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Singh R, Singh N, Kaur L. Deep learning methods for 3D magnetic resonance image denoising, bias field and motion artifact correction: a comprehensive review. Phys Med Biol 2024; 69:23TR01. [PMID: 39569887 DOI: 10.1088/1361-6560/ad94c7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/16/2024] [Accepted: 11/19/2024] [Indexed: 11/22/2024]
Abstract
Magnetic resonance imaging (MRI) provides detailed structural information of the internal body organs and soft tissue regions of a patient in clinical diagnosis for disease detection, localization, and progress monitoring. MRI scanner hardware manufacturers incorporate various post-acquisition image-processing techniques into the scanner's computer software tools for different post-processing tasks. These tools provide a final image of adequate quality and essential features for accurate clinical reporting and predictive interpretation for better treatment planning. Different post-acquisition image-processing tasks for MRI quality enhancement include noise removal, motion artifact reduction, magnetic bias field correction, and eddy electric current effect removal. Recently, deep learning (DL) methods have shown great success in many research fields, including image and video applications. DL-based data-driven feature-learning approaches have great potential for MR image denoising and image-quality-degrading artifact correction. Recent studies have demonstrated significant improvements in image-analysis tasks using DL-based convolutional neural network techniques. The promising capabilities and performance of DL techniques in various problem-solving domains have motivated researchers to adapt DL methods to medical image analysis and quality enhancement tasks. This paper presents a comprehensive review of DL-based state-of-the-art MRI quality enhancement and artifact removal methods for regenerating high-quality images while preserving essential anatomical and physiological feature maps without destroying important image information. Existing research gaps and future directions have also been provided by highlighting potential research areas for future developments, along with their importance and advantages in medical imaging.
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Affiliation(s)
- Ram Singh
- Department of Computer Science & Engineering, Punjabi University, Chandigarh Road, Patiala 147002, Punjab, India
| | - Navdeep Singh
- Department of Computer Science & Engineering, Punjabi University, Chandigarh Road, Patiala 147002, Punjab, India
| | - Lakhwinder Kaur
- Department of Computer Science & Engineering, Punjabi University, Chandigarh Road, Patiala 147002, Punjab, India
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Vasquez JA, Brown M, Woolsey M, Abdul-Ghani M, Katabathina V, Deng S, Blangero J, Clarke GD. Reproducibility and Repeatability of Intravoxel Incoherent Motion MRI Acquisition Methods in Liver. J Magn Reson Imaging 2024; 60:1691-1703. [PMID: 38240167 PMCID: PMC11258206 DOI: 10.1002/jmri.29249] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/05/2023] [Revised: 01/08/2024] [Accepted: 01/09/2024] [Indexed: 02/07/2024] Open
Abstract
BACKGROUND Intravoxel incoherent motion (IVIM) diffusion weighted MRI (DWI) has potential for evaluating hepatic fibrosis but image acquisition technique influence on diffusion parameter estimation bears investigation. PURPOSE To minimize variability and maximize repeatably in abdominal DWI in terms of IVIM parameter estimates. STUDY TYPE Prospective test-retest and image quality comparison. SUBJECTS Healthy volunteers (3F/7M, 29.9 ± 12.9 years) and Family Study subjects (18F/12M, 51.7 ± 16.7 years), without and with liver steatosis. FIELD STRENGTH/SEQUENCE Abdominal single-shot echo-planar imaging (EPI) and simultaneous multi-slice (SMS) DWI sequences with respiratory triggering (RT), breath-holding (BH), and navigator echo (NE) at 3 Tesla. ASSESSMENT SMS-BH, EPI-NE, and SMS-RT data from twice-scanned healthy volunteers were analyzed using 6 × b-values (0-800 s⋅mm-2) and lower (LO) and higher (HI) b-value ranges. Family Study subjects were scanned using SMS and standard EPI sequences. The biexponential IVIM model was used to estimate fast-diffusion coefficient (Df), fraction of fast diffusion (f), and slow-diffusion coefficient (Ds). Scan time, estimated signal-to-noise ratio (eSNR), eSNR per acquisition, and distortion ratio were compared. STATISTICAL TESTS Coefficients of variation (CoV) and Bland Altman analyses were performed for test-retest repeatability. Interclass correlation coefficient (ICC) assessed interobserver agreement with P < 0.05 deemed significant. RESULTS Within-subject CoVs among volunteers (N = 10) for f and Ds were lowest in EPI-NE-LO (11.6%) and SMS-RT-HI (11.1%). Inter-observer ICCs for f and Ds were highest for EPI-NE-LO (0.63) and SMS-RT-LO (0.76). Df could not be estimated for most subjects. Estimated eSNR (EPI = 21.9, SMS = 4.7) and eSNR time (EPI = 6.7, SMS = 16.6) were greater for SMS, with less distortion in the liver region (DR-PE: EPI = 23.6, SMS = 13.1). DATA CONCLUSION Simultaneous multislice acquisitions had significantly less variability and higher ICCs of Ds, higher eSNR, less distortion, and reduced scan time compared to EPI. EVIDENCE LEVEL 2 TECHNICAL EFFICACY: Stage 1.
