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Finding Needles in the Haystack: A Search for AM CVn Systems Using the Palomar Transient Factory
Get PDFThe AM CVn systems are a rare class of ultra-compact astrophysical binaries. With orbital periods of under an hour and as short as five minutes, they are among the closest known binary star systems and their evolution has direct relevance to the type Ia supernova rate and the white dwarf binary population. However, their faint and rare nature has made population studies of these systems difficult and several studies have found conflicting results.
I undertook a survey for AM CVn systems using the Palomar Transient Factory (PTF) astrophysical synoptic survey by exploiting the "outbursts" these systems undergo. Such events result in an increase in luminosity by a factor of up to two-hundred and are detectable in time-domain photometric data of AM CVn systems. My search resulted in the discovery of eight new systems, over 20% of the current known population. More importantly, this search was done in a systematic fashion, which allows for a population study properly accounting for biases.
Apart from the discovery of new systems, I used the time-domain data from the PTF and other synoptic surveys to better understand the long-term behavior of these systems. This analysis of the photometric behavior of the majority of known AM CVn systems has shown changes in their behavior at longer time scales than have previously been observed. This has allowed me to find relationships between the outburst properties of an individual system and its orbital period.
Even more importantly, the systematically selected sample together with these properties have allowed me to conduct a population study of the AM CVn systems. I have shown that the latest published estimates of the AM CVn system population, a factor of fifty below theoretical estimates, are consistent with the sample of systems presented here. This is particularly noteworthy since my population study is most sensitive to a different orbital period regime than earlier surveys. This confirmation of the population density will allow the AM CVn systems population to be used in the study of other areas of astrophysics.</p
Interplay of Martensitic Phase Transformation and Plastic Slip in Polycrystals
Get PDFInspired by key experimental and analytical results regarding Shape Memory Alloys (SMAs), we propose a modelling framework to explore the interplay between martensitic phase transformations and plastic slip in polycrystalline materials, with an eye towards computational efficiency. The resulting framework uses a convexified potential for the internal energy density to capture the stored energy associated with transformation at the meso-scale, and introduces kinetic potentials to govern the evolution of transformation and plastic slip. The framework is novel in the way it treats plasticity on par with transformation.
We implement the framework in the setting of anti-plane shear, using a staggered implicit/explict update: we first use a Fast-Fourier Transform (FFT) solver based on an Augmented Lagrangian formulation to implicitly solve for the full-field displacements of a simulated polycrystal, then explicitly update the volume fraction of martensite and plastic slip using their respective stick-slip type kinetic laws. We observe that, even in this simple setting with an idealized material comprising four martensitic variants and four slip systems, the model recovers a rich variety of SMA type behaviors. We use this model to gain insight into the isothermal behavior of stress-stabilized martensite, looking at the effects of the relative plastic yield strength, the memory of deformation history under non-proportional loading, and several others.
We extend the framework to the generalized 3-D setting, for which the convexified potential is a lower bound on the actual internal energy, and show that the fully implicit discrete time formulation of the framework is governed by a variational principle for mechanical equilibrium. We further propose an extension of the method to finite deformations via an exponential mapping. We implement the generalized framework using an existing Optimal Transport Mesh-free (OTM) solver. We then model the -- and -- transformations in pure iron, with an initial attempt in the latter to account for twinning in the parent phase. We demonstrate the scalability of the framework to large scale computing by simulating Taylor impact experiments, observing nearly linear (ideal) speed-up through 256 MPI tasks. Finally, we present preliminary results of a simulated Split-Hopkinson Pressure Bar (SHPB) experiment using the -- model.</p
Biotechnologies for Cancer Diagnostics: Cell Sorting, Protein Analysis and Imaging of Cellular Metabolism
Get PDFThis thesis presents the development of chip-based technology for informative in vitro cancer diagnostics. In the first part of this thesis, I will present my contribution in the development of a technology called “Nucleic Acid Cell Sorting (NACS)”, based on microarrays composed of nucleic acid encoded peptide major histocompatibility complexes (p/MHC), and the experimental and theoretical methods to detect and analyze secreted proteins from single or few cells.
