Publications

You can also find my articles on Google Scholar.

Preprints

Cheng, Y., Medina, A., Korponay, C., Beckmann, C. F., Harper, D., & Nickerson, L. (2025). Investigating the Amyloid-Tau-Neurodegeneration Framework in Alzheimer’s Disease Using Semi-Supervised Multimodal Imaging Data Fusion. medRxiv. [Preprint]

Korponay, C., Cohen-Gilbert, J. E., Kumar, P., Harnett, N. G., Medina, A. A., Cheng, Y., Forester, B. P., Ressler, K. J., Demsar, J., Frederick, B. B., Beckmann, C. F., Harper, D. G., & Nickerson, L. D. (2025). Cognition-centric brain activity across diverse imaging tasks constrains the representation of mental health in brain function data. bioRxiv. [Preprint]

Aguila, A. L., Zemlyanker, D., Cheng, Y., Das, S., Alexander, D. C., Puonti, O., Sorby-Adams, A., Kimberly, W. T., & Iglesias, J. E. (2025). Deep generative priors for 3D brain analysis. arXiv:2510.15119. [Preprint]

West, M., Magdamo, C., Cheng, Y., He, Y., & Das, S. (2024). Leveraging Pre-trained and Transformer-derived Embeddings from EHRs to Characterize Heterogeneity Across Alzheimer’s Disease and Related Dementias. arXiv:2404.00464. [Preprint]

Cheng, Y., Ling, S., Stern, C. E., & Chrastil, E. R. (2023). Navigational systems in the human brain dynamically code for past, present, and future trajectories. bioRxiv. [preprint]

Cheng, Y., & Chrastil, E. R. (2021). From Individual Cognitive Maps to a Collective Cognitive Map: Prescriptive Guidelines and Measurement of Factors that Could Distort the Mapping Process. PsyArXiv. [Preprint] [PDF]

Journal Articles

Korponay, C., Cohen-Gilbert, J. E., Cheng, Y., Kumar, P., Harnett, N. G., Medina, A. A., Forester, B. P., Ressler, K. J., Demsar, J., Frederick, B. B., Beckmann, C. F., Harper, D. G., & Nickerson, L. D. (2025). Disentangling large-scale brain dynamics and their links to behavior during the emotional face matching task. Communications Biology, 8, 1176. [DOI]

Liu, P., Zemlyanker, D., Gopinath, K., Cheng, Y., He, Y., Izquierdo-Garcia, D., Gomez-Isla, T., Das, S., Nasr, S., Sheth, K. N., Rosen, M. S., Kimberly, W. T., de Havenon, A., Shen, F. X., & Iglesias, J. E. (2025). The normalizing properties of intracranial volume across race and sex. Brain Communications, 7(4), fcaf271. [DOI]

Cheng, Y., Malekar, M., He, Y., Bommareddy, A., Magdamo, C., Singh, A., Westover, B., Mukerji, S. S., Dickson, J., & Das, S. (2025). High-Throughput Phenotyping of the Symptoms of Alzheimer Disease and Related Dementias Using Large Language Models: Cross-Sectional Study. JMIR AI, 4(1). [DOI]

Cheng, Y., He, Y., Gopinath, K., Billot, B., Iglesias, J. E., Wu, C.-Y., Dodge, H., Wills, A.-M., Carlyle, B., Kivisäkk, P., Hyman, B. T., Arnold, S. E., & Das, S. (2025). Brain MRI signatures across sex and CSF Alzheimer’s disease biomarkers. Brain Communications, 7(3), fcaf210. [DOI]

West, M., Cheng, Y., He, Y., Leng, Y., Magdamo, C., Hyman, B. T., Dickson, J. R., Serrano-Pozo, A., Blacker, D., & Das, S. (2025). Unsupervised Deep Learning of Electronic Health Records to Characterize Heterogeneity Across Alzheimer Disease and Related Dementias: Cross-Sectional Study. JMIR Aging, 8(1). [DOI] [PDF]

Mollet, A., Hagan, A. K., Cheng, Y., Kozik, A. J., Smith, C. T., Haage, A., & Jadavji, N. M. (2025). Beyond the leaky pipeline: A quantitative analysis of the academic job market in humanities and social sciences. Studies in Graduate and Postdoctoral Education. [DOI]

Flynn, B., Kozik, A. J., Cheng, Y., Hagan, A. K., Ng, J., Smith, C. T., Haage, A., & Jadavji, N. M. (2024). An updated and expanded characterization of the biological sciences academic job market. Frontiers in Research Metrics and Analytics, 9, 1473940. [DOI]

Gopinath, K., Hoopes, A., Alexander, D. C., Arnold, S. E., Balbastre, Y., Billot, B., Casamitjana, A., Cheng, Y., et al. (2024). Synthetic data in generalizable, learning-based neuroimaging. Imaging Neuroscience, 2, 1–22. [DOI]

Cheng, Y., Ho, E., Weintraub, S., Rentz, D. M., Gershon, R. C., Das, S., & Dodge, H. H. (2024). Predicting Brain Amyloid Status Using the National Institute of Health Toolbox (NIHTB) for Assessment of Neurological and Behavioral Function. The Journal of Prevention of Alzheimer’s Disease, 11(4), 943–957. [DOI]

Cheng, Y., Ling, S., Stern, C. E., Huang, A., & Chrastil, E. R. (2024). (Don’t) look where you’re going: Evidence for a travel direction signal in humans that is independent of head direction. Journal of Experimental Psychology: General, 153(4), 1038–1052. [Preprint] [DOI]

Billot, B., Magdamo, C., Cheng, Y., Arnold, S. E., Das, S., & Iglesias, J. E. (2023). Robust machine learning segmentation for large-scale analysis of heterogeneous clinical brain MRI datasets. Proceedings of the National Academy of Sciences, 120(9), e2216399120. [DOI] [PDF]

Cheng, Y., He, C., Hegarty, M., & Chrastil, E. R. (2022). Who believes they are good navigators? A machine learning pipeline highlights the impact of gender, commuting time, and education. Machine Learning with Applications, 10, 100419. [PDF] [DOI]

Hart, B., Achakulvisut, T., Adeyemi, A., Akrami, A., Alicea, B., Alonso-Andres, A., …, Cheng, Y., …, & Vishne, G. (2022). Neuromatch Academy: a 3-week, online summer school in computational neuroscience. Journal of Open Source Education, 5(49). [PDF] [DOI]

Cheng, Y., Hegarty, M., & Chrastil, E. R. (2020). Telling right from right: the influence of handedness in the mental rotation of hands. Cognitive Research: Principles and Implications, 5, 1–18. [PDF] [DOI]

Book Chapters

Chrastil, E. R., & Cheng, Y. (2024). Central Coordination and Integration of Diverse Information to Form a Single Map. In K. Curtin & D. R. Montello (Eds.), Collective Spatial Cognition: A Research Agenda (Chapter 7). Routledge. [PDF]