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Affiliation(s)
- Juan A. Vasquez
- Department of Radiology, University of Texas Health Science Center at San Antonio, San Antonio, TX, United States
- Research Imaging Institute, University of Texas Health Science Center at San Antonio, San Antonio, TX, United States
| | - Marissa Brown
- Department of Radiology, University of Texas Health Science Center at San Antonio, San Antonio, TX, United States
- Research Imaging Institute, University of Texas Health Science Center at San Antonio, San Antonio, TX, United States
| | - Mary Woolsey
- Research Imaging Institute, University of Texas Health Science Center at San Antonio, San Antonio, TX, United States
| | - Mohammad Abdul-Ghani
- Diabetes Division, Department of Medicine, University of Texas Health Science Center at San Antonio, San Antonio, TX, United States
| | - Venkata Katabathina
- Department of Radiology, University of Texas Health Science Center at San Antonio, San Antonio, TX, United States
| | - Shengwen Deng
- Research Imaging Institute, University of Texas Health Science Center at San Antonio, San Antonio, TX, United States
| | - John Blangero
- Department of Human Genetics, School of Medicine, The University of Texas Rio Grande Valley, Brownsville, TX, United States
| | - Geoffrey D. Clarke
- Department of Radiology, University of Texas Health Science Center at San Antonio, San Antonio, TX, United States
- Research Imaging Institute, University of Texas Health Science Center at San Antonio, San Antonio, TX, United States
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Wang J, Geng W, Wu J, Kang T, Wu Z, Lin J, Yang Y, Cai C, Cai S. Intravoxel incoherent motion magnetic resonance imaging reconstruction from highly under-sampled diffusion-weighted PROPELLER acquisition data via physics-informed residual feedback unrolled network. Phys Med Biol 2023; 68:175022. [PMID: 37541226 DOI: 10.1088/1361-6560/aced77] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/17/2023] [Accepted: 08/04/2023] [Indexed: 08/06/2023]
Abstract
Objective. The acquisition of diffusion-weighted images for intravoxel incoherent motion (IVIM) imaging is time consuming. This work aims to accelerate the scan through a highly under-sampling diffusion-weighted turbo spin echo PROPELLER (DW-TSE-PROPELLER) scheme and to develop a reconstruction method for accurate IVIM parameter mapping from the under-sampled data.Approach.The proposed under-sampling DW-TSE-PROPELLER scheme for IVIM imaging is that a few blades perb-value are acquired and rotated along theb-value dimension to cover high-frequency information. A physics-informed residual feedback unrolled network (PIRFU-Net) is proposed to directly estimate distortion-free and artifact-free IVIM parametric maps (i.e., the perfusion-free diffusion coefficientDand the perfusion fractionf) from highly under-sampled DW-TSE-PROPELLER data. PIRFU-Net used an unrolled convolution network to explore data redundancy in the k-q space to remove under-sampling artifacts. An empirical IVIM physical constraint was incorporated into the network to ensure that the signal evolution curves along theb-value follow a bi-exponential decay. The residual between the realistic and estimated measurements was fed into the network to refine the parametric maps. Meanwhile, the use of synthetic training data eliminated the need for genuine DW-TSE-PROPELLER data.Main results.The experimental results show that the DW-TSE-PROPELLER acquisition was six times faster than full k-space coverage PROPELLER acquisition and within a clinically acceptable time. Compared with the state-of-the-art methods, the distortion-freeDandfmaps estimated by PIRFU-Net were more accurate and had better-preserved tissue boundaries on a simulated human brain and realistic phantom/rat brain/human brain data.Significance.Our proposed method greatly accelerates IVIM imaging. It is capable of directly and simultaneously reconstructing distortion-free, artifact-free, and accurateDandfmaps from six-fold under-sampled DW-TSE-PROPELLER data.
