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Defining the Relationship between Seismicity and Deformation at Regional and Local Scales
Get PDFIn this thesis, I use source inversion methods to improve understanding of crustal deformation along the Nyainquentanglha (NQTL) Detachment in Southern Tibet and the Piceance Basin in northwestern Colorado. Broadband station coverage in both regions is sparse, necessitating the development of innovative approaches to source inversion for the purpose of studying local earthquakes.
In an effort to study the 2002-2003 earthquake swarm and the 2008 Mw 6.3 Damxung earthquake and aftershocks that occurred in the NQTL region, we developed a single station earthquake location inversion method called the SP Envelope method, to be used with data from LHSA at Lhasa, a broadband seismometer located 75 km away. A location is calculated by first rotating the seismogram until the azimuth at which the envelope of the P-wave arrival on the T-component is smallest (its great circle path) is found. The distance at which to place the location along this azimuth is measured by calculating the S-P distance from arrivals on the seismogram. When used in conjunction with an existing waveform modeling based source inversion method called Cut and Paste (CAP), a catalog of 40 regional earthquakes was generated.
From these 40 earthquakes, a catalog of 30 earthquakes with the most certain locations was generated to study the relationship of seismicity and NQTL region faults mapped in Google Earth and in Armijo et al., 1986 and Kapp et al., 2005. Using these faults and focal mechanisms, a fault model of the NQTL Region was generated using GOCAD, a 3D modeling suite. By studying the relationship of modeled faults to mapped fault traces at the surface, the most likely fault slip plane was chosen. These fault planes were then used to calculate slip vectors and a regional bulk stress tensor, with respect to which the low-angle NQTL Detachment was found to be badly misoriented. The formation of low-angle normal faults is inconsistent with the Anderson Theory of faulting, and the presence of the NQTL Detachment in a region with such an incongruous stress field supports the notion that such faults are real.
The timing and locations of the earthquakes in this catalog with respect to an anomalous increase in the eastward component of velocity readings at the single cGPS station in Lhasa (LHAS) were analyzed to determine the relationship between plastic and brittle deformation in the region. The fact that cGPS velocities slow significantly after the 2002-2003 earthquake swarm suggests that this motion is tectonic in nature, and it has been interpreted as only the second continental slow slip event (SSE) ever to be observed. The observation of slow slip followed by an earthquake swarm within a Tibetan rift suggests that other swarms observed within similar rifts in the region are related to SSEs.
In the Piceance Basin, CAP was used to determine source mechanisms of microearthquakes triggered as a result of fracture stimulation within a tight gas reservoir. The expense of drilling monitor wells and installing borehole geophones reduces the azimuthal station coverage, thus making it difficult to determine source mechanisms of microearthquakes using more traditional methods. For high signal to noise ratio records, CAP produced results on par with those obtained in studies of regional earthquakes. This finding suggests that CAP could successfully be applied in studies of microseismicity when data quality is high.</p
Measurement of the Direct CP Asymmetry in b→sγ via Sum of Exclusive B Meson Decays Using the BABAR Detector
Get PDFWe perform a measurement of direct CP violation in b to sγ ACP, and the measurement of a difference between Acp for neutral B and charged B mesons, Delta A_{X_s\gamma}, using 429 inverse femtobarn of data recorded at the Upsilon(4S) resonance with the BABAR detector. B mesons are reconstructed from 16 exclusive final states. Particle identification is done using an algorithm based on Error Correcting Output Code with an exhaustive matrix. Background rejection and best candidate selection are done using two decision tree-based classifiers. We found $\acp = 1.73%+-1.93%+-1.02% and Delta A_X_sγ = 4.97%+-3.90%+-1.45% where the uncertainties are statistical and systematic respectively. Based on the measured value of Delta A_X_sgamma, we determine a 90% confidence interval for Im C_8g/C_7gamma, where C_7gamma and C_8g are Wilson coefficients for New Physics amplitudes, at -1.64 < Im C_8g/C_7gamma < 6.52
Engineering Thermostable Fungal Cellobiohydrolases
Get PDFMeeting the world's growing energy demands while protecting our fragile environment is a challenging issue. Second generation biofuels are liquid fuels like long-chain alcohols produced from lignocellulosic biomass. To reduce the cost of biofuel production, we engineered fungal family 6 cellobiohydrolases (Cel6A) for enhanced thermostability using random mutagenesis and recombination of beneficial mutations. During long-time hydrolysis, engineered thermostable cellulases hydrolyze more sugars than wild-type Cel6A as single enzymes and binary mixtures at their respective optimum temperatures. Engineered thermostable cellulases exhibit synergy in binary mixtures similar to wild-type cellulases, demonstrating the utility of engineering individual cellulases to produce novel thermostable mixtures. Crystal structures of the engineered thermostable cellulases indicate that the stabilization comes from improved hydrophobic interactions and restricted loop conformations by proline substitutions. At high temperature, free cysteines contribute to irreversible thermal inactivation in engineered thermostable Cel6A and wild-type Cel6A. The mechanism of thermal inactivation in this cellulase family is consistent with disulfide bond degradation and thiol-disulfide exchange. Enhancing the thermostability of Cel6A also increases tolerance to pretreatment chemicals, demonstrated by the strong correlation between thermostability and tolerance to 1-ethyl-3-methylimidazolium acetate. Several semi-rational protein engineering approaches – on the basis of consensus sequence analysis, proline stabilization, FoldX energy calculation, and high B-factors – were evaluated to further enhance the thermostability of Cel6A
