no code implementations • 21 Sep 2024 • Minjun Kim, Sooyeon Ji, Jiye Kim, Kyeongseon Min, Hwihun Jeong, Jonghyo Youn, Taechang Kim, Jinhee Jang, Berkin Bilgic, Hyeong-Geol Shin, Jongho Lee
Magnetic susceptibility source separation ($\chi$-separation), an advanced quantitative susceptibility mapping (QSM) method, enables the separate estimation of para- and diamagnetic susceptibility source distributions in the brain.
no code implementations • 6 Aug 2024 • Amir Heydari, Abbas Ahmadi, Tae Hyung Kim, Berkin Bilgic
However, Joint MAPLE suffers from prohibitively long reconstruction time to estimate the maps from a multi-echo, multi-flip angle (MEMFA) dataset at high resolution in a scan-specific manner.
1 code implementation • 22 Jan 2024 • Xinrui Jiang, Yohan Jun, Jaejin Cho, Mengze Gao, Xingwang Yong, Berkin Bilgic
Typical quantitative MRI (qMRI) methods estimate parameter maps after image reconstructing, which is prone to biases and error propagation.
1 code implementation • 28 Nov 2023 • Heng Yu, Yamin Arefeen, Berkin Bilgic
Recently introduced zero-shot self-supervised learning (ZS-SSL) has shown potential in accelerated MRI in a scan-specific scenario, which enabled high-quality reconstructions without access to a large training dataset.
1 code implementation • 9 Aug 2023 • Jaejin Cho, Yohan Jun, Xiaoqing Wang, Caique Kobayashi, Berkin Bilgic
In this study, we introduce a novel msEPI reconstruction approach called zero-MIRID (zero-shot self-supervised learning of Multi-shot Image Reconstruction for Improved Diffusion MRI).
1 code implementation • 4 Jul 2023 • Yohan Jun, Yamin Arefeen, Jaejin Cho, Shohei Fujita, Xiaoqing Wang, P. Ellen Grant, Borjan Gagoski, Camilo Jaimes, Michael S. Gee, Berkin Bilgic
Using an ISMRM/NIST system phantom, the accuracy and reproducibility of the T1 and T2 maps estimated using the proposed methods were evaluated by comparing them with reference techniques.
no code implementations • 28 Feb 2023 • Yohan Jun, Jaejin Cho, Xiaoqing Wang, Michael Gee, P. Ellen Grant, Berkin Bilgic, Borjan Gagoski
Conclusion: The proposed SSL-QALAS method enabled rapid reconstruction of multiparametric maps from 3D-QALAS measurements without an external dictionary or labeled ground-truth training data.
no code implementations • 1 Dec 2022 • Zhifeng Chen, Congyu Liao, Xiaozhi Cao, Benedikt A. Poser, Zhongbiao Xu, Wei-Ching Lo, Manyi Wen, Jaejin Cho, Qiyuan Tian, Yaohui Wang, Yanqiu Feng, Ling Xia, Wufan Chen, Feng Liu, Berkin Bilgic
Purpose: This work aims to develop a novel distortion-free 3D-EPI acquisition and image reconstruction technique for fast and robust, high-resolution, whole-brain imaging as well as quantitative T2* mapping.
no code implementations • 10 Nov 2022 • Jiaxin Xiao, Zihan Li, Berkin Bilgic, Jonathan R. Polimeni, Susie Huang, Qiyuan Tian
Neural network (NN) based approaches for super-resolution MRI typically require high-SNR high-resolution reference data acquired in many subjects, which is time consuming and a barrier to feasible and accessible implementation.
1 code implementation • 27 Aug 2022 • Yamin Arefeen, Junshen Xu, Molin Zhang, Zijing Dong, Fuyixue Wang, Jacob White, Berkin Bilgic, Elfar Adalsteinsson
Purpose: Training auto-encoders on simulated signal evolution and inserting the decoder into the forward model improves reconstructions through more compact, Bloch-equation-based representations of signal in comparison to linear subspaces.
1 code implementation • 25 Feb 2022 • Alexander Lin, Andrew H. Song, Berkin Bilgic, Demba Ba
Sparse Bayesian learning (SBL) is a powerful framework for tackling the sparse coding problem.
1 code implementation • 6 Feb 2022 • Jaejin Cho, Borjan Gagoski, Taehyung Kim, Qiyuan Tian, Stephen Robert Frost, Itthi Chatnuntawech, Berkin Bilgic
Purpose: To propose a wave-encoded model-based deep learning (wave-MoDL) strategy for highly accelerated 3D imaging and joint multi-contrast image reconstruction, and further extend this to enable rapid quantitative imaging using an interleaved look-locker acquisition sequence with T2 preparation pulse (3D-QALAS).
no code implementations • 7 Dec 2021 • Mengze Gao, Huihui Ye, Tae Hyung Kim, Zijing Zhang, Seohee So, Berkin Bilgic
We propose an unsupervised convolutional neural network (CNN) for relaxation parameter estimation.