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Affiliation(s)
- Jiechao Wang
- Department of Electronic Science, Fujian Provincial Key Laboratory of Plasma and Magnetic Resonance, Xiamen University, Xiamen, 361005, People's Republic of China
| | - Wenhua Geng
- Department of Electronic Science, Fujian Provincial Key Laboratory of Plasma and Magnetic Resonance, Xiamen University, Xiamen, 361005, People's Republic of China
| | - Jian Wu
- Department of Electronic Science, Fujian Provincial Key Laboratory of Plasma and Magnetic Resonance, Xiamen University, Xiamen, 361005, People's Republic of China
| | - Taishan Kang
- Department of Radiology, Zhongshan Hospital of Xiamen University, School of Medicine, Xiamen University, Xiamen, 361004, People's Republic of China
| | - Zhigang Wu
- Clinical & Technical Solutions, Philips Healthcare, Shenzhen, 518000, People's Republic of China
| | - Jianzhong Lin
- Department of Radiology, Zhongshan Hospital of Xiamen University, School of Medicine, Xiamen University, Xiamen, 361004, People's Republic of China
| | - Yu Yang
- Department of Electronic Science, Fujian Provincial Key Laboratory of Plasma and Magnetic Resonance, Xiamen University, Xiamen, 361005, People's Republic of China
| | - Congbo Cai
- Department of Electronic Science, Fujian Provincial Key Laboratory of Plasma and Magnetic Resonance, Xiamen University, Xiamen, 361005, People's Republic of China
| | - Shuhui Cai
- Department of Electronic Science, Fujian Provincial Key Laboratory of Plasma and Magnetic Resonance, Xiamen University, Xiamen, 361005, People's Republic of China
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Aetesam H, Maji SK. Perceptually Motivated Generative Model for Magnetic Resonance Image Denoising. J Digit Imaging 2023; 36:725-738. [PMID: 36474088 PMCID: PMC10039195 DOI: 10.1007/s10278-022-00744-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/21/2022] [Revised: 11/01/2022] [Accepted: 11/17/2022] [Indexed: 12/12/2022] Open
Abstract
Image denoising is an important preprocessing step in low-level vision problems involving biomedical images. Noise removal techniques can greatly benefit raw corrupted magnetic resonance images (MRI). It has been discovered that the MR data is corrupted by a mixture of Gaussian-impulse noise caused by detector flaws and transmission errors. This paper proposes a deep generative model (GenMRIDenoiser) for dealing with this mixed noise scenario. This work makes four contributions. To begin, Wasserstein generative adversarial network (WGAN) is used in model training to mitigate the problem of vanishing gradient, mode collapse, and convergence issues encountered while training a vanilla GAN. Second, a perceptually motivated loss function is used to guide the training process in order to preserve the low-level details in the form of high-frequency components in the image. Third, batch renormalization is used between the convolutional and activation layers to prevent performance degradation under the assumption of non-independent and identically distributed (non-iid) data. Fourth, global feature attention module (GFAM) is appended at the beginning and end of the parallel ensemble blocks to capture the long-range dependencies that are often lost due to the small receptive field of convolutional filters. The experimental results over synthetic data and MRI stack obtained from real MR scanners indicate the potential utility of the proposed technique across a wide range of degradation scenarios.
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Affiliation(s)
- Hazique Aetesam
- Department of Computer Science and Engineering, Indian Institute of Technology Patna, Patna, 801106 India
| | - Suman Kumar Maji
- Department of Computer Science and Engineering, Indian Institute of Technology Patna, Patna, 801106 India
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Huang HM. An unsupervised convolutional neural network method for estimation of intravoxel incoherent motion parameters. Phys Med Biol 2022; 67. [DOI: 10.1088/1361-6560/ac9a1f] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/03/2022] [Accepted: 10/13/2022] [Indexed: 11/07/2022]
Abstract
Abstract
Objective. Intravoxel incoherent motion (IVIM) imaging obtained by fitting a biexponential model to multiple b-value diffusion-weighted magnetic resonance imaging (DW-MRI) has been shown to be a promising tool for different clinical applications. Recently, several deep neural network (DNN) methods were proposed to generate IVIM imaging. Approach. In this study, we proposed an unsupervised convolutional neural network (CNN) method for estimation of IVIM parameters. We used both simulated and real abdominal DW-MRI data to evaluate the performance of the proposed CNN-based method, and compared the results with those obtained from a non-linear least-squares fit (TRR, trust-region reflective algorithm) and a feed-forward backward-propagation DNN-based method. Main results. The simulation results showed that both the DNN- and CNN-based methods had lower coefficients of variation than the TRR method, but the CNN-based method provided more accurate parameter estimates. The results obtained from real DW-MRI data showed that the TRR method produced many biased IVIM parameter estimates that hit the upper and lower parameter bounds. In contrast, both the DNN- and CNN-based methods yielded less biased IVIM parameter estimates. Overall, the perfusion fraction and diffusion coefficient obtained from the DNN- and CNN-based methods were close to literature values. However, compared with the CNN-based method, both the TRR and DNN-based methods tended to yield increased pseudodiffusion coefficients (55%–180%). Significance. Our preliminary results suggest that it is feasible to estimate IVIM parameters using CNN.
