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  • Harnessing Heterogeneity in Human Gut Microbiome Data

    Creator:
    Tataru, Christine
    Abstract:
    The focus of this thesis is to design, characterize, and apply novel computational methods and molecular systems to interrogate heterogeneous human gut microbiome-related phenomena. In Chapter 2, I design, implement, and characterize a method for embedding co-occurrence patterns derived from massive 16s amplicon datasets. I use this method to 1....
    Resource Type:
    Dissertation

  • Strength in Numbers: How Multivalent WW-PPXY Interactions Regulate Cell Signaling

    Creator:
    Vogel, Amber J.
    Abstract:
    Cell signaling is often mediated by protein-protein interactions, which must be specific, tunable, and transient to allow agile responsiveness to cellular messages. Due to their unique properties, multivalent, intrinsically disordered proteins make ideal candidates to accomplish these vital tasks. A single protein with multiple binding sites may bind numerous partners,...
    Resource Type:
    Dissertation
    Full Text:
    committee members: Dr. Elisar Barbar, Dr. Richard Cooley, Dr. Siva Kolluri, Dr. Glencora Borradaile, and

  • Employing Genetic Code Expansion Tools to Elucidate Disease Mechanisms and Generate New Therapeutics

    Creator:
    Van Fossen, Elise M.
    Abstract:
    In biology, function and disease are closely intertwined, requiring the coordination of hundreds of intricate chemical reactions. Interdisciplinary cooperation between chemical and biological approaches is necessary to decipher the chemical links between physiological and pathological conditions. In this arena, the precision tools made possible with chemical biology can manipulate and...
    Resource Type:
    Dissertation

  • Towards a Better Understanding of How the Dietary Supplement Xanthohumol Can Improve Health

    Creator:
    Logan, Isabelle E.
    Abstract:
    Xanthohumol, a prenylated flavonoid found in hops and beer, possesses a long-standing reputation to improve health. Xanthohumol’s cytotoxicity to a wide variety of cancer cell lines is well-established. Herein we provide further insight into the cytotoxicity of not only xanthohumol, but also its non-estrogenic derivatives, to a number of colonic...
    Resource Type:
    Dissertation
    Full Text:
    . Thank you to my advising committee members, Drs. Gerd Bobe, Siva Kolluri, Viviana Pérez, Natalia

  • Comparative genomics of Vibrio and characterizing microbial communities at a shellfish hatchery

    Creator:
    Delgado, Hanna
    Abstract:
    Vibrio bacteria are commonly found in freshwater, marine, and estuarine environments. Members of this genus can exist in commensal relationships with marine animals or as planktonic bacteria, however, they are well known for their roles as pathogens towards humans and animals. In this dissertation, I investigated aspects of host-bacteria relationships...
    Resource Type:
    Dissertation
    Full Text:
    Häse, and Dr. Siva Kolluri. Thank you to the past and present members of the Mueller lab, especially

  • Transcriptomic approaches for discovering regenerative and developmental regulatory networks in zebrafish

    Creator:
    Garland, Michael A.
    Abstract:
    Zebrafish are capable of fully regenerating organs and tissue such as their caudal fin, which is similar to a human regrowing an arm or a leg. In contrast, most mammals including humans have a greatly reduced capacity for wound healing. The ability of zebrafish to undergo this regenerative process, called...
    Resource Type:
    Dissertation
    Full Text:
    like to thank my committee: Dr. Siva Kolluri, who supported me during my laboratory rotation and

  • Assessing Changes in Biological Interactions of Lipid-Coated Gold and Silver Nanoparticles Based on Physicochemical Properties

    Creator:
    Engstrom, Arek Mackenzie
    Abstract:
    Nanoparticles (NPs), particles defined by their size in a single dimension (1-100 nm), are being increasingly incorporated into commercial and industrial products due to their high surface area to volume ratio that gives them unique properties, such as optical tunability and higher reactivity than their bulk counterparts. NPs can be...
    Resource Type:
    Masters Thesis
    Full Text:
    experimental development, and editing. Thank you to my committee members Dr. Joe Baio, Dr. Siva Kolluri, and

  • Nanoparticle features and their relative influence on biological responses

    Creator:
    Denluck, Lindsay
    Abstract:
    Nanoparticles (NPs), defined as materials having at least one dimension (height, width, diameter) in the nanoscale, are increasingly being incorporated into a wide variety of products and are replacing traditional bulk materials in many applications. This is because they can be more efficacious, more sustainable, and can have unique characteristics...
    Resource Type:
    Dissertation
    Full Text:
    Tanguay, Dr. Craig Marcus, Dr. Fred Stevens, Dr. Siva Kolluri, and Dr. Tyler Radniecki for providing me

  • Innovative Bioanalytical Tools & Methods for Combinatorial Non-Coding RNA Analysis

    Creator:
    Zhang, Lulu
    Abstract:
    Recently researchers have discovered that groups of small non-coding RNAs (ncRNAs) play regulatory roles in gene expression and participate in various biological processes. For example, pathogenesis of many diseases, cell cycle regulation, and signaling pathways. Intracellular and live cell imaging of small ncRNA groups will reveal their relative expression levels...
    Resource Type:
    Dissertation
    Full Text:
    Johnson, Dr. Staci Simonich, Dr. Siva Kolluri, Dr. Dipankar Koley, Dr. Christopher Beaudry, and Dr

  • Insights into Cytostatic and Cytotoxic Properties of the Natural Product Mensacarcin

    Creator:
    Kaweesa, Elizabeth Namagoba
    Abstract:
    Mensacarcin is a stereogenic complex polyketide with potent anti-tumor activity produced by a soil-dwelling Streptomyces bottropensis. The US National Cancer Institute (NCI) 60 human tumor cell line anticancer drug screen (NCI-60) reveals mensacarcin’s cytostatic properties in almost all tested cell lines and distinct cytotoxic properties specifically in eight melanoma cell...
    Resource Type:
    Masters Thesis
    Full Text:
    Blakemore, Dr. Jane Ishmael, Dr. Kerry McPhail, Dr. Siva Kolluri and Dr. Taifo Mahmud for their insight