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ORCIDBerkin Bilgic
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- affiliation: Harvard Medical School, MA, USA
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Books and Theses
- 2013
[b1]Berkin Bilgic:
Reconstruction algorithms for Magnetic Resonance Imaging. Massachusetts Institute of Technology, Cambridge, MA, USA, 2013
Journal Articles
- 2023
- [j19]Ziyu Li
, Qiuyun Fan, Berkin Bilgic, Guangzhi Wang, Wenchuan Wu, Jonathan R. Polimeni, Karla L. Miller, Susie Yi Huang, Qiyuan Tian:
Diffusion MRI data analysis assisted by deep learning synthesized anatomical images (DeepAnat). Medical Image Anal. 86: 102744 (2023) - [j18]Congyu Liao, Uten Yarach, Xiaozhi Cao, Siddharth Srinivasan Iyer, Nan Wang, Tae Hyung Kim, Qiyuan Tian, Berkin Bilgic, Adam B. Kerr, Kawin Setsompop:
High-fidelity mesoscale in-vivo diffusion MRI through gSlider-BUDA and circular EPI with S-LORAKS reconstruction. NeuroImage 275: 120168 (2023) - 2022
- [j17]Qiyuan Tian, Ziyu Li, Qiuyun Fan, Jonathan R. Polimeni, Berkin Bilgic, David H. Salat, Susie Yi Huang:
SDnDTI: Self-supervised deep learning-based denoising for diffusion tensor MRI. NeuroImage 253: 119033 (2022) - [j16]Qiuyun Fan, Cornelius Eichner, Maryam Afzali, Lars Mueller, Chantal M. W. Tax, Mathias Davids, Mirsad Mahmutovic, Boris Keil, Berkin Bilgic, Kawin Setsompop, Hong-Hsi Lee, Qiyuan Tian, Chiara Maffei, Gabriel Ramos-Llordén, Aapo Nummenmaa, Thomas Witzel, Anastasia Yendiki, Yi-Qiao Song, Chu-Chung Huang, Ching-Po Lin, Nikolaus Weiskopf, Alfred Anwander, Derek K. Jones, Bruce R. Rosen, Lawrence L. Wald, Susie Yi Huang:
Mapping the human connectome using diffusion MRI at 300 mT/m gradient strength: Methodological advances and scientific impact. NeuroImage 254: 118958 (2022) - [j15]Alexander Lin, Andrew H. Song, Berkin Bilgic, Demba E. Ba:
Covariance-Free Sparse Bayesian Learning. IEEE Trans. Signal Process. 70: 3818-3831 (2022) - 2021
- [j14]Zijing Dong, Fuyixue Wang, Kwok-Shing Chan, Timothy G. Reese, Berkin Bilgic, José P. Marques, Kawin Setsompop:
Variable flip angle echo planar time-resolved imaging (vFA-EPTI) for fast high-resolution gradient echo myelin water imaging. NeuroImage 232: 117897 (2021) - [j13]Qiyuan Tian, Natalia Zaretskaya, Qiuyun Fan, Chanon Ngamsombat, Berkin Bilgic, Jonathan R. Polimeni, Susie Yi Huang:
Improved cortical surface reconstruction using sub-millimeter resolution MPRAGE by image denoising. NeuroImage 233: 117946 (2021) - [j12]Alina Scholz, Robin Etzel, Markus W. May, Mirsad Mahmutovic, Qiyuan Tian, Gabriel Ramos-Llordén, Chiara Maffei, Berkin Bilgiç, Thomas Witzel, Jason P. Stockmann, Choukri Mekkaoui, Lawrence L. Wald, Susie Yi Huang, Anastasia Yendiki, Boris Keil:
A 48-channel receive array coil for mesoscopic diffusion-weighted MRI of ex vivo human brain on the 3 T connectome scanner. NeuroImage 238: 118256 (2021) - [j11]Susie Yi Huang, Thomas Witzel, Boris Keil, Alina Scholz, Mathias Davids, Peter Dietz, Elmar Rummert, Rebecca Ramb, John E. Kirsch, Anastasia Yendiki, Qiuyun Fan, Qiyuan Tian, Gabriel Ramos-Llordén, Hong-Hsi Lee, Aapo Nummenmaa, Berkin Bilgic, Kawin Setsompop, Fuyixue Wang, Alexandru Vlad Avram, Michal E. Komlosh, Dan Benjamini, Kulam Najmudeen Magdoom, Sudhir K. Pathak, Walter Schneider, Dmitry S. Novikov, Els Fieremans, Slimane Tounekti, Choukri Mekkaoui, Jean Augustinack, Daniel R. Berger, Alexander Shapson-Coe, Jeff Lichtman, Peter J. Basser, Lawrence L. Wald, Bruce R. Rosen:
Connectome 2.0: Developing the next-generation ultra-high gradient strength human MRI scanner for bridging studies of the micro-, meso- and macro-connectome. NeuroImage 243: 118530 (2021) - [j10]Robert Jones, Chiara Maffei, Jean Augustinack, Bruce Fischl, Hui Wang, Berkin Bilgic, Anastasia Yendiki:
High-fidelity approximation of grid- and shell-based sampling schemes from undersampled DSI using compressed sensing: Post mortem validation. NeuroImage 244: 118621 (2021) - 2020
- [j9]Qiyuan Tian, Berkin Bilgic, Qiuyun Fan, Congyu Liao, Chanon Ngamsombat, Yuxin Hu, Thomas Witzel, Kawin Setsompop, Jonathan R. Polimeni, Susie Yi Huang:
DeepDTI: High-fidelity six-direction diffusion tensor imaging using deep learning. NeuroImage 219: 117017 (2020) - 2019
- [j8]Congyu Liao, Mary Kate Manhard, Berkin Bilgic, Qiyuan Tian, Qiuyun Fan, Sohyun Han, Fuyixue Wang, Daniel Joseph Park, Thomas Witzel, Jianhui Zhong, Haifeng Wang, Lawrence L. Wald, Kawin Setsompop:
Phase-matched virtual coil reconstruction for highly accelerated diffusion echo-planar imaging. NeuroImage 194: 291-302 (2019) - 2018
- [j7]Jaeyeon Yoon, Enhao Gong, Itthi Chatnuntawech, Berkin Bilgic, Jin-Gu Lee, Woojin Jung, Jingyu Ko, Hosan Jung, Kawin Setsompop, Greg Zaharchuk, Eung-Yeop Kim, John M. Pauly, Jongho Lee:
Quantitative susceptibility mapping using deep neural network: QSMnet. NeuroImage 179: 199-206 (2018) - 2017
- [j6]Berkin Bilgic, Huihui Ye, Lawrence L. Wald, Kawin Setsompop:
Simultaneous Time Interleaved MultiSlice (STIMS) for Rapid Susceptibility Weighted acquisition. NeuroImage 155: 577-586 (2017) - [j5]Congyu Liao, Berkin Bilgic, Mary Kate Manhard, Bo Zhao, Xiaozhi Cao, Jianhui Zhong, Lawrence L. Wald, Kawin Setsompop:
3D MR fingerprinting with accelerated stack-of-spirals and hybrid sliding-window and GRAPPA reconstruction. NeuroImage 162: 13-22 (2017) - 2016
- [j4]Berkin Bilgic, Luke Xie, Russell Dibb, Christian Langkammer, Aysegul Mutluay, Huihui Ye, Jonathan R. Polimeni, Jean Augustinack, Chunlei Liu, Lawrence L. Wald, Kawin Setsompop:
Rapid multi-orientation quantitative susceptibility mapping. NeuroImage 125: 1131-1141 (2016) - 2015
- [j3]Christian Langkammer, Kristian Bredies, Benedikt A. Poser, Markus Barth, Gernot Reishofer, Audrey Peiwen Fan, Berkin Bilgic, Franz Fazekas, Caterina Mainero, Stefan Ropele:
Fast quantitative susceptibility mapping using 3D EPI and total generalized variation. NeuroImage 111: 622-630 (2015) - 2013
- [j2]Berkin Bilgic, Itthi Chatnuntawech, Kawin Setsompop, Stephen F. Cauley, Anastasia Yendiki, Lawrence L. Wald, Elfar Adalsteinsson:
Fast Dictionary-Based Reconstruction for Diffusion Spectrum Imaging. IEEE Trans. Medical Imaging 32(11): 2022-2033 (2013) - 2012
- [j1]Berkin Bilgic, Adolf Pfefferbaum, Torsten Rohlfing, Edith V. Sullivan, Elfar Adalsteinsson:
MRI estimates of brain iron concentration in normal aging using quantitative susceptibility mapping. NeuroImage 59(3): 2625-2635 (2012)
Conference and Workshop Papers
- 2023
- [c11]Jaejin Cho, Yohan Jun, Xiaoqing Wang, Caique Kobayashi, Berkin Bilgic:
Improved Multi-shot Diffusion-Weighted MRI with Zero-Shot Self-supervised Learning Reconstruction. MICCAI (1) 2023: 457-466 - 2022
- [c10]Alexander Lin, Andrew H. Song, Berkin Bilgic, Demba E. Ba:
High-Dimensional Sparse Bayesian Learning without Covariance Matrices. ICASSP 2022: 1511-1515 - [c9]Zijing Zhang, Huihui Ye, Maosen Li, Huafeng Liu, Berkin Bilgic:
Liver-Buda-Sage: Simultaneous Whole Liver T2 and T*2 Mapping in one Breath-Hold. ISBI 2022: 1-5 - 2017
- [c8]Bo Zhao, Berkin Bilgic, Elfar Adalsteinsson, Mark A. Griswold, Lawrence L. Wald, Kawin Setsompop:
Simultaneous multislice magnetic resonance fingerprinting with low-rank and subspace modeling. EMBC 2017: 3264-3268 - 2016
- [c7]Suheyla Cetin, Berkin Bilgic, Audrey P. Fan, Samantha J. Holdsworth, Gözde B. Ünal:
Vessel Orientation Constrained Quantitative Susceptibility Mapping (QSM) Reconstruction. MICCAI (3) 2016: 467-474 - 2015
- [c6]Itthi Chatnuntawech, Berkin Bilgic, Adrián Martín, Kawin Setsompop, Elfar Adalsteinsson:
Fast reconstruction for accelerated multi-slice multi-contrast MRI. ISBI 2015: 335-338 - [c5]Bo Zhao, Fan Lam, Berkin Bilgic, Huihui Ye, Kawin Setsompop:
Maximum likelihood reconstruction for magnetic resonance fingerprinting. ISBI 2015: 905-909 - 2013
- [c4]Felipe Yanez, Audrey P. Fan, Berkin Bilgic, Carlos Milovic, Elfar Adalsteinsson, Pablo Irarrazaval:
Quantitative Susceptibility Map Reconstruction via a Total Generalized Variation Regularization. PRNI 2013: 203-206 - 2012
- [c3]Berkin Bilgic, Kawin Setsompop, Julien Cohen-Adad, Van J. Wedeen, Lawrence L. Wald, Elfar Adalsteinsson:
Accelerated Diffusion Spectrum Imaging with Compressed Sensing Using Adaptive Dictionaries. MICCAI (3) 2012: 1-9 - 2010
- [c2]Berkin Bilgic, Berthold K. P. Horn, Ichiro Masaki:
Fast human detection with cascaded ensembles on the GPU. Intelligent Vehicles Symposium 2010: 325-332 - [c1]Berkin Bilgic, Berthold K. P. Horn, Ichiro Masaki:
Efficient integral image computation on the GPU. Intelligent Vehicles Symposium 2010: 528-533
Informal and Other Publications
- 2024
- [i15]Xinrui Jiang, Yohan Jun, Jaejin Cho, Mengze Gao, Xingwang Yong, Berkin Bilgic:
NLCG-Net: A Model-Based Zero-Shot Learning Framework for Undersampled Quantitative MRI Reconstruction. CoRR abs/2401.12004 (2024) - 2023
- [i14]Jaejin Cho, Yohan Jun, Xiaoqing Wang, Caique Kobayashi, Berkin Bilgic:
Improved Multi-Shot Diffusion-Weighted MRI with Zero-Shot Self-Supervised Learning Reconstruction. CoRR abs/2308.05103 (2023) - [i13]Heng Yu, Yamin Arefeen, Berkin Bilgic:
SubZero: Subspace Zero-Shot MRI Reconstruction. CoRR abs/2311.17251 (2023) - 2022
- [i12]Jaejin Cho, Borjan A. Gagoski, Taehyung Kim, Qiyuan Tian, Stephen Robert Frost, Itthi Chatnuntawech, Berkin Bilgic:
Wave-Encoded Model-based Deep Learning for Highly Accelerated Imaging with Joint Reconstruction. CoRR abs/2202.02814 (2022) - [i11]Alexander Lin, Andrew H. Song, Berkin Bilgic, Demba E. Ba:
High-Dimensional Sparse Bayesian Learning without Covariance Matrices. CoRR abs/2202.12808 (2022) - 2021
- [i10]Qiyuan Tian, Ziyu Li, Qiuyun Fan, Chanon Ngamsombat, Yuxin Hu, Congyu Liao, Fuyixue Wang, Kawin Setsompop, Jonathan R. Polimeni, Berkin Bilgic, Susie Yi Huang:
SRDTI: Deep learning-based super-resolution for diffusion tensor MRI. CoRR abs/2102.09069 (2021) - [i9]Yamin Arefeen, Onur Beker, Heng Yu, Elfar Adalsteinsson, Berkin Bilgic:
Scan Specific Artifact Reduction in K-space (SPARK) Neural Networks Synergize with Physics-based Reconstruction to Accelerate MRI. CoRR abs/2104.01188 (2021) - [i8]Alexander Lin, Andrew H. Song, Berkin Bilgic, Demba E. Ba:
Covariance-Free Sparse Bayesian Learning. CoRR abs/2105.10439 (2021) - [i7]Heng Yu, Zijing Dong, Yamin Arefeen, Congyu Liao, Kawin Setsompop, Berkin Bilgic:
eRAKI: Fast Robust Artificial neural networks for K-space Interpolation (RAKI) with Coil Combination and Joint Reconstruction. CoRR abs/2108.04218 (2021) - [i6]Qiyuan Tian, Ziyu Li, Qiuyun Fan, Jonathan R. Polimeni, Berkin Bilgic, David H. Salat, Susie Yi Huang:
SDnDTI: Self-supervised deep learning-based denoising for diffusion tensor MRI. CoRR abs/2111.07220 (2021) - [i5]Mehmet Yigit Avci, Ziyu Li, Qiuyun Fan, Susie Yi Huang, Berkin Bilgic, Qiyuan Tian:
Quantifying the uncertainty of neural networks using Monte Carlo dropout for deep learning based quantitative MRI. CoRR abs/2112.01587 (2021) - [i4]Mengze Gao, Huihui Ye, Tae Hyung Kim, Zijing Zhang, Seohee So, Berkin Bilgic:
Accurate parameter estimation using scan-specific unsupervised deep learning for relaxometry and MR fingerprinting. CoRR abs/2112.03815 (2021) - 2019
- [i3]Daniel Polak, Itthi Chatnuntawech, Jaeyeon Yoon, Siddharth Srinivasan Iyer, Jongho Lee, Peter Bachert, Elfar Adalsteinsson, Kawin Setsompop, Berkin Bilgic:
Nonlinear Dipole Inversion (NDI) enables Quantitative Susceptibility Mapping (QSM) without parameter tuning. CoRR abs/1909.13692 (2019) - 2018
- [i2]Itthi Chatnuntawech, Kittipong Tantisantisom, Paisan Khanchaitit, Thitikorn Boonkoom, Berkin Bilgic, Ekapol Chuangsuwanich:
Rice Classification Using Spatio-Spectral Deep Convolutional Neural Network. CoRR abs/1805.11491 (2018) - [i1]Berkin Bilgic, Itthi Chatnuntawech, Mary Kate Manhard, Qiyuan Tian, Congyu Liao, Stephen F. Cauley, Susie Yi Huang, Jonathan R. Polimeni, Lawrence L. Wald, Kawin Setsompop:
Highly Accelerated Multishot EPI through Synergistic Combination of Machine Learning and Joint Reconstruction. CoRR abs/1808.02814 (2018)
Coauthor Index
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