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  • Multicellular monolayer’s self-organization under external stimuli

    Creator:
    Li, Guanyu
    Abstract:
    Cell signaling under external stimulation is a critical mechanism that governs many biological processes such as cell proliferation, cell migration, and cell apoptosis, etc. For multicellular organisms, the ability to synchronize heterogeneous individual cellular responses through intercellular communication is crucial to maintain normal functionality. However, even though the biological pathways...
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    Dissertation
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    Ph.D and master degree, David McIntyre, Ethan Minot, Weihong Qiu. I would like to give special thanks

  • Bridging the Gap Between Equilibrium Properties and Ultrafast Dynamics with Time-Resolved Spectroscopy of Functional Systems

    Creator:
    Krueger, Taylor D.
    Abstract:
    Ultrafast spectroscopy has recently gained momentum as a powerful, noninvasive characterization toolset capable of studying a diverse array of samples with applications in chemistry, physics, biology, engineering, and more. Two popular ultrafast spectroscopic techniques include femtosecond transient absorption (fs-TA) and femtosecond stimulated Raman spectroscopy (FSRS). The latter of these techniques...
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    Dissertation
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    committee members: Dr. Wei Kong, Dr. David McIntyre, Dr. Douglas Keszler, and Dr. Weihong Qiu for their

  • Coulomb Explosion in Moderately Intense Nanosecond Laser Fields

    Creator:
    Yao, Yuzhong
    Abstract:
    In this dissertation, I present experimental observations of multiply charged atomic ions (MCAI) generated from interactions of atomic/molecular clusters with moderately intense nanosecond laser pulses. This process is also known as Coulomb explosion (CE) and it has been extensively studied in intense laser fields using ultrashort pulses. Several prevailing theories...
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    Dissertation
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    . Lan Xue, Dr. Chong Fang, Dr. David McIntyre, and Dr. Weihong Qiu for their insightful comments and

  • Electron Diffraction of Neutral and Cationic Clusters Doped into Superfluid Helium Droplets

    Creator:
    Lei, Lei
    Abstract:
    In this dissertation, I describe the experimental investigation of electron diffraction of neutral and ionic clusters doped into superfluid helium droplets. The project is aimed at contributing to the development of an overall approach called ‘serial single molecule electron diffraction imaging (ss-EDI), a potential approach to solve macromolecule structures bypassing...
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    Dissertation
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    homemade parts. I would also like to thank my thesis committee: Dr. Chong Fang, Dr. Weihong

  • Analytical Platform to Study Bacterial Metabolism and their Interactions with Biomaterials using SECM

    Creator:
    Sheet, Partha S.
    Abstract:
    The microbial communities play a crucial role in maintaining human health and cause diseases through very complex microbial chemical interactions. Therefore, these microbial communities have drawn much attention to the scientific communities. To elucidate these complex microbial communities and the chemical interactions within it, one or more isolated species of...
    Resource Type:
    Dissertation

  • Dynamics and Design of Green Fluorescent Protein-Inspired Superphotoacids and Red-Emitting Fluorophores with Transient Absorption and Femtosecond Stimulated Raman Spectroscopy

    Creator:
    Chen, Cheng
    Abstract:
    In the past decades, femtosecond stimulated Raman spectroscopy (FSRS) has been gaining tremendous popularity in fundamental sciences stemming from chemistry to biology. It is capable of capturing both equilibrium and non-equilibrium structural information across a broad range of timescales with simultaneously high temporal and spectral resolutions. Femtosecond transient absorption spectroscopy...
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    Dissertation
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    also like to thank Dr. Yun-Shik Lee, Dr. Paul Blakemore, and Dr. Weihong Qiu for their

  • Multi-scale Investigation of Bidirectional Feedback Mechanism Between Breast Cancer Cells and Extracellular Matrix

    Creator:
    Kim, Jihan
    Abstract:
    Cell migration is fundamental for physiological processes such as immune re-sponses, wound healing and development. It is also a critical characteristic of metastatic cancer cells. An extensive amount of studies have focused on 2D sub-strates in order to understand the mechanism of cancer metastasis. However, much less is known about...
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    Dissertation
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    suggestions: David McIntyre, Oksana Ostroverkhova, Weihong Qiu, and Collin Johnson, as well as my

