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Learning site-invariant features of connectomes to harmonize complex network measures

Dec. 1, 2023—Figure 1. Previous research elucidated that connectomes suffer from confounding site effects. In this work we propose a data-driven model to learn disjoint site (ūĚĎź = {1,2}) and biological features (siteless z) for BIOCARD (orange) and VMAP (blue) (left). We then inject a prescribed site, c‚Äô, to the learned representations to compute harmonized connectome modularity,...

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Tractography with T1-weighted MRI and associated anatomical constraints on clinical quality diffusion MRI

Dec. 1, 2023—Tian Yu, Yunhe Li, Michael E. Kim, Chenyu Gao, Qi Yang, Leon Y. Cai, Susane M. Resnick, Lori L. Beason-Held, Daniel C. Moyer, Kurt G. Schilling, Bennett A. Landman, ‚ÄúTractography with T1-weighted MRI and associated anatomical constraints on clinical quality diffusion MRI‚ÄĚ, SPIE Medical Imaging 2024 Full text:¬†NIHMSID Abstract Diffusion MRI (dMRI) streamline tractography, the...

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Reproducibility evaluation of the effects of MRI defacing on brain segmentation

Nov. 10, 2023—Chenyu Gao, Bennett A. Landman, Jerry L. Prince, Aaron Carass. ‚ÄúReproducibility evaluation of the effects of MRI defacing on brain segmentation‚ÄĚ. J. Med. Imag. 10(6), 064001 (2023), https://doi.org/10.1117/1.JMI.10.6.064001, [PDF] Abstract Purpose Recent advances in magnetic resonance (MR) scanner quality and the rapidly improving nature of facial recognition software have necessitated the introduction of MR defacing...

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Characterizing Streamline Count Invariant Graph Measures of Structural Connectomes

Sep. 6, 2023—Nancy R. Newlin, Francois Rheault, Kurt G. Schilling,¬†Bennett A.¬†Landman. “Characterizing Streamline Count Invariant Graph Measures of Structural Connectomes” Journal of Magnetic Resonance Imaging. January 2023. Full Text Background While graph measures are used increasingly to characterize human connectomes, uncertainty remains in how to use these metrics in a quantitative and reproducible manner. Specifically, there is...

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Quantifying emphysema in lung screening computed tomography with robust automated lobe segmentation

Sep. 1, 2023—Thomas Z. Li, Ho Hin Lee, Kaiwen Xu, Riqiang Gao, Benoit M. Dawant, Fabien Maldonado, Kim L. Sandler, Bennett A. Landman. Journal of Medical Imaging 10(4), 044002 (2023), doi: 10.1117/1.JMI.10.4.044002. Full Text Abstract Introduction: Anatomy-based quantification of emphysema in a lung screening cohort has the potential to improve lung cancer risk stratification and risk communication....

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Integrating the BIDS Neuroimaging Data Format and Workflow Optimization for Large-Scale Medical Image Analysis

Sep. 1, 2023—Shunxing Bao, Brian D Boyd, Praitayini Kanakaraj, Karthik Ramadass, Francisco A. C. Meyer, Yuqian Liu, William E. Duett, Yuankai Huo, Ilwoo Lyu, David H. Zald, Seth A. Smith, Baxter P. Rogers, Bennett A. Landman. Integrating the BIDS Neuroimaging Data Format and Workflow Optimization for Large-Scale Medical Image Analysis.¬†Journal of Digital Imaging. 2022 Full Text Abstract...

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Reducing uncertainty in cancer risk estimation for patients with indeterminate pulmonary nodules using an integrated deep learning model

Aug. 31, 2023—Gao R, Li T, Tang Y, Xu K, Khan M, Kammer M, Antic SL, Deppen S, Huo Y, Lasko TA, Sandler KL, Maldonado F, Landman BA Paper:¬†https://pubmed.ncbi.nlm.nih.gov/36198225/ Code:¬†https://github.com/MASILab/STrUDeL Abstract Objective: Patients with indeterminate pulmonary nodules (IPN) with an intermediate to a high probability of lung cancer generally undergo invasive diagnostic procedures. Chest computed tomography image...

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Hierarchical Particle Optimization for Cortical Shape Correspondence in Temporal Lobe Resection

Aug. 31, 2023—Yue Liu, Shunxing Bao, Dario J. Englot, Victoria L. Morgan, Warren D. Taylor, Ying Wei, Ipek Oguz, Bennett A. Landman, Ilwoo Lyu Paper:¬†https://pubmed.ncbi.nlm.nih.gov/36525831/ Abstract Background: Anterior temporal lobe resection is an effective treatment for temporal lobe epilepsy. The post-surgical structural changes could influence the follow-up treatment. Capturing post-surgical changes necessitates a well-established cortical shape correspondence...

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Short superficial white matter and aging: a longitudinal multi-site study of 1293 subjects and 2711 sessions

Aug. 31, 2023—Kurt G Schilling, Derek Archer, Francois Rheault, Ilwoo Lyu, Yuankai Huo, Leon Y Cai, Silvia A Bunge, Kevin S Weiner, John C Gore, Adam W Anderson, Bennett A Landman Paper:¬†https://pubmed.ncbi.nlm.nih.gov/36817413/ Abstract It is estimated that short association fibers running immediately beneath the cortex may make up as much as 60% of the total white matter...

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Superficial white matter across development, young adulthood, and aging: volume, thickness, and relationship with cortical features

Aug. 31, 2023—Kurt G Schilling, Derek Archer, Francois Rheault, Ilwoo Lyu, Yuankai Huo, Leon Y Cai, Silvia A Bunge, Kevin S Weiner, John C Gore, Adam W Anderson, Bennett A Landman Paper:¬†https://pubmed.ncbi.nlm.nih.gov/37074446 Abstract Superficial white matter (SWM) represents a significantly understudied part of the human brain, despite comprising a large portion of brain volume and making up...

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