Improving in vivo human cerebral cortical surface reconstruction using data-driven super-resolution. (5th September 2020)

• Record Type: Journal Article
• Authors: Tian, Qiyuan; Bilgic, Berkin; Fan, Qiuyun; Ngamsombat, Chanon; Zaretskaya, Natalia; Fultz, Nina E; Ohringer, Ned A; Chaudhari, Akshay S; Hu, Yuxin; Witzel, Thomas; Setsompop, Kawin; Polimeni, Jonathan R; Huang, Susie Y
• Is Part Of: Cerebral cortex. Volume 31:Number 1(2021)
• Page Start: 463
• Page End: 482
• Publication Date: 2020-09-05
• Subjects: anatomical magnetic resonance imaging -- cortical surface reconstruction -- deep learning -- convolutional neural network -- super-resolution; Cerebral cortex -- Periodicals; Brain -- Periodicals; 612.825
• DOI: 10.1093/cercor/bhaa237
• Languages: English
• ISSNs: 1047-3211

Abstract

Abstract: Accurate and automated reconstruction of the in vivo human cerebral cortical surface from anatomical magnetic resonance (MR) images facilitates the quantitative analysis of cortical structure. Anatomical MR images with sub-millimeter isotropic spatial resolution improve the accuracy of cortical surface and thickness estimation compared to the standard 1-millimeter isotropic resolution. Nonetheless, sub-millimeter resolution acquisitions require averaging multiple repetitions to achieve sufficient signal-to-noise ratio and are therefore long and potentially vulnerable to subject motion. We address this challenge by synthesizing sub-millimeter resolution images from standard 1-millimeter isotropic resolution images using a data-driven supervised machine learning-based super-resolution approach achieved via a deep convolutional neural network. We systematically characterize our approach using a large-scale simulated dataset and demonstrate its efficacy in empirical data. The super-resolution data provide improved cortical surfaces similar to those obtained from native sub-millimeter resolution data. The whole-brain mean absolute discrepancy in cortical surface positioning and thickness estimation is below 100 μm at the single-subject level and below 50 μm at the group level for the simulated data, and below 200 μm at the single-subject level and below 100 μm at the group level for the empirical data, making the accuracy of cortical surfaces derived from super-resolution sufficient for most applications.