  • Electrochemical Micro-sensors for Probing Bacterial Metabolic Behavior with Scanning Electrochemical Microscopy

    Creator:
    Jayathilake, Nadeeshani M.
    Abstract:
    Dental plaque is one of the well-characterized biofilms in the human body. Oral bacterial species play vital roles in maintaining healthy bacterial homeostasis as well as causing oral infections. Many of the oral diseases are caused by opportunistic pathogens, and therefore, the bacterial metabolic activities become important in dictating their...
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    Dissertation
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    . Remcho, Dr. David Ji, Dr. Sean Burrows, Dr. Wei Kong and Dr. Weihong Qiu for your valuable advice and

  • In vivo Reactions of Tetrazines Incorporated through Genetic Code Expansion

    Creator:
    Blizzard, Robert J.
    Abstract:
    The inverse electron demand Diels Alder reaction between tetrazines and strained alkenes is an exceptionally useful tool in functionalizing to biomolecules since it is orthogonal to the chemistry of most living systems and have exceptionally high rate constants. In particular reactions between strained trans-cyclooctenes (sTCO) and tetrazines can achieve second...
    Resource Type:
    Dissertation

  • Single-molecule in vitro Characterization of Otoferlin

    Creator:
    Hams, Nicole J.
    Abstract:
    Congenital hearing loss is a common disorder and over 60 mutations in the sensory hair cell protein, otoferlin, have been linked to pre-lingual deafness. Although otoferlin is essential for hearing, the large size and low solubility of the protein have limited approaches to study its function on a molecular-level. To...
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    Dissertation
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    members, Dr. Elisar Barbar, Dr. Kate Schilke, Dr. Victor Hsu and Dr. Weihong Qiu, as well as Dr. Ryan

  • Nonlinear behavior of thermal and ion transport at the nanoscale

    Creator:
    Sahu, Subin
    Abstract:
    Functional control at the nanoscale forms the foundation of biological systems. These work at the cellular level by manipulating ions and molecules. Nanoscale devices that give functional control at this scale are also becoming an important component in diverse fields such as electronics, medicine, engineering, and manufacturing. Moreover, scientific advances...
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    , Guenter Schneider, Weihong Qiu and P. Alex Greaney for their instructions. I also want to thank the

  • Exploring Protein Structure: Seeing the Forest and the Trees

    Creator:
    Brereton, Andrew E.
    Abstract:
    Life on Earth intimately depends on the function of countless proteins. For the majority of studied proteins, function absolutely depends on conformation (i.e. 3-dimensional shape in solution). The exact nature of how a protein goes from an unfolded linear polypeptide chain to an organized folded molecule is still not known,...
    Resource Type:
    Dissertation

  • CoLocalized Excitation Emission Resolution : A CLEER approach for multicolor fluorescence analysis

    Creator:
    Almlie, C. Kyle
    Abstract:
    Fluorescence has proven to be a robust and powerful method of analysis in numerous fields: forensics, pharmaceutics, geology, food science, and environmental sciences have all developed a large collection of fluorescence instruments and methods to overcome application-specific challenges. Biological applications saw the same development of a fluorescence toolkit with methods...
    Resource Type:
    Dissertation

  • Mechanics of three-dimensional microenvironments of cells

    Creator:
    Jones, Christopher
    Abstract:
    The structure and mechanics of tissues affect many important cellular functions such as migration, differentiation, and growth. Mechanical interactions between cells and the extracellular matrix (ECM), as well as ECM-mediated mechanical communication between cells, plays a part in coordinating collective cellular dy- namics during critical processes such as morphogenesis, tissue...
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    Dissertation

