About Me

I am a PhD student in the Division of Computational & Data Sciences at Washington University in St. Louis. I am interested in applying machine learning and data-driven approaches to study neurological and neuropsychiatric disorders. With my advisor, Aristeidis Sotiras, I aim to apply machine learning methods (particularly Non-Negative Matrix Factorization) to multimodal neuroimaging data in Alzheimer's Disease.

I have a background in wet lab & clinical neuroscience research. I studied biology and neuroscience at Grinnell College, as well as psychiatric research at King's College London. I have also held research assistant positions at Washington University and the National Institutes of Health.

Outside of lab, I enjoy making & listening to music, working on Python projects, playing games of all kinds, and spending time with my partner and our dogs.

Publications

Bani, A., Ha, S. M., Xiao, P., Earnest, T., Lee, J., & Sotiras, A. (2023). Scalable Orthonormal Projective NMF via Diversified Stochastic Optimization. In A. Frangi, M. de Bruijne, D. Wassermann, & N. Navab (Eds.), Information Processing in Medical Imaging (pp. 497–508). Springer Nature Switzerland. https://doi.org/10.1007/978-3-031-34048-2_38
De Araujo Salgado, I., Li, C., Burnett, C. J., Rodriguez Gonzalez, S., Becker, J. J., Horvath, A., Earnest, T., Kravitz, A. V., & Krashes, M. J. (2023). Toggling between food-seeking and self-preservation behaviors via hypothalamic response networks. Neuron, 111(18), 2899-2917.e6. https://doi.org/10.1016/j.neuron.2023.06.006
Earnest, T., Bani, A., Ha, S. M., Hobbs, D. A., Kothapalli, D., Yang, B., Lee, J. J., Benzinger, T. L. S., Gordon, B. A., Sotiras, A., & Initiative, for the A. D. N. (2024). Data-driven decomposition and staging of flortaucipir uptake in Alzheimer’s disease. Alzheimer’s & Dementia, 20(6). https://doi.org/10.1002/alz.13769
Earnest, T., Shephard, E., Tye, C., McEwen, F., Woodhouse, E., Liang, H., Sheerin, F., & Bolton, P. F. (2020). Actigraph-Measured Movement Correlates of Attention-Deficit/Hyperactivity Disorder (ADHD) Symptoms in Young People with Tuberous Sclerosis Complex (TSC) with and without Intellectual Disability and Autism Spectrum Disorder (ASD). Brain Sciences, 10(8), Article 8. https://doi.org/10.3390/brainsci10080491
Earnest, T., Yang, B., Kothapalli, D., Sotiras, A., & Initiative, A. D. N. (2024). Comprehensive evaluation of AT (N) imaging biomarkers for predicting cognition. medRxiv, 2024–11.
Kumar, S., Earnest, T., Payne, P. R. O., Sotiras, A., & Initiative, the A. D. N. (2023). Analyse patient-level heterogeneity in Alzheimer’s Disease using multimodal normative modelling (p. 2023.08.15.553412). bioRxiv. https://doi.org/10.1101/2023.08.15.553412
Lee, J. J., Earnest, T., Ha, S. M., Bani, A., Kothapalli, D., Liu, P., Sotiras, A., & Initiative, the A. D. N. (2023). Patterns of Glucose Metabolism in [18F]FDG PET Indicate Regional Variability and Neurodegeneration in the Progression of Alzheimer’s Dementia (p. 2023.11.10.23298396). medRxiv. https://doi.org/10.1101/2023.11.10.23298396