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Troelstra MA, Van Dijk AM, Witjes JJ, Mak AL, Zwirs D, Runge JH, Verheij J, Beuers UH, Nieuwdorp M, Holleboom AG, Nederveen AJ, Gurney-Champion OJ. Self-supervised neural network improves tri-exponential intravoxel incoherent motion model fitting compared to least-squares fitting in non-alcoholic fatty liver disease. Front Physiol 2022; 13:942495. [PMID: 36148303 PMCID: PMC9485997 DOI: 10.3389/fphys.2022.942495] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/17/2022] [Accepted: 07/27/2022] [Indexed: 11/13/2022] Open
Abstract
Recent literature suggests that tri-exponential models may provide additional information and fit liver intravoxel incoherent motion (IVIM) data more accurately than conventional bi-exponential models. However, voxel-wise fitting of IVIM results in noisy and unreliable parameter maps. For bi-exponential IVIM, neural networks (NN) were able to produce superior parameter maps than conventional least-squares (LSQ) generated images. Hence, to improve parameter map quality of tri-exponential IVIM, we developed an unsupervised physics-informed deep neural network (IVIM3-NET). We assessed its performance in simulations and in patients with non-alcoholic fatty liver disease (NAFLD) and compared outcomes with bi-exponential LSQ and NN fits and tri-exponential LSQ fits. Scanning was performed using a 3.0T free-breathing multi-slice diffusion-weighted single-shot echo-planar imaging sequence with 18 b-values. Images were analysed for visual quality, comparing the bi- and tri-exponential IVIM models for LSQ fits and NN fits using parameter-map signal-to-noise ratios (SNR) and adjusted R2. IVIM parameters were compared to histological fibrosis, disease activity and steatosis grades. Parameter map quality improved with bi- and tri-exponential NN approaches, with a significant increase in average parameter-map SNR from 3.38 to 5.59 and 2.45 to 4.01 for bi- and tri-exponential LSQ and NN models respectively. In 33 out of 36 patients, the tri-exponential model exhibited higher adjusted R2 values than the bi-exponential model. Correlating IVIM data to liver histology showed that the bi- and tri-exponential NN outperformed both LSQ models for the majority of IVIM parameters (10 out of 15 significant correlations). Overall, our results support the use of a tri-exponential IVIM model in NAFLD. We show that the IVIM3-NET can be used to improve image quality compared to a tri-exponential LSQ fit and provides promising correlations with histopathology similar to the bi-exponential neural network fit, while generating potentially complementary additional parameters.
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Affiliation(s)
- Marian A. Troelstra
- Department of Radiology and Nuclear Medicine, Amsterdam UMC, Amsterdam, Netherlands
- *Correspondence: Marian A. Troelstra,
| | | | - Julia J. Witjes
- Department of Vascular Medicine, Amsterdam UMC, Amsterdam, Netherlands
| | - Anne Linde Mak
- Department of Vascular Medicine, Amsterdam UMC, Amsterdam, Netherlands
| | - Diona Zwirs
- Department of Vascular Medicine, Amsterdam UMC, Amsterdam, Netherlands
| | - Jurgen H. Runge
- Department of Radiology and Nuclear Medicine, Amsterdam UMC, Amsterdam, Netherlands
| | - Joanne Verheij
- Department of Pathology, Amsterdam UMC, Amsterdam, Netherlands
| | - Ulrich H. Beuers
- Department of Gastroenterology and Hepatology, Amsterdam UMC, Amsterdam, Netherlands
| | - Max Nieuwdorp
- Department of Vascular Medicine, Amsterdam UMC, Amsterdam, Netherlands
| | | | - Aart J. Nederveen
- Department of Radiology and Nuclear Medicine, Amsterdam UMC, Amsterdam, Netherlands
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Mei C, Zhang L, Zhang Z. Vomiting Management and Effect Prediction after Early Chemotherapy of Lung Cancer with Diffusion-Weighted Imaging under Artificial Intelligence Algorithm and Comfort Care Intervention. COMPUTATIONAL AND MATHEMATICAL METHODS IN MEDICINE 2022; 2022:1056910. [PMID: 35756427 PMCID: PMC9217595 DOI: 10.1155/2022/1056910] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/04/2022] [Revised: 05/11/2022] [Accepted: 05/16/2022] [Indexed: 11/17/2022]
Abstract
This aim of this research was to explore the evaluation and prediction value of diffusion-weighted imaging (DWI) under artificial intelligence algorithm in the vomiting management and chemotherapy of early lung cancer under comfort care. 118 patients with lung cancer were included as the research objects. They were randomly divided into the control group (routine care) and the experiment group (comfort care) with 59 cases in each. The DWI under the weighted nuclear norm minimization (WNNM) noise reduction algorithm was used for examinations. The noise reduction effect of the algorithm under different Gaussian noises, as well as the sensitivity, specificity, and area under the curve (AUC) of the apparent diffusion coefficient (ADC) maps under different b values, was compared and analyzed. The indicators of vomiting, psychological state, quality of life, serum tumor marker levels, and nursing satisfaction were also compared between the two groups of patients after chemotherapy. Compared to the photon mapping (PM) algorithm and the total variation (TV) norm minimization algorithm, the WNNM algorithm had the most ideal noise reduction effect with clearer images, which was conducive to identification. When the b value was 800 s/mm2, the ADC chart had the best sensitivity, specificity, and AUC values of 0.95, 0.89, and 0.87, respectively. After chemotherapy, 45.76% of patients in the experiment group had vomiting in degree 0 and 40.68% had that in degree I, which suggested that the incidence of vomiting was significantly lower than that in the control group (P < 0.05). All of the psychological state, quality of life, serum tumor marker levels, and nursing satisfaction of patients in the experiment group were significantly better than those in the control group (P < 0.05). It showed that comfort care could alleviate the vomiting response effectively of patients with lung cancer after chemotherapy and had significant effects in improving the quality of life, the psychological state, and curative effect of patients. WNNM algorithm had the better noise reduction effect in DWI image processing. This work provided a certain reference for the nursing intervention plan after chemotherapy of early lung cancer.
