The publications below represent foundational work that established the datasets, computational methods, and scientific insights underlying the AggieBrain agentic framework for neuropathology

  1. D. Garcia, S. R. R. Sharma, N. Saito, L. Beckett, L. N. C. Sevilla, L. Vasquez, C. S. DeCarli, D. Gutman, J. Vizcarra, D. G. Coughlin, A. F. Teich, L. Garcia, M. Mungas, C.-N. Chuah, B. N. Dugger, "Clinical and Pathologic Correlations of Machine Learning Quantification of Aβ Deposits Across Three Brain Regions of Decedents with Alzheimer Disease," Journal of Neuropathology and Experimental Neurology (JNEN), March 2026. DOI
  2. S. Rai Sharma, X. Zhu, L. Cerny Oliveira, K. Patwari, L. R. Vasquez, D. Garcia, L. N. C. Sevilla, B. N. Dugger, C-N. Chuah, "Benchmarking Parameter Efficient Adaptation of Vision Language Models on Pathology," NeurIPS 2025 Workshop for Imageomics: Discovering Biology Knowledge from Images using AI, Dec 2025. URL
  3. A. M. Rosado, J. Vizcarra, S. R. R. Sharma, C. D. Keene, C. L. White III, A. Kim, S. Forest, G. Kovacs, C.-N. Chuah, M. E. Flanagan, T. Pearce, D. A. Gutman, B. N. Dugger, "Digital Pathology in Neuropathology of Neurodegenerative Disorders: Foundations, Research Advances, and Future Directions," Alzheimer's & Dementia: The Journal of the Alzheimer's Association, Nov 7, 2025. PubMed · PMC
  4. J. Lou, P. Chang, Peter Chang, Kiana D. Nava, Chanon Chantaduly, Hsin Pei Wang, William H. Yong, Viharkumar Patel, Ajinkya J. Chaudhari, Edwin Monuki, Elizabeth Head, Harry V. Vinters, Shino Magaki, Danielle J. Harvey, Chen-Nee Chuah, Charles S. DeCarli, Christopher K. Williams, Michael Keiser, Brittany N. Dugger, "Applying machine learning to assist in the morphometric assessment of brain arteriolosclerosis through automation," Free Neuropathology, vol. 6, no. 12, June 2025. PubMed · PMC
  5. L. Cerny-Oliveira, K. Patwari, X. Zhu, S-C. Cheung, B. Dugger, and C-N. Chuah, "Co-HSF: Resource-Efficient One-Shot Semi-Supervised Adaptation of Histopathology Foundation Models," AAAI Spring Symposium on AI for Health, March 31–April 2, 2025. DOI
  6. L. Cerny-Oliveira, J. Chauhan, A. Chaudhari, S. Cheung, V. Patel, A. C. Villablanca, L-W. Jin, C. DeCarli, C-N. Chuah, B. N. Dugger, "A Machine Learning Approach to Automate Microinfarct Screening in Hematoxylin and Eosin-stained Human Brain Tissues," Journal of Neuropathology and Experimental Neurology (JNEN), vol. 84, no. 2, pp. 114–125, February 2025. DOI
  7. Z. Lai, J. Chauhan, B. Dugger, and C-N. Chuah, "Bridging the Pathology Domain Gap: Efficiently Adapting CLIP for Pathology Image Analysis with Limited Labeled Data," European Conference on Computer Vision (ECCV), Oct 2024. PDF
  8. R. Scalco, L. Cerny-Oliveira, Z. Lai, D. Harvey, L. Abujamil, C. DeCarli, L-W. Jin, C-N. Chuah, and B. N. Dugger, "Machine learning quantification of Amyloid-β in temporal lobe of 131 Brain Bank Cases," Acta Neuropathologica Communications, 12(1):134, Aug 2024. DOI
  9. Z. Lai, J. Chauhan, D. Chen, B. Dugger, S-C. Cheung, and C-N. Chuah, "Semi-Path: An Interactive Semi-supervised Learning Framework for Gigapixel Pathology Image Analysis," Elsevier Smart Health Journal, presented at IEEE/ACM CHASE, June 2024.
  10. A. Villablanca, B. N. Dugger, S. Nuthikattu, J. Chauhan, S. Cheung, C-N. Chuah, S. L. Garrison, D. Milenkovic, J. E. Norman, L. C. Oliveira, B. P. Smith, and S. D. Brown, "How cy pres promotes transdisciplinary convergence science: an academic health center for women's cardiovascular and brain health," Journal of Clinical and Translational Science, vol. 8, issue 1, 2024, e16, 1–12. DOI
  11. Z. Lai, Z. Li, L. Cerny Oliveira, J. Chauhan, B. Dugger, and C-N. Chuah, "CLIPath: Fine-tune CLIP with Visual Feature Fusion for Pathology Image Analysis Towards Minimizing Data Collection Efforts," ICCV 2nd Workshop on Computer Vision for Automated Medical Diagnosis (CVAMD), Oct 2023.
  12. L. Cerny Oliveira, Z. Lai, D. Harvey, K. Nzenkue, L-W. Jin, C. DeCarli, C-N. Chuah, and B. N. Dugger, "Pre-analytic variable effects on segmentation and quantification machine learning algorithms for amyloid beta analyzes on digitized human brain slides," Journal of Neuropathology and Experimental Neurology, Jan 2023. PubMed
  13. Z. Lai, L. Cerny Oliveira, R. Guo, W. Xu, Z. Hu, K. Mifflin, C. DeCarli, S-C. Cheung, C-N. Chuah, and B. N. Dugger, "BrainSec: Automated Brain Tissue Segmentation Pipeline for Scalable Neuropathological Analysis," IEEE Access, May 2022. DOI
  14. Z. Lai, C. Wang, Z. Hu, B. N. Dugger, S-C. Cheung, C-N. Chuah, "A Semi-supervised Learning for Segmentation of Gigapixel Histopathology Images from Brain Tissues," 43rd Annual International Conference of the IEEE Engineering in Medicine and Biology Society, Oct 31–Nov 4, 2021. DOI
  15. Z. Lai, C. Wang, L. Cerny Oliveira, B. Dugger, S-C. Cheung, and C.N. Chuah, "Joint Semi-supervised and Active Learning for Segmentation of Gigapixel Pathology Images with Cost-Effective Labeling," ICCV Workshop on Computational Challenges in Digital Pathology (CDpath), Oct 11, 2021. DOI
  16. Z. Lai, K. Guo, W. Xu, Z. Hu, B. Dugger, S. Cheung, and C-N. Chuah, "Automated Grey and White Matter Segmentation in Digitized Ab Human Brain Tissue Slide Images," IEEE ICME 2020 Workshop on Multimedia Services and Technologies for Smart Health (MUST-SH), July 2020.