Publications

1. 49
   Diffusion with ultra high performance gradients at 7T; Oral presentation at New Frontiers in Mesoscale Brain Mapping symposium, Martinos Center, November 2026.
2. 48
   Precise, reproducible quantitative MRI across scales and field strengths; Oral presentation at Asilomar Conference on Signals, Systems, and Computers, October 2026.
3. 47
   Tailored encoding and reconstruction across scales and field strengths; Oral presentation at 7T MRI Mass General Brigham Users Meeting, August 2026.
4. 46
   Advanced acquisition, reconstruction, and encoding strategies; Oral presentation at Connectome 2.0 Dissemination Workshop at the Martinos Center, June 2026.
5. 45
   Next Generation MRI: tailored encoding and reconstruction across scales and field strengths; Oral presentation at UIUC ECE Department, April 2026.
6. 44
   High-definition MRI: tailored encoding and reconstruction across scales and field strengths; Oral presentation at Bogazici University, February 2026.
7. 43
   Vendor-neutral pulse sequence design and sharing; ISMRM Workshop on Data Sampling and Image Reconstruction, Sedona, AZ, January 2026.
8. 42
   High-definition MRI: tailored encoding and reconstruction across scales and field strengths; Oral presentation at Zhejiang University, Hangzhou, China, November 2025.
9. 41
   High-definition MRI: tailored encoding and reconstruction across scales and field strengths; Oral presentation at Tsinghua University, Beijing, China, November 2025.
10. 40
    High-definition MRI: tailored encoding and reconstruction across scales and field strengths; Oral presentation at Martinos Center BrainMap Seminar Series, September 2025.
11. 39
    High-definition MRI: tailored encoding and reconstruction across scales and field strengths; Oral presentation at University of Wisconsin-Madison ML4MI Seminar Series, June 2024.
12. 38
    Emerging MRI techniques to assess brain physiology; Oral presentation at the TRISH-MIT Brains in Space Workshop, May 2024.
13. 37
    Artificial Intelligence in MRI; Oral presentation at the ISMRM-Endorsed Global Outreach Workshop in Thailand, May 2024.
14. 36
    High-definition MRI: tailored encoding and reconstruction across scales and field strengths; Oral presentation at the Saban Research Institute, Children’s Hospital Los Angeles, February 2024.
15. 35
    High-definition MRI: tailored encoding and reconstruction across scales and field strengths; Oral presentation at the 8th West-Lake Photonics Symposium, Zhejiang University, November 2023
16. 34
    AI technology enables faster, higher-fidelity MRI; Oral presentation, the 9th Turkish Medical World Congress and TUSEB Aziz Sancar Science, Service and Incentive Awards Ceremony, October 2023.
17. 33
    High-definition MRI: tailored encoding and reconstruction across scales and field strengths; Oral presentation at Mesoscale Brain Mapping: Bridging Scales and Modalities in Neuroimaging symposium, The Center for Mesoscale Mapping at Massachusetts General Hospital, October 2023.
18. 32
    Robust Multimodal Imaging; Educational presentation, ISMRM Workshop on White Matter, Analysis, Translation, Experimental Validation, Evaluation & Reproducibility, September 2023.
19. 31
    High-definition MRI: tailored encoding and reconstruction across scales and field strengths; Oral presentation at the Center for Biomedical Imaging, Oral presentation, UMRAM, Bilkent University, August 2023.
20. 30
    High-definition MRI: tailored encoding and reconstruction across scales and field strengths; Oral presentation, the Center for Biomedical Imaging, EPFL, March 2023.
21. 29
    Efficient MRI through Optimized Encoding and Reconstruction; Oral presentation, the Weill Cornell Medical College, December 2022.
22. 28
    Value of Multicontrast Techniques (Neuro); Educational presentation at ISMRM, May 2022.
23. 27
    Efficient MRI through improved encoding & reconstruction; Oral presentation, Brain Research Society, Turkey, April 2022.
24. 26
    Efficient MRI through Improved Encoding & Reconstruction; Oral presentation, Department of Electrical and Electronics Engineering, Bogazici University, November 2021
25. 25
    Efficient MRI through Improved Encoding & Reconstruction; Oral presentation, King’s College London, April 2021
26. 24
    Efficient EPI through improved encoding & reconstruction; Oral presentation, Donders Institute, Radboud University, March 2021
27. 23
    Efficient MRI through Improved Encoding & Reconstruction; Oral presentation, Department of Bioengineering, UIUC, March 2021
28. 22
    Efficient MRI through Improved Encoding & Reconstruction; Oral presentation, UMRAM, Bilkent University, Ankara, Turkey, January 2021
29. 21
    Efficient MRI through Improved Encoding & Reconstruction; Oral presentation, Fetal Neonatal Neuroimaging and Developmental Science Center, Boston Children’s Hospital, June 2020
30. 20
    Efficient MRI through Improved Encoding & Reconstruction; Oral presentation, Radiological Sciences Laboratory, Stanford University, April 2020
31. 19
    Highly Efficient MRI Through Multi-shot Echo Planar Imaging; Oral presentation at the SPIE Wavelets and Sparsity XVIII conference, August 2019 (presented by Dr C. Liao).
32. 18
    Wave Encoding: The Sequence, the Reconstruction & the Trade-Offs; Educational presentation at ISMRM, May 2019.
33. 17
    QSM Tools & Their Biases; Educational presentation at ISMRM, May 2019.
34. 16
    Basic Physics of Multiband Imaging; Educational presentation at ISMRM, June 2018.
35. 15
    Faster MRI through Optimized Encoding and Reconstruction; Oral presentation at the Memorial Sloan Kettering Cancer Center, May 2018

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36. 14
    Faster MRI through Optimized Encoding and Reconstruction; Oral presentation at the NYU Center for Advanced Imaging Innovation and Research, February 2018
37. 13
    Faster MRI through Optimized Encoding and Reconstruction; Oral presentation at the Weill Cornell Medical College, October 2017
38. 12
    Faster MRI through Optimized Encoding and Reconstruction; Oral presentation at the University of Utah, Imaging Elevated Symposium, September 2017
39. 11
    QSM Software Demo: 2016 Reconstruction Challenge; Oral presentation at ISMRM Weekend Educational Session, April 2017

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40. 10
    Susceptibility Weighted Imaging and Quantitative Susceptibility Mapping; Oral presentation at the Neuroradiology Division, Massachusetts General Hospital, November 2016

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41. 9
    Accelerated QSM; Oral presentation at Fourth International Workshop on MRI Phase Contrast & Quantitative Susceptibility Mapping, September 2016.

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42. 8
    Advanced Parallel Imaging for Beyond Order of Magnitude Accelerated Neuroimaging; Oral presentation at the Barrow Neurological Institute, Keller Center for Imaging Innovation, July 2015.

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43. 7
    Sparse Methods for Quantitative Susceptibility Mapping; Oral presentation at the SPIE Wavelets and Sparsity XVI conference, August 2015.
44. 6
    Wave-CAIPI for Efficient TSE and QSM Acquisitions with Application in Brain Tumors; Oral presentation at ISMRM Workshop on Simultaneous Multi-Slice Imaging: Neuroscience & Clinical Applications, July 2015.

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45. 5
    Simultaneous Multi-Slice Acquisition for Rapid Neuroimaging; Oral presentation at OHBM Morning Workshop: Neuroimaging Applications of Simultaneous Multi-Slice Imaging, June 2015.

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46. 4
    Susceptibility Weighted Data Acquisition and Processing; Oral presentation at MICCAI Workshop on Intelligent Imaging, September 2014.

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47. 3
    Highly Accelerated 3D Imaging; Oral presentation at the 3rd Magnetic Resonance Balkan Outreach Program, Ankara, Turkey, May 2014.

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48. 2
    Wave-CAIPI: Highly Accelerated 3D Imaging with Reduced g-factor Penalty; Oral presentation at Boston Children's Hospital, February 2014

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49. 1
    MRI Image Reconstruction Algorithms: Compressed Sensing & Quantitative Susceptibility Mapping; Oral presentation at UMRAM, Bilkent University, Ankara, Turkey, June 2011.

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1. 24
   Harmonized QSM: consensus acquisition and reconstruction; software demo at 2026 Joint Workshop on MR Phase, Magnetic Susceptibility and Electrical Properties Mapping, 2026
2. 23
   Harmonizing Neuroimaging Acquisition and Reconstruction; Oral presentation at Sedona - Workshop on Data Sampling & Image Reconstruction – ISMRM, 2026
3. 22
   3D-BUDA Enables Rapid Distortion-Free QSM Acquisition; Oral presentation at the International Society for Magnetic Resonance in Medicine 28th Scientific Meeting, 2020
4. 21
   From 2D thick slices to 3D isotropic volumetric brain MRI - a deep learning approach; Power pitch presentation at the International Society for Magnetic Resonance in Medicine 28th Scientific Meeting, 2020
5. 20
   Robust high-quality multi-shot EPI with low-rank prior and machine learning; Oral presentation at the International Society for Magnetic Resonance in Medicine 27th Scientific Meeting, 2019.

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6. 19
   NEATR-SMS for Highly Accelerated Multi-Shot EPI; Oral presentation at the ISMRM Workshop on Machine Learning, Part II, 2018

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7. 18
   Accelerated Multi-shot EPI through Machine Learning and Joint Reconstruction; Oral presentation at the ISMRM Workshop on Machine Learning, 2018

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8. 17
   Calibrationless Parallel Imaging in Multi Echo/Contrast Data; Power poster presentation at the International Society for Magnetic Resonance in Medicine 25th Scientific Meeting, 2017.

   TalkPoster
9. 16
   Joint Reconstruction of Phase-Cycled Balanced SSFP with Constrained Parallel Imaging; Power poster presentation at the International Society for Magnetic Resonance in Medicine 25th Scientific Meeting, 2017.

   TalkPoster
10. 15
    Joint Reconstruction for Phase-Cycled Balanced SSFP; Oral presentation at the NYU Innovation to Implementation in Imaging Workshop, 2016.

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11. 14
    Optimized CS-Wave Imaging with Tailored Sampling and Efficient Reconstruction; Oral presentation at the International Society for Magnetic Resonance in Medicine 24th Scientific Meeting, 2016.

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12. 13
    Rapid Multi-Orientation Susceptibility Mapping with Wave-CAIPI; Oral presentation at the International Society for Magnetic Resonance in Medicine 23rd Scientific Meeting, 2015.

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13. 12
    RARE/Turbo Spin Echo Imaging with Simultaneous MultiSlice Wave-CAIPI; Oral presentation at the International Society for Magnetic Resonance in Medicine 23rd Scientific Meeting, 2015.

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14. 11
    Rapid Acquisition for Multi-Orientation QSM; Oral & poster presentation at the 3rd International Workshop on MRI Phase Contrast & QSM, 2014.

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15. 10
    Single-Step QSM with Fast Reconstruction; Oral & poster presentation at the 3rd International Workshop on MRI Phase Contrast & QSM, 2014.

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16. 9
    Rapid QSM Acquisition with Wave-CAIPI; Power poster presentation at the International Society for Magnetic Resonance in Medicine 22nd Scientific Meeting, 2014.

    TalkPoster
17. 8
    Fast Reconstruction for Regularized Quantitative Susceptibility Mapping; Oral presentation at the International Society for Magnetic Resonance in Medicine 22nd Scientific Meeting, 2014.

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18. 7
    Fast DSI Reconstruction with Trained Dictionaries; Oral presentation at the International Society for Magnetic Resonance in Medicine 21st Scientific Meeting, 2013.

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19. 6
    Regularized QSM in Seconds; Oral presentation at the International Society for Magnetic Resonance in Medicine 21st Scientific Meeting, 2013.

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20. 5
    Fast Regularized Reconstruction Tools for QSM and DSI; Oral presentation at ISMRM Workshop on Data Sampling & Image Reconstruction, 2013.

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21. 4
    Accelerated DSI with Compressed Sensing using Adaptive Dictionaries; Oral presentation at 15th International Conference on Medical Image Computing and Computer Assisted Intervention, 2012.

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22. 3
    Joint Bayesian Compressed Sensing with Prior Estimate; Oral presentation at the International Society for Magnetic Resonance in Medicine 20th Scientific Meeting, 2012.

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23. 2
    Joint Bayesian Compressed Sensing for Multi-contrast Reconstruction; Oral presentation at the International Society for Magnetic Resonance in Medicine 19th Scientific Meeting, 2011.

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24. 1
    Quantitative Susceptibility Map Reconstruction with Magnitude Prior; Oral presentation at the International Society for Magnetic Resonance in Medicine 19th Scientific Meeting, 2011.

