem sizes, an expectation-maximization (EM)-based method to automatically tune the parameters of the assumed priors, and two rank-selection strategies. In the second part of the paper, we discuss the specializations of EM-BiG-AMP to the problems of matrix completion, robust PCA, and dictionary learning, and present the results of an extensive empirical study comparing EM-BiG-AMP to state-of-the-art algorithms on each problem. Our numerical results, using both synthetic and real-world datasets, demonstrate that EM-BiG-AMP yields excellent reconstruction accuracy (often best in class) while maintaining competitive runtimes and avoiding the need to tune algorithmic parameters.

cs.IT↗