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Affiliation(s)
- Cailing Mei
- Department of Oncology, Ganzhou People's Hospital, Ganzhou, 341000 Jiangxi, China
| | - Ling Zhang
- Department of Nursing, Ganzhou People's Hospital, Ganzhou, 341000 Jiangxi, China
| | - Zhiying Zhang
- Department of Medical Imaging, Ganzhou People's Hospital, Ganzhou, 341000 Jiangxi, China
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Englund EK, Reiter DA, Shahidi B, Sigmund EE. Intravoxel Incoherent Motion Magnetic Resonance Imaging in Skeletal Muscle: Review and Future Directions. J Magn Reson Imaging 2022; 55:988-1012. [PMID: 34390617 PMCID: PMC8841570 DOI: 10.1002/jmri.27875] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/18/2021] [Revised: 07/23/2021] [Accepted: 07/26/2021] [Indexed: 12/29/2022] Open
Abstract
Throughout the body, muscle structure and function can be interrogated using a variety of noninvasive magnetic resonance imaging (MRI) methods. Recently, intravoxel incoherent motion (IVIM) MRI has gained momentum as a method to evaluate components of blood flow and tissue diffusion simultaneously. Much of the prior research has focused on highly vascularized organs, including the brain, kidney, and liver. Unique aspects of skeletal muscle, including the relatively low perfusion at rest and large dynamic range of perfusion between resting and maximal hyperemic states, may influence the acquisition, postprocessing, and interpretation of IVIM data. Here, we introduce several of those unique features of skeletal muscle; review existing studies of IVIM in skeletal muscle at rest, in response to exercise, and in disease states; and consider possible confounds that should be addressed for muscle-specific evaluations. Most studies used segmented nonlinear least squares fitting with a b-value threshold of 200 sec/mm2 to obtain IVIM parameters of perfusion fraction (f), pseudo-diffusion coefficient (D*), and diffusion coefficient (D). In healthy individuals, across all muscles, the average ± standard deviation of D was 1.46 ± 0.30 × 10-3 mm2 /sec, D* was 29.7 ± 38.1 × 10-3 mm2 /sec, and f was 11.1 ± 6.7%. Comparisons of reported IVIM parameters in muscles of the back, thigh, and leg of healthy individuals showed no significant difference between anatomic locations. Throughout the body, exercise elicited a positive change of all IVIM parameters. Future directions including advanced postprocessing models and potential sequence modifications are discussed. LEVEL OF EVIDENCE: 2 TECHNICAL EFFICACY: Stage 2.
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Affiliation(s)
- Erin K. Englund
- Department of Radiology, University of Colorado Anschutz Medical Campus
| | | | | | - Eric E. Sigmund
- Department of Radiology, New York University Grossman School of Medicine, NYU Langone Health
- Center for Advanced Imaging and Innovation (CAIR), Bernard and Irene Schwarz Center for Biomedical Imaging (CBI), NYU Langone Health
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Song JE, Kim DH. Improved Multi-Echo Gradient-Echo-Based Myelin Water Fraction Mapping Using Dimensionality Reduction. IEEE TRANSACTIONS ON MEDICAL IMAGING 2022; 41:27-38. [PMID: 34357864 DOI: 10.1109/tmi.2021.3102977] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
Multi-echo gradient-echo (mGRE)-based myelin water fraction (MWF) mapping is a promising myelin water imaging (MWI) modality but is vulnerable to noise and artifact corruption. The linear dimensionality reduction (LDR) method has recently shown improvements with regard to these challenges. However, the magnitude value based low rank operators have been shown to misestimate the MWF for regions with [Formula: see text] anisotropy. This paper presents a nonlinear dimensionality reduction (NLDR) method to estimate the MWF map better by encouraging nonlinear low dimensionality of mGRE signal sources. Specifically, we implemented a fully connected deep autoencoder to extract the low-dimensional features of complex-valued signals and incorporated a sparse regularization to separate the anomaly sources that do not reside in the low-dimensional manifold. Simulations and in vivo experiments were performed to evaluate the accuracy of the MWF map under various situations. The proposed NLDR-based MWF improves the accuracy of the MWF map over the conventional nonlinear least-squares method and the LDR-based MWF and maintains robustness against noise and artifact corruption.