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An up-to-date list can be found on [Google Scholar] and [PubMed]

1. 129
   Chen Q, Roos THM, Murguia A, Xie Y, Liu Z, Xu P, Fujita S, Littin S, Rathi Y, Zhu J, Bilgic B, Nielsen JF, Zaitsev M. An Open-Source, Reproducible MRI Data Acquisition and Reconstruction Workflow Using Pulseq: Multi-Site and Cross-Vendor Validation. Magn Reson Med. 2026 Dec;96(6):2721-2738. doi: 10.1002/mrm.70548. Epub 2026 Aug 6. PMID: 42558037; PMCID: PMC13619859.
2. 128
   Li Z, Li Z, Liu M, Lo WC, Jia F, Luo Y, Lee HH, Bilgic B, Polimeni JR, Qu H, Tian Q, Huang SY. Improving the accessibility of deep learning-based denoising for accelerated brain MRI using self-supervised learning and/or transfer learning. Neuroimage. 2026 Sep 9;341:122210. doi: 10.1016/j.neuroimage.2026.122210. Epub ahead of print. PMID: 42716362.
3. 127
   Li S, Gallastegi UD, Fujita S, Chen Y, Xu P, Chan KS, Choi Y, Kim J, Piredda GF, Hilbert T, Lee J, Ye H, Gagoski B, Liu H, Bilgic B, Jun Y. Omni-QALAS: Optimized Multiparametric Imaging for Simultaneous T₁, T₂ and Myelin Water Mapping. IEEE Trans Biomed Eng. 2026 Sep 7;PP. doi: 10.1109/TBME.2026.3731202. Epub ahead of print. PMID: 42704793.
4. 126
   Yong X, Liu Z, Dong Y, Hong H, Chen Y, Dubovan P, Liu Q, Kim J, Dorken Gallastegi U, Jun Y, Bilgic B. SeqEyes: An Open-Source Toolbox for Synchronized Waveform/Trajectory Visualization in Pulseq. Magn Reson Med. 2026 Aug 28. doi: 10.1002/mrm.70584. Epub ahead of print. PMID: 42666040.
5. 125
   Chen Y, Jun Y, Shin HG, Li S, Fujita S, Yong X, Kim J, Lee J, Piredda GF, Hilbert T, Bhatt A, Huang SY, Liu H, Ye H, Nasr S, Gagoski B, Chan KS, Bilgic B. MWF-MIMOSA for efficient simultaneous relaxometry and myelin water fraction mapping. ArXiv [Preprint]. 2026 Jul 31:arXiv:2607.28984v1. PMID: 42620040; PMCID: PMC13484418.
6. 124
   Grimaldi S, Singh K, García-Gomar MG, Koley S, Hannanu FF, Stefani A, Bilgic B, Videnovic A, Bianciardi M. CSF turnover dysfunction: a hidden early biomarker in iRBD? NPJ Parkinsons Dis. 2026 Jul 1. doi: 10.1038/s41531-026-01444-2. Epub ahead of print. PMID: 42386783.
7. 123
   Uchida Y, Shin HG, Gomez-Isaza L, Troncoso JC, Bibic A, Gerold J, Sung D, Jun Y, Wang F, Dong Z, Huang S, Bilgic B, van Zijl P, Li X, Oishi K. Submillimeter postmortem and in vivo diffusion and susceptibility magnetic resonance imaging to characterize cortical micro- and meso-structures. Res Sq [Preprint]. 2026 Jun 30:rs.3.rs-9612742. doi: 10.21203/rs.3.rs-9612742/v1. PMID: 42427881; PMCID: PMC13345526.
8. 122
   Jun Y, Liu Q, Gong T, Cho J, Fujita S, Yong X, Liao C, Schmidt ME, Nasr S, Jaimes C, Gee MS, Huang SY, Ning L, Yendiki A, Rathi Y, Bilgic B. PRIME: Phase reversed interleaved multi-Echo acquisition enables highly accelerated distortion-corrected diffusion MRI. Med Image Anal. 2026 Jun;111:104058. doi: 10.1016/j.media.2026.104058. Epub 2026 Apr 3. PMID: 41946234; PMCID: PMC13619350.
9. 121
   Jiang Y, Jun Y, Liu Q, Zhong W, Rathi Y, Guo H, Bilgic B. Multishot Dual Polarity GRAPPA: Robust Nyquist Ghost Correction for Multishot EPI. Magn Reson Med. 2026 May;95(5):2726-2736. doi: 10.1002/mrm.70233. Epub 2025 Dec 25. PMID: 41449756.
10. 120
    Tang J, Tamada D, Nielsen JF, Starekova J, Heidenreich JF, Schön F, Anagnostopoulos AA, Roshanshad A, Mao L, Fujita S, Xu P, Keen C, Shaik IA, Milshteyn E, Yee S, Ellison AJ, Rutkowski D, Kammerman J, Brittain JH, Zhong X, Grissom WA, Zaitsev M, Carrel AL, Rathi Y, Jiang Y, Bilgic B, Reeder SB, Hernando D. Highly Reproducible, Vendor-Agnostic, Motion-Insensitive Liver PDFF Mapping at 0.55T, 1.5T, and 3T. Magn Reson Med. 2026 May;95(5):2797-2813. doi: 10.1002/mrm.70223. Epub 2025 Dec 12. PMID: 41387985; PMCID: PMC12962202.
11. 119
    Cukur T, Dar SU, Nezhad VA, Jun Y, Kim TH, Fujita S, Bilgic B. A Tutorial on MRI Reconstruction: From Modern Methods to Clinical Implications. IEEE Trans Biomed Eng. 2026 May;73(5):1900-1920. doi: 10.1109/TBME.2025.3617575. PMID: 41042661.
12. 118
    Ma F, Özbay PS, Bilgic B, Hedden T, Delman B, Balchandani P, Alipour A. Optimized Quantitative Susceptibility Mapping at 7T MRI for Assessing Iron Deposition in Alzheimer's Disease. NMR Biomed. 2026 Apr;39(4):e70268. doi: 10.1002/nbm.70268. PMID: 41852247; PMCID: PMC13392853.
13. 117
    Fazio Ferraciolli S, Jun Y, Valencia S, Pena Trujillo V, Griffin H, Fujita S, Milshteyn E, Bilgic B, Jaimes C. 3D-QALAS synthetic MRI with Zero-DeepSub in children: initial experience including post-contrast imaging feasibility. Pediatr Radiol. 2026 Apr;56(4):867-877. doi: 10.1007/s00247-025-06510-0. Epub 2026 Feb 3. PMID: 41632243; PMCID: PMC13592502.
14. 116
    Chin JH, Wyburd MK, Ayzenberg V, Bayet L, Bilgic B, Chen EM, Chen Y, Dineen Á, Fujita S, Liu J, Jun Y, Camacho MC, Zöllei L. Deep learning in fetal, infant, and toddler neuroimaging research. Dev Cogn Neurosci. 2026 Apr;78:101680. doi: 10.1016/j.dcn.2026.101680. Epub 2026 Jan 22. Erratum in: Dev Cogn Neurosci. 2026 Apr;78:101694. doi: 10.1016/j.dcn.2026.101694. PMID: 41604954; PMCID: PMC12870874.
15. 115
    Li Z, Li Z, Bilgic B, Ying K, Salat DH, Polimeni JR, Liao H, Huang SY, Tian Q. Noise2Average: An iterative residual learning strategy for image denoising without clean data. Imaging Neurosci (Camb). 2026 Mar 24;4:IMAG.a.1163. doi: 10.1162/IMAG.a.1163. PMID: 41890245; PMCID: PMC13015446.
16. 114
    Chen Y, Jun Y, Heydari A, Yong X, Kim J, Lee J, Liu H, Ye H, Gagoski B, Fujita S, Bilgic B. MIMOSA: Multi-Parametric Imaging Using Multiple-Echoes With Optimized Simultaneous Acquisition for Highly-Efficient Quantitative MRI. Magn Reson Med. 2026 Mar;95(3):1528-1544. doi: 10.1002/mrm.70143. Epub 2025 Oct 14. PMID: 41088533.
17. 113
    Ramos-Llordén G, Lee HH, Davids M, Dietz P, Krug A, Kirsch JE, Mahmutovic M, Müller A, Ma Y, Lee H, Maffei C, Yendiki A, Bilgic B, Park DJ, Tian Q, Clifford B, Lo WC, Stocker S, Fischer J, Ruyters G, Roesler M, Potthast A, Benner T, Rummert E, Schuster R, Basser PJ, Witzel T, Wald LL, Rosen BR, Keil B, Huang SY. Publisher Correction: Ultra-high gradient connectomics and microstructure MRI scanner for imaging of human brain circuits across scales. Nat Biomed Eng. 2026 Feb;10(2):406. doi: 10.1038/s41551-025-01484-8. Erratum for: Nat Biomed Eng. 2026 Feb;10(2):309-324. doi: 10.1038/s41551-025-01457-x. PMID: 40696116; PMCID: PMC12920074.
18. 112
    Ramos-Llordén G, Lee HH, Davids M, Dietz P, Krug A, Kirsch JE, Mahmutovic M, Müller A, Ma Y, Lee H, Maffei C, Yendiki A, Bilgic B, Park DJ, Tian Q, Clifford B, Lo WC, Stocker S, Fischer J, Ruyters G, Roesler M, Potthast A, Benner T, Rummert E, Schuster R, Basser PJ, Witzel T, Wald LL, Rosen BR, Keil B, Huang SY. Ultra-high gradient connectomics and microstructure MRI scanner for imaging of human brain circuits across scales. Nat Biomed Eng. 2026 Feb;10(2):309-324. doi: 10.1038/s41551-025-01457-x. Epub 2025 Jul 16. Erratum in: Nat Biomed Eng. 2026 Feb;10(2):406. doi: 10.1038/s41551-025-01484-8. PMID: 40670720; PMCID: PMC12920100.
19. 111
    Fujita S, Fushimi Y, Otsuka Y, Murata K, Buonincontri G, Koerzdoerfer G, Nittka M, Fukunaga I, Takabayashi K, Hagiwara A, Motoi Y, Nakajima M, Murakami K, Shima A, Kubota M, Bilgic B, Kamagata K, Sawamoto N, Abe O, Nakamoto Y, Aoki S. Brain Amyloid Burden Mapping Using MR Fingerprinting Aided by Deep Learning. Magn Reson Med Sci. 2026;25(4). doi: 10.2463/mrms.mp.2026-0112. PMID: 42633943.
20. 110
    Lyu J, Ning L, Consagra W, Liu Q, Rushmore RJ, Bilgic B, Rathi Y. Rapid whole brain motion-robust mesoscale in-vivo MR imaging using multi-scale implicit neural representation. Med Image Anal. 2026 Jan;107(Pt B):103830. doi: 10.1016/j.media.2025.103830. Epub 2025 Oct 9. PMID: 41072125.
21. 109
    Chan KS, Lee H, Ma Y, Bilgic B, Huang SY, Lee HH, Marques JP. GACELLE: GPU-accelerated tools for model parameter estimation and image reconstruction. ArXiv [Preprint]. 2025 Nov 27:arXiv:2511.22094v1. PMID: 41356069; PMCID: PMC12676372.
22. 108
    Schmidt ME, Aganj I, Stockmann J, Bilgic B, Chang Y, Hoge WS, Kirilina E, Weiskopf N, Nasr S. Unraveling the mesoscale resting-state functional connectivity of ocular dominance columns in humans using high-resolution functional MRI. Commun Biol. 2025 Nov 26;8(1):1708. doi: 10.1038/s42003-025-09108-2. PMID: 41299057; PMCID: PMC12658184.
23. 107
    Liu Q, Zhu A, Wang X, Erdogmus D, Westin CF, O'Donnell LJ, Bilgic B, Ning L, Rathi Y. Effect of a consistent reconstruction algorithm on inter-scanner reproducibility in diffusion MRI. Med Phys. 2025 Nov;52(11):e70096. doi: 10.1002/mp.70096. PMID: 41145995; PMCID: PMC12747109.
24. 106
    Uhl Q, Pavan T, Gerold J, Chan KS, Jun Y, Fujita S, Bhatt A, Ma Y, Wang Q, Lee HH, Huang SY, Bilgic B, Jelescu I. Explainable AI for Accelerated Microstructure Imaging: A SHAP-Guided Protocol on the Connectome 2.0 scanner. ArXiv [Preprint]. 2025 Sep 11:arXiv:2509.09513v1. PMID: 40964083; PMCID: PMC12440067.
25. 105
    Fujita S, Gagoski B, Nielsen JF, Zaitsev M, Jun Y, Cho J, Yong X, Uhl Q, Xu P, Milshteyn E, Shaik IA, Liu Q, Chen Q, Afacan O, Kirsch JE, Rathi Y, Bilgic B. Vendor-agnostic 3D multiparametric relaxometry improves cross-platform reproducibility. Magn Reson Med. 2025 Sep;94(3):937-948. doi: 10.1002/mrm.30566. Epub 2025 May 26. PMID: 40420483; PMCID: PMC12204796.
26. 104
    Tian Q, Ngamsombat C, Lee HH, Berger DR, Wu Y, Fan Q, Bilgic B, Li Z, Novikov DS, Fieremans E, Rosen BR, Lichtman JW, Huang SY. Quantifying axonal features of human superficial white matter from three-dimensional multibeam serial electron microscopy data assisted by deep learning. Neuroimage. 2025 Jun;313:121212. doi: 10.1016/j.neuroimage.2025.121212. Epub 2025 Apr 11. PMID: 40222502; PMCID: PMC12312701.
27. 103
    Cortes-Albornoz MC, Clifford B, Lo WC, Yee S, Applewhite BP, Tabari A, White-Dzuro C, Cauley SF, Schaefer PW, Rapalino O, Lev MH, Bilgic B, Feiweier T, Huang SY, Conklin JM, Lang M. A 3-Minute Ultrafast MRI and MRA Protocol for Screening of Acute Ischemic Stroke. J Am Coll Radiol. 2025 Mar;22(3):366-375. doi: 10.1016/j.jacr.2025.01.002. PMID: 40044316.
28. 102
    Kim M, Ji S, Kim J, Min K, Jeong H, Youn J, Kim T, Jang J, Bilgic B, Shin HG, Lee J. χ-sepnet: Deep Neural Network for Magnetic Susceptibility Source Separation. Hum Brain Mapp. 2025 Feb 1;46(2):e70136. doi: 10.1002/hbm.70136. PMID: 39835664; PMCID: PMC11748151.
29. 101
    Yarach U, Chatnuntawech I, Liao C, Teerapittayanon S, Iyer SS, Kim TH, Haldar J, Cho J, Bilgic B, Hu Y, Hargreaves B, Setsompop K. Blip-up blip-down circular EPI (BUDA-cEPI) for distortion-free dMRI with rapid unrolled deep learning reconstruction. Magn Reson Imaging. 2025 Jan;115:110277. doi: 10.1016/j.mri.2024.110277. Epub 2024 Nov 19. PMID: 39566835; PMCID: PMC12124459.
30. 100
    Choi Y, Ko JS, Park JE, Jeong G, Seo M, Jun Y, Fujita S, Bilgic B. Beyond the Conventional Structural MRI: Clinical Application of Deep Learning Image Reconstruction and Synthetic MRI of the Brain. Invest Radiol. 2025 Jan 1;60(1):27-42. doi: 10.1097/RLI.0000000000001114. Epub 2024 Aug 20. PMID: 39159333.
31. 99
    Liu Q, Gagoski B, Shaik IA, Westin CF, Wilde EA, Schneider W, Bilgic B, Grissom WA, Nielsen JF, Zaitsev M, Rathi Y, Ning L. Time-division multiplexing (TDM) sequence removes bias in T₂ estimation and relaxation-diffusion measurements. Magn Reson Med. 2024 Dec;92(6):2506-2519. doi: 10.1002/mrm.30246. Epub 2024 Aug 13. PMID: 39136245; PMCID: PMC11436305.
32. 98
    Marchant JK, Ferris NG, Grass D, Allen MS, Gopalakrishnan V, Olchanyi M, Sehgal D, Sheft M, Strom A, Bilgic B, Edlow B, Hillman EMC, Juttukonda MR, Lewis L, Nasr S, Nummenmaa A, Polimeni JR, Tootell RBH, Wald LL, Wang H, Yendiki A, Huang SY, Rosen BR, Gollub RL. Mesoscale Brain Mapping: Bridging Scales and Modalities in Neuroimaging - A Symposium Review. Neuroinformatics. 2024 Oct;22(4):679-706. doi: 10.1007/s12021-024-09686-2. Epub 2024 Sep 23. PMID: 39312131; PMCID: PMC11579116.
33. 97
    Heydari A, Ahmadi A, Kim TH, Bilgic B. Fast Whole-Brain MR Multi-Parametric Mapping with Scan-Specific Self-Supervised Networks. ArXiv [Preprint]. 2024 Aug 6:arXiv:2408.02988v1. PMID: 39148933; PMCID: PMC11326419.
34. 96
    Gkotsoulias DG, Jäger C, Müller R, Gräßle T, Olofsson KM, Møller T, Unwin S, Crockford C, Wittig RM, Bilgic B, Möller HE. Chaos and COSMOS-Considerations on QSM methods with multiple and single orientations and effects from local anisotropy. Magn Reson Imaging. 2024 Jul;110:104-111. doi: 10.1016/j.mri.2024.04.020. Epub 2024 Apr 16. PMID: 38631534.
35. 95
    Liu Q, Ning L, Shaik IA, Liao C, Gagoski B, Bilgic B, Grissom W, Nielsen JF, Zaitsev M, Rathi Y. Reduced cross-scanner variability using vendor-agnostic sequences for single-shell diffusion MRI. Magn Reson Med. 2024 Jul;92(1):246-256. doi: 10.1002/mrm.30062. Epub 2024 Mar 12. PMID: 38469671; PMCID: PMC11055665.
36. 94
    Li Z, Li Z, Bilgic B, Lee HH, Ying K, Huang SY, Liao H, Tian Q. DIMOND: DIffusion Model OptimizatioN with Deep Learning. Adv Sci (Weinh). 2024 Jun;11(24):e2307965. doi: 10.1002/advs.202307965. Epub 2024 Apr 18. PMID: 38634608; PMCID: PMC11200022.
37. 93
    Jun Y, Arefeen Y, Cho J, Fujita S, Wang X, Grant PE, Gagoski B, Jaimes C, Gee MS, Bilgic B. Zero-DeepSub: Zero-shot deep subspace reconstruction for rapid multiparametric quantitative MRI using 3D-QALAS. Magn Reson Med. 2024 Jun;91(6):2459-2482. doi: 10.1002/mrm.30018. Epub 2024 Jan 28. PMID: 38282270; PMCID: PMC11005062.
38. 92
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    QSM Consensus Organization Committee; Bilgic B, Costagli M, Chan KS, Duyn J, Langkammer C, Lee J, Li X, Liu C, Marques JP, Milovic C, Robinson SD, Schweser F, Shmueli K, Spincemaille P, Straub S, van Zijl P, Wang Y; ISMRM Electro-Magnetic Tissue Properties Study Group. Recommended implementation of quantitative susceptibility mapping for clinical research in the brain: A consensus of the ISMRM electro-magnetic tissue properties study group. Magn Reson Med. 2024 May;91(5):1834-1862. doi: 10.1002/mrm.30006. Epub 2024 Jan 21. PMID: 38247051; PMCID: PMC10950544.
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    Lang M, Clifford B, Lo WC, Applewhite BP, Tabari A, Filho ALMG, Hosseini Z, Longo MGF, Cauley SF, Setsompop K, Bilgic B, Feiweier T, Lev MH, Schaefer PW, Rapalino O, Huang SY, Conklin J. Clinical Evaluation of a 2-Minute Ultrafast Brain MR Protocol for Evaluation of Acute Pathology in the Emergency and Inpatient Settings. AJNR Am J Neuroradiol. 2024 Apr 8;45(4):379-385. doi: 10.3174/ajnr.A8143. PMID: 38453413; PMCID: PMC11288578.
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    Ramos-Llordén G, Park DJ, Kirsch JE, Scholz A, Keil B, Maffei C, Lee HH, Bilgic B, Edlow BL, Mekkaoui C, Yendiki A, Witzel T, Huang SY. Eddy current-induced artifact correction in high b-value ex vivo human brain diffusion MRI with dynamic field monitoring. Magn Reson Med. 2024 Feb;91(2):541-557. doi: 10.1002/mrm.29873. Epub 2023 Sep 27. PMID: 37753621; PMCID: PMC10842131.
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    Kang SH, Kim J, Cho J, Cooley CZ, Heydari A, Bilgic B, Kim TH. Enhanced Partial Fourier MRI With Zero-Shot Deep Untrained Priors. IEEE Access. 2024;12:182157-182170. doi: 10.1109/access.2024.3508761. Epub 2024 Nov 29. PMID: 40766109; PMCID: PMC12323813.
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    Gruber B, Stockmann JP, Mareyam A, Keil B, Bilgic B, Chang Y, Kazemivalipour E, Beckett AJS, Vu AT, Feinberg DA, Wald LL. A 128-channel receive array for cortical brain imaging at 7 T. Magn Reson Med. 2023 Dec;90(6):2592-2607. doi: 10.1002/mrm.29798. Epub 2023 Aug 15. PMID: 37582214; PMCID: PMC10543549.
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    Kanaan AS, Yu D, Metere R, Schäfer A, Schlumm T, Bilgic B, Anwander A, Mathews CA, Scharf JM, Müller-Vahl K, Möller HE. Convergent imaging-transcriptomic evidence for disturbed iron homeostasis in Gilles de la Tourette syndrome. Neurobiol Dis. 2023 Sep;185:106252. doi: 10.1016/j.nbd.2023.106252. Epub 2023 Aug 2. PMID: 37536382.
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    Arefeen Y, Xu J, Zhang M, Dong Z, Wang F, White J, Bilgic B, Adalsteinsson E. Latent signal models: Learning compact representations of signal evolution for improved time-resolved, multi-contrast MRI. Magn Reson Med. 2023 Aug;90(2):483-501. doi: 10.1002/mrm.29657. Epub 2023 Apr 24. PMID: 37093775; PMCID: PMC12554331.
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    Li Z, Fan Q, Bilgic B, Wang G, Wu W, Polimeni JR, Miller KL, Huang SY, Tian Q. Diffusion MRI data analysis assisted by deep learning synthesized anatomical images (DeepAnat). Med Image Anal. 2023 May;86:102744. doi: 10.1016/j.media.2023.102744. Epub 2023 Jan 19. PMID: 36867912; PMCID: PMC10517382.
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    Chen Z, Liao C, Cao X, Poser BA, Xu Z, Lo WC, Wen M, Cho J, Tian Q, Wang Y, Feng Y, Xia L, Chen W, Liu F, Bilgic B. 3D-EPI blip-up/down acquisition (BUDA) with CAIPI and joint Hankel structured low-rank reconstruction for rapid distortion-free high-resolution T2* mapping. Magn Reson Med. 2023 May;89(5):1961-1974. doi: 10.1002/mrm.29578. Epub 2023 Jan 27. PMID: 36705076; PMCID: PMC10072851.
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    Zhang Z, Cho J, Wang L, Liao C, Shin HG, Cao X, Lee J, Xu J, Zhang T, Ye H, Setsompop K, Liu H, Bilgic B. Blip up-down acquisition for spin- and gradient-echo imaging (BUDA-SAGE) with self-supervised denoising enables efficient T₂ , T₂ *, para- and dia-magnetic susceptibility mapping. Magn Reson Med. 2022 Aug;88(2):633-650. doi: 10.1002/mrm.29219. Epub 2022 Apr 18. PMID: 35436357.
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    Fan Q, Eichner C, Afzali M, Mueller L, Tax CMW, Davids M, Mahmutovic M, Keil B, Bilgic B, Setsompop K, Lee HH, Tian Q, Maffei C, Ramos-Llordén G, Nummenmaa A, Witzel T, Yendiki A, Song YQ, Huang CC, Lin CP, Weiskopf N, Anwander A, Jones DK, Rosen BR, Wald LL, Huang SY. Mapping the human connectome using diffusion MRI at 300 mT/m gradient strength: Methodological advances and scientific impact. Neuroimage. 2022 Jul 1;254:118958. doi: 10.1016/j.neuroimage.2022.118958. Epub 2022 Feb 23. PMID: 35217204; PMCID: PMC9121330.
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    Cao X, Liao C, Iyer SS, Wang Z, Zhou Z, Dai E, Liberman G, Dong Z, Gong T, He H, Zhong J, Bilgic B, Setsompop K. Optimized multi-axis spiral projection MR fingerprinting with subspace reconstruction for rapid whole-brain high-isotropic-resolution quantitative imaging. Magn Reson Med. 2022 Jul;88(1):133-150. doi: 10.1002/mrm.29194. Epub 2022 Feb 24. PMID: 35199877; PMCID: PMC12169421.
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    Tian Q, Li Z, Fan Q, Polimeni JR, Bilgic B, Salat DH, Huang SY. SDnDTI: Self-supervised deep learning-based denoising for diffusion tensor MRI. Neuroimage. 2022 Jun;253:119033. doi: 10.1016/j.neuroimage.2022.119033. Epub 2022 Mar 1. PMID: 35240299; PMCID: PMC9511973.
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    Demir S, Clifford B, Lo WC, Tabari A, Goncalves Filho ALM, Lang M, Cauley SF, Setsompop K, Bilgic B, Lev MH, Schaefer PW, Rapalino O, Huang SY, Hilbert T, Feiweier T, Conklin J. Optimization of magnetization transfer contrast for EPI FLAIR brain imaging. Magn Reson Med. 2022 May;87(5):2380-2387. doi: 10.1002/mrm.29141. Epub 2022 Jan 5. PMID: 34985151; PMCID: PMC8847235.
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    Clifford B, Conklin J, Huang SY, Feiweier T, Hosseini Z, Goncalves Filho ALM, Tabari A, Demir S, Lo WC, Longo MGF, Lev M, Schaefer P, Rapalino O, Setsompop K, Bilgic B, Cauley S. An artificial intelligence-accelerated 2-minute multi-shot echo planar imaging protocol for comprehensive high-quality clinical brain imaging. Magn Reson Med. 2022 May;87(5):2453-2463. doi: 10.1002/mrm.29117. Epub 2021 Dec 31. PMID: 34971463.
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    Jones R, Maffei C, Augustinack J, Fischl B, Wang H, Bilgic B, Yendiki A. High-fidelity approximation of grid- and shell-based sampling schemes from undersampled DSI using compressed sensing: Post mortem validation. Neuroimage. 2021 Dec 1;244:118621. doi: 10.1016/j.neuroimage.2021.118621. Epub 2021 Sep 26. PMID: 34587516; PMCID: PMC8631240.
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    QSM Challenge 2.0 Organization Committee; Bilgic B, Langkammer C, Marques JP, Meineke J, Milovic C, Schweser F. QSM reconstruction challenge 2.0: Design and report of results. Magn Reson Med. 2021 Sep;86(3):1241-1255. doi: 10.1002/mrm.28754. Epub 2021 Mar 30. PMID: 33783037; PMCID: PMC12142683.