Single-Cell Analysis of the Physiology of Mechanosensation in Bacteria
Get PDFEscherichia coli is one of the best studied living organisms and a model system for many biophysical investigations. Despite countless discoveries of the details of its physiology, we still lack a holistic understanding of how these bacteria react to changes in their environment. One of the most important examples is their response to osmotic shock. One of the mechanistic elements protecting cell integrity upon exposure to sudden changes of osmolarity is the presence of mechanosensitive channels in the cell membrane. These channels are believed to act as tension release valves protecting the inner membrane from rupturing. This thesis presents an experimental study of various aspects of mechanosensation in bacteria. We examine cell survival after osmotic shock and how the number of MscL (Mechanosensitive channel of Large conductance) channels expressed in a cell influences its physiology. We developed an assay that allows real-time monitoring of the rate of the osmotic challenge and direct observation of cell morphology during and after the exposure to osmolarity change. The work described in this thesis introduces tools that can be used to quantitatively determine at the single-cell level the number of expressed proteins (in this case MscL channels) as a function of, e.g., growth conditions. The improvement in our quantitative description of mechanosensation in bacteria allows us to address many, so far unsolved, problems, like the minimal number of channels needed for survival, and can begin to paint a clearer picture of why there are so many distinct types of mechanosensitive channels
A Geometric Analysis of Convex Demixing
Get PDFDemixing is the task of identifying multiple signals given only their sum and prior information about their structures. Examples of demixing problems include (i) separating a signal that is sparse with respect to one basis from a signal that is sparse with respect to a second basis; (ii) decomposing an observed matrix into low-rank and sparse components; and (iii) identifying a binary codeword with impulsive corruptions. This thesis describes and analyzes a convex optimization framework for solving an array of demixing problems.
Our framework includes a random orientation model for the constituent signals that ensures the structures are incoherent. This work introduces a summary parameter, the statistical dimension, that reflects the intrinsic complexity of a signal. The main result indicates that the difficulty of demixing under this random model depends only on the total complexity of the constituent signals involved: demixing succeeds with high probability when the sum of the complexities is less than the ambient dimension; otherwise, it fails with high probability.
The fact that a phase transition between success and failure occurs in demixing is a consequence of a new inequality in conic integral geometry. Roughly speaking, this inequality asserts that a convex cone behaves like a subspace whose dimension is equal to the statistical dimension of the cone. When combined with a geometric optimality condition for demixing, this inequality provides precise quantitative information about the phase transition, including the location and width of the transition region.</p
The Intergalactic and Circumgalactic Medium Surrounding Star-Forming Galaxies at Redshifts 2<z<3
Get PDFWe present measurements of the spatial distribution, kinematics, and physical properties of gas in the circumgalactic medium (CGM) of 2.0<z<2.8 UV color-selected galaxies as well as within the 2<z<3 intergalactic medium (IGM). These measurements are derived from Voigt profile decomposition of the full Lyα and Lyβ forest in 15 high-resolution, high signal-to-noise ratio QSO spectra resulting in a catalog of ∼6000 HI absorbers.
Chapter 2 of this thesis focuses on HI surrounding high-z star-forming galaxies drawn from the Keck Baryonic Structure Survey (KBSS). The KBSS is a unique spectroscopic survey of the distant universe designed to explore the details of the connection between galaxies and intergalactic baryons within the same survey volumes. The KBSS combines high-quality background QSO spectroscopy with large densely-sampled galaxy redshift surveys to probe the CGM at scales of ∼50 kpc to a few Mpc. Based on these data, Chapter 2 presents the first quantitative measurements of the distribution, column density, kinematics, and absorber line widths of neutral hydrogen surrounding high-z star-forming galaxies.
Chapter 3 focuses on the thermal properties of the diffuse IGM. This analysis relies on measurements of the ∼6000 absorber line widths to constrain the thermal and turbulent velocities of absorbing "clouds."
A positive correlation between the column density of HI and the minimum line width is recovered and implies a temperature-density relation within the low-density IGM for which higher-density regions are hotter, as is predicted by simple theoretical arguments.
Chapter 4 presents new measurements of the opacity of the IGM and CGM to hydrogen-ionizing photons. The chapter begins with a revised measurement of the HI column density distribution based on this new absorption line catalog that, due to the inclusion of high-order Lyman lines, provides the first statistically robust measurement of the frequency of absorbers with HI column densities 14 ≲ log(NHI/cm-2) ≲ 17.2. Also presented are the first measurements of the column density distribution of HI within the CGM (50 <d < 300 pkpc) of high-z galaxies. These distributions are used to calculate the total opacity of the IGM and IGM+CGM and to revise previous measurements of the mean free path of hydrogen-ionizing photons within the IGM. This chapter also considers the effect of the surrounding CGM on the transmission of ionizing photons out of the sites of active star-formation and into the IGM.
