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  • Analyses of noncanonical DNA structures

    Creator:
    Khuu, Patricia A.
    Abstract:
    The structural polymorphic nature of DNA has been long been recognized since the model of the right-handed B-DNA duplex proposed by James Watson and Francis Crick was accepted. Its malleability is thought to be critical in protein recognition and manipulation. In particular, it can form Holliday junctions, four-way DNA structural...
    Resource Type:
    Dissertation

  • Nongenomic Actions of Steroid Hormones in the Ovine Endometrium

    Creator:
    Ireton, Kyle E.
    Abstract:
    The steroid hormone estrogen plays a crucial role in regulating certain mammalian tissues, especially female reproductive systems. Estrogen effects physiological changes in the cell by altering transcription activity for certain target genes, as a consequence of interactions between estradiol-17β (E2) and its nuclear receptor (nER). This mechanism of cellular control...
    Resource Type:
    Honors College Thesis
    Full Text:
    ______________________________________________________________________________ Dr. Andrew Karplus, Committee Representative, Biochemistry and Biophysics

  • Mutagenesis and Crystallization of Ptr ToxB, a host-selective toxin of Pyrenophora tritici-repentis

    Creator:
    Miles-Rockenfield, Kara B.
    Abstract:
    Pyrenophora tritici-repentis (Ptr) is the fungal causal agent of the disease tan spot in wheat and causes necrosis and chlorosis in infected leaves. These symptoms are caused by host-selective toxins (HSTs), molecules that serve as the sole determinants of pathogenicity. Ptr has three known HSTs, the proteinaceous Ptr ToxA and...
    Resource Type:
    Honors College Thesis
    Full Text:
    , representing Botany and Plant Pathology Dr. P. Andrew Karplus, Committee Member, representing

  • Gene Structure and Expression of the Rice S-Domain Kinase (SD-RLK) Gene Subfamily

    Creator:
    Dikeman, Daemon
    Abstract:
    The S-domain subfamily of receptor-like kinases (SD-RLKs) in plants is poorly characterized and the majority of genes have unknown functions. The goal of this study was to study the expansion of rice (Oryza sativa) SD-RLK subfamily, and characterize gene and protein structure and expression of its members using publicly available...
    Resource Type:
    Honors College Thesis
    Full Text:
    _____________________________________________________________________ Andrew Karplus, Committee Member, representing Biochemistry and Biophysics

  • Crystal structures of DNA four-way junctions

    Creator:
    Eichman, Brandt F.
    Abstract:
    DNA four-way junctions (also known as Holliday junctions) are the primary structural intermediate during recombination, an important process responsible for biological evolution and maintenance of genomes. These junctions arise from the assembly of four nucleic acid strands to produce double-helical regions extending from a central point. Although much progress has...
    Resource Type:
    Dissertation
    Full Text:
    would also like to thank Dr. P. Andrew Karplus, as well as the rest of my committee for their helpful

  • Characterization and Functionalization of Fabric for use in an Immunoassay

    Creator:
    White, Natalie
    Abstract:
    Paper-based microfluidic assays, like the common pregnancy test, allow for rapid screening at the point- of-care at low cost and with no instrumentation. Fabric has many similar properties to paper, but is more flexible and durable, making it a promising option for use in a variety of diagnostic and screening...
    Resource Type:
    Honors College Thesis
    Full Text:
    _____________________________________________________________________ Andrew Karplus, Committee Member, representing the Department of Biochemistry and Biophysics

  • Catalysis of Biologically Relevant Chlorination Reactions by Nicotine, and Potential Relevance to Tissue Damage

    Creator:
    Dolan, Brigh G.
    Abstract:
    This work is concerned with determining whether nicotine has a role in promoting oxidative damage in human tissue, particularly in lung tissue. This follows from recent reports of a novel lung disease found in some E-cigarette users, characterized by oxidative damage and elevated levels of neutrophils (termed “vaping disease”). It...
    Resource Type:
    Honors College Thesis
    Full Text:
    _____________________________________________________________________ P. Andrew Karplus, Committee Member, representing Biochemistry and Biophysics

  • The Impact of Causal Uncertainty on Dyadic Satisfaction

    Creator:
    Needham, Shana M.
    Abstract:
    One's ability to determine the cause and effect nature events is important for navigating within the social realm. However, the ability to determine these relationships is not always as clear. According to Weary and Edwards (1996) causal uncertainty (CU) is the result of an individual perceiving themselves as someone who...
    Resource Type:
    Masters Thesis
    Full Text:
    . Aurora Sherman, and Dr. Andrew Karplus for their invaluable guidance during the course of this project

  • Genomic-assisted determination of the natural nutrient requirements of the cosmopolitan marine bacterium 'Candidatus Pelagibacter ubique'

    Creator:
    Tripp, H. James
    Abstract:
    To identify factors limiting 'Candidatus Pelagibacter ubique' maximum cell density and growth rate in pure culture on seawater, the genome sequence of 'Cand. P. ubique' was analyzed, culturing experiments with organic and inorganic nutrient additions were made, and radiotracer uptake experiments were performed. The genome was sequenced, custom data mining...
    Resource Type:
    Dissertation

  • Specificity, Allostery, and Multivalency in Binding to the Hub Protein LC8

    Creator:
    Estelle, Aidan B.
    Abstract:
    Interactions between proteins are essential to life, driving and regulating a majority of processes within all living cells. Study of protein-protein interactions reveals that some proteins act as hubs within networks of interactions, binding to many partner proteins. These hubs therefore are of particular importance to understanding protein function, interwoven...
    Resource Type:
    Dissertation
    Full Text:
    purified proteins for the work. P. Andrew Karplus conceptualized the project and was closely involved in