Defense Notices


All students and faculty are welcome to attend the final defense of EECS graduate students completing their M.S. or Ph.D. degrees. Defense notices for M.S./Ph.D. presentations for this year and several previous years are listed below in reverse chronological order.

Students who are nearing the completion of their M.S./Ph.D. research should schedule their final defenses through the EECS graduate office at least THREE WEEKS PRIOR to their presentation date so that there is time to complete the degree requirements check, and post the presentation announcement online.

Upcoming Defense Notices

Logan Schmalz

A Framework for Controlled Key Release

When & Where:


Nichols Hall, Room 246 (Executive Conference Room)

Committee Members:

Perry Alexander, Chair
Drew Davidson
Sankha Guria


Abstract

Modern security relies heavily on public key cryptography, and private keys and secrets in general must be protected from attackers. Against a highly-capable adversary it is ideal to store secrets outside of main memory, which is easy on general purpose systems with the now widely-available Trusted Platform Module (TPM) 2.0. However, the lack of integration between the TPM and the OS makes protecting secrets with automated availability needs difficult. We develop a strategy to authenticate OS entities and protect TPM-stored secrets without restricting access to the TPM, using standard features available on Linux---SELinux, Integrity Measurement Architecture (IMA), Extended Verification Module (EVM), and Linux Unified Key Setup (LUKS).


Pranav Sudhakar Raju

Information Theoretic Waveform Design and Receive Processing for Pulse Agile Radar

When & Where:


Nichols Hall, Room 246 (Executive Conference Room)

Committee Members:

James Stiles, Chair
Shannon Blunt
Patrick McCormick
Charles Mohr
Zsolt Talata

Abstract

Modern radar systems are increasingly required to operate in complex, dynamic environments where traditional waveform design and signal processing techniques reach fundamental limitations. To address this, waveform diversity has been utilized to increase design degrees of freedom and improve detection performance in challenging scattering scenarios. This dissertation leverages an information-theoretic framework to implement waveform design and receive processing techniques in pulse-agile radars.

First, a modification of Fishers Information known as Marginal Fishers Information is adapted specifically for application to pulse-agile radars, where the ensuing waveform sets are optimally designed to minimize the error covariance of the scene estimate, improving target detection. This methodology is applied to range-Doppler estimation, where some knowledge of the scattering scene is known a priori. By incorporating the a priori knowledge of the scene into the waveform design, the waveforms are able to inherently suppress the self-interference introduced by pulse-agility.

Second, the information theoretic framework is used to create pulse-agile receive processing techniques for range-only and range-Doppler estimation. The range-only implementation is an iterative minimum mean square error (MMSE) estimator similar to a Kalman filter, where the innovation-based update suited to pulse-agility, mirrors the Kalman filter’s correction step. The range-Doppler implementation leverages the same principles as the range-Doppler waveform design technique, where some knowledge of the scattering scenario a priori is used to suppress self-interference and improve the range-Doppler estimate in a desired region.

Both the waveform design and advanced receive processing techniques are first developed in the fast-time slow-time parameterization space, and then translated to a frequency-domain implementation to reduce computation complexity and improve tractability. Finally, future work is proposed to round out the content of the dissertation.


Sirisha Thippabhotla

From Fragments to Function: Computational Approaches for Reconstructing Biological Context in Metagenomic and Exosomal Discovery

When & Where:


Eaton Hall, Room 2001B

Committee Members:

Cuncong Zhong, Chair
Prasad Kulkarni
Fengjun Li
Zijun Yao
Liang Xu

Abstract

Advances in high-throughput Next Generation Sequencing (NGS) technologies have transformed our ability to study biological systems. However, a fundamental gap remains between generating data and interpreting it. Sequencing produces genomes, transcriptomes, and cell-derived signals as millions of short, fragmented sequences, resulting in the loss of biological context, specifically the long-range relationships that determine genes, structured RNAs, or regulatory signals. This work investigates computational and experimental approaches to improve functional discovery by reconstructing or preserving biological context. The concept is developed across three interconnected dimensions: sensitivity, scalability, and biological fidelity, demonstrating that context is lost and must be recovered at two distinct stages of the discovery process.

The first contribution handles the loss of context that occurs after sequencing. By representing metagenomic sequencing reads as connected paths in an assembly graph and guiding graph traversal with biological models, this work recovers both protein-coding and non-coding signals that conventional fragment-level analyses fail to detect, thereby revealing functional pathways that would otherwise be missed. The second contribution makes this recovery practical at scale by introducing a significantly faster framework that preserves the sensitivity of graph-based methods while reducing computational costs by over an order of magnitude, thus enabling the analysis of large present-day datasets.

The third contribution studies the loss of context prior to sequencing. Using extracellular vesicles as a model system, the findings show that cells cultured in conventional two-dimensional environments generate signals that differ from their physiological state. In contrast, cells cultured in three-dimensional models produce signals that closely resemble those observed in patients. This shows that an accurate biological model is essential for reliable discovery, since computational methods cannot recover signals that are fundamentally distorted at their origin.