This thesis concludes with a brief discussion of work in progress focused on understanding the distribution of metals within the CGM of KBSS galaxies. Appendix B discusses my contributions to the MOSFIRE instrumentation project. </p
Discovery of Non-Zero Neutrino Mixing Angle θ₁₃ Using Daya Bay Antineutrino Detectors
Get PDFThe Daya Bay Reactor Antineutrino Experiment observed the disappearance of reactor νe from six 2.9 GWth reactor cores in Daya Bay, China. The Experiment consists of six functionally identical νe detectors, which detect νe by inverse beta decay using a total of about 120 metric tons of Gd-loaded liquid scintillator as the target volume. These νe detectors were installed in three underground experimental halls, two near halls and one far hall, under the mountains near Daya Bay, with overburdens of 250 m.w.e, 265 m.w.e and 860 m.w.e. and flux-weighted baselines of 470 m, 576 m and 1648 m. A total of 90179 νe candidates were observed in the six detectors over a period of 55 days, 57549 at the Daya Bay near site, 22169 at the Ling Ao near site and 10461 at the far site. By performing a rate-only analysis, the value of sin22θ13 was determined to be 0.092 ± 0.017
Quantum Error Correction with Biased Noise
Get PDFQuantum computing offers powerful new techniques for speeding up the calculation of many classically intractable problems. Quantum algorithms can allow for the efficient simulation of physical systems, with applications to basic research, chemical modeling, and drug discovery; other algorithms have important implications for cryptography and internet security.
At the same time, building a quantum computer is a daunting task, requiring the coherent manipulation of systems with many quantum degrees of freedom while preventing environmental noise from interacting too strongly with the system. Fortunately, we know that, under reasonable assumptions, we can use the techniques of quantum error correction and fault tolerance to achieve an arbitrary reduction in the noise level.
In this thesis, we look at how additional information about the structure of noise, or "noise bias," can improve or alter the performance of techniques in quantum error correction and fault tolerance. In Chapter 2, we explore the possibility of designing certain quantum gates to be extremely robust with respect to errors in their operation. This naturally leads to structured noise where certain gates can be implemented in a protected manner, allowing the user to focus their protection on the noisier unprotected operations.
In Chapter 3, we examine how to tailor error-correcting codes and fault-tolerant quantum circuits in the presence of dephasing biased noise, where dephasing errors are far more common than bit-flip errors. By using an appropriately asymmetric code, we demonstrate the ability to improve the amount of error reduction and decrease the physical resources required for error correction.
In Chapter 4, we analyze a variety of protocols for distilling magic states, which enable universal quantum computation, in the presence of faulty Clifford operations. Here again there is a hierarchy of noise levels, with a fixed error rate for faulty gates, and a second rate for errors in the distilled states which decreases as the states are distilled to better quality. The interplay of of these different rates sets limits on the achievable distillation and how quickly states converge to that limit.</p
Convex Analysis for Minimizing and Learning Submodular Set Functions
Get PDFThe connections between convexity and submodularity are explored, for purposes of minimizing and learning submodular set functions.
First, we develop a novel method for minimizing a particular class of submodular functions, which can be expressed as a sum of concave functions composed with modular functions. The basic algorithm uses an accelerated first order method applied to a smoothed version of its convex extension. The smoothing algorithm is particularly novel as it allows us to treat general concave potentials without needing to construct a piecewise linear approximation as with graph-based techniques.
Second, we derive the general conditions under which it is possible to find a minimizer of a submodular function via a convex problem. This provides a framework for developing submodular minimization algorithms. The framework is then used to develop several algorithms that can be run in a distributed fashion. This is particularly useful for applications where the submodular objective function consists of a sum of many terms, each term dependent on a small part of a large data set.
Lastly, we approach the problem of learning set functions from an unorthodox perspective---sparse reconstruction. We demonstrate an explicit connection between the problem of learning set functions from random evaluations and that of sparse signals. Based on the observation that the Fourier transform for set functions satisfies exactly the conditions needed for sparse reconstruction algorithms to work, we examine some different function classes under which uniform reconstruction is possible.</p
State-Dependent Modulation of Neuronal Circuits in C. elegans Sleep
Get PDFC. elegans is a compact system of 302 neurons with identifiable and mapped connections that makes it ideal for systems analysis. This work is a demonstration of what I have been able to learn about the nature of state-specific modulation and reversibility during a state called lethargus, a sleep-like state in the worm. I begin with description about the nervous system of the worm, the nature of sleep in the worm, the questions about behavior and its apparent circuit properties, the tools available and used to manipulate the nervous system, and what I have been able to learn from these studies. I end with clues that the physiology helps to teach us about the dynamics of state specific modulation, what makes sleep so different from other states, and how we can use these measurements to understand which modulators, neurotransmitters, and channels can be used to create different dynamics in a simple model system