Browsing by Subject "Coil"

In magnetic resonance microscopy, insufficient signal-to-noise ratio currently limits imaging performance. Superconducting probes can potentially increase the sensitivity of the magnetic resonance experiment. However, many superconducting probes failed to entirely deliver the expected increase in signal-to-noise ratio.

We present a method based on finite-element radiofrequency simulations. The radiofrequency model computes several figures of merit of a probe, namely: i) the resonant frequency, ii) the impedance, iii) the magnetic field homogeneity, iv) the filling factor, and v) the sensitivity. The probe is constituted by several components. The method calculates the electromagnetic losses induced by every component within the probe, and identifies the component limiting the sensitivity of the probe. Subsequently, the probe design can be improved iteratively.

We show that the sensitivity of an existing superconducting Helmholtz pair can be improved by increasing the filling factor of the probe and cooling the radiofrequency shield, which was implemented in the design of a new superconducting probe. The second probe exhibits a sensitivity three times as high, leading to improved imaging performance.

An abstract of a thesis devoted to using helix-coil models to study unfolded states.\\

Research on polypeptide unfolded states has received much more attention in the last decade or so than it has in the past. Unfolded states are thought to be implicated in various

misfolding diseases and likely play crucial roles in protein folding equilibria and folding rates. Structural characterization of unfolded states has proven to be

much more difficult than the now well established practice of determining the structures of folded proteins. This is largely because many core assumptions underlying

folded structure determination methods are invalid for unfolded states. This has led to a dearth of knowledge concerning the nature of unfolded state conformational

distributions. While many aspects of unfolded state structure are not well known, there does exist a significant body of work stretching back half a century that

has been focused on structural characterization of marginally stable polypeptide systems. This body of work represents an extensive collection of experimental

data and biophysical models associated with describing helix-coil equilibria in polypeptide systems. Much of the work on unfolded states in the last decade has not been devoted

specifically to the improvement of our understanding of helix-coil equilibria, which arguably is the most well characterized of the various conformational equilibria

that likely contribute to unfolded state conformational distributions. This thesis seeks to provide a deeper investigation of helix-coil equilibria using modern

statistical data analysis and biophysical modeling techniques. The studies contained within seek to provide deeper insights and new perspectives on what we presumably

know very well about protein unfolded states. \\

Chapter 1 gives an overview of recent and historical work on studying protein unfolded states. The study of helix-coil equilibria is placed in the context

of the general field of unfolded state research and the basics of helix-coil models are introduced.\\

Chapter 2 introduces the newest incarnation of a sophisticated helix-coil model. State of the art modern statistical techniques are employed to estimate the energies

of various physical interactions that serve to influence helix-coil equilibria. A new Bayesian model selection approach is utilized to test many long-standing

hypotheses concerning the physical nature of the helix-coil transition. Some assumptions made in previous models are shown to be invalid and the new model

exhibits greatly improved predictive performance relative to its predecessor. \\

Chapter 3 introduces a new statistical model that can be used to interpret amide exchange measurements. As amide exchange can serve as a probe for residue-specific

properties of helix-coil ensembles, the new model provides a novel and robust method to use these types of measurements to characterize helix-coil ensembles experimentally

and test the position-specific predictions of helix-coil models. The statistical model is shown to perform exceedingly better than the most commonly used

method for interpreting amide exchange data. The estimates of the model obtained from amide exchange measurements on an example helical peptide

also show a remarkable consistency with the predictions of the helix-coil model. \\

Chapter 4 involves a study of helix-coil ensembles through the enumeration of helix-coil configurations. Aside from providing new insights into helix-coil ensembles,

this chapter also introduces a new method by which helix-coil models can be extended to calculate new types of observables. Future work on this approach could potentially

allow helix-coil models to move into use domains that were previously inaccessible and reserved for other types of unfolded state models that were introduced in chapter 1.

MRI has emerged as a promising modality for detecting, staging, and monitoring treatment of prostate cancer in patients. Often prostate MRI exams make use of the endorectal coil (ERC) to improve the SNR on the prostate. However, it the ERC has limitations. The ERC is uncomfortable for patients and technicians, takes up hour time slots while non-ERC exams take up thirty-minute slots, and adds expense as every ERC is single use. Therefore, to increase patient quality of exam and hospital efficiency, this thesis endeavors to evaluate the use of ERC as a function of body habitus. Variability of patient weight, thickness, circumference, and BMI were evaluated against coil SNR to determine which body habitus threshold offering greatest SNR. Findings showed that using an A/P thickness threshold of 25 cm or patient circumference of 105 cm potentially offers acceptable SNR while removing use of ERC, but further testing is required.