Publications

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2026

• SPECTRA: Spatial Inference for Tractometry Toward Precision Mapping of White Matter Microstructure — Yixue Feng, Julio E. Villalón-Reina, Iyad Ba Gari, Jonathan Davis Alibrando, S. Thomopoulos, Kenny Liou, Sunanda Somu, Hannah Yoo, Yuhan Shuai, S. Chehrzadeh, T. Nir, N. Jahanshad, B. Chandio, P. Thompson. bioRxiv, 2026.
• 84. Tract Segment-Level White-Matter Microstructural Alterations in Bipolar Disorder Revealed by Large-Scale Tractometry: An International Study Across 6 Enigma-Bipolar Sites — Leila Nabulsi, B. Chandio, Melody J. Y. Kang, Yanghee Im, G. McPhilemy, F. Martyn, G. Roberts, Brian Hallahan, U. Dannlowski, D. Grotegerd, T. Kircher, F. Thomas-Odenthal, B. C. Haarman, P. Mitchell, C. McDonald, D. Cannon, S. Thomopoulos, Ole A. Andreassen, C. Ching, Paul M. Thompson. Biological Psychiatry, 2026.
• 74. White Matter Alterations in Autism: Insights From Diffusion MRI and Tractography — Gaon S. Kim, Chloe Retika, Nicole Lu, Sebastian M. Benavidez, B. Chandio, Paul M Thompson, Katherine E. Lawrence. Biological Psychiatry, 2026.
• Along-Tract Microstructural Alterations Associated with Stimulant Misuse Localized using Diffusion MRI Tractometry — Leila Nabulsi, Yixue Feng, B. Chandio, Julio E. Villalón-Reina, Iyad Ba Gari, Jonathan Davis Alibrando, T. Nir, Anthony C. Juliano, Devarshi Pancholi, Gwenyth Roundy, N. Canessa, Eduardo Garza-Villarreal, Hugh Garavan, N. Jahanshad, Paul M. Thompson. bioRxiv, 2026.
• Tractometry-Based Quantification of Along-Tract White-Matter Hemispheric Asymmetry in Alzheimer’s Disease — B. Chandio, Yixue Feng, Iyad Ba Gari, Jonathan Davis Alibrando, S. Thomopoulos, Julio E. Villalón-Reina, Kenny Liou, Sunanda Somu, Hannah Yoo, T. Nir, E. Garyfallidis, Eileen Lüders, Fang-Cheng Yeh, N. Jahanshad, Paul M. Thompson. bioRxiv, 2026.
• BundleWarp: Enhancing white matter tractometry and morphometry with precise neuronal mapping using streamline-based nonlinear registration — B. Chandio, E. Olivetti, David Romero-Bascones, S. Thomopoulos, Julio E. Villalón-Reina, T. Nir, J. Harezlak, Paul M. Thompson, E. Garyfallidis. Medical Image Analysis, 2026.  [PDF]
• Evaluating Sample-Size Efficiency and Sensitivity of Tractometry in Alzheimer’s Disease — Yixue Feng, Julio E. Villalón-Reina, Iyad Ba Gari, Jonathan Davis Alibrando, T. Nir, N. Jahanshad, B. Chandio, P. Thompson. 2026 IEEE 23rd International Symposium on Biomedical Imaging (ISBI), 2026.
• Assessing the Influence of Tractography Methods on White Matter Microstructure and Tractometry Analysis in Alzheimer's Disease — Yuhan Shuai, Yixue Feng, Julio E. Villalón-Reina, T. Nir, S. Thomopoulos, P. Thompson, B. Chandio. 2026 IEEE 23rd International Symposium on Biomedical Imaging (ISBI), 2026.