  • Information Processing in Multicellular Networks

    Creator:
    Potter, Garrett D.
    Abstract:
    The ability for individual cells and multicellular networks to process information contained in perceived stimuli is of vital importance to their proper functioning and ultimately their cellular fate. The primary mechanism employed by cells to this end is the use of biochemical signaling in which a series of molecular events...
    Resource Type:
    Dissertation

  • Refractory Amorphous Metal Thin Films

    Creator:
    Olsen, Kristopher R.
    Abstract:
    Amorphous metal thin films lack the grain boundaries and dislocations present in crystalline metal films. As a result, amorphous metal films can be more mechanically robust, atomically smooth, and more resistant to chemical attack than crystalline metals. However, amorphous metals are meta-stable and subject to crystallization upon heating, thus limiting...
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    Dissertation

  • Initial in vitro and in vivo Characterization of the Membrane Trafficking Protein Fer1L6

    Creator:
    Wolk, Chelsea
    Abstract:
    A fundamental difference between prokaryotic and eukaryotic cells is the presence of membrane bound organelles in eukaryotes. The dynamics of membrane trafficking within the cell are responsible for everything from intercellular communication and cell homeostasis, to mitosis, cell migration, and differentiation. These processes require exocytosis and compensatory endocytosis, often working...
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    . Weihong Qiu, and Dr. David  Hendrix.    Also, this type of graduate work would not be possible without

  • Protein Disorder in the Evolution of Dynein Regulation

    Creator:
    Jie, Jing
    Abstract:
    Intrinsically disordered proteins (IDP) are a class of proteins that lack a three-dimensional structure and their prevalence and diverse functions in the cell have only been discovered relatively recently. The intermediate chain (IC) subunit of the microtubule motor protein complex dynein contains an N-terminal disordered region, N-IC, which is central...
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    committee members, past and present, Dr. Andrew Karplus, Dr. Gary Merrill, Dr. Weihong Qiu, Dr. Barbara

  • Host and Pathogen Genetics in the Sharp Eyespot Disease of Wheat

    Creator:
    Liu, Jiang
    Abstract:
    Wheat sharp eyespot (SES), caused by the soil-borne fungus Rhizoctonia cerealis is a common stem disease of wheat globally. The disease caused a severe and extensive epidemic throughout the Willamette Valley of Oregon in 2014 and has remained one of the most important wheat diseases in this region. However, litte...
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    . Robert Zemetra, Dr. Kenneth Johnson, Dr. Niklaus Grunwald, and Dr. Weihong Qiu as my committee members

  • Assembly and Regulation of WW-PPXY Complexes in Hippo Signaling

    Creator:
    Baker, Kasie J.
    Abstract:
    The Hippo signaling pathway is an evolutionarily conserved regulator of cell growth, proliferation, and apoptosis. A key function of the pathway is to regulate the subcellular distribution and activity of Yorkie in Drosophila or Yes-associated protein (YAP) and transcription co-activator with PDZ-binding motif (TAZ) in mammals. The dysregulation of the...
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    . I would like to thank my committee members Dr. Barbar, Dr. Johnson, Dr. Qiu, and Dr. Taylor for

  • Part I: Synthetic Studies Towards Viridin, Halenaquinone, and Obtusanal. Part II: Analysis, Synthesis, and Characterization of Coronene Derivatives.

    Creator:
    Waldenmaier, Pieter K.
    Abstract:
    This thesis is separated into three distinct projects. First, synthetic studies towards the furanosteroid viridin shown in part I. Second, synthetic studies towards the diperene obtusanal shown in part II. Third, the analysis, characterization, and synthesis of coronene derivatives towards their application in organic batteries shown in part III. Significant...
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    Dissertation

  • Characterizing the Functional Properties of Otoferlin, Essential for Neurotransmission in Inner Hair Cells of the Cochlea

    Creator:
    Narayanappa, Murugesh
    Abstract:
    Hearing loss is one of the most common defect, affecting 360 million people worldwide due to several factors including congenital, present at or soon after birth or acquired with age. Congenital hearing loss affects 32 million children in the world. The economic impact of hearing loss is estimated to cost...
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    . I definitely wouldn’t have kept my sanity without it. I thank my committee members Weihong