Secondly, a novel portable platform for imaging of cellular metabolism with radio probes is presented. A microfluidic chip, so called “Radiopharmaceutical Imaging Chip” (RIMChip), combined with a beta-particle imaging camera, is developed to visualize the uptake of radio probes in a small number of cells. Due to its sophisticated design, RIMChip allows robust and user-friendly execution of sensitive and quantitative radio assays. The performance of this platform is validated with adherent and suspension cancer cell lines. This platform is then applied to study the metabolic response of cancer cells under the treatment of drugs. Both cases of mouse lymphoma and human glioblastoma cell lines, the metabolic responses to the drug exposures are observed within a short time (~ 1 hour), and are correlated with the arrest of cell-cycle, or with changes in receptor tyrosine kinase signaling.
The last parts of this thesis present summaries of ongoing projects: development of a new agent as an in vivo imaging probe for c-MET, and quantitative monitoring of glycolytic metabolism of primary glioblastoma cells. To develop a new agent for c-MET imaging, the one-bead-one-compound combinatorial library method is used, coupled with iterative screening. The performance of the agent is quantitatively validated with cell-based fluorescent assays. In the case of monitoring the metabolism of primary glioblastoma cell, by RIMChip, cells were sorting according to their expression levels of oncoprotein, or were treated with different kinds of drugs to study the metabolic heterogeneity of cancer cells or metabolic response of glioblastoma cells to drug treatments, respectively. </p
New Directions In Sparse Sampling and Estimation For Underdetermined Systems
Get PDFA central objective in signal processing is to infer meaningful information from a set of measurements or data. While most signal models have an overdetermined structure (the number of unknowns less than the number of equations), traditionally very few statistical estimation problems have considered a data model which is underdetermined (number of unknowns more than the number of equations). However, in recent times, an explosion of theoretical and computational methods have been developed primarily to study underdetermined systems by imposing sparsity on the unknown variables. This is motivated by the observation that inspite of the huge volume of data that arises in sensor networks, genomics, imaging, particle physics, web search etc., their information content is often much smaller compared to the number of raw measurements. This has given rise to the possibility of reducing the number of measurements by down sampling the data, which automatically gives rise to underdetermined systems.
In this thesis, we provide new directions for estimation in an underdetermined system, both for a class of parameter estimation problems and also for the problem of sparse recovery in compressive sensing. There are two main contributions of the thesis: design of new sampling and statistical estimation algorithms for array processing, and development of improved guarantees for sparse reconstruction by introducing a statistical framework to the recovery problem.
We consider underdetermined observation models in array processing where the number of unknown sources simultaneously received by the array can be considerably larger than the number of physical sensors. We study new sparse spatial sampling schemes (array geometries) as well as propose new recovery algorithms that can exploit priors on the unknown signals and unambiguously identify all the sources. The proposed sampling structure is generic enough to be extended to multiple dimensions as well as to exploit different kinds of priors in the model such as correlation, higher order moments, etc.
Recognizing the role of correlation priors and suitable sampling schemes for underdetermined estimation in array processing, we introduce a correlation aware framework for recovering sparse support in compressive sensing. We show that it is possible to strictly increase the size of the recoverable sparse support using this framework provided the measurement matrix is suitably designed. The proposed nested and coprime arrays are shown to be appropriate candidates in this regard. We also provide new guarantees for convex and greedy formulations of the support recovery problem and demonstrate that it is possible to strictly improve upon existing guarantees.
This new paradigm of underdetermined estimation that explicitly establishes the fundamental interplay between sampling, statistical priors and the underlying sparsity, leads to exciting future research directions in a variety of application areas, and also gives rise to new questions that can lead to stand-alone theoretical results in their own right.</p
Constraints on the Carbon Cycle and Climate During the Early Evolution of Animals
Get PDFOne of the greatest challenges in science lies in disentangling causality in complex, coupled systems. This is illustrated no better than in the dynamic interplay between the Earth and life. The early evolution and diversification of animals occurred within a backdrop of global change, yet reconstructing the potential role of the environment in this evolutionary transition is challenging. In the 200 million years from the end-Cryogenian to the Ordovician, enigmatic Ediacaran fauna explored body plans, animals diversified and began to biomineralize, forever changing the ocean's chemical cycles, and the biological community in shallow marine ecosystems transitioned from a microbial one to an animal one.