2025

• Editorial: Methods and applications of diffusion MRI tractometry — B. Chandio, K. Schilling, Julio E. Villalón-Reina. Frontiers in Neuroscience, 2025.
• Along-Tract Mapping of White Matter Microstructural Abnormalities in Bipolar Disorder using Diffusion MRI — Leila Nabulsi, B. Chandio, Melody J. Y. Kang, Yanghee Im, G. McPhilemy, F. Martyn, G. Roberts, Brian Hallahan, U. Dannlowski, T. Borgers, S. Meinert, J. Repple, E. Leehr, D. Grotegerd, Tim Hahn, T. Kircher, L. Teutenberg, Benjamin Straube, O. Steinsträter, F. Stein, F. Thomas-Odenthal, N. Alexander, P. Usemann, A. Jansen, B. Haarman, P. Mitchell, C. McDonald, D. Cannon, S. Thomopoulos, O. A. Andreassen, Christopher R. K. Ching, Paul M. Thompson. Symposium on Medical Information Processing and Analysis, 2025.
• Mapping along-tract commissural and association white matter microstructural differences in autistic children and young adults — Gaon S. Kim, B. Chandio, Sebastian M. Benavidez, Yixue Feng, Paul M. Thompson, Katherine E. Lawrence. Cerebral Cortex, 2025.
• Streamline Density Normalization: A Robust Approach to Mitigate Bundle Variability in Multi-Site Diffusion MRI — Yixue Feng, Yuhan Shuai, Julio E. Villalón-Reina, B. Chandio, S. Thomopoulos, T. Nir, N. Jahanshad, Paul M. Thompson. bioRxiv, 2025.
• Deterministic versus Probabilistic Tractography: Impact on White Matter Bundle Shape — Yuhan Shuai, B. Chandio, Yixue Feng, Julio E. Villalón-Reina, T. Nir, C. Ching, Iyad Ba Gari, S. Thomopoulos, Jonathan Davis Alibrando, John P. John, G. Venkatasubramanian, N. Jahanshad, Paul M. Thompson. bioRxiv, 2025.
• White Matter Tract Vulnerability to Amyloid Pathology on the Alzheimer’s Disease Continuum — B. Chandio, T. Nir, Julio E. Villalón-Reina, S. Thomopoulos, Yixue Feng, Robert I. Reid, C. Jack, M. Weiner, E. Garyfallidis, N. Jahanshad, Meredith N. Braskie, S. O’Bryant, Paul M. Thompson. bioRxiv, 2025.
• 79. Assessing White Matter Microstructural Alterations in the Brain’s Association Tracts in Autism Using Diffusion MRI Tractometry — Gaon S. Kim, B. Chandio, Sebastian M. Benavidez, Paul M. Thompson, Katherine E. Lawrence. Biological Psychiatry, 2025.
• Introducing QuantConn: Overcoming challenging diffusion acquisitions with harmonization — N. Newlin, Kurt Schilling, S. Koudoro, B. Chandio, Praitayini Kanakaraj, Daniel Moyer, Claire E. Kelly, Sila Genc, Joseph Yuan-Mou Yang, Ye Wu, N. Adluru, Vishwesh Nath, S. Pathak, Walter Schneider, Anurag Gade, William Consagra, Y. Rathi, Tom Hendriks, Anna Vilanova, Maxime Chamberland, Tomasz Pieciak, Dominika Ciupek, A. Tristán-Vega, S. Aja‐Fernández, Maciej Malawski, Gani Ouedraogo, Julia Machnio, Paul M. Thompson, N. Jahanshad, E. Garyfallidis, Bennett A. Landman. CDMRI@MICCAI, 2025.
• Mapping Along-Tract White Matter Microstructural Differences in Autism — Gaon S. Kim, B. Chandio, Sebastian M. Benavidez, Yixue Feng, Paul M. Thompson, Katherine E. Lawrence. bioRxiv, 2025.
• Amyloid, Tau, and APOE in Alzheimer's Disease: Impact on White Matter Tracts. — B. Chandio, Julio E. Villalón-Reina, T. Nir, S. Thomopoulos, Yixue Feng, Sebastian M. Benavidez, N. Jahanshad, Jaroslaw Harezlak, E. Garyfallidis, Paul M. Thompson. Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing, 2025.