Taken together, these contributions establish a set of methods and principles for extracting meaningful biological information from fragmented, high-throughput genomic data, thereby enabling more accurate functional discovery.


Harlan Williams

State-replicated key directories: Decoupling key distribution from the messaging service to prevent person-in-the-middle attacks

When & Where:


Zoom defense, please email jgrisafe@ku.edu for defense information.

Committee Members:

Hossein Saiedian, Chair
Arvin Agah
Perry Alexander


Abstract

End-to-end encrypted (E2EE) messaging services rely on the service operator to distribute authentic public keys. This arrangement protects users from external attackers, but fails catastrophically when the service itself acts maliciously. A service that distributes a spoofed key can silently decrypt, read, and re-encrypt its users' communications—undetectably, if users simply assume the service is trustworthy.

This thesis proposes and evaluates a state-replicated key directory, a model that decouples key distribution from the messaging service entirely. Instead of a single service controlling the directory, the directory is built and maintained across multiple decentralized nodes that follow a consensus and validation protocol. This design substantially raises the cost of key substitution attacks and, under well-defined assumptions, can prevent them outright.

We make three core contributions. First, we present End2, a fully functional browser-based E2EE messaging application that integrates a state-replicated key directory without modifying the underlying cryptographic session protocol. Second, we implement and compare three distinct key directory backends—centralized, permissionless blockchain (Ethereum), and permissioned blockchain (CometBFT)—and analyze their respective security and performance trade-offs. Third, we provide an empirical evaluation under realistic workloads, including upload and query latency, long-term performance degradation, validator failure resilience, and detection of malicious key insertions.

Our results show that a permissioned, Byzantine fault-tolerant key directory achieves query performance comparable to a centralized directory while providing substantially stronger security guarantees against service-side attacks. State-replicated key directories offer a practical and deployable path toward reducing the excessive trust placed in modern E2EE messaging providers.


Past Defense Notices

Dates

LI CHENG

An Extensible Model-Based Approach for Analyzing and Testing Dynamic Multi-Tier Web Applications

When & Where:


2001B Eaton Hall

Committee Members:

Hossein Saiedian, Chair
Arvin Agah
Jerzy Grzymala-Busse
Fengjun Li
Reza Barati

Abstract

Web-based applications have become predominant in commercial software for all businesses, such as e-commerce, health care, government, and academia. There is a critical demand for effective and inexpensive functional testing methodologies for such applications to ensure their quality and reliability. The existing testing methodologies are insufficient to address the testing challenges raised by the increasing complexity of Web applications, including the use of multi-tier architectures, heterogeneous execution environments, dynamic contents, and frequent requirement changes. This research aims to address the above challenges by developing an extensible gray-box model-based testing (GMT) approach. 

The GMT defines a set of models that capture the dependencies of testing artifacts from a multi-tier architectural perspective. The models include Web conceptual model (WCM), Web object relation model (WORM), Web data to logic integration model (WDLIM), Web presentation to logic integration model (WPLIM), and Web system integration model (WSIM). The WORM, in the form of object relation diagrams, is used for the test case generation in intra-tier unit testing. The WLDIM and WPLIM are employed for gray-box integration testing across tiers. The WSIM, in the forms of system dependency graphs or UML sequence diagrams, is constructed for test path selection in black-box system testing phase. 

The GMT is capable of incorporating architectural styles beyond the traditional 3-tier Web applications. Extensions are developed to capture the component dependencies in elementary Web services, composite workflows, and Ajax-based rich Internet applications. A comprehensive empirical study is conducted to validate the GMT. Sixteen medium-scale projects from industrial context are selected as the subject applications. For each subject, 173 measurable attributes are collected. Formal analysis on the experiment data is performed and GMT is empirically evaluated against a well-known benchmark method to compare testing coverage effectiveness and testing performance. 

This research makes several important contributions to the software testing research community and demonstrates that the GMT effectively addresses the difficulty of analyzing multi-tier Web applications. The empirical results verify that the GMT is highly suitable in detecting functional defects in Web applications, particularly those from inter-tier integration. The fault seeding database and its experimental data establish a baseline for future empirical studies.


ANDREW FARMER

Mechanizing Worker/Wrapper for Domain Specific Optimizations

When & Where:


250 Nichols Hall

Committee Members:

Andy Gill, Chair
Perry Alexander
Prasad Kulkarni
James Miller
Chris Depcik

Abstract

A hallmark of functional programming languages is their support for the algebraic manipulation of programs. While such techniques lend themselves to mechanization, they are usually employed by hand, requiring considerable expertise, but offering a high assurance of the correctness of the result. Library writers are especially likely to use these techniques in order to implement optimizations which are either deemed too narrowly applicable to be worth implementing in a general language compiler, or may only represent an optimization in certain specific contexts. Such domain-specific optimizations can be incredibly effective however, offering complexity-changing improvement. In many instances, they are accomplished by changing the data structures over which the computation operates. 

We propose a framework for mechanizing the worker/wrapper transformation, which can express a large number of these domain-specific optimizations that depend on changing data structures. As a significant case study, we propose to recast the Stream Fusion transformation as an instance of worker/wrapper, using it to motivate the capabilities of our framework. We also propose extensions to Stream Fusion to allow it to optimize higher-order stream combinators. The resulting framework should lower the effort required to mechanize such transformations, leading to increased correctness and reuse. Additionally, the extended Stream Fusion transformation will offer practical performance improvements to a wide range of programs.


BRIEN SMITH-MARTINEZ

A Genetic Algorithm for Generating Radar Transmit Codes

When & Where:


2001B Eaton Hall

Committee Members:

Arvin Agah, Chair
Swapan Chakrabarti
James Stiles


Abstract

This work presents the design and development of a genetic algorithm to generate long range transmit codes with low autocorrelation side lobes for radar. The genetic algorithm described in this work has a parallel processing design and has been used to generate codes with multiple constellations for various code lengths with low estimated error of a target profile.


PHILIP MEIN

A Latency-Determining/User Directed Firefox Browser Extension

When & Where:


246 Nichols Hall

Committee Members:

James Sterbenz, Chair
Bo Luo
Gary Minden


Abstract

As the World Wide Web continues to evolve as the preferred choice for information access it is critical that its utility to the user remains. Latency as a result of network congestion, bandwidth availability, server processing delays, embedded objects, and transmission delays and errors can impact the utility of the web browser application. To improve the overall user experience the application needs to not only provide feedback to the end user about the latency of links that are available but to also provide them decision controls in the retrieval of the web content. This thesis presents a background and related work relating to latency and web optimization techniques to reduce this latency and then introduce an improvement to the "latency aware" Mozilla Firefox extension which was originally developed by Sterbenz et. al., in 2002. This these describes the architecture and prototype implementation, followed with an analysis of its effectiveness to predict latency and future work.


BRIAN CORDILL

Radar System Enhancement through High Fidelity Electromagnetic Modeling

When & Where:


317 Nichols Hall

Committee Members:

Sarah Seguin, Chair
Shannon Blunt
Christopher Allen
James Stiles
Mark Ewing

Abstract

Radar systems can fulfill a wide range of remote sensing missions, from aircraft tracking, to rainfall rate measurements, to automobile cruise control assist. The history of radar is full of innovation and a drive to "get the most" out of a system. History, however, is also full of simplifying assumptions made along the way to make certain problems tractable. In some sense, engineers have historically traded performance for tractability. Antenna arrays and their accompanying electromagnetics is one such area that is ripe to have its simplifying assumptions pealed back in an effort to extract even more performance. This can be demonstrated by developing high fidelity electromagnetic (EM) models of a radar array and showing that existing array processing algorithms based on simplified models are operating at a degraded performance level. These high fidelity EM models can then serve as a basis to enhance the performance of these algorithms. This work will specifically examine integrating a blind calibration process into the Re-Iterative Super Resolution (RISR) Direction of Arrival (DoA) algorithm to improve RISRs performance, show that the misapplication of the reciprocity theorem is holding back radar array processing algorithms, and investigate the possibility of leveraging recent results showing non-linearities in off-boresight emissions to improve clutter mitigation.


BALASUBRAMANIAM SRIDHAR

Precise Computation Control using Discovered Computation Structure and Behaviour

When & Where:


250 Nichols Hall

Committee Members:

Prasad Kulkarni, Chair
Arvin Agah
Perry Alexander


Abstract

Many applications use a variety of components both at the middleware and OS as part of their execution and systems are designed to provide these applications with high availability and specific qualities of service intended for specific application semantics. To provide these features, systems must be developed that exercise precise control over computation 
behaviour. This thesis proposes a mechanism where the structure of the computation and its behaviour can be discovered by tracing the system calls that an application makes during the period of its execution in real time using Data Streams and Computation Component Set Manager frameworks. This thesis also demonstrates the integration of computation behaviour information with Hierarchical Group Scheduling framework to achieve precise control over the execution of the application through arbitrary scheduling semantics.


MARYAM MAHANI

Strategic Structural Reorganization in Multi-agent Systems Inspired by Social Organization Theory

When & Where:


129 Nichols

Committee Members:

Arvin Agah, Chair
Swapan Chakrabarti
Man Kong
Brian Potetz
Prajna Dhar

Abstract


HONGLIANG FEI

Learning from Structured Data

When & Where:


246 Nichols Hall

Committee Members:

Luke Huan, Chair
Arvin Agah
Bo Luo
Brian Potetz
Hongguo Xu

Abstract


MEGAN PECK

Composition Semantics of the Rosetta Specification Language

When & Where:


250 Nichols Hall

Committee Members:

Perry Alexander, Chair
Andy Gill
Prasad Kulkarni


Abstract


KRITI CHAKDAR

Cancer Detection for Low Grade Squamous Intraepithelial Lesion

When & Where:


2001B Eaton Hall

Committee Members:

Brian Potetz, Chair
Arvin Agah
Luke Huan


Abstract