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Filtering by: Creator Myer, Robert O. Remove constraint Creator: Myer, Robert O. Academic Affiliation Electrical Engineering and Computer Science Remove constraint Academic Affiliation: Electrical Engineering and Computer Science Decade 2020-2029 Remove constraint Decade: 2020-2029

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  • Efficient Comparative Sequence Analysis Algorithms for RNA Conserved Structure and Region Detection

    Creator:
    Li, Sizhen
    Abstract:
    RNAs play important roles in multiple cellular processes, and many of their functions rely on folding to specific structures. To maintain their functions, secondary structures of RNA homologs are conserved across evolution. These conserved structures provide critical targets for diagnostics and therapeutics. Thus, there is a need for developing fast...
    Resource Type:
    Dissertation
    Full Text:
    approach is that the Sankoff algorithm runs in O(n3k) against averaged sequence length n and k sequences

  • Deep Learning for Human and Biological Languages

    Creator:
    Hong, Junki
    Abstract:
    We explore the application of deep learning to the disparate fields of natural language processing and computational biology. Both the sentences uttered by humans as well as the RNA and protein sequences found within the cells of their bodies can be considered formal languages in computer science, as sets of...
    Resource Type:
    Dissertation
    Full Text:
    -of-the-art accuracy. Converting the traditional O(n3) exhaustive cubic time CKY parsing algorithm

  • Power System Resilience Following a Cascadia Subduction Zone Earthquake

    Creator:
    Weinmann, Riley
    Abstract:
    Just off the coast of the Pacific Northwest lies the Cascadia Subduction Zone (CSZ); odds of a very large CSZ earthquake occurring in the next 50 years is estimated to be about 37%. A CSZ seismic event has the potential to cause wide scale damage not just to the power...
    Resource Type:
    Masters Thesis
    Full Text:
    , Eduardo Cotilla-Sanchez, Annette Von Jouanne, Julia Zhang, Ted Brekken, and Robert B. Bass. Modeling

  • Linear-time Algorithms for RNA Folding: Partition Function, Stochastic Sampling and RNA-RNA Interaction

    Creator:
    Zhang, He
    Abstract:
    RNAs play important roles in the central dogma of molecular biology, and are involved in multiple biology processes such as chromatin modification, transcriptional interference and translation initiation. The functions of RNAs, especially non-coding RNAs, are highly related to its secondary structures, therefore computational methods for RNA structure prediction are of...
    Resource Type:
    Dissertation
    Full Text:
    -strand binding structure. Some other tools like RNAcofold [11] are slow since their runtimes are O(n3

  • Computing Substation Fragility as a Function of Seismic Component Failure

    Creator:
    Stark, William D.
    Abstract:
    The electrical grid of the Western Interconnection is vulnerable to earthquake damage, especially large-magnitude megathrust events, due to the unique seismic profile of the region. However, the size of the Western Interconnection makes it difficult to model seismic failure in electrical substations to the level of detail necessary to improve...
    Resource Type:
    Masters Thesis
    Full Text:
    ro b a b ili ty o f F a ilu re R(s)=0.89365 R(m)=0.99369 R(e)=0.98148 R(c)=0.71151

  • Window Axial Vision Transformer for Image Classification

    Creator:
    Lee, Jisoo
    Abstract:
    Currently, a popular approach to image classification uses the deep Transformer architecture. In a Transformer, the attention mechanism enables the model to learn efficiently with fewer computational resources than the convolutional neural networks (CNNs). In this thesis, we study the sparse attention mechanism widely used in the Transformers developed specifically...
    Resource Type:
    Masters Thesis
    Full Text:
    and row rather than using the full attention layer. This constraint reduces computation cost from O

  • Facilitating Code Comprehension by Annotations in Canvas-Based IDE

    Creator:
    Adeli, Marjan
    Abstract:
    Developers spend a considerable amount of time comprehending code and building accurate mental models of the code. Understanding the relationships between software features within IDEs is difficult, with information split across different visual hierarchies making navigation cumbersome. Canvas-based IDEs mitigate some of the navigation costs by allowing relevant information to...
    Resource Type:
    Masters Thesis

  • Automatic Explanations of Computation Results with Value Decompositions and Dominating Sets

    Creator:
    Kumar, Prashant
    Abstract:
    In an increasingly computation-driven world, algorithms and mathematical models significantly impact decision making across various fields. To foster trust and understanding, it is crucial to provide users with clear and concise explanations of the reasoning behind the results produced by computational tools, especially when recommendations appear counterintuitive. Legal frameworks in...
    Resource Type:
    Dissertation
    Full Text:
    algorithm that has a time complexity of O(n log n) and returns a single MDS explanation, but not the entire

  • Advanced time-varying approaches for modeling the multipath channel in wireless network

    Creator:
    Aljerme, Abdelkader A.
    Abstract:
    This dissertation proposes the use of advanced time-varying approaches for modeling the dynamics of the multipath channel in wireless communication networks. These advanced time-varying approaches include linear Kalman innovation models in observable block companion form, and neural network-based models. The e˙ectiveness of these type of models is evaluated through three...
    Resource Type:
    Dissertation

  • A case for application-based linear transformers : applied towards text-to-spectrogram

    Creator:
    Agostinelli, Victor
    Abstract:
    Various natural language processing (NLP) tasks necessitate deep models that are fast, efficient, and small based on their ultimate application at the edge or elsewhere. While significant investigation has furthered the efficiency and reduced the size of these models, reducing their downstream latency without significant trade-offs remains a difficult task....
    Resource Type:
    Masters Thesis
    Full Text:
    samples. When this con- dition is met, run-time is linearized from O(N1N2) to O(N1)+O(N2) for an arbitrary