2024

• Microstructural mapping of neural pathways in Alzheimer's disease using macrostructure‐informed normative tractometry — Yixue Feng, B. Chandio, Julio E. Villalón-Reina, S. Thomopoulos, T. Nir, Sebastian M. Benavidez, Emily Laltoo, Tamoghna Chattopadhyay, Himanshu Joshi, G. Venkatasubramanian, John P. John, N. Jahanshad, Robert I. Reid, C. Jack, Michael W. Weiner, Paul M. Thompson. Alzheimer's & Dementia, 2024.  [PDF]
• Harmonized Tractometry Visualizes Alzheimer’s Disease Effects on the Brain’s White Matter Tract Microstructure — B. Chandio, Julio E Villalon Reina, T. Nir, S. Thomopoulos, Yixue Feng, Sebastian M. Benavidez, N. Jahanshad, Jaroslaw Harezlak, E. Garyfallidis, Paul M. Thompson. Alzheimer's & Dementia, 2024.
• White Matter Microstructural Alterations in Autism Localized with Bundle Analytics — Gaon S. Kim, B. Chandio, Sebastian M. Benavidez, Paul M. Thompson, Katherine E. Lawrence. bioRxiv, 2024.
• MICCAI-CDMRI 2023 QuantConn Challenge Findings on Achieving Robust Quantitative Connectivity through Harmonized Preprocessing of Diffusion MRI — N. Newlin, Kurt Schilling, S. Koudoro, B. Chandio, Praitayini Kanakaraj, Daniel Moyer, Claire E. Kelly, Sila Genc, Jian Chen, Joseph Yuan-Mou Yang, Ye Wu, Yifei He, Jiawei Zhang, Qingrun Zeng, Fan Zhang, N. Adluru, V. Nath, S. Pathak, Walter Schneider, Anurag Gade, Y. Rathi, Tom Hendriks, Anna Vilanova, Maxime Chamberland, Tomasz Pieciak, Dominika Ciupek, A. Tristán-Vega, S. Aja‐Fernández, Maciej Malawski, Gani Ouedraogo, Julia Machnio, Paul M. Thompson, N. Jahanshad, E. Garyfallidis, B. A. Landman. Machine Learning for Biomedical Imaging, 2024.
• BundleAGE: Predicting White Matter Age using Along-Tract Microstructural Profiles from Diffusion MRI — Yixue Feng, Julio E. Villalón-Reina, T. Nir, B. Chandio, N. Jahanshad, Paul M. Thompson. bioRxiv, 2024.  [PDF]
• Amyloid, Tau, and APOE in Alzheimer’s Disease: Impact on White Matter Tracts — B. Chandio, Julio E. Villalón-Reina, T. Nir, S. Thomopoulos, Yixue Feng, Sebastian M. Benavidez, N. Jahanshad, Jaroslaw Harezlak, E. Garyfallidis, P. Thompson. bioRxiv, 2024.  [PDF]
• Deep Normative Tractometry for Identifying Joint White Matter Macro- and Micro-structural Abnormalities in Alzheimer’s Disease — Yixue Feng, B. Chandio, Julio E. Villalón-Reina, Sebastian M. Benavidez, Tamoghna Chattopadhyay, S. Chehrzadeh, Emily Laltoo, S. Thomopoulos, Himanshu Joshi, G. Venkatasubramanian, John P. John, N. Jahanshad, P. Thompson. Annual International Conference of the IEEE Engineering in Medicine and Biology Society, 2024.  [PDF]
• Bundle Analytics based Data Harmonization for Multi-Site Diffusion MRI Tractometry — B. Chandio, Julio E. Villalón-Reina, T. Nir, S. Thomopoulos, Yixue Feng, Sebastian M. Benavidez, N. Jahanshad, Jaroslaw Harezlak, E. Garyfallidis, Paul M. Thompson. bioRxiv, 2024.  [PDF]
• 95. Along-Tract Mapping of Commissural Tract Microstructure Alterations in Autism Using Diffusion MRI — Gaon S. Kim, Sebastian M. Benavidez, B. Chandio, Katherine E. Lawrence, Paul M. Thompson. Biological Psychiatry, 2024.
• Microstructural Mapping of Neural Pathways in Alzheimer’s Disease using Macrostructure-Informed Normative Tractometry — Yixue Feng, B. Chandio, Julio E. Villalón-Reina, S. Thomopoulos, T. Nir, Sebastian M. Benavidez, Emily Laltoo, Tamoghna Chattopadhyay, Himanshu Joshi, G. Venkatasubramanian, John P. John, N. Jahanshad, Robert I. Reid, C. Jack, Michael W. Weiner, P. Thompson. bioRxiv, 2024.

2023

• Multi-Site Statistical Mapping of Along-Tract Microstructural Abnormalities in Bipolar Disorder with Diffusion MRI Tractometry — Leila Nabulsi, B. Chandio, G. McPhilemy, F. Martyn, G. Roberts, B. Hallahan, U. Dannlowski, T. Kircher, B. Haarman, P. Mitchell, C. Mcdonald, D. Cannon, O. Andreassen, C. Ching, P. Thompson. bioRxiv, 2023.  [PDF]
• BundleCleaner: Unsupervised Denoising and Subsampling of Diffusion MRI-Derived Tractography Data — Yixue Feng, B. Chandio, Julio E. Villalón-Reina, S. Thomopoulos, Himanshu Joshi, Gauthami Nair, Anand A. Joshi, G. Venkatasubramanian, J. John, P. Thompson. bioRxiv, 2023.  [PDF]
• Variational Autoencoders for Generating Synthetic Tractography-Based Bundle Templates in a Low-Data Setting — Yixue Feng, B. Chandio, S. Thomopoulos, Tamoghna Chattopadhyay, Paul M. Thompson. Annual International Conference of the IEEE Engineering in Medicine and Biology Society, 2023.  [PDF]
• Along-Tract Statistical Mapping of Microstructural Abnormalities in Bipolar Disorder: A Pilot Study — Leila Nabulsi, B. Chandio, Nikhil J. Dhinagar, Emily Laltoo, G. McPhilemy, F. Martyn, B. Hallahan, C. Mcdonald, P. Thompson, D. Cannon. bioRxiv, 2023.  [PDF]