In the following dissertation, a multi-faceted approach combining macro- and micro-scale analyses is presented that draws on the sedimentology, geochemistry and paleontology of the rocks that span this transition to better constrain the potential environmental changes during this interval.
In Chapter 1, the potential of clumped isotope thermometry in deep time is explored by assessing the importance of burial and diagenesis on the thermometer. Eocene- to Precambrian-aged carbonates from the Sultanate of Oman were analyzed from current burial depths of 350-5850 meters. Two end-member styles of diagenesis independent of burial depth were observed.
Chapters 2, 3 and 4 explore the fallibility of the Ediacaran carbon isotope record and aspects of the sedimentology and geochemistry of the rocks preserving the largest negative carbon isotope excursion on record---the Shuram Excursion. Chapter 2 documents the importance of temperature, fluid composition and mineralogy on the delta 18-O min record and interrogates the bulk trace metal signal. Chapter 3 explores the spatial variability in delta 13-C recorded in the transgressive Johnnie Oolite and finds a north-to-south trend recording the onset of the excursion. Chapter 4 investigates the nature of seafloor precipitation during this excursion and more broadly. We document the potential importance of microbial respiratory reactions on the carbonate chemistry of the sediment-water interface through time.
Chapter 5 investigates the latest Precambrian sedimentary record in carbonates from the Sultanate of Oman, including how delta 13-C and delta 34-S CAS vary across depositional and depth gradients. A new model for the correlation of the Buah and Ara formations across Oman is presented. Isotopic results indicate delta 13-C varies with relative eustatic change and delta 34-S CAS may vary in absolute magnitude across Oman.
Chapter 6 investigates the secular rise in delta 18-Omin in the early Paleozoic by using clumped isotope geochemistry on calcitic and phosphatic fossils from the Cambrian and Ordovician. Results do not indicate extreme delta 18-O seawater depletion and instead suggest warmer equatorial temperatures across the early Paleozoic. </p
Sound Velocities and Equation of State of Iron-Rich (Mg,Fe)O
Get PDFUltralow-velocity zones (ULVZs) are small structures at the base of the mantle characterized by sound velocities up to 30% lower than those of surrounding mantle. In this thesis, we propose that iron-rich (Mg,Fe)O plays a key role in the observed sound velocities, and argue that chemically distinct, iron-enriched structures are consistent with both the low sound velocities and the measured shapes of ULVZs
Identification of Thermally-Tagged Coherent Structures in the Zero Pressure Gradient Turbulent Boundary Layer
Get PDFA zero pressure gradient boundary layer over a flat plate is subjected to step changes in thermal condition at the wall, causing the formation of internal, heated layers. The resulting temperature fluctuations and their corresponding density variations are associated with turbulent coherent structures. Aero-optical distortion occurs when light passes through the boundary layer, encountering the changing index of refraction resulting from the density variations. Instantaneous measurements of streamwise velocity, temperature and the optical deflection angle experienced by a laser traversing the boundary layer are made using hot and cold wires and a Malley probe, respectively. Correlations of the deflection angle with the temperature and velocity records suggest that the dominant contribution to the deflection angle comes from thermally-tagged structures in the outer boundary layer with a convective velocity of approximately 0.8U∞. An examination of instantaneous temperature and velocity and their temporal gradients conditionally averaged around significant optical deflections shows behavior consistent with the passage of a heated vortex. Strong deflections are associated with strong negative temperature gradients, and strong positive velocity gradients where the sign of the streamwise velocity fluctuation changes. The power density spectrum of the optical deflections reveals associated structure size to be on the order of the boundary layer thickness. A comparison to the temperature and velocity spectra suggests that the responsible structures are smaller vortices in the outer boundary layer as opposed to larger scale motions. Notable differences between the power density spectra of the optical deflections and the temperature remain unresolved due to the low frequency response of the cold wire
Morphological Study of Ice Crystal Growth
No full textThe morphologies and growth rates of ice crystals have been observed and documented using a novel experiment, with the goal of investigating the overarching principles of the molecular dynamics of ice crystal growth. The experimental set-up consists of two side-by-side temperature-regulated diffusion chambers. Thin ice needles, up to several millimeters in length and a few microns in diameter, are grown in the first chamber off of a metal wire through nucleation caused by the application of a high voltage. These electric needles are then transferred to the second chamber with a controllable internal water vapor supersaturation level, and subsequent growth of the ice crystals is observed. The crystal morphology is captured digitally via optical microscopy and is analyzed in the form of time-stamped images.