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Ohno N, Miyati T, Sugita F, Nanbu G, Makino Y, Alperin N, Gabata T, Kobayashi S. Quantification of Regional Cerebral Blood Flow Using Diffusion Imaging With Phase Contrast. J Magn Reson Imaging 2021; 54:1678-1686. [PMID: 34021663 DOI: 10.1002/jmri.27735] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/19/2021] [Revised: 05/10/2021] [Accepted: 05/10/2021] [Indexed: 12/21/2022] Open
Abstract
BACKGROUND The perfusion-related diffusion coefficient obtained from triexponential diffusion analysis is closely correlated with regional cerebral blood flow (rCBF), as assessed by arterial spin labeling (ASL) methods. However, this provides only a semiquantitative measure of rCBF, thereby making absolute rCBF quantification challenging. PURPOSE To obtain rCBF in a noninvasive manner using a novel diffusion imaging method with phase contrast (DPC), in which the total CBF from phase-contrast (PC) MRI was utilized to convert perfusion-related diffusion coefficients to rCBF values. STUDY TYPE Prospective. SUBJECTS Eleven healthy volunteers (nine men and two women; mean age, 23.9 years) participated in this study. FIELD STRENGTH/SEQUENCE A 3.0 T, single-shot diffusion echo-planar imaging with multiple b-values (0-3000 s/mm2 ), PC-MRI, pulsed continuous ASL, and 3D T1 -weighted fast field echo. ASSESSMENT rCBF and its correlations in the gray matter (GM) and white matter (WM) were compared between DPC and ASL methods. rCBF in the GM and WM and the GM/WM ratio were compared with the literature values obtained using [15 O]-water positron emission tomography (15 O-H2 O PET). STATISTICAL TESTS Spearman's correlation coefficient and Wilcoxon signed-rank test were used. Significance was set at P < 0.05. RESULTS A significant positive correlation between DPC and ASL in terms of rCBF was observed in GM (R = 0.9), whereas the correlation between the two methods was poor in WM (R = 0.09). The rCBF in GM and WM and the GM/WM ratio obtained using DPC were consistent with the literature values assessed using 15 O-H2 O PET. The rCBF value obtained using DPC was significantly higher in the GM and WM than that using ASL. DATA CONCLUSION DPC enabled noninvasive quantification of rCBF. EVIDENCE LEVEL 2 TECHNICAL EFFICACY: Stage 1.
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Affiliation(s)
- Naoki Ohno
- Faculty of Health Sciences, Institute of Medical, Pharmaceutical and Health Sciences, Kanazawa University, Kanazawa, Japan
| | - Tosiaki Miyati
- Faculty of Health Sciences, Institute of Medical, Pharmaceutical and Health Sciences, Kanazawa University, Kanazawa, Japan
| | - Fumiki Sugita
- Faculty of Health Sciences, Institute of Medical, Pharmaceutical and Health Sciences, Kanazawa University, Kanazawa, Japan
| | - Genki Nanbu
- Faculty of Health Sciences, Institute of Medical, Pharmaceutical and Health Sciences, Kanazawa University, Kanazawa, Japan
| | - Yuki Makino
- Department of Radiological Technology, Kanazawa University Hospital, Kanazawa, Japan
| | - Noam Alperin
- Department of Radiology, University of Miami, Miami, Florida, USA
| | - Toshifumi Gabata
- Department of Radiology, Kanazawa University Hospital, Kanazawa, Japan
| | - Satoshi Kobayashi
- Faculty of Health Sciences, Institute of Medical, Pharmaceutical and Health Sciences, Kanazawa University, Kanazawa, Japan.,Department of Radiological Technology, Kanazawa University Hospital, Kanazawa, Japan.,Department of Radiology, Kanazawa University Hospital, Kanazawa, Japan
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Liu N, Yang X, Lei L, Pan K, Liu Q, Huang X. Intravoxel Incoherent Motion Model in Differentiating the Pathological Grades of Esophageal Carcinoma: Comparison of Mono-Exponential and Bi-Exponential Fit Model. Front Oncol 2021; 11:625891. [PMID: 33912449 PMCID: PMC8071935 DOI: 10.3389/fonc.2021.625891] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/04/2020] [Accepted: 03/15/2021] [Indexed: 02/03/2023] Open
Abstract
