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  • Elucidating Computational Narratives to Facilitate Code Comprehension

    Creator:
    Chattopadhyay, Souti
    Abstract:
    Programming is integrated across the workflow of multiple domains where end-user programmers, those who need to program as a means to an end, regularly need to code. In the modern setting of collaborative development, end-user programmers have to interpret the intentions behind existing code to contribute and build solutions to...
    Resource Type:
    Dissertation
    Full Text:
    : Elucidating Computational Narratives to Facilitate Code Comprehension Abstract approved: Anita Sarma

  • Plant-Pollinator Interactions in a Changing World: Cryptic Specialization, Pollinator Movement, and Landscape Genetics of Pollinator-Dependent Plants

    Creator:
    Gannon, Dustin G.
    Abstract:
    Plant-pollinator mutualisms are one of the most prevalent and economically important mutualisms in nature. Like many other ecological systems, plant-pollinator communities are threatened by anthropogenic activity, both directly (e.g., habitat conversion and fragmentation) and indirectly (e.g., climate change). While we are aware of many of the activities that adversely impact...
    Resource Type:
    Dissertation
    Full Text:
    Jirka for creating such a fun and loving space in which to learn biology and chemistry. I likely would

  • Computational Elucidation of the Regulatory SNPs in the Non-Coding Regions of the Human Genome

    Creator:
    Yao, Yao
    Abstract:
    We describe a series of novel computational models, CERENKOV (Computational Elucidation of the REgulatory NonKOding Variome) and its successors CERENKOV2, CERENKOV3, and Convolutional CERENKOV3, for discriminating regulatory single nucleotide polymorphisms (rSNPs) from non-regulatory SNPs within non-coding genetic loci. The CERENKOV models are designed for recognizing rSNPs in the context of...
    Resource Type:
    Dissertation
    Full Text:
    , how- ever, this task remains a fundamental challenge in computational biology. To address the

  • A Computational Framework for Resilience-Informed Design

    Creator:
    Hulse, Daniel E.
    Abstract:
    It is desirable for complex engineered systems to perform missions efficiently and economically, even when these missions' complex, variable, long-term operational profiles make it likely for hazards to arise. It is thus important to design these systems to be resilient so that they will actively prevent and recover from hazards...
    Resource Type:
    Dissertation
    Full Text:
    Computational Framework for Resilience-Informed Design Abstract approved: Irem Y. Tumer Christopher Hoyle It

  • Precision Medicine for the Intervertebral Disc: Image Processing and Computational Modeling of Disc Degeneration to Inform Patient-Specific Therapies

    Creator:
    Ahrens, Sonia R.
    Abstract:
    The human intervertebral disc is a deceptively simple structure which plays an essential role in human movement. Even slight changes to the disc microenvironment can have far reaching consequences, particularly when these changes result in disc degeneration and herniation. Degeneration is increasingly tied to lower back pain; better understanding this...
    Resource Type:
    Masters Thesis
    Full Text:
    for the Intervertebral Disc: Image Processing and Computational Modeling of Disc Degeneration to

  • Structure and Dynamics of the Canine (Canis familiaris) Nasal Microbiome

    Creator:
    Knorr, Elizabeth
    Abstract:
    The diverse community of bacteria living within and on host organisms, known as the microbiome, has an important role in maintaining host health. Dysbiosis, known as a change in the healthy community of the microbiome, has been associated with a number of diseases across host organisms and body sites including...
    Resource Type:
    Dissertation
    Full Text:
    to Plant Microbiome Variation. PLOS Biology 14:e1002352. DOI: 10.1371/journal.pbio.1002352. 4

  • Life in a Rapidly Changing Environment: The Thermal Biology of the Red-sided Garter Snake (Thamnophis sirtalis parietalis)

    Creator:
    Hubert, David L.
    Abstract:
    At a time when environmental conditions are rapidly changing, understanding how thermal extremes impact wildlife is imperative to fully understanding the consequences of climate change in natural ecosystems. While many organisms are currently impacted by rapidly warming and more erratic environmental conditions, identifying and investigating model species whose life histories...
    Resource Type:
    Dissertation
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    for the degree of Doctor of Philosophy in Integrative Biology presented on December 8, 2022

  • Emergent Properties of Animal Social Networks: Five Stories in Five Systems

    Creator:
    Devan-Song, E. Anne
    Abstract:
    Animals aggregate and interact in nonuniform and nonrandom patterns, which lead to group level characteristics that have important evolutionary and ecological consequences. Network analysis provides a useful conceptual framework for linking animal interactions at all scales from dyads to communities, to populations and ecosystems. Despite exciting theoretical and applied advances...
    Resource Type:
    Dissertation
    Full Text:
    DISSERTATION OF E. Anne Devan-Song for the degree of Doctor of Philosophy in Integrative Biology

  • From Microbes to Megafauna: The Ecology of Gut Microbiomes in Wild Herbivores

    Creator:
    Couch, Claire E.
    Abstract:
    All mammals host communities of commensal microbes in and on their bodies. Recent technological advances, combined with experimental studies in laboratory animals, are beginning to reveal the ubiquitous links between the gut microbiome and host disease, metabolism, immunity, and numerous other host functions. A new challenge of microbiome research is...
    Resource Type:
    Dissertation
    Full Text:
    Couch for the degree of Doctor of Philosophy in Integrative Biology presented on June 8, 2020

  • Adaptive Potential of Coastal Invertebrates to Environmental Stressors and Climate Change

    Creator:
    Burton, Andrea R.
    Abstract:
    Climate change presents multiple stressors that are impacting marine life. As carbon dioxide emissions continue to increase in the atmosphere, atmospheric and sea water temperatures increase. In addition, more carbon dioxide is absorbed into the oceans, reducing pH and aragonite saturation state, resulting in ocean acidification (OA). Tightly coupled with...
    Resource Type:
    Dissertation
    Full Text:
    DISSERTATION OF Andrea R. Burton for the degree of Doctor of Philosophy in Integrative Biology presented on