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    Manhard MK, Stockmann J, Liao C, Park D, Han S, Fair M, van den Boomen M, Polimeni J, Bilgic B, Setsompop K. A multi-inversion multi-echo spin and gradient echo echo planar imaging sequence with low image distortion for rapid quantitative parameter mapping and synthetic image contrasts. Magn Reson Med. 2021 Aug;86(2):866-880. doi: 10.1002/mrm.28761. Epub 2021 Mar 25. PMID: 33764563; PMCID: PMC8793364.
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    Marques JP, Meineke J, Milovic C, Bilgic B, Chan KS, Hedouin R, van der Zwaag W, Langkammer C, Schweser F. QSM reconstruction challenge 2.0: A realistic in silico head phantom for MRI data simulation and evaluation of susceptibility mapping procedures. Magn Reson Med. 2021 Jul;86(1):526-542. doi: 10.1002/mrm.28716. Epub 2021 Feb 26. PMID: 33638241; PMCID: PMC8048665.
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    Tian Q, Zaretskaya N, Fan Q, Ngamsombat C, Bilgic B, Polimeni JR, Huang SY. Improved cortical surface reconstruction using sub-millimeter resolution MPRAGE by image denoising. Neuroimage. 2021 Jun;233:117946. doi: 10.1016/j.neuroimage.2021.117946. Epub 2021 Mar 10. PMID: 33711484; PMCID: PMC8421085.
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    Dong Z, Wang F, Chan KS, Reese TG, Bilgic B, Marques JP, Setsompop K. Variable flip angle echo planar time-resolved imaging (vFA-EPTI) for fast high-resolution gradient echo myelin water imaging. Neuroimage. 2021 May 15;232:117897. doi: 10.1016/j.neuroimage.2021.117897. Epub 2021 Feb 20. PMID: 33621694; PMCID: PMC8221177.
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    Tian Q, Bilgic B, Fan Q, Ngamsombat C, Zaretskaya N, Fultz NE, Ohringer NA, Chaudhari AS, Hu Y, Witzel T, Setsompop K, Polimeni JR, Huang SY. Improving in vivo human cerebral cortical surface reconstruction using data-driven super-resolution. Cereb Cortex. 2021 Jan 1;31(1):463-482. doi: 10.1093/cercor/bhaa237. PMID: 32887984; PMCID: PMC7727379.
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    Milovic C, Prieto C, Bilgic B, Uribe S, Acosta-Cabronero J, Irarrazaval P, Tejos C. Comparison of parameter optimization methods for quantitative susceptibility mapping. Magn Reson Med. 2021 Jan;85(1):480-494. doi: 10.1002/mrm.28435. Epub 2020 Aug 1. PMID: 32738103; PMCID: PMC7722179.
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    Polak D, Chatnuntawech I, Yoon J, Iyer SS, Milovic C, Lee J, Bachert P, Adalsteinsson E, Setsompop K, Bilgic B. Nonlinear dipole inversion (NDI) enables robust quantitative susceptibility mapping (QSM). NMR Biomed. 2020 Dec;33(12):e4271. doi: 10.1002/nbm.4271. Epub 2020 Feb 20. PMID: 32078756; PMCID: PMC7528217.