1 code implementation • 2 Dec 2021 • Mehmet Yigit Avci, Ziyu Li, Qiuyun Fan, Susie Huang, Berkin Bilgic, Qiyuan Tian
Dropout is conventionally used during the training phase as regularization method and for quantifying uncertainty in deep learning.
1 code implementation • 14 Nov 2021 • Qiyuan Tian, Ziyu Li, Qiuyun Fan, Jonathan R. Polimeni, Berkin Bilgic, David H. Salat, Susie Y. Huang
The noise in diffusion-weighted images (DWIs) decreases the accuracy and precision of diffusion tensor magnetic resonance imaging (DTI) derived microstructural parameters and leads to prolonged acquisition time for achieving improved signal-to-noise ratio (SNR).
no code implementations • 7 Jul 2021 • Heng Yu, Zijing Dong, Yamin Arefeen, Congyu Liao, Kawin Setsompop, Berkin Bilgic
RAKI can perform database-free MRI reconstruction by training models using only auto-calibration signal (ACS) from each specific scan.
1 code implementation • 3 Jun 2021 • Jaejin Cho, Congyu Liao, Qiyuan Tian, Zijing Zhang, Jinmin Xu, Wei-Ching Lo, Benedikt A. Poser, V. Andrew Stenger, Jason Stockmann, Kawin Setsompop, Berkin Bilgic
We introduce wave encoded acquisition and reconstruction techniques for highly accelerated echo planar imaging (EPI) with reduced g-factor penalty and image artifacts.
no code implementations • 21 May 2021 • Alexander Lin, Andrew H. Song, Berkin Bilgic, Demba Ba
The most popular inference algorithms for SBL exhibit prohibitively large computational costs for high-dimensional problems due to the need to maintain a large covariance matrix.
no code implementations • 2 Apr 2021 • Yamin Arefeen, Onur Beker, Jaejin Cho, Heng Yu, Elfar Adalsteinsson, Berkin Bilgic
Conclusion: SPARK synergizes with physics-based acquisition and reconstruction techniques to improve accelerated MRI by training scan-specific models to estimate and correct reconstruction errors in k-space.
1 code implementation • 17 Feb 2021 • Qiyuan Tian, Ziyu Li, Qiuyun Fan, Chanon Ngamsombat, Yuxin Hu, Congyu Liao, Fuyixue Wang, Kawin Setsompop, Jonathan R. Polimeni, Berkin Bilgic, Susie Y. Huang
High-resolution diffusion tensor imaging (DTI) is beneficial for probing tissue microstructure in fine neuroanatomical structures, but long scan times and limited signal-to-noise ratio pose significant barriers to acquiring DTI at sub-millimeter resolution.
no code implementations • 30 Sep 2019 • Daniel Polak, Itthi Chatnuntawech, Jaeyeon Yoon, Siddharth Srinivasan Iyer, Jong-Ho Lee, Peter Bachert, Elfar Adalsteinsson, Kawin Setsompop, Berkin Bilgic
We propose Nonlinear Dipole Inversion (NDI) for high-quality Quantitative Susceptibility Mapping (QSM) without regularization tuning, while matching the image quality of state-of-the-art reconstruction techniques.
no code implementations • 8 Aug 2018 • Berkin Bilgic, Itthi Chatnuntawech, Mary Kate Manhard, Qiyuan Tian, Congyu Liao, Stephen F. Cauley, Susie Y. Huang, Jonathan R. Polimeni, Lawrence L. Wald, Kawin Setsompop
While msEPI can mitigate these artifacts, high-quality msEPI has been elusive because of phase mismatch arising from shot-to-shot variations which preclude the combination of the multiple-shot data into a single image.
2 code implementations • 29 May 2018 • Itthi Chatnuntawech, Kittipong Tantisantisom, Paisan Khanchaitit, Thitikorn Boonkoom, Berkin Bilgic, Ekapol Chuangsuwanich
In this work, we develop a non-destructive rice variety classification system that benefits from the synergy between hyperspectral imaging and deep convolutional neural network (CNN).
1 code implementation • 15 Mar 2018 • Jaeyeon Yoon, Enhao Gong, Itthi Chatnuntawech, Berkin Bilgic, Jingu Lee, Woojin Jung, Jingyu Ko, Hosan Jung, Kawin Setsompop, Greg Zaharchuk, Eung Yeop Kim, John Pauly, Jong-Ho Lee
The QSMnet maps of the test dataset were compared with those from TKD and MEDI for image quality and consistency in multiple head orientations.
Image and Video Processing