Previous Theses
These theses are all available in the Thesis Tower in the library; a subset is also available in the Electronic Thesis Archive and in my office.
| Student | Co-Advisor | Title |
|---|---|---|
| Jules Camden ‘25 | Examining Model Robustness for Treatment Efficacy Prediction in Major Depressive Disorder | |
| Ayah Sibai ‘25 | The Stripes of Optic Morphogenesis: Gene Expression Patterning in Zebrafish Development | |
| Soren Zapata ‘25 | Untangling the Threads between Climate Change and Foodborne Disease | |
| Aliya Ghassaei ‘24 | Leveraging Comparative Graph Theory to Model Gene Co-expression Data | |
| Ainsley Norman ‘24 | Jeremy Coate | Seurat & Suffering: Identification of Endoreduplication Using Computational Methods in Soybean Nodules |
| Caroline Spiggle ‘24 | Navigating Neurodevelopmental Biology via Computational Genomics: An Accessible Perspective on ADHD & Autism | |
| Zaida Vinaimont ‘24 | Gene Regulatory Network Inference for Subpopulations of Quiescent Müller Glia | |
| Tommy Yoon ‘24 | A Higher-Order Network Analysis of Molecular Dynamics Simulations | |
| Frank Zhuang ‘23 | Kara Cerveny | A RARE Catch: The Potential of Computational Algorithms in Aiding Discovery of Novel Genetic Regulation Interactions |
| Ananke Krishnan ‘22 | Julia Michaels | Impacts of Backyard Habitat Creation for Birds at Single-Yard and City-Wide Scales |
| Ingrid Zoll ‘22 | Aaron Ramirez | Tree Health from Space: Modeling Urban Tree Health using Multispectral Satellite Imagery in Portland, OR. |
| Delaney Brubaker ‘21 | Julia Michaels | Can we build a framework for the future of sustainable agriculture knowledge? |
| Tayla Isensee ‘21 | Erik Zornik | Sex-biased conserved gene calling expansion with orthogroups. |
| Jiarong Li ‘21 | Jim Fix | Complex network comparison using graphlets. |
| Hannah Meier ‘21 | Sam Fey | Phytoplankton on the Go! Understanding the effect of thermal acclimation on the movement strategies of the green algae Chlamydomonas reinhardtii. |
| Aryeh Stahl ‘21 | David Ramirez | A generalized approach to graph de-anonymization. |
| Gabe Preising ‘20 | Suzy Renn | A computational network approach to examine biological crosstalk during mouthbrooding in the cichlid Astatotilapia burtoni |
| Sol Taylor-Brill ‘20 | Jay Mellies | Computationally analyzing the effect of cannabidiol on Enterohemorrhagic E. coli using transcriptomic data. |
| Madeline Doak ‘20 | Erik Zornik | Sex-biased gene expression in the brain conserved among taxa |
| Alexander King ‘19 | Multi-omic analysis of genetically induced conditions | |
| Miriam Bern ‘19 | Jeremy Coate | A comparison of two methods for identifying alternative splicing in diploid and tetraploid Arabidopsis thaliana strains |
| Amy Rose Lazarte ‘19 | Sam Fey | Just keep swimming: resolving the patterns and dynamics of body temperature in freshwater phytoplankton |
| Ananthan Nambiar ‘19 | Mark Hopkins | Computing the language of life |
| Petra Wijngaard ‘18 | Derek Applewhite | How Cytoscouts got Shot out of Dr. Ritz’s new interactome |
| Moira Differding ‘17 | Your microbes are super models: using microbiome data to reproducibly predict Crohn’s Disease | |
| Olive Franzese ‘17 | Adam Groce | Examining the practicality of shortest hyperpaths for signaling pathway analysis: the Cheating Hyperpath Algorithm as an alternative approach |
| Olivier Ezell ‘16 | Pathway models of signal dysregulation in schizophrenia | |
| Cameron Shard Milne ‘16 | Sarah Schaack | Identification of transposable element subfamilies using a phylogenetic network approach |
| Barney Potter ‘16 | Jim Fix | Prize-collecting Steiner trees in directed signaling hypergraphs |