Lenzini, P., Earnest, T., Ha, S. M., Bani, A., Sotiras, A., & Bijsterbosch, J. (2023). Morphological Versus Functional Network Organization: A Comparison Between Structural Covariance Networks and Probabilistic Functional Modes. In A. Abdulkadir, D. R. Bathula, N. C. Dvornek, S. T. Govindarajan, M. Habes, V. Kumar, E. Leonardsen, T. Wolfers, & Y. Xiao (Eds.), Machine Learning in Clinical Neuroimaging (pp. 163–172). Springer Nature Switzerland. https://doi.org/10.1007/978-3-031-44858-4_16
Matikainen-Ankney, B. A., Earnest, T., Ali, M., Casey, E., Wang, J. G., Sutton, A. K., Legaria, A. A., Barclay, K. M., Murdaugh, L. B., Norris, M. R., Chang, Y.-H., Nguyen, K. P., Lin, E., Reichenbach, A., Clarke, R. E., Stark, R., Conway, S. M., Carvalho, F., Al-Hasani, R., … Kravitz, A. V. (2021). An open-source device for measuring food intake and operant behavior in rodent home-cages. eLife, 10, e66173. https://doi.org/10.7554/eLife.66173
Reimann, G. E., Dupont, R. M., Sotiras, A., Earnest, T., Jeong, H. J., Durham, E. L., Archer, C., Moore, T. M., Lahey, B. B., & Kaczkurkin, A. N. (2024). Using machine learning to derive neurobiological subtypes of general psychopathology in late childhood. Journal of Psychopathology and Clinical Science, 133(8), 647.
Shephard, E., McEwen, F. S., Earnest, T., Friedrich, N., Mörtl, I., Liang, H., Woodhouse, E., Tye, C., & Bolton, P. F. (2022). Oscillatory neural network alterations in young people with tuberous sclerosis complex and associations with co-occurring symptoms of autism spectrum disorder and attention-deficit/hyperactivity disorder. Cortex, 146, 50–65. https://doi.org/10.1016/j.cortex.2021.10.007
Slivicki, R. A., Earnest, T., Chang, Y.-H., Pareta, R., Casey, E., Li, J.-N., Tooley, J., Abiraman, K., Vachez, Y. M., Wolf, D. K., Sackey, J. T., Kumar Pitchai, D., Moore, T., Gereau IV, R. W., Copits, B. A., Kravitz, A. V., & Creed, M. C. (2023). Oral oxycodone self-administration leads to features of opioid misuse in male and female mice. Addiction Biology, 28(1), e13253. https://doi.org/10.1111/adb.13253
Solinski, H. J., Dranchak, P., Oliphant, E., Gu, X., Earnest, T. W., Braisted, J., Inglese, J., & Hoon, M. A. (2019). Inhibition of natriuretic peptide receptor 1 reduces itch in mice. Science Translational Medicine, 11(500), eaav5464. https://doi.org/10.1126/scitranslmed.aav5464
Solinski, H. J., Kriegbaum, M. C., Tseng, P.-Y., Earnest, T. W., Gu, X., Barik, A., Chesler, A. T., & Hoon, M. A. (2019). Nppb Neurons Are Sensors of Mast Cell-Induced Itch. Cell Reports, 26(13), 3561-3573.e4. https://doi.org/10.1016/j.celrep.2019.02.089
Vachez, Y. M., Tooley, J. R., Abiraman, K., Matikainen-Ankney, B., Casey, E., Earnest, T., Ramos, L. M., Silberberg, H., Godynyuk, E., Uddin, O., Marconi, L., Le Pichon, C. E., & Creed, M. C. (2021). Ventral arkypallidal neurons inhibit accumbal firing to promote reward consumption. Nature Neuroscience, 24(3), Article 3. https://doi.org/10.1038/s41593-020-00772-7
Yang, B., Earnest, T., Kumar, S., Kothapalli, D., Benzinger, T., Gordon, B., & Sotiras, A. (2024). Evaluation of ComBat Harmonization for Reducing Across-Tracer Differences in Regional Amyloid PET Analyses. Human Brain Mapping, 45(16), e70068.

Some Coding Projects

FED3 Viz

Software for visualizing rodent behavioral data from FED3 devices.

Sipper Viz

Software for visualizing rodent behavioral data from Sipper devices.

Song Learning

Machine learning for classifying songs by genre.