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    Polak D, Cauley S, Bilgic B, Gong E, Bachert P, Adalsteinsson E, Setsompop K. Joint multi-contrast variational network reconstruction (jVN) with application to rapid 2D and 3D imaging. Magn Reson Med. 2020 Sep;84(3):1456-1469. doi: 10.1002/mrm.28219. Epub 2020 Mar 4. PMID: 32129529; PMCID: PMC7539238.
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    Milovic C, Tejos C, Acosta-Cabronero J, Özbay PS, Schwesser F, Marques JP, Irarrazaval P, Bilgic B, Langkammer C. The 2016 QSM Challenge: Lessons learned and considerations for a future challenge design. Magn Reson Med. 2020 Sep;84(3):1624-1637. doi: 10.1002/mrm.28185. Epub 2020 Feb 21. PMID: 32086836; PMCID: PMC7526054.
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    Han S, Liao C, Manhard MK, Park DJ, Bilgic B, Fair MJ, Wang F, Blazejewska AI, Grissom WA, Polimeni JR, Setsompop K. Accelerated spin-echo functional MRI using multisection excitation by simultaneous spin-echo interleaving (MESSI) with complex-encoded generalized slice dithered enhanced resolution (cgSlider) simultaneous multislice echo-planar imaging. Magn Reson Med. 2020 Jul;84(1):206-220. doi: 10.1002/mrm.28108. Epub 2019 Dec 16. PMID: 31840295; PMCID: PMC7083698.
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    Haskell MW, Cauley SF, Bilgic B, Hossbach J, Splitthoff DN, Pfeuffer J, Setsompop K, Wald LL. Network Accelerated Motion Estimation and Reduction (NAMER): Convolutional neural network guided retrospective motion correction using a separable motion model. Magn Reson Med. 2019 Oct;82(4):1452-1461. doi: 10.1002/mrm.27771. Epub 2019 May 2. PMID: 31045278; PMCID: PMC6626557.
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    Manhard MK, Bilgic B, Liao C, Han S, Witzel T, Yen YF, Setsompop K. Accelerated whole-brain perfusion imaging using a simultaneous multislice spin-echo and gradient-echo sequence with joint virtual coil reconstruction. Magn Reson Med. 2019 Sep;82(3):973-983. doi: 10.1002/mrm.27784. Epub 2019 May 8. PMID: 31069861; PMCID: PMC6692914.
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    Polak D, Cauley S, Huang SY, Longo MG, Conklin J, Bilgic B, Ohringer N, Raithel E, Bachert P, Wald LL, Setsompop K. Highly-accelerated volumetric brain examination using optimized wave-CAIPI encoding. J Magn Reson Imaging. 2019 Sep;50(3):961-974. doi: 10.1002/jmri.26678. Epub 2019 Feb 8. PMID: 30734388; PMCID: PMC6687581.
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    Wang F, Dong Z, Reese TG, Bilgic B, Katherine Manhard M, Chen J, Polimeni JR, Wald LL, Setsompop K. Echo planar time-resolved imaging (EPTI). Magn Reson Med. 2019 Jun;81(6):3599-3615. doi: 10.1002/mrm.27673. Epub 2019 Feb 3. PMID: 30714198; PMCID: PMC6435385.
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    Ngo GC, Bilgic B, Gagoski BA, Sutton BP. Correction of magnetic field inhomogeneity effects for fast quantitative susceptibility mapping. Magn Reson Med. 2019 Mar;81(3):1645-1658. doi: 10.1002/mrm.27516. Epub 2018 Nov 2. PMID: 30387905.
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    Kim TH, Bilgic B, Polak D, Setsompop K, Haldar JP. Wave-LORAKS: Combining wave encoding with structured low-rank matrix modeling for more highly accelerated 3D imaging. Magn Reson Med. 2019 Mar;81(3):1620-1633. doi: 10.1002/mrm.27511. Epub 2018 Sep 25. PMID: 30252157; PMCID: PMC6347537.
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    Milovic C, Bilgic B, Zhao B, Langkammer C, Tejos C, Acosta-Cabronero J. Weak-harmonic regularization for quantitative susceptibility mapping. Magn Reson Med. 2019 Feb;81(2):1399-1411. doi: 10.1002/mrm.27483. Epub 2018 Sep 28. PMID: 30265767.
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    Yu FF, Chiang FL, Stephens N, Huang SY, Bilgic B, Tantiwongkosi B, Romero R. Characterization of normal-appearing white matter in multiple sclerosis using quantitative susceptibility mapping in conjunction with diffusion tensor imaging. Neuroradiology. 2019 Jan;61(1):71-79. doi: 10.1007/s00234-018-2137-7. Epub 2018 Dec 12. PMID: 30539215; PMCID: PMC6415662.
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    Dong Z, Wang F, Reese TG, Manhard MK, Bilgic B, Wald LL, Guo H, Setsompop K. Tilted-CAIPI for highly accelerated distortion-free EPI with point spread function (PSF) encoding. Magn Reson Med. 2019 Jan;81(1):377-392. doi: 10.1002/mrm.27413. Epub 2018 Sep 5. PMID: 30229562; PMCID: PMC6258292.
97. 33
    Wang F, Bilgic B, Dong Z, Manhard MK, Ohringer N, Zhao B, Haskell M, Cauley SF, Fan Q, Witzel T, Adalsteinsson E, Wald LL, Setsompop K. Motion-robust sub-millimeter isotropic diffusion imaging through motion corrected generalized slice dithered enhanced resolution (MC-gSlider) acquisition. Magn Reson Med. 2018 Nov;80(5):1891-1906. doi: 10.1002/mrm.27196. Epub 2018 Apr 1. PMID: 29607548; PMCID: PMC6107445.
98. 32
    Yoon J, Gong E, Chatnuntawech I, Bilgic B, Lee J, Jung W, Ko J, Jung H, Setsompop K, Zaharchuk G, Kim EY, Pauly J, Lee J. Quantitative susceptibility mapping using deep neural network: QSMnet. Neuroimage. 2018 Oct 1;179:199-206. doi: 10.1016/j.neuroimage.2018.06.030. Epub 2018 Jun 15. PMID: 29894829.
99. 31
    Wu Z, Bilgic B, He H, Tong Q, Sun Y, Du Y, Setsompop K, Zhong J. Wave-CAIPI ViSTa: highly accelerated whole-brain direct myelin water imaging with zero-padding reconstruction. Magn Reson Med. 2018 Sep;80(3):1061-1073. doi: 10.1002/mrm.27108. Epub 2018 Feb 1. PMID: 29388254.
100. 30
     Milovic C, Bilgic B, Zhao B, Acosta-Cabronero J, Tejos C. Fast nonlinear susceptibility inversion with variational regularization. Magn Reson Med. 2018 Aug;80(2):814-821. doi: 10.1002/mrm.27073. Epub 2018 Jan 10. PMID: 29322560.

     Matlab code
101. 29
     Bilgic B, Kim TH, Liao C, Manhard MK, Wald LL, Haldar JP, Setsompop K. Improving parallel imaging by jointly reconstructing multi-contrast data. Magn Reson Med. 2018 Aug;80(2):619-632. doi: 10.1002/mrm.27076. Epub 2018 Jan 10. PMID: 29322551; PMCID: PMC5910232.

     PDFMatlab code
102. 28
     Langkammer C, Schweser F, Shmueli K, Kames C, Li X, Guo L, Milovic C, Kim J, Wei H, Bredies K, Buch S, Guo Y, Liu Z, Meineke J, Rauscher A, Marques JP, Bilgic B. Quantitative susceptibility mapping: Report from the 2016 reconstruction challenge. Magn Reson Med. 2018 Mar;79(3):1661-1673. doi: 10.1002/mrm.26830. Epub 2017 Jul 31. PMID: 28762243; PMCID: PMC5777305.

     PDF
103. 27
     Setsompop K, Fan Q, Stockmann J, Bilgic B, Huang S, Cauley SF, Nummenmaa A, Wang F, Rathi Y, Witzel T, Wald LL. High-resolution in vivo diffusion imaging of the human brain with generalized slice dithered enhanced resolution: Simultaneous multislice (gSlider-SMS). Magn Reson Med. 2018 Jan;79(1):141-151. doi: 10.1002/mrm.26653. Epub 2017 Mar 5. PMID: 28261904; PMCID: PMC5585027.
104. 26
     Polak D, Setsompop K, Cauley SF, Gagoski BA, Bhat H, Maier F, Bachert P, Wald LL, Bilgic B. Wave-CAIPI for highly accelerated MP-RAGE imaging. Magn Reson Med. 2018 Jan;79(1):401-406. doi: 10.1002/mrm.26649. Epub 2017 Feb 20. PMID: 28220617; PMCID: PMC5563495.

     PDF
105. 25
     Yarach U, In MH, Chatnuntawech I, Bilgic B, Godenschweger F, Mattern H, Sciarra A, Speck O. Model-based iterative reconstruction for single-shot EPI at 7T. Magn Reson Med. 2017 Dec;78(6):2250-2264. doi: 10.1002/mrm.26633. Epub 2017 Feb 10. PMID: 28185433; PMCID: PMC5552473.
106. 24
     Liao C, Bilgic B, Manhard MK, Zhao B, Cao X, Zhong J, Wald LL, Setsompop K. 3D MR fingerprinting with accelerated stack-of-spirals and hybrid sliding-window and GRAPPA reconstruction. Neuroimage. 2017 Nov 15;162:13-22. doi: 10.1016/j.neuroimage.2017.08.030. Epub 2017 Aug 24. PMID: 28842384; PMCID: PMC6031129.

     PDF
107. 23
     Cauley SF, Setsompop K, Bilgic B, Bhat H, Gagoski B, Wald LL. Autocalibrated wave-CAIPI reconstruction; Joint optimization of k-space trajectory and parallel imaging reconstruction. Magn Reson Med. 2017 Sep;78(3):1093-1099. doi: 10.1002/mrm.26499. Epub 2016 Oct 21. PMID: 27770457; PMCID: PMC5400736.
108. 22
     Bilgic B, Ye H, Wald LL, Setsompop K. Simultaneous Time Interleaved MultiSlice (STIMS) for Rapid Susceptibility Weighted acquisition. Neuroimage. 2017 Jul 15;155:577-586. doi: 10.1016/j.neuroimage.2017.04.036. Epub 2017 Apr 20. PMID: 28435102; PMCID: PMC5511575.

     PDFMatlab code
109. 21
     Bo Zhao, Bilgic B, Adalsteinsson E, Griswold MA, Wald LL, Setsompop K. Simultaneous multislice magnetic resonance fingerprinting with low-rank and subspace modeling. Annu Int Conf IEEE Eng Med Biol Soc. 2017 Jul;2017:3264-3268. doi: 10.1109/EMBC.2017.8037553. PMID: 29060594; PMCID: PMC5895455.
110. 20
     Ye H, Cauley SF, Gagoski B, Bilgic B, Ma D, Jiang Y, Du YP, Griswold MA, Wald LL, Setsompop K. Simultaneous multislice magnetic resonance fingerprinting (SMS-MRF) with direct-spiral slice-GRAPPA (ds-SG) reconstruction. Magn Reson Med. 2017 May;77(5):1966-1974. doi: 10.1002/mrm.26271. Epub 2016 May 25. PMID: 27220881; PMCID: PMC5123982.
111. 19
     Chatnuntawech I, McDaniel P, Cauley SF, Gagoski BA, Langkammer C, Martin A, Grant PE, Wald LL, Setsompop K, Adalsteinsson E, Bilgic B. Single-step quantitative susceptibility mapping with variational penalties. NMR Biomed. 2017 Apr;30(4):10.1002/nbm.3570. doi: 10.1002/nbm.3570. Epub 2016 Jun 22. PMID: 27332141; PMCID: PMC5179325.