2022

• Microstructural changes in the white matter tracts of the brain due to mild cognitive impairment — B. Chandio, Conor Owens-Walton, Julio E. Villalón-Reina, Leila Nabulsi, S. Thomopoulos, Javier Guaje, E. Garyfallidis, P. Thompson. Alzheimer's & Dementia, 2022.
• Learning Streamline Embeddings with Variational Autoencoder for Intersubject Bundle Comparison in Alzheimer’s Disease — Yixue Feng, B. Chandio, Tamoghna Chattopadhyay, S. Thomopoulos, Conor Owens-Walton, E. Garyfallidis, N. Jahanshad, P. Thompson. Alzheimer's & Dementia, 2022.
• Learning Optimal White Matter Tract Representations from Tractography using a Deep Generative Model for Population Analyses — Yixue Feng, B. Chandio, Tamoghna Chattopadhyay, S. Thomopoulos, Conor Owens-Walton, N. Jahanshad, E. Garyfallidis, P. Thompson. bioRxiv, 2022.  [PDF]
• Learning white matter subject-specific segmentation from structural MRI — Qi Yang, Colin B. Hansen, L. Cai, F. Rheault, Ho Hin Lee, Shunxing Bao, B. Chandio, Owen A. Williams, S. Resnick, E. Garyfallidis, A. Anderson, M. Descoteaux, K. Schilling, B. Landman. Medical Physics (Lancaster), 2022.  [PDF]

2021

• FiberNeat: Unsupervised White Matter Tract Filtering — B. Chandio, Tamoghna Chattopadhyay, Conor Owens-Walton, Julio E. Villalón-Reina, Leila Nabulsi, S. Thomopoulos, E. Garyfallidis, P. Thompson. bioRxiv, 2021.
• Editorial for “Unraveling the MRI‐Based Microstructural Signatures Behind Primary Progressive and Relapsing‐Remitting Multiple Sclerosis Phenotypes” — B. Chandio. Journal of Magnetic Resonance Imaging, 2021.
• ThetA - fast and robust clustering via a distance parameter — E. Garyfallidis, S. Fadnavis, Jong Sung Park, B. Chandio, Javier Guaje, S. Koudoro, Nasim Anousheh. arXiv.org, 2021.

2020

• Bundle analytics, a computational framework for investigating the shapes and profiles of brain pathways across populations — B. Chandio, S. Risacher, F. Pestilli, D. Bullock, F. Yeh, S. Koudoro, Ariel S. Rokem, J. Harezlak, E. Garyfallidis. Scientific Reports, 2020.  [PDF]
• Pandora: 4-D white matter bundle population-based atlases derived from diffusion MRI fiber tractography — Colin B. Hansen, Qi Yang, Ilwoo Lyu, F. Rheault, Cailey I. Kerley, B. Chandio, S. Fadnavis, Owen A. Williams, A. Shafer, S. Resnick, D. Zald, Laurie Cutting, Warren D. Taylor, Brian D. Boyd, E. Garyfallidis, A. Anderson, M. Descoteaux, B. Landman, K. Schilling. Neuroinformatics, 2020.  [PDF]

Preprints & Other

• Deep generative model for learning tractography streamline embeddings based on a Convolutional Variational Autoencoder — Yixue Feng, B. Chandio, Tamoghna Chattopadhyay, S. Thomopoulos, Conor Owens-Walton, N. Jahanshad, E. Garyfallidis, P. Thompson. ISMRM Annual Meeting.
• BundleAtlasing: unbiased population-specific atlasing of bundles in streamline space — David Romero-Bascones, B. Chandio, S. Fadnavis, Jong Park, S. Koudoro, Unai Ayala, Maitane Barrenechea, E. Garyfallidis. ISMRM Annual Meeting.  [PDF]
• Visualizing 4,230 White Matter Tracts at Once — B. Chandio, Tamoghna Chattopadhyay, Conor Owens-Walton, Julio E Villalon Reina, Leila Nabulsi, S. Thomopoulos, Javier Guaje, E. Garyfallidis, Paul M. Thompson. ISMRM Annual Meeting.
• Mapping the Influence of Amyloid, Tau, and APOE Variants on White Matter Tracts in Alzheimer’s Disease — B. Chandio, Julio E. Villalón-Reina, T. Nir, S. Thomopoulos, Yixue Feng, Sebastian M. Benavidez, Neda ahanshad, Jaroslaw Harezlak, E. Garyfallidis, Paul M. Thompson. ISMRM Annual Meeting.
• BUAN 2.0, streamlines as functions, nonlinear registration, and subdivision of bundles for advanced tractometry — B. Chandio, S. Thomopoulos, Paul M. Thompson, Jaroslaw Harezlak, E. Garyfallidis. ISMRM Annual Meeting.

Data from Semantic Scholar · last fetched 2026-06-15