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<p>The kinematics and associated deformation of upper crust in fossil and active convergent tectonic settings require different methods of study. In this thesis, I analyzed an example of a fossil convergent setting, the formation of the eastern portion of Paleoproterozoic Sudbury Basin, Ontario, and an example of an active convergent plate interface represented by the ongoing subduction along the Hellenic Arc at Rhodes, Greece. In Sudbury, using paleomagnetic remanence directions and Matachewan dyke orientations, I constrain the magnitudes of rotation associated with the formation of the NE-lobe, a tight secondary fold of the Sudbury Basin, as well as localize the fold axis and magnitude of rotation along the West Bay Anticline, a hitherto unknown fold of the Basin.</p> <p>For the Island of Rhodes, I corroborate the existence of two phases of Plio-Pleistocene or younger deformation including providing their principal strain axis orientations from a fault-slip analysis. In addition, I estimate the magnitude of slip from faults to generate respective incremental strain ellipses of the two deformation phases for the Island. The first phase is characterized by vertical shortening (ŝ₃) and N-S extension (ŝ₁) with associated normal faulting while the second phase is characterized by N-S shortening (ŝ₃) and E-W extension (ŝ₁) associated with strike-slip faulting.</p> / Master of Science (MSc)

Molecular dynamics (MD) simulation is a powerful tool enabling researchers to gain insight into biological processes at the atomic level. There have been many advancements in both hardware and software in the last decade to both accelerate MD simulations and increase their predictive accuracy; however, MD simulations are typically limited to the microsecond timescale, whereas biological motions can take seconds or longer. Because of this, it remains extremely challenging to restrain simulations using ensemble-averaged experimental observables. Among various approaches to elucidate the kinetics of molecular simulations, Markov State Models (MSMs) have proven their ability to extract both kinetic and thermodynamic properties of long-timescale motions using ensembles of shorter MD simulation trajectories. In this dissertation, we have implemented an MSM path-entropy method, based on the idea of maximum-caliber, to efficiently predict the changes in protein folding behavior upon mutation. Next, we explore the accuracy of different MSM estimators applied to trajectory data obtained by adaptive seeding, in which new rounds of short MD simulations are collected from states of interest, and propose a simple method to build accurate models by population re-weighting of the transition count matrix. Finally, we explore ways to reconcile simulated ensembles with Hydrogen/Deuterium exchange (HDX) protection measurements, by constructing multi-ensemble Markov State Models (MEMMs) from biased MD simulations, and reconciling these predictions against the experimental data using the BICePs (Bayesian Inference of Conformational Populations) algorithm. We apply this approach to model the native-state conformational ensemble of apomyoglobin at neutral pH. / Chemistry

A Biedermeier Cabin was designed with attention to detail and stylistic simplicity in mind. This cabin, located along the banks of the Shenandoah River, is mainly used during the Summer months. The cabinâ s folding doors open up completely for the Summer months to let the breezes flow through. During the Winter months, when the cabin is not in use, all the windows and doors are folded or slid closed to protect the cabin from harsh weather. This seasonal transformation was a main focus in designing the cabin. The appearance of floating was also incorporated within the design. The intent was for the structure to protrude out of the earth and have a â floatingâ deck that cantilevers above the treetops overlooking the river. The roof folds around the structure, providing a feeling of privacy and intimacy. The roofâ s slope opens up toward the river, the intended primary vista. / Master of Architecture