     PDFMatlab code
112. 18
     McDaniel P, Bilgic B, Fan AP, Stout JN, Adalsteinsson E. Mitigation of partial volume effects in susceptibility-based oxygenation measurements by joint utilization of magnitude and phase (JUMP). Magn Reson Med. 2017 Apr;77(4):1713-1727. doi: 10.1002/mrm.26227. Epub 2016 Apr 5. PMID: 27059521; PMCID: PMC5052095.
113. 17
     Soman S, Bregni JA, Bilgic B, Nemec U, Fan A, Liu Z, Barry RL, Du J, Main K, Yesavage J, Adamson MM, Moseley M, Wang Y. Susceptibility-Based Neuroimaging: Standard Methods, Clinical Applications, and Future Directions. Curr Radiol Rep. 2017 Mar;5(3):11. doi: 10.1007/s40134-017-0204-1. Epub 2017 Feb 14. PMID: 28695062; PMCID: PMC5501163.
114. 16
     Chatnuntawech I, Martin A, Bilgic B, Setsompop K, Adalsteinsson E, Schiavi E. Vectorial total generalized variation for accelerated multi-channel multi-contrast MRI. Magn Reson Imaging. 2016 Oct;34(8):1161-70. doi: 10.1016/j.mri.2016.05.014. Epub 2016 Jun 2. PMID: 27262829.
115. 15
     Bilgic B, Xie L, Dibb R, Langkammer C, Mutluay A, Ye H, Polimeni JR, Augustinack J, Liu C, Wald LL, Setsompop K. Rapid multi-orientation quantitative susceptibility mapping. Neuroimage. 2016 Jan 15;125:1131-1141. doi: 10.1016/j.neuroimage.2015.08.015. Epub 2015 Aug 12. PMID: 26277773; PMCID: PMC4691433.

     PDFMatlab code
116. 14
     Chatnuntawech I, Gagoski B, Bilgic B, Cauley SF, Setsompop K, Adalsteinsson E. Accelerated ¹ H MRSI using randomly undersampled spiral-based k-space trajectories. Magn Reson Med. 2015 Jul;74(1):13-24. doi: 10.1002/mrm.25394. Epub 2014 Jul 30. PMID: 25079076.
117. 13
     Bilgic B, Gagoski BA, Cauley SF, Fan AP, Polimeni JR, Grant PE, Wald LL, Setsompop K. Wave-CAIPI for highly accelerated 3D imaging. Magn Reson Med. 2015 Jun;73(6):2152-62. doi: 10.1002/mrm.25347. Epub 2014 Jul 1. PMID: 24986223; PMCID: PMC4281518.

     PDFMatlab code
118. 12
     Langkammer C, Bredies K, Poser BA, Barth M, Reishofer G, Fan AP, Bilgic B, Fazekas F, Mainero C, Ropele S. Fast quantitative susceptibility mapping using 3D EPI and total generalized variation. Neuroimage. 2015 May 1;111:622-30. doi: 10.1016/j.neuroimage.2015.02.041. Epub 2015 Feb 27. PMID: 25731991.
119. 11
     Gagoski BA, Bilgic B, Eichner C, Bhat H, Grant PE, Wald LL, Setsompop K. RARE/turbo spin echo imaging with Simultaneous Multislice Wave-CAIPI. Magn Reson Med. 2015 Mar;73(3):929-938. doi: 10.1002/mrm.25615. Epub 2015 Feb 2. PMID: 25640187; PMCID: PMC4334698.

     PDFMatlab code
120. 10
     Cauley SF, Xi Y, Bilgic B, Xia J, Adalsteinsson E, Balakrishnan V, Wald LL, Setsompop K. Fast reconstruction for multichannel compressed sensing using a hierarchically semiseparable solver. Magn Reson Med. 2015 Mar;73(3):1034-40. doi: 10.1002/mrm.25222. Epub 2014 Mar 17. PMID: 24639238; PMCID: PMC4167172.
121. 9
     Bilgic B, Fan AP, Polimeni JR, Cauley SF, Bianciardi M, Adalsteinsson E, Wald LL, Setsompop K. Fast quantitative susceptibility mapping with L1-regularization and automatic parameter selection. Magn Reson Med. 2014 Nov;72(5):1444-59. doi: 10.1002/mrm.25029. Epub 2013 Nov 20. PMID: 24259479; PMCID: PMC4111791.

     PDFMatlab code
122. 8
     Bilgic B, Chatnuntawech I, Fan AP, Setsompop K, Cauley SF, Wald LL, Adalsteinsson E. Fast image reconstruction with L2-regularization. J Magn Reson Imaging. 2014 Jul;40(1):181-91. doi: 10.1002/jmri.24365. Epub 2013 Nov 4. PMID: 24395184; PMCID: PMC4106040.

     PDFMatlab code (QSM)Matlab code (lipid suppression)Matlab code (DSI)
123. 7
     Fan AP, Bilgic B, Gagnon L, Witzel T, Bhat H, Rosen BR, Adalsteinsson E. Quantitative oxygenation venography from MRI phase. Magn Reson Med. 2014 Jul;72(1):149-59. doi: 10.1002/mrm.24918. Epub 2013 Sep 4. PMID: 24006229; PMCID: PMC4234149.
124. 6
     Bilgic B, Chatnuntawech I, Setsompop K, Cauley SF, Yendiki A, Wald LL, Adalsteinsson E. Fast dictionary-based reconstruction for diffusion spectrum imaging. IEEE Trans Med Imaging. 2013 Nov;32(11):2022-33. doi: 10.1109/TMI.2013.2271707. Epub 2013 Jul 4. PMID: 23846466; PMCID: PMC4689148.

     PDFRevised Matlab code
125. 5
     Bilgic B, Gagoski B, Kok T, Adalsteinsson E. Lipid suppression in CSI with spatial priors and highly undersampled peripheral k-space. Magn Reson Med. 2013 Jun;69(6):1501-11. doi: 10.1002/mrm.24399. Epub 2012 Jul 17. PMID: 22807147; PMCID: PMC3477245.

     PDFMatlab code
126. 4
     Bilgic B, Setsompop K, Cohen-Adad J, Yendiki A, Wald LL, Adalsteinsson E. Accelerated diffusion spectrum imaging with compressed sensing using adaptive dictionaries. Magn Reson Med. 2012 Dec;68(6):1747-54. doi: 10.1002/mrm.24505. Epub 2012 Sep 24. PMID: 23008145; PMCID: PMC3504650.

     PDFMatlab code
127. 3
     Bilgic B, Pfefferbaum A, Rohlfing T, Sullivan EV, Adalsteinsson E. MRI estimates of brain iron concentration in normal aging using quantitative susceptibility mapping. Neuroimage. 2012 Feb 1;59(3):2625-35. doi: 10.1016/j.neuroimage.2011.08.077. Epub 2011 Sep 8. PMID: 21925274; PMCID: PMC3254708.

     PDFMatlab code
128. 2
     Bilgic B, Setsompop K, Cohen-Adad J, Wedeen V, Wald LL, Adalsteinsson E. Accelerated diffusion spectrum imaging with compressed sensing using adaptive dictionaries. Med Image Comput Comput Assist Interv. 2012;15(Pt 3):1-9. doi: 10.1007/978-3-642-33454-2_1. PMID: 23286107; PMCID: PMC4679293.
129. 1
     Bilgic B, Goyal VK, Adalsteinsson E. Multi-contrast reconstruction with Bayesian compressed sensing. Magn Reson Med. 2011 Dec;66(6):1601-15. doi: 10.1002/mrm.22956. Epub 2011 Jun 10. PMID: 21671267; PMCID: PMC3175273.

     PDFMatlab codeMIT News article: New algorithm could substantially speed up MRI scans

1. 11
   Z. Zhang, H. Ye, M. Li, H. Liu, B. Bilgic; Liver-BUDA-SAGE: Simultaneous whole liver T2 and T2* mapping in one breath-hold; International Symposium on Biomedical Imaging: Kolkata, India, 2022
2. 10
   C Liao, X Cao, J Cho, Z Zhang, K Setsompop, B. Bilgic; Highly efficient MRI through multi-shot echo planar imaging; Wavelets and Sparsity XVIII, SPIE 2019

   PDF
3. 9
   B. Zhao, B. Bilgic, E. Adalsteinsson, M.A. Griswold, L.L. Wald, K. Setsompop; Simultaneous multislice magnetic resonance fingerprinting with low-rank and subspace modeling; EMBC 2017
4. 8
   S. Cetin, B. Bilgic, A.P. Fan, S.J. Holdsworth, G. Unal; Vessel Orientation Constrained Quantitative Susceptibility Mapping (QSM) Reconstruction; MICCAI 2016
5. 7
   B. Bilgic, I. Chatnuntawech, C. Langkammer, K. Setsompop; Sparse Methods for Quantitative Susceptibility Mapping; Wavelets and Sparsity XIV, SPIE 2015

   PDFMatlab code
6. 6
   I. Chatnuntawech, B. Bilgic, A. Martin, K. Setsompop, E. Adalsteinsson; Fast Reconstruction for Accelerated Multi-Slice Multi-Contrast MRI; International Symposium on Biomedical Imaging: From Nano to Macro, 2015
7. 5
   B. Zhao, F. Lam, B. Bilgic, H. Ye, K. Setsompop; Maximum Likelihood Reconstruction for Magnetic Resonance Fingerprinting; International Symposium on Biomedical Imaging: From Nano to Macro, 2015
8. 4
   F. Yanez, A.P. Fan, B. Bilgic, C. Milovic, E. Adalsteinsson, P. Irarrazaval; Quantitative Susceptibility Map Reconstruction via Total Generalized Variation Regularization; 3rd International Workshop on Pattern Recognition in NeuroImaging
9. 3
   B. Bilgic, K. Setsompop, J. Cohen-Adad, V. Wedeen, L. Wald, E. Adalsteinsson; Accelerated Diffusion Spectrum Imaging with Compressed Sensing using Adaptive Dictionaries; MICCAI 2012,
   MICCAI Young Scientist Award Finalist

   PDFMatlab code
10. 2
    B. Bilgic, B.K.P. Horn, I. Masaki; Fast Human Detection with Cascaded Ensembles on the GPU; IEEE Intelligent Vehicles Symposium, 2010, Pages: 325 - 332

    PDF
11. 1
    B. Bilgic, B.K.P. Horn, I. Masaki; Efficient Integral Image Computation on the GPU ; IEEE Intelligent Vehicles Symposium, 2010, Pages: 528 - 533

    PDF

1. 3
   W-C Lo, B. Clifford, S. Bollmann, T. Feiweier, S. Giri, C. Liao, J. Cho, S. Cauley, K. Setsompop, B. Bilgic; 2-minute Comprehensive Brain Exam Using Multi-Shot EPI with Synergistic Model-Based & Deep Learning Reconstruction; ISMRM Workshop on MData Sampling & Image Reconstruction, Sedona, AZ, USA, 2020
2. 2
   W. Lee, S. So, J. Cho, C. Liao, Q. Tian, H. Park, E. Adalsteinsson, K. Setsompop, B. Bilgic; Rapid Distortion Free Diffusion Imaging Using Joint k/q-Space Reconstruction & Tailored Acquisition; ISMRM Workshop on MData Sampling & Image Reconstruction, Sedona, AZ, USA, 2020
3. 1
   Q. Tian, B. Bilgic, Q. Fan, C. Liao, C. Ngamsombat, Y. Hu, T. Witzel, K. Setsompop, J. Polimeni, S. Huang; High-fidelity diffusion tensor MRI with six diffusion-weighted images using optimized q-space sampling and deep learning; ISMRM Workshop on MData Sampling & Image Reconstruction, Sedona, AZ, USA, 2020

1. 18
   J. Cho, H. Park, K. Setsompop, B. Bilgic; Multi-shot Echo-planar Imaging with Simultaneous MultiSlice Wave-Encoding; International Society for Magnetic Resonance in Medicine 27th Scientific Meeting, Montreal, 2019
2. 17
   D. Polak, I. Chatnuntawech, J. Yoon, S.S. Iyer, K. Setsompop, B. Bilgic; VaNDI: Variational Nonlinear Dipole Inversion enables QSM without free parameters; International Society for Magnetic Resonance in Medicine 27th Scientific Meeting, Montreal, 2019

   Matlab code
3. 16
   B. Bilgic; C. Liao, M.K. Manhard, Q. Tian, I. Chatnuntawech, S.S. Iyer, S.F. Cauley, T. Feiweier, S. Giri, Y. Hu, S. Huang, J. Polimeni, L.L. Wald, K. Setsompop; Robust high-quality multi-shot EPI with low-rank prior and machine learning; International Society for Magnetic Resonance in Medicine 27th Scientific Meeting, Montreal, 2019

   HTMLMatlab code
4. 15
   X. Cao, C. Liao, S.S. Iyer, H. He, K. Setsompop, J. Zhong, B. Bilgic; T2-gSlider: rapid high resolution T2 mapping with generalized SLIce Dithered Enhanced Resolution and model-based reconstruction; International Society for Magnetic Resonance in Medicine 27th Scientific Meeting, Montreal, 2019

   Matlab code
5. 14
   M.K. Manhard, C. Liao, J. Stockmann, D. Park, S. Han, J. Polimeni, B. Bilgic, JK. Setsompop; Combined T1, T2, and T2* mapping using a multi-inversion multi-echo spin and gradient echo EPI sequence; International Society for Magnetic Resonance in Medicine 27th Scientific Meeting, Montreal, 2019
6. 13
   R. Jones, G. Grisot, J. Augustinack, D. Boas, B. Fischl, H. Wang, B. Bilgic, A. Yendiki; Validation of DSI compressed sensing reconstruction in ex vivo human brain; International Society for Magnetic Resonance in Medicine 27th Scientific Meeting, Montreal, 2019
7. 12
   J. Marques, B. Bilgic, J. Maineke, C. Milovic, K-S Chan, W. van der Zwaag, R. Hedouin, C. Langkammer, F. Schweser; Towards QSM Challenge 2.0: Creation and Evaluation of a Realistic Magnetic Susceptibility Phantom; International Society for Magnetic Resonance in Medicine 27th Scientific Meeting, Montreal, 2019
8. 11
   Q. Tian, B. Bilgic, Q. Fan, C. Ngamsombat, A. Chaudhari, N. Ohringer, Y. Hu, T. Witzel, K. Setsompop, J. Polimeni, S. Huang; SuperSurfer: Cortical surface reconstruction using super-resolution anatomical MR images synthesized by deep learning; International Society for Magnetic Resonance in Medicine 27th Scientific Meeting, Montreal, 2019
9. 10
   Q. Tian, B. Bilgic, Q. Fan, C. Ngamsombat, C. Liao, Y. Hu, T. Witzel, K. Setsompop, J. Polimeni, S. Huang; Six-direction diffusion tensor MRI using a convolutional neural network; International Society for Magnetic Resonance in Medicine 26th Scientific Meeting, Montreal, 2019
10. 9
    S.S. Iyer, D. Polak, C. Liao, S.F. Cauley, B. Bilgic, K. Setsompop; Rapid, Time-Resolved Brain Imaging with Multiple Clinical Contrasts using Wave-Shuffling; International Society for Magnetic Resonance in Medicine 26th Scientific Meeting, Montreal, 2019
11. 8
    M. Fair, F. Wang, Z. Dong, B. Bilgic, T. Reese, K. Setsompop, L.L. Wald; Propeller Echo-Planar Time-resolved Imaging with Dynamic Encoding (PEPTIDE); International Society for Magnetic Resonance in Medicine 26th Scientific Meeting, Montreal, 2019
12. 7
    M. Haskell, S.F. Cauley, B. Bilgic, J. Hossbach, J. Pfeuffer, K. Setsompop, L.L. Wald; Network Accelerated Motion Estimation and Reduction (NAMER): Accelerating forward model based retrospective motion correction using a convolutional neural network; International Society for Magnetic Resonance in Medicine 26th Scientific Meeting, Montreal, 2019
13. 6
    D. Polak, S.F. Cauley, B. Bilgic, E. Raithel, P. Bachert, E. Adalsteinsson, K. Setsompop; Joint multi-contrast Variational Network reconstruction (jVN) with application to Wave-CAIPI acquisition for rapid imaging; International Society for Magnetic Resonance in Medicine 26th Scientific Meeting, Montreal, 2019
14. 5
    C. Liao, J. Stockmann, Q. Tian, B. Bilgic, M.K. Manhard, L.L. Wald, K. Setsompop; High-fidelity, high-isotropic resolution diffusion imaging through gSlider acquisition with B1+ & T1 corrections and multi-coil B0 shim array; International Society for Magnetic Resonance in Medicine 26th Scientific Meeting, Montreal, 2019
15. 4
    S.F. Cauley, D. Polak, W. Liu, B. Bilgic, B. Gagoski, P.E. Grant, J. Conklin, J. Kirsch, S. Huang, K. Setsompop, L.L. Wald; Geometric Coil Mixing (GCM) to Dampen Confounding Signals in MRI Reconstruction; International Society for Magnetic Resonance in Medicine 26th Scientific Meeting, Montreal, 2019
16. 3
    Q. Tian, C. Ngamsombat, B. Bilgic, Q. Fan, Y. Hu, J. McNab, T. Witzel, K. Setsompop, J. Polimeni, S. Huang; Creating a diffusion tractography-based atlas of human thalamic ventral intermediate nucleus aided by deep learning; International Society for Magnetic Resonance in Medicine 26th Scientific Meeting, Montreal, 2019
17. 2
    F. Wang, Z. Dong, T. Reese, B. Bilgic, M.K. Manhard, J. Chen, J. Polimeni, L.L. Wald, K. Setsompop; Echo Planar Time-Resolved Imaging (EPTI); International Society for Magnetic Resonance in Medicine 26th Scientific Meeting, Montreal, 2019
18. 1
    Z. Dong, F. Wang, T. Reese, B. Bilgic, K. Setsompop; Echo Planar Time-Resolved Imaging (EPTI) with subspace constraint and optimized k-t trajectory; International Society for Magnetic Resonance in Medicine 26th Scientific Meeting, Montreal, 2019

1. 29
   B. Bilgic, I. Chatnuntawech, S.F. Cauley, M.K. Manhard, L.L. Wald, K. Setsompop; Accelerated Multi-shot EPI through Machine Learning and Joint Reconstruction; ISMRM Workshop on Machine Learning, Pacific Grove, CA, USA, 2018, oral presentation

   PDFData & Python code for Keras
2. 28
   J. Yoon, E. Gong, G. Zaharchuk, J. Pauly, B. Bilgic, J. Lee, J. Ko, H. Jung, J. Lee; QSM with deep neural network; ISMRM Workshop on Machine Learning, Pacific Grove, CA, USA, 2018
3. 27
   D. Polak, E. Gong, S.F. Cauley, B. Bilgic, E. Raithel, G. Zaharchuk, J. Pauly, Kawin Setsompop; Faster 3D brain scans using Wave-CAIPI encoding and Deep Learning denoising; ISMRM Workshop on Machine Learning, Pacific Grove, CA, USA, 2018
4. 26
   B. Zhu, B. Bilgic, C. Liao, B.R. Rosen, M.S. Rosen; Deep learning MR reconstruction with Automated Transform by Manifold Approximation (AUTOMAP) in real-world acquisitions with imperfect training: simulation and in-vivo experiments; ISMRM Workshop on Machine Learning, Pacific Grove, CA, USA, 2018
5. 25
   B. Bilgic, S.F. Cauley, L.L. Wald, K. Setsompop; Joint SENSE Reconstruction for Faster Multi-Contrast Wave Encoding; International Society for Magnetic Resonance in Medicine 26th Scientific Meeting, Paris, 2018

   Matlab codePDF
6. 24
   F.F. Yu, S.Y. Huang, T. Duval, J. Cohen-Adad, B. Bilgic; Rapid simultaneous acquisition of QSM and MTV; International Society for Magnetic Resonance in Medicine 26th Scientific Meeting, Paris, 2018
7. 23
   B. Bilgic, S.F. Cauley, I. Chatnuntawech, M.K. Manhard, F. Wang, M. Haskell, C. Liao, L.L. Wald, K. Setsompop; Combining MR-Physics and Machine Learning to Address Intractable Reconstruction Problems; International Society for Magnetic Resonance in Medicine 26th Scientific Meeting, Paris, 2018

   PDFData & Python code for Keras
8. 22
   T.H. Kim, B. Bilgic, C. Liao, M.K. Manhard, L.L. Wald, J.P. Haldar, K. Setsompop; Improving Parallel Imaging by Jointly Reconstructing Multi-Contrast Data; International Society for Magnetic Resonance in Medicine 26th Scientific Meeting, Paris, 2018
9. 21
   C. Milovic, B. Bilgic, B. Zhao, C. Langkammer, J. Acosta-Cabronero, C. Tejos; Nonlinear projection onto dipole fields with preconditioning (nPDF); International Society for Magnetic Resonance in Medicine 26th Scientific Meeting, Paris, 2018
10. 20
    S. Han, C. Liao, M.K. Manhard, B. Bilgic, F. Wang, A.I. Blazejewska, M. van den Boomen, W.A. Grissom, J.R. Polimeni, K. Setsompop; Accelerated spin-echo fMRI using generalized SLIce Dithered Enhanced Resolution Simultaneous MultiSlice (gSlider-SMS) with 'complex-basis' RF-encoding; International Society for Magnetic Resonance in Medicine 26th Scientific Meeting, Paris, 2018
11. 19
    M.K. Manhard, B. Bilgic, C. Liao, S. Han, T. Witzel, Y.F. Yen, K. Setsompop; Accelerated dynamic quantitative perfusion imaging using an optimized simultaneous multi-slice (SMS) spin and gradient echo (SAGE) sequence with joint-virtual coil (JVC) reconstruction; International Society for Magnetic Resonance in Medicine 26th Scientific Meeting, Paris, 2018
12. 18
    A.S. Kanaan, A. Anwander, R. Metere, A. Schafer, T. Schlumm, J. Near, B. Bilgic, K. Muller-Wahl H. Moller; Iron-related gene expression associated with magnetic susceptibility reductions: Application to the pathophysiology of a movement disorder population; International Society for Magnetic Resonance in Medicine 26th Scientific Meeting, Paris, 2018
13. 17
    F. Wang, Z. Dong, T.G. Reese, B. Bilgic, M.K. Manhard, L.L. Wald, K. Setsompop; Echo Planar Time-resolved Imaging (EPTI); International Society for Magnetic Resonance in Medicine 26th Scientific Meeting, Paris, 2018
14. 16
    F. Wang, B. Bilgic, Z. Dong, M.K. Manhard, N. Ohringer, B. Zhao, M. Haskell, S.F. Cauley, Q. Fan, T. Witzel, E. Adalsteinsson, L.L. Wald, K. Setsompop; Motion-robust sub-millimeter isotropic diffusion imaging through Motion Corrected Generalized Slice Dithered Enhanced Resolution (MC-gSlider) acquisition; International Society for Magnetic Resonance in Medicine 26th Scientific Meeting, Paris, 2018
15. 15
    Y.V. Chang, S.F. Cauley, W. Liu, D. Polak, B.A. Gagoski, B. Bilgic, K. Setsompop, J.R. Polimeni; Quantitative assessment of automatic cortical surface reconstructions from Wave-CAIPI MPRAGE: A validation study; International Society for Magnetic Resonance in Medicine 26th Scientific Meeting, Paris, 2018
16. 14
    E. Gong, B. Bilgic, K. Setsompop, A.P. Fan, G. Zaharchuk, J. Pauly; Accurate and Efficient QSM Reconstruction using Deep Learning; International Society for Magnetic Resonance in Medicine 26th Scientific Meeting, Paris, 2018
17. 13
    C. Liao, M.K. Manhard, B. Bilgic, Q. Fan, H. Wang, S. Han, D.J. Park, F. Wang, J. Zhong, L.L. Wald, K. Setsompop; Joint Virtual Coil Reconstruction with Background Phase Matching for Highly Accelerated Diffusion Echo-Planar Imaging; International Society for Magnetic Resonance in Medicine 26th Scientific Meeting, Paris, 2018
18. 12
    B. Zhu, B. Bilgic, C. Liao, B.R. Rosen, M.S. Rosen; Deep learning MR reconstruction with Automated Transform by Manifold Approximation (AUTOMAP) in real-world acquisitions with imperfect training; International Society for Magnetic Resonance in Medicine 26th Scientific Meeting, Paris, 2018
19. 11
    J. Yoon, J. Ko, J. Lee, H. Jung, B. Bilgic, K. Setsompop, J. Lee; Quantitative Susceptibility Mapping using Deep Neural Network; International Society for Magnetic Resonance in Medicine 26th Scientific Meeting, Paris, 2018
20. 10
    S. Lala, B.A. Gagoski, J.N. Stout, B. Zhao, B. Bilgic, P.E. Grant, P. Golland, E. Adalsteinsson; A Machine Learning Approach for Mitigating Artifacts in Fetal Imaging due to an Undersampled HASTE Sequence; International Society for Magnetic Resonance in Medicine 26th Scientific Meeting, Paris, 2018
21. 9
    C. Milovic, B. Bilgic, B. Zhao, C. Langkammer, C. Tejos, J. Acosta-Cabronero; Weak-harmonic regularization for quantitative susceptibility mapping (WH-QSM); International Society for Magnetic Resonance in Medicine 26th Scientific Meeting, Paris, 2018
22. 8
    D. Polak, S.F. Cauley, S.Y. Huang, M.G. Longo, B. Bilgic, E. Rathiel, L.L. Wald, K. Setsompop; Highly-accelerated volumetric brain protocol using optimized Wave-CAIPI encoding; International Society for Magnetic Resonance in Medicine 26th Scientific Meeting, Paris, 2018
23. 7
    H. Wei, B. Bilgic, K. Setsompop, B. Keil, D. Feinberg, C. Liu; Imaging Human Brain Cortical Substructure with Quantitative Susceptibility Mapping at 7 T; International Society for Magnetic Resonance in Medicine 26th Scientific Meeting, Paris, 2018
24. 6
    Z. Dong, F. Wang, T.G. Reese, M.K. Manhard, B. Bilgic, L.L. Wald, H. Guo, K. Setsompop; Fast Distortion-Free Diffusion Imaging using “tilted-CAIPI” PSF-EPI; International Society for Magnetic Resonance in Medicine 26th Scientific Meeting, Paris, 2018
25. 5
    Z. Dong, F. Wang, T.G. Reese, M.K. Manhard, B. Bilgic, L.L. Wald, H. Guo, K. Setsompop; Tilted-CAIPI for Highly Accelerated Distortion-Free EPI with Point Spread Function (PSF) Encoding; International Society for Magnetic Resonance in Medicine 26th Scientific Meeting, Paris, 2018
26. 4
    Z. Wu, B. Bilgic, H. He, Y. Sun, Y. Du, K. Setsompop, J. Zhong; Zero-padding reconstruction for wave-CAIPI images with improved accuracy, and its application in ViSTa myelin water images; International Society for Magnetic Resonance in Medicine 26th Scientific Meeting, Paris, 2018
27. 3
    S.S. Iyer, B. Bilgic, K. Setsompop; Faster T2 Shuffling with Wave-encoding; International Society for Magnetic Resonance in Medicine 26th Scientific Meeting, Paris, 2018
28. 2
    A. Tamanti, K. Bredies, M. Castellaro, S. Ropele, B. Bilgic, C. Langkammer; Structure tensor enhanced quantitative susceptibility mapping (ST-QSM); International Society for Magnetic Resonance in Medicine 26th Scientific Meeting, Paris, 2018
29. 1
    C. Liao, B. Bilgic, M.K. Manhard, X. Cao, J. Zhong, L.L. Wald, K. Setsompop; Optimized 3D Stack-of-Spirals MR Fingerprinting with Hybrid Sliding-Window and GRAPPA Reconstruction; International Society for Magnetic Resonance in Medicine 26th Scientific Meeting, Paris, 2018

1. 16
   B. Bilgic, B. Zhao, I. Chatnuntawech, L.L. Wald, K. Setsompop; Calibrationless Parallel Imaging in Multi Echo/Contrast Data; International Society for Magnetic Resonance in Medicine 25th Scientific Meeting, Hawaii, Power Pitch presentation

   HTMLMatlab code
2. 15
   B. Bilgic, T. Witzel, H. Bhat, L.L. Wald, K. Setsompop; Joint Reconstruction of Phase-Cycled Balanced SSFP with Constrained Parallel Imaging; International Society for Magnetic Resonance in Medicine 25th Scientific Meeting, Hawaii, Power Pitch presentation

   HTMLMatlab code
3. 14
   D. Polak, K. Setsompop, S.F. Cauley, B.A. Gagoski, H. Bhat, F. Maier, L.L. Wald, B. Bilgic; Wave-CAIPI for Highly Accelerated MP-RAGE Imaging; International Society for Magnetic Resonance in Medicine 25th Scientific Meeting, Hawaii, Power Pitch presentation
   Magna Cum Laude Award
4. 13
   B. Zhao, B. Bilgic, J. Stockmann, L.L. Wald, K. Setsompop; A Maximum Likelihood Approach to Simultaneous Multislice Magnetic Resonance Fingerprinting; International Society for Magnetic Resonance in Medicine 25th Scientific Meeting, Hawaii
5. 12
   B.A. Poser, B. Bilgic, B.A. Gagoski, K. Uludag, V.A Stenger, L.L. Wald, K. Setsompop; Echo-planar imaging with wave-CAIPI acquisition and reconstruction; International Society for Magnetic Resonance in Medicine 25th Scientific Meeting, Hawaii
6. 11
   T.H. Kim, B. Bilgic, D. Polak, K. Setsompop, J.P. Haldar; Wave-LORAKS for faster Wave-CAIPI MRI; International Society for Magnetic Resonance in Medicine 25th Scientific Meeting, Hawaii
7. 10
   Z. Wu, B. Bilgic, H. He, Y. Sun, K. Setsompop, J. Zhong; Wave-CAIPI ViSTa: Accelerated mapping for direct visualization of myelin water; International Society for Magnetic Resonance in Medicine 25th Scientific Meeting, Hawaii
8. 9
   G-C Ngo, B. Bilgic, B. Gagoski, B.P. Sutton; Incorporating macroscale susceptibility in QSM reconstruction with 3D spiral acquisition; International Society for Magnetic Resonance in Medicine 25th Scientific Meeting, Hawaii
9. 8
   C. Milovic, B. Bilgic, B. Zhao, J. Acosta-Cabronero, C. Tejos; A Fast Algorithm for Nonlinear QSM Reconstruction; International Society for Magnetic Resonance in Medicine 25th Scientific Meeting, Hawaii
10. 7
    C.S. Aigner, A. Rund, B. Bilgic, B.A. Gagoski, K. Setsompop, K. Kunisch, R. Stollberger; Application of time-optimal simultaneous multi-slice refocusing to TSE/RARE; International Society for Magnetic Resonance in Medicine 25th Scientific Meeting, Hawaii
11. 6
    H. Wang, J.R. Polimeni, B. Bilgic, L.L. Wald, K. Setsompop; Analytical G-factor Calculation for Slice-GRAPPA with Odd-even Kernels (SG-OK); International Society for Magnetic Resonance in Medicine 25th Scientific Meeting, Hawaii
12. 5
    H. Ye, C. Liao, Q. Li, Xiaozhi Cao, B. Zhao, B. Bilgic, K. Setsompop, H. He, H. Liu, J. Zhong; Spiral-out and -in Double Echoes (SOIDE) Magnetic Resonance Fingerprinting with Improved T2 Mapping; International Society for Magnetic Resonance in Medicine 25th Scientific Meeting, Hawaii
13. 4
    A.S. Kanaan, A. Anwander, A. Schäfer, B. Bilgic, T. Schlumm, J. Near, K. Müller-Vahl2, H.E. Möller; QSM meets MRS: The influence of subcortical iron on glutamatergic neurotransmission in a movement disorder population; International Society for Magnetic Resonance in Medicine 25th Scientific Meeting, Hawaii
14. 3
    B. Keil, C. Sappo, B. Bilgic, J.R. Polimeni, L. Golestani, R. Etzel, L.L Wald, D.A. Feinberg, K. Setsompop; Sub-Millimeter Cortical Imaging at 7T using a High-Density Motor-Cortex 32-Channel Array Coil; International Society for Magnetic Resonance in Medicine 25th Scientific Meeting, Hawaii
15. 2
    R. Metere, A.S. Kanaan, B. Bilgic, T. Schlumm, H.E. Möller; Effects of coil combination algorithms on Quantitative Susceptibility Mapping; International Society for Magnetic Resonance in Medicine 25th Scientific Meeting, Hawaii
16. 1
    S.D. Robinson, K. Eckstein, J.P. Marques, B. Bilgic, S. Trattnig, F. Schweser; A comprehensive assessment of methods for combining phase data from array radio-frequency coils at 7T; International Society for Magnetic Resonance in Medicine 25th Scientific Meeting, Hawaii

1. 12
   B. Bilgic, T. Witzel, H. Bhat, L.L. Wald, K. Setsompop; Joint Reconstruction for Phase-Cycled Balanced SSFP;
   ESMRMB 33rd Scientific Meeting,
   NYU Innovation to Implementation in Imaging Workshop

   PDFMatlab code
2. 11
   B. Bilgic, J.P. Marques, L.L. Wald, K. Setsompop; Block Coil Compression for Virtual Body Coil without Phase Singularities; Fourth International Workshop on MRI Phase Contrast & Quantitative Susceptibility Mapping

   PDFMatlab code
3. 10
   B. Bilgic, S.F. Cauley, H. Ye, C. Langkammer, B.A. Poser, K. Setsompop; Accelerated QSM; Fourth International Workshop on MRI Phase Contrast & Quantitative Susceptibility Mapping, invited abstract

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4. 9
   C. Milovic, B. Bilgic, B. Zhao, J. Acosta-Cabronero, C. Tejos; A Fast Algorithm for Nonlinear QSM Reconstruction with Variational Penalties; Fourth International Workshop on MRI Phase Contrast & Quantitative Susceptibility Mapping
5. 8
   R. Metere, A.S. Kanaan, A. Schäfer, B. Bilgic, T. Schlumm, H.E. Möller; Effects of different coil reconstruction algorithms on QSM results; Fourth International Workshop on MRI Phase Contrast & Quantitative Susceptibility Mapping
6. 7
   J. Kim, S. Bollmann, C. Langkammer, B. Bilgic; GPU-accelerated Quantitative Susceptibility Map Reconstruction with Total Generalized Variation Regularization; Fourth International Workshop on MRI Phase Contrast & Quantitative Susceptibility Mapping
7. 6
   B. Bilgic, H. Ye, L.L. Wald, K. Setsompop; Optimized CS-Wave imaging with tailored sampling and efficient reconstruction; International Society for Magnetic Resonance in Medicine 24th Scientific Meeting, oral presentation
   Summa Cum Laude Award

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8. 5
   I. Chatnuntawech, P. McDaniel, S.F. Cauley, B.A. Gagoski, C. Langkammer, A. Martin, P.E. Grant, L.L. Wald, K. Setsompop, E. Adalsteinsson, B. Bilgic; TGV-Regularized Single-Step Quantitative Susceptibility Mapping; International Society for Magnetic Resonance in Medicine 24th Scientific Meeting, oral presentation

   HTMLMatlab code
9. 4
   B. Bilgic, J.R. Polimeni, L.L. Wald, K. Setsompop; Automated tissue phase and QSM estimation from multichannel data; International Society for Magnetic Resonance in Medicine 24th Scientific Meeting, e-poster presentation

   HTMLMatlab code
10. 3
    P. McDaniel, B. Bilgic, A.P. Fan, J. Stout, E. Adalsteinsson; Simultaneous Quantification of Blood Vessel Caliber and Oxygenation via Multi-Voxel Joint Utilization of Magnitude and Phase (MV-JUMP); International Society for Magnetic Resonance in Medicine 24th Scientific Meeting, e-poster presentation
11. 2
    S.F. Cauley, K. Setsompop, B. Bilgic, H. Bhat, B. Gagoski, T. Witzel, L.L. Wald; Joint K-space Trajectory and Parallel Imaging Optimization for Auto-calibrated Image Reconstruction; International Society for Magnetic Resonance in Medicine 24th Scientific Meeting, power pitch presentation
12. 1
    H. Ye, B. Bilgic, S.F. Cauley, B. Gagoski, J. Zhong, Y. Du, L.L. Wald, K. Setsompop; Echo-Shift wave-CAIPI with Simultaneous MultiSlice for rapid susceptibility weighted FLASH imaging; International Society for Magnetic Resonance in Medicine 24th Scientific Meeting, e-poster presentation

1. 12
   H. Ye, B. Gagoski, B. Bilgic, S.F. Cauley, D. Ma, Y. Du, L.L. Wald, K. Setsompop; Simultaneous Multi-Slice MR Fingerprinting with slice-GRAPPA reconstruction; ISMRM Workshop on Simultaneous Multi-Slice Imaging, 2015
2. 11
   B. Gagoski†, B. Bilgic†, C. Eichner, H. Bhat, P.E. Grant, L.L. Wald, K. Setsompop; RARE/Turbo Spin Echo Imaging with Simultaneous MultiSlice Wave-CAIPI; International Society for Magnetic Resonance in Medicine 23rd Scientific Meeting, oral presentation
   † These authors contributed equally to this work
   Summa Cum Laude Award

   PDFMatlab code
3. 10
   B. Bilgic, L. Xie, R. Dibb, C. Langkammer, A. Mutluay, H. Ye, J.R. Polimeni, C. Liu, L.L. Wald, K. Setsompop; Rapid Multi-Orientation Susceptibility Mapping with Wave-CAIPI; International Society for Magnetic Resonance in Medicine 23rd Scientific Meeting, oral presentation
   Summa Cum Laude Award
   White Matter Study Group student research competition finalist

   PDFMatlab code
4. 9
   K. Setsompop, B. Bilgic, A. Nummenmaa, Q. Fan, S.F. Cauley, S. Haung, I. Chatnuntawech, Y. Rathi, T. Witzel, L.L. Wald; 700 μm isotropic diffusion imaging at 3T using SLIDER-SMS with ZOOPPA; International Society for Magnetic Resonance in Medicine 23rd Scientific Meeting
5. 8
   K. Jafari-Khouzani, B. Bilgic, J. Kalpathy-Cramer, K. Setsompop; Fast non-local means reconstruction for multi-contrast compressed sensing; International Society for Magnetic Resonance in Medicine 23rd Scientific Meeting
6. 7
   P. McDaniel, A.P. Fan, B. Bilgic, J. Stout, E. Adalsteinsson; Improved Accuracy in Susceptibility-based OEF Measurements by Mitigation of Partial-Volume Effects via Combined Magnitude and Phase Reconstruction; International Society for Magnetic Resonance in Medicine 23rd Scientific Meeting
7. 6
   S. Cetin, A.P. Fan, B. Bilgic, K. Setsompop, G. Unal; Semi-automated visualization and segmentation of cerebral veins from QSM; International Society for Magnetic Resonance in Medicine 23rd Scientific Meeting
8. 5
   I. Chatnuntawech, B. Bilgic, A. Martin, K. Setsompop, E. Adalsteinsson; A Fast Reconstruction Algorithm for Accelerated Multi-Contrast MRI; International Society for Magnetic Resonance in Medicine 23rd Scientific Meeting
9. 4
   A. Martin, I. Chatnuntawech, B. Bilgic, K. Setsompop, E. Adalsteinsson, E. Schiavi; Total Generalized Variation for Joint Multi-Contrast Parallel Imaging Reconstruction of Undersampled k-space Data; International Society for Magnetic Resonance in Medicine 23rd Scientific Meeting
10. 3
    C. Langkammer, B. Bilgic, C. Louapre, S. Govindarajan, C. Gianni, K. Setsompop, C. Mainero; Wave-CAIPI and TGV-QSM for fast sub-millimeter QSM at 7 Tesla; International Society for Magnetic Resonance in Medicine 23rd Scientific Meeting
11. 2
    H. Ye, B. Gagoski, B. Bilgic, S.F. Cauley, D. Ma, Y. Du, M.A. Griswold, L.L. Wald, K. Setsompop; Simultaneous Multi-Slice Magnetic Resonance Fingerprinting Reconstruction using GROG+GRAPPA (GG); International Society for Magnetic Resonance in Medicine 23rd Scientific Meeting
12. 1
    Y. Jiang, H. Ye, B. Bilgic, D. Ma, T. Witzel, S.F. Cauley, E. Adalsteinsson, K. Setsompop, M.A. Griswold, L.L. Wald; Simultaneous T1 and T2 quantitation of the Human Brain at 7 Tesla by MR Fingerprinting; International Society for Magnetic Resonance in Medicine 23rd Scientific Meeting

