Research
Selected work in diffusion MRI, microstructure, and AI methods — curated from Google Scholar.
2025 · Preprint
A.J. Shah, R.N. Henriques, A. Ramirez-Manzanares, P. Filipiak, S. Baete, et al.
Forward-modeling framework for estimating complex white-matter microstructure from diffusion MRI, targeting anisotropy and restricted diffusion signatures.
2026 · arXiv
M. Abouagour, A. Shah, E. Garyfallidis
Differentiable analysis-by-synthesis approach for recovering fixels from diffusion MRI measurements.
2014 · 1909 citations · Frontiers in Neuroinformatics
E. Garyfallidis, M. Brett, B. Amirbekian, A. Rokem, S. Van Der Walt, et al.
Open-source Python library for diffusion MRI analysis — reconstruction, tractography, and microstructure methods used across the neuroimaging community.
2026 · medRxiv
A. Shah, D. Green, L. Wainmann, J. Karrs, P. Shah
Epigenomic classifier for acute leukemia using methylation site analysis in clinical cohorts with variable tumor purity.
2022 · 70 citations · Multimedia Tools and Applications
A. Shah, M. Gor, M. Sagar, M. Shah
Deep learning architectures applied to stock market trading — published implementation exploring temporal signal modeling for financial decision systems.
2023 · 11 citations · Green Technologies and Sustainability
A. Shah, M. Shah, M. Prajapati
Hydraulic modelling study of catalytic converter performance for atmospheric pollutant reduction.
2024 · Journal of Molecular Diagnostics
D. Bergman, A. Shah, D. Green, Z. Cieslak, R. Vyas, J. Karrs, et al.
Clinical whole-transcriptome classifier for solid tumor tissue-of-origin at an academic cancer center.
Path
The same arc that appears as chapters while you scroll the brain — written once, as a continuous essay.
Chapter 1 · Brainstem · corticospinal foot
Every intelligent system needs something solid to stand on.
2018–2022 · Nirma University · Mechanical Engineering
I trained on force, structure, and simulation — how physical systems hold under constraint. Modeling the real world became my ground floor: before I could read a brain, I had to learn how systems behave.
Chapter 2 · Internal capsule · ascending pathways
From that scaffold, signal needed a pathway upward.
2022–2024 · Indiana University · Data Science
Statistics, machine learning, and deep learning taught me to carry patterns through uncertainty — vision, robotics, bioinformatics. Like ascending white-matter tracts, this chapter moved intent from structure into information.
Chapter 3 · Corpus callosum · hemispheric bridge
Then the path had to cross into another hemisphere: medicine.
2023 · Dartmouth · Machine Learning for Medicine
At Dartmouth I joined computation to clinical signal — AI for diagnostics. Callosal fibers link left and right; this was my bridge between engineering and care.
Chapter 4 · Arcuate fasciculus · association fibers
Crossing was not enough — I had to learn the language of the wires themselves.
2024– · GRG Lab · Diffusion MRI & DIPY
In the GRG lab I work on fiber reconstruction, microstructure, and open tooling in DIPY. Association pathways connect what we perceive to what we can say; this is how I learned to speak tractography — and share it.
Chapter 5 · Corona radiata · frontal synthesis
Now the pathways converge into purpose.
Ph.D. · Indiana University · Intelligent Systems Engineering
My PhD sits where artificial intelligence meets neuroimaging — diffusion MRI, anisotropy, and microstructure. Scaffold, ascent, crossing, and language meet here: methods that read the brain’s own wiring.
Selected work
A generative AI framework for pathology datasets.
Pathology · Generative AI
Implementation of the Springer article on deep learning architectures for stock market trading.
Deep Learning · Finance
DTI and DKI tutorial from the DIPY workshop 2024 talk.
Diffusion MRI · Education
Active research in GRG lab focusing on methods for fiber reconstruction in DIPY.
Open Source · Tractography
Contact
Open to research collaborations, open-source neuroimaging work, and conversations at the intersection of AI and diffusion MRI.
athshah@iu.edu© 2026 Atharva Shah