PURPOSE To compare the diagnostic efficiency of the mono-exponential model and bi-exponential model deriving from intravoxel incoherent motion diffusion-weighted imaging (IVIM-DWI) in differentiating the pathological grade of esophageal squamous cell carcinoma (ESCC). METHODS Fifty-four patients with ESCC were divided into three groups of poorly-differentiated (PD), moderately-differentiated (MD), and well-differentiated (WD), and underwent the IVIM-DWI scan. Mono-exponential (Dmono, D*mono, and fmono) and bi-exponential fit parameters (Dbi, D*bi, and fbi) were calculated using the IVIM data for the tumors. Mean parameter values of three groups were compared using a one-way ANOVA followed by post hoc tests. The receiver operating characteristic curve was drawn for differentiating pathological grade of ESCC. Correlations between pathological grades and IVIM parameters were analyzed. RESULTS There were significant differences in fmono and fbi among the PD, MD and WD ESCC groups (all p<0.05). The fmono were 0.32 ± 0.07, 0.23 ± 0.08, and 0.16 ± 0.05, respectively, and the fbi were 0.35 ± 0.08, 0.26 ± 0.10, and 0.18 ± 0.07, respectively. There was a significant difference in the Dmono between the WD and the PD group (1.48 ± 0.51* 10-3 mm2/s versus 1.05 ± 0.44*10-3 mm2/s, p<0.05), but there was no significant difference between the WD and MD groups, MD and PD groups (all p>0.05). The D*mono, Dbi, and D*bi showed no significant difference among the three groups (all p>0.05). The area under the curve (AUC) of Dmono, fmono and fbi in differentiating WD from PD ESCC were 0.764, 0.961 and 0.932, and the sensitivity and specificity were 92.9% and 60%, 92.9% and 90%, 85.7% and 100%, respectively. The AUC of fmono and fbi in differentiating MD from PD ESCC were 0.839 and 0.757, and the sensitivity and specificity were 78.6% and 80%, 85.7% and 70%, respectively. The AUC of fmono and fbi in differentiating MD from WD ESCC were 0.746 and 0.740, and the sensitivity and specificity were 65% and 85%, 80% and 60%, respectively. The pathologically differentiated grade was correlated with all IVIM parameters (all p<0.05). CONCLUSIONS The mono-exponential IVIM model is superior to the bi-exponential IVIM model in differentiating pathological grades of ESCC, which may be a promising imaging method to predict pathological grades of ESCC.
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Affiliation(s)
- Nian Liu
- Department of Radiology, Affiliated Hospital of North Sichuan Medical College, Nanchong, China
| | - Xiongxiong Yang
- Department of Radiology, Nanchong Hospital of Traditional Chinese Medicine, Nanchong, China
| | - Lixing Lei
- Department of Radiology, Affiliated Hospital of North Sichuan Medical College, Nanchong, China
| | - Ke Pan
- Department of Radiology, Affiliated Hospital of North Sichuan Medical College, Nanchong, China
| | - Qianqian Liu
- Department of Radiology, Affiliated Hospital of North Sichuan Medical College, Nanchong, China
| | - Xiaohua Huang
- Department of Radiology, Affiliated Hospital of North Sichuan Medical College, Nanchong, China
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Chen Q, She H, Du YP. Whole Brain Myelin Water Mapping in One Minute Using Tensor Dictionary Learning With Low-Rank Plus Sparse Regularization. IEEE TRANSACTIONS ON MEDICAL IMAGING 2021; 40:1253-1266. [PMID: 33439835 DOI: 10.1109/tmi.2021.3051349] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
The quantification of myelin water content in the brain can be obtained by the multi-echo [Formula: see text] weighted images ( [Formula: see text]WIs). To accelerate the long acquisition, a novel tensor dictionary learning algorithm with low-rank and sparse regularization (TDLLS) is proposed to reconstruct the [Formula: see text]WIs from the undersampled data. The proposed algorithm explores the local and nonlocal similarity and the global temporal redundancy in the real and imaginary parts of the complex relaxation signals. The joint application of the low-rank constraints on the dictionaries and the sparse constraints on the core coefficient tensors improves the performance of the tensor-based recovery. Parallel imaging is incorporated into the TDLLS algorithm (pTDLLS) for further acceleration. A pulse sequence is proposed to prospectively undersample the Ky-t space to obtain the whole brain high-quality myelin water fraction (MWF) maps within 1 minute at an undersampling rate (R) of 6.