1. 11
   B. Bilgic, C. Langkammer, A. Mutluay, L.L. Wald, K. Setsompop; Rapid Acquisition for Multi-Orientation QSM; Third International Workshop on MRI Phase Contrast & Quantitative Susceptibility Mapping, talk & poster presentation
   Honorable mention for best poster award

   PDF
2. 10
   B. Bilgic, C. Langkammer, L.L. Wald, K. Setsompop; Single-Step QSM with Fast Reconstruction; Third International Workshop on MRI Phase Contrast & Quantitative Susceptibility Mapping, talk & poster presentation

   PDFMatlab code
3. 9
   B. Bilgic, B. Gagoski, S.F. Cauley, A.P. Fan, J.R. Polimeni, P.E. Grant, L.L. Wald, K. Setsompop; Wave-CAIPI Enables Highly Accelerated 3D MRI; 40th Annual Northeast Bioengineering Conference, poster presentation

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4. 8
   B. Bilgic, A.P. Fan K. Setsompop, C. Eichner, S.F. Cauley, J.R. Polimeni, M. Bianciardi, E. Adalsteinsson, L.L. Wald, K. Setsompop; Fast Reconstruction for Regularized Quantitative Susceptibility Mapping; International Society for Magnetic Resonance in Medicine 22nd Scientific Meeting, oral presentation
   Summa Cum Laude Award

   PDFMatlab code
5. 7
   B. Bilgic, B. Gagoski, S.F. Cauley, A.P. Fan, J.R. Polimeni, P.E. Grant, L.L. Wald, K. Setsompop; Rapid QSM Acquisition with Wave-CAIPI; International Society for Magnetic Resonance in Medicine 22nd Scientific Meeting, power poster presentation
   Summa Cum Laude Award

   PDFMatlab code
6. 6
   I. Chatnuntawech, B. Gagoski, B. Bilgic, S.F. Cauley, P.E. Grant, K. Setsompop, E. Adalsteinsson; Accelerated MRSI Using Randomly Undersampled Spiral-Based K-Space Trajectories; International Society for Magnetic Resonance in Medicine 22nd Scientific Meeting
7. 5
   C. Eichner, B. Bilgic, M. Bianciardi, J.R. Polimeni, R. Turner, J. Schulz, D. Norris, L.L. Wald, K. Setsompop; Acquisition and Processing Pipeline for Multi-Contrast fMRI Multi-Echo SMS (MESMS) GE-EPI at 7T; International Society for Magnetic Resonance in Medicine 22nd Scientific Meeting
8. 4
   M. Bianciardi, J.R. Polimeni, K. Setsompop, C. Eichner, B. Bilgic, L.L. Wald; Evaluation of Dynamic Off-Resonance Correction of Respiratory Instability in MRI Signals for High-Order Spherical Harmonic Basis Set and Multivariate Modeling of Respiratory Sources; International Society for Magnetic Resonance in Medicine 22nd Scientific Meeting
9. 3
   S.F. Cauley, B. Bilgic, J.R. Polimeni, H. Bhat, L.L. Wald, K. Setsompop; A General Hierarchical Mapping Framework (HMF) for Coil Compression; International Society for Magnetic Resonance in Medicine 22nd Scientific Meeting
10. 2
    S.F. Cauley, M. Lustig, B. Bilgic, H. Bhat, L.L. Wald, K. Setsompop; Geometric-Decomposition Coil Compression for Real-Time Simultaneous MultiSlice EPI Reconstruction at High MultiBand Factors; International Society for Magnetic Resonance in Medicine 22nd Scientific Meeting
11. 1
    P. Montesinos, J.R. Polimeni, B. Bilgic, S.F. Cauley, M. Desco, R. Nezafat, L.L. Wald, E. Adalsteinsson, D.E. Sosnovik; High Resolution Inner Volume Imaging of Human Coronary Atherosclerotic Plaque: Impact and Limits of Parallel Acquisition; International Society for Magnetic Resonance in Medicine 22nd Scientific Meeting

1. 9
   B. Bilgic, I. Chatnuntawech, K. Setsompop, S.F. Cauley, L.L. Wald, E. Adalsteinsson; Fast Regularized Reconstruction Tools for QSM and DSI; ISMRM Workshop on Data Sampling & Image Reconstruction 2013, oral presentation

   PDFQSM Matlab codeDSI Matlab code
2. 8
   B. Bilgic, I. Chatnuntawech, K. Setsompop, S.F. Cauley, L.L. Wald, E. Adalsteinsson; Fast DSI Reconstruction with Trained Dictionaries; International Society for Magnetic Resonance in Medicine 21st Scientific Meeting, oral presentation c
   Magna Cum Laude Award

   PDF
3. 7
   B. Bilgic, I. Chatnuntawech, A.P. Fan, E. Adalsteinsson; Regularized QSM in Seconds; International Society for Magnetic Resonance in Medicine 21st Scientific Meeting, oral presentation
   Summa Cum Laude Award

   PDFMatlab code
4. 6
   S.F. Cauley, Y. Xi, B. Bilgic, K. Setsompop, J. Xia, E. Adalsteinsson, V.R. Balakrishnan, L.L. Wald; Scalable and Accurate Variance Estimation (SAVE) for Joint Bayesian Compressed Sensing; International Society for Magnetic Resonance in Medicine 21st Scientific Meeting
5. 5
   S.F. Cauley, O.A. Abuhashem, I. Chatnuntawech, B. Bilgic, K. Setsompop, L.L. Wald, E. Adalsteinsson; Low-Rank Basis Smoothing for the Denoising of Diffusion Weighted Images; International Society for Magnetic Resonance in Medicine 21st Scientific Meeting
6. 4
   I. Chatnuntawech, B. Bilgic, E. Adalsteinsson; Undersampled Spectroscopic Imaging with Model-based Reconstruction; International Society for Magnetic Resonance in Medicine 21st Scientific Meeting
7. 3
   I. Chatnuntawech, B. Bilgic, B. Gagoski, T. Kok, A.P. Fan, E. Adalsteinsson; Metabolite Map Estimation from Undersampled Spectroscopic Imaging Data using N-Compartment Model; International Society for Magnetic Resonance in Medicine 21st Scientific Meeting
8. 2
   S.Y. Huang, E. Adalsteinsson, B. Bilgic, S. Foong, L.L. Wald; Localized Electrical Property Retrieval - Theories and Numerical Examples; International Society for Magnetic Resonance in Medicine 21st Scientific Meeting
9. 1
   A.P. Fan, B. Bilgic, L. Gagnon, T. Witzel, H. Bhat, B.R. Rosen, E. Adalsteinsson; Quantitative Oxygenation Venogram from MR Phase; International Society for Magnetic Resonance in Medicine 21st Scientific Meeting

1. 7
   B. Bilgic, E. Adalsteinsson; Joint Bayesian Compressed Sensing with Prior Estimate; International Society for Magnetic Resonance in Medicine 20th Scientific Meeting, oral presentation

   PDFMatlab code
2. 6
   B. Bilgic, B. Gagoski, E. Adalsteinsson; Lipid Suppression in CSI with Highly-Undersampled Peripheral K-Space and Spatial Priors; International Society for Magnetic Resonance in Medicine 20th Scientific Meeting, e-poster presentation

   PDFMatlab code
3. 5
   O. A. Abuhashem, B. Bilgic, E. Adalsteinsson; GPU Accelerated Quantitative Susceptibility Mapping; International Society for Magnetic Resonance in Medicine 20th Scientific Meeting
4. 4
   B. Gagoski, B. Bilgic, T. Kok, E. Adalsteinsson; Accelerated Spiral Chemical Shift Imaging with Compressed Sensing; International Society for Magnetic Resonance in Medicine 20th Scientific Meeting
5. 3
   T. Kok, B. Bilgic, B. Gagoski, E. Adalsteinsson; Lipid Artifact Suppression for Detection of Cortical Metabolites in High-Resolution CTPRESS; International Society for Magnetic Resonance in Medicine 20th Scientific Meeting
6. 2
   A. P. Fan, B. Bilgic, K. A. Heberlein, B. R. Rosen, E. Adalsteinsson; Quantification of the Cerebral Metabolic Rate of Oxygen (CMRO2) Across the Cortex Using Phase-Based Regional Oxygen Metabolism (PROM) MRI; International Society for Magnetic Resonance in Medicine 20th Scientific Meeting
7. 1
   K. Setsompop, B. Bilgic, J. Cohen-Adad, M. D. Tisdall, B. Keil, T. Witzel, Y. Rathi, V. J. Wedeen, E. Adalsteinsson, L. L. Wald ; Whole-Brain DSI in 4 Minutes: Sparse Sampling in Q-Space with Simultaneous Multi-Slice Acquisition; International Society for Magnetic Resonance in Medicine 20th Scientific Meeting

1. 4
   B. Bilgic, V.K. Goyal, E. Adalsteinsson; Joint Bayesian Compressed Sensing for Multi-contrast Reconstruction; International Society for Magnetic Resonance in Medicine 19th Scientific Meeting, oral presentation

   PDFMatlab code
2. 3
   B. Bilgic, A.P. Fan, E. Adalsteinsson; Quantitative Susceptibility Map Reconstruction with Magnitude Prior; International Society for Magnetic Resonance in Medicine 19th Scientific Meeting, oral presentation

   PDF
3. 2
   T. Kok, B. Bilgic, and E. Adalsteinsson; Multi Task Bayesian Compressed Sensing in Sparse 2D Spectroscopy; International Society for Magnetic Resonance in Medicine 19th Scientific Meeting
4. 1
   P. Fan, B. Bilgic, T. Benner, B. R. Rosen, E. Adalsteinsson; Regularized Quantitative Susceptibility Mapping for Phase-based Regional Oxygen Metabolism (PROM) at 7T; International Society for Magnetic Resonance in Medicine 19th Scientific Meeting

1. 2
   B. Bilgic; Reconstruction Algorithms for MRI; Ph.D. thesis, Massachusetts Institute of Technology, Department of Electrical Engineering and Computer Science, February 2013

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2. 1
   B. Bilgic; Fast Human Detection with Cascaded Ensembles; S.M. thesis, Massachusetts Institute of Technology, Department of Electrical Engineering and Computer Science, February 2010

   PDF

1. 13
   S. Cauley, K. Setsompop, L. Wald, B. Bilgic; Autocalibrated multi-shot magnetic resonance image reconstruction with joint optimization of shot-dependent phase and parallel image reconstruction; WO2022212264A1
2. 12
   T. Beck, B. Bilgic, D. Polak, K. Setsompop; A 3d magnetic resonance imaging sequence with magnetization preparation and controlled aliasing; EP3333585A3
3. 11
   B. Bilgic, Z. Zhang, C. Liao, J. Cho, M.K. Manhard; Distortion-free diffusion and quantitative magnetic resonance imaging with blip up-down acquisition of spin- and gradient-echoes; WO2022212244A1
4. 10
   Q. Tian, S.Y. Huang, B. Bilgic; Fast diffusion tensor MRI using deep learning; WO2020198582A1
5. 9
   Q. Tian, S.Y. Huang, B. Bilgic, J.R. Polimeni; Super-resolution anatomical magnetic resonance imaging using deep learning for cerebral cortex segmentation; US20200311926A1
6. 8
   B. Bilgic, S. Han, S.F. Cauley, L.L. Wald, K. Setsompop; Multi-shot echo planar imaging through machine learning; US20210364589A1
7. 7
   K. Setsompop, T. Beck, B. Bilgic, D. Polak; Method and apparatus for accelerated magnetic resonance imaging; US Patent App. US20180164395A1
8. 6
   B. Bilgic, K. Setsompop, D. Polak, H. Ye, L.L. Wald; Method for simultaneous time-interleaved multislice magnetic resonance imaging; US Patent App. 15/592,851
9. 5
   K. Setsompop, B. Bilgic, L.L. Wald, T. Witzel; Systems and methods for slice dithered enhanced resolution simultaneous multislice magnetic resonance imaging; Application WO2016171759A1
10. 4
    S.F. Cauley, B. Bilgic, K. Setsompop, L.L. Wald; Systems and Methods for Fast Magnetic Resonance Image Reconstruction Using a Hierarchically Semiseparable Solver; US Patent App. 14/707,598
11. 3
    B. Bilgic, K. Setsompop, L.L. Wald; Simultaneous Multi-Slice MRI with Random Gradient Encoding; US Patent App. 15/114,999
12. 2
    B. Bilgic, K. Setsompop; Systems and methods for fast reconstruction for quantitative susceptibility mapping using magnetic resonance imaging; US Patent 9,542,763
13. 1
    B. Bilgic, E. Adalsteinsson; Multi-contrast image reconstruction with joint Bayesian compressed sensing; US Patent 9,336,611