Varying the supersaturation and overall temperature affects the crystal morphology as well as growth rate and yields insights into the basic physical principles governing crystal growth. A theory that proposes to explain the resulting morphology of ice crystals due to variations in temperature and supersaturation conditions suggests that relative growth rates of the principal facets of a crystal depend on the current morphology of the crystal and on an instability. Computer simulations of this proposed theory called the Structure-Dependent Attachment Kinetics model are tested against real ice crystals to determine the accuracy of the proposed theory.</p
Device Architecture for Improved Redox Couple Mass Transport in Silicon Microwire Photoelectrodes and Electrical Contacts to Silicon Microwire Photovoltaics
No full textApplications of silicon microwires to solar energy conversion are investigated in
this thesis, which is divided into two chapters. In the first chapter, silicon microwires are
investigated as photoelectrodes in photoelectrochemical cells. The mass transport
limitations of redox couple is studied in these liquid junction solar cells, and a device
architecture proposed and successfully demonstrated to improve device performance.
This work was recently published in the Proceedings of the National Academy of
Sciences and is reproduced in chapter one (32). In the second chapter, the device
architecture developed to improve redox couple mass transport in liquid junction solar
cells is explored as a possible method to make electrical contacts to silicon microwire
photovoltaics
Atmospheric Trace Gases as Probes of Chemistry and Dynamics
Get PDFThis dissertation is a collection of empirical and modeling studies focusing on decadal and intraseasonal variabilities in atmospheric tracers. In Part I, a persistent discrepancy between the model and observed stratospheric O3 solar response is revisited using the Whole-Atmosphere Community Chemistry Model (WACCM). The model O3 simulated using UV irradiances measured from the latest spaceborne solar UV measurements by the Solar Radiation and Climate Experiment (SORCE) and that from the solar UV parametrization developed by the Naval Research Laboratory (NRL) are studied and compared with observations. None of the simulations using SORCE and NRL UV simultaneously agree with the observed O3 solar response in both upper and lower stratospheres, thus presenting a dilemma to our current understanding of stratospheric O3 response to UV perturbations. However, the simulation using the SORCE UV irradiance leads to a solar response in upper stratospheric/lower mesospheric OH column that agrees better than those derived from ground-based and satellite observations. Continuous long-term observations of solar UV, OH, O3, and other related chemical species through upcoming solar cycles are crucial for further investigations to solve the above puzzles. In Part II, intraseasonal variabilities in upper tropospheric/lower stratospheric (UTLS) O3 and mid-tropospheric carbon dioxide (CO2) related to the Madden-Julian oscillation (MJO) are studied using recent satellite observations. The UTLS O3 at mid-latitudes is shown to be modulated by the MJO through dynamical motions of the tropopause layer, supporting the conjecture proposed in previous studies. It is further shown that the UTLS O3 over the Arctic can be also modulated by the tropopause motions through MJO teleconnections. On the other hand, the distribution of tropical mid-tropospheric CO2 is modulated by the MJO through upward transport of surface CO2. The amplitude is of critical scale for identifying oceanic and land sources of CO2. The detailed structures of these MJO impacts are useful for diagnosing chemical transport models. These findings may be useful for improving air quality forecasts to weekly/monthly timescales, which help warn the public in advance and help authorities to take efficient emergency control actions