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Aetesam H, Maji SK. Noise dependent training for deep parallel ensemble denoising in magnetic resonance images. Biomed Signal Process Control 2021. [DOI: 10.1016/j.bspc.2020.102405] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
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Shao L, Li H, Liu X, Wang Y, Shi L, Ai D, Fan J, Song H, Zhang H, Yang J. Quantitative analysis of bony birth canal for periacetabular osteotomy patient by template fitting. Phys Med Biol 2021; 66:025007. [PMID: 33202400 DOI: 10.1088/1361-6560/abcb22] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Abstract
Periacetabular osteotomy (PAO) is a joint preservation procedure for developmental dysplasia of the hip. Such a procedure requires osteotomy of the medial wall of the acetabulum, which may cause the narrow of the bony birth canal and increase the risk of complications during the childbirth process in the future. Using quantitative analysis of the bony birth canal to determine the risk of complications for the childbirth process remains a challenging task. The purpose of this paper is to explore a new 3D CT measurement method to quantify the narrowest parameters of the bony birth canal of the female patients with hip dysplasia before and after unilateral PAO surgery. By analyzing the impact of PAO surgery on the bony birth canal, the patient's risk of complications during the childbirth process in the future can be estimated, and it can be utilized for doctors to determine the impact of unilateral PAO for choosing appropriate delivery method. In this paper, a mean shape of the preoperative pelvises is obtained by using the statistical shape model algorithm, and the mean shape includes pelvic shape features of all the preoperative pelvises, and it can be utilized as the standard pelvic template. A bidirectional iterative algorithm is used to generate a standard bony birth canal path template. Then, the pelvic registration and principal plane deformation constraint are utilized to calculate the optimal bony birth canal path. The proposed method is verified in 31 cases of CT data with the approval of the institutional review board. The test data contain preoperative and postoperative CT images. Compared with the benchmark method, the measurement accuracy of the narrowest position and diameter of the bony birth canal is improved by 65% and 78%, respectively. In addition, the processing speed is increased by 32%. Experimental results demonstrate that the proposed method has high accuracy and validity for quantifying the bony birth canal. The proposed method can measure the anatomical parameters of the bony birth canal accurately. In addition, the doctor can make optimal planning for childbirth with the help of the quantitative analysis of the bony birth canal.
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Affiliation(s)
- Long Shao
- Beijing Engineering Research Center of Mixed Reality and Advanced Display, School of Optics and Photonics, Beijing Institute of Technology, Beijing 100081, People's Republic of China
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Santos T, Ventura T, Mateus J, Capela M, Lopes MDC. On the complexity of helical tomotherapy treatment plans. J Appl Clin Med Phys 2020; 21:107-118. [PMID: 32363800 PMCID: PMC7386195 DOI: 10.1002/acm2.12895] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2020] [Revised: 04/09/2020] [Accepted: 04/13/2020] [Indexed: 11/08/2022] Open
Abstract
PURPOSE Multiple metrics are proposed to characterize and compare the complexity of helical tomotherapy (HT) plans created for different treatment sites. METHODS A cohort composed of 208 HT plans from head and neck (105), prostate (51) and brain (52) tumor sites was considered. For each plan, 14 complexity metrics were calculated. Those metrics evaluate the percentage of leaves with small opening times or approaching the projection duration, the percentage of closed leaves, the amount of tongue-and-groove effect, and the overall modulation of the planned sinogram. To enable data visualization, an approach based on principal component analysis was followed to reduce the dataset dimensionality. This allowed the calculation of a global plan complexity score. The correlation between plan complexity and pretreatment verification results using the Spearman's rank correlation coefficients was investigated. RESULTS According to the global score, the most complex plans were the head and neck tumor cases, followed by the prostate and brain lesions irradiated with stereotactic technique. For almost all individual metrics, head and neck plans confirmed to be the plans with the highest complexity. Nevertheless, prostate cases had the highest percentage of leaves with an opening time approaching the projection duration, whereas the stereotactic brain plans had the highest percentage of closed leaves per projection. Significant correlations between some of the metrics and the pretreatment verification results were identified for the stereotactic brain group. CONCLUSIONS The proposed metrics and the global score demonstrated to be useful to characterize and quantify the complexity of HT plans of different treatment sites. The reported differences inter- and intra-group may be valuable to guide the planning process aiming at reducing uncertainties and harmonize planning strategies.
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Affiliation(s)
- Tania Santos
- Physics Department, University of Coimbra, Coimbra, Portugal.,Medical Physics Department, IPOCFG, E.P.E, Coimbra, Portugal
| | - Tiago Ventura
- Medical Physics Department, IPOCFG, