Image Processing Category
SynBOLD-DisCo: Synthetic BOLD images for distortion correction of fMRI without additional calibration scans
Nov. 13, 2022—Tian Yu*, Leon Y. Cai*, Victoria L. Morgan, Sarah E. Goodale, Dario J. Englot, Catherine E. Chang, Bennett A. Landman, and Kurt G. Schilling * Equal first authorship https://github.com/MASILab/SynBOLD-DisCo Abstract The blood oxygen level dependent (BOLD) signal from functional magnetic resonance imaging (fMRI) is a noninvasive technique that has been widely used in research to...
3D UX-Net: A Large Kernel Volumetric ConvNet Modernizing Hierarchical Transformer for Medical Image Segmentation
Oct. 6, 2022—Ho Hin Lee, Shunxing Bao, Yuankai Huo, Bennett A. Landman, “3D UX-Net: A Large Kernel Volumetric ConvNet Modernizing Hierarchical Transformer for Medical Image Segmentation”, arXiv 2022 Full Text Abstract Vision transformers (ViTs) have quickly superseded convolutional networks (ConvNets) as the current state-of-the-art (SOTA) models for medical image segmentation. Hierarchical transformers (e.g., Swin Transformers) reintroduced several...
Reducing Positional Variance in Cross-sectional Abdominal CT Slices with Deep Conditional Generative Models
Jul. 25, 2022—Xin Yu*, Qi Yang*, Yucheng Tang, Riqiang Gao, Shunxing Bao, Leon Y. Cai, Ho Hin Lee, Ann Zenobia Moore, Luigi Ferrucci, Bennett A. Landman, “Reducing Positional Variance in Cross-sectional Abdominal CT Slices with Deep Conditional Generative Models”, MICCAI 2022 2D low-dose single-slice abdominal computed tomography (CT) slice enables direct measurements of body composition, which...
Contrastive semi-supervised harmonization of single-shell to multi-shell diffusion MRI
Jul. 25, 2022—Colin B. Hansen, Kurt G. Schilling, Francois Rheault, Susan Resnick, Andrea T. Shafer, Lori L. Beason-Held, Bennett A. Landmƒan. “Contrastive semi-supervised harmonization of single-shell to multi-shell diffusion MRI.” Magnetic Resonance Imaging (2022). Full Text Abstract Diffusion weighted MRI (DW-MRI) harmonization is necessary for multi-site or multi-acquisition studies. Current statistical methods address the need to harmonize...
Generalizing deep learning brain segmentation for skull removal and intracranial measurements
Jul. 25, 2022—Yue Liu, Yuankai Huo, Blake Dewey, Ying Wei, Ilwoo Lyu, Bennett A. Landman ,“Generalizing deep learning brain segmentation for skull removal and intracranial measurements.”Magnetic Resonance Imaging. Volume 88, May 2022, Pages 44-52 Full Text Abstract Total intracranial volume (TICV) and posterior fossa volume (PFV) are essential covariates for brain volumetric analyses with structural magnetic resonanceimaging...
Longitudinal changes of connectomes and graph theory measures in aging
Jan. 17, 2022—Yuzhe Wang, Francois Rheault, Kurt G. Schilling, Lori L. Beason-Held, Andrea T. Shafer, Susan M. Resnick, Bennett A. Landman Abstract Changes in brain structure and connectivity in aging can be probed through diffusion weighted MRI and summarized with structural connectome matrices. Complex network analysis based on graph theory has been applied to provide measures that...
High-resolution 3D abdominal segmentation with random patch network fusion
Dec. 14, 2021—Y. Tang,R.Gao,S.Han, Y.Chen, D.Gao, V.Nath, C.Bermudez, M.R. Savona, R.G. Abramson, S.Bao,I.Lyu, Y.Huo and B.A. Landman,“High-resolution 3D Abdominal Segmentation with Random PatchNetworkFusion”,Medical Image Analysis, 2021. Full Text: https://www.sciencedirect.com/science/article/pii/S1361841520302589 Abstract Deep learning for three dimensional (3D) abdominal organ segmentation on high-resolution computed to- mography (CT) is a challenging topic, in part due to the limited memory provide...
Inpainting Missing Tissue in Multiplexed Immunofluorescence Imaging
Dec. 10, 2021—Shunxing Bao, Yucheng Tang, Ho Hin Lee, Riqiang Gao, Qi Yang, Xin Yu, Sophie Chiron, Lori A. Coburn, Keith T. Wilson, Joseph T. Roland, Bennett A. Landman, Yuankai Huo. “Inpainting Missing Tissue in Multiplexed Immunofluorescence Imaging” Medical Imaging 2022: Digital and Computational Pathology. International Society for Optics and Photonics, accepted Full text: [TBD] Abstract Multiplex immunofluorescence (MxIF) is...
Joint independent component analysis for hypothesizing spatiotemporal relationships between longitudinal gray and white matter changes in preclinical Alzheimer’s disease
Dec. 10, 2021—Leon Y. Cai, Francois Rheault, Cailey I. Kerley, Katherine S. Aboud, Lori L. Beason-Held, Andrea T. Shafer, Susan M. Resnick, Lori C. Jordan, Adam W. Anderson, Kurt G. Schilling, and Bennett A. Landman Abstract Characterizing relationships between gray matter (GM) and white matter (WM) in early Alzheimer’s disease (AD) would improve understanding of how and...
Multimodal neuroimaging in pediatric type 1 diabetes: a pilot multisite feasibility study of acquisition quality, motion, and variability
Dec. 10, 2021—Leon Y. Cai, Costin Tanase, Adam W. Anderson, Karthik Ramadass, Francois Rheault, Chelsea A. Lee, Niral J. Patel, Sky Jones, Lauren M. LeStourgeon, Alix Mahon, Sumit Pruthi, Kriti Gwal, Arzu Ozturk, Hakmook Kang, Nicole Glaser, Simona Ghetti, Sarah S. Jaser, Lori C. Jordan, and Bennett A. Landman Abstract Type 1 diabetes (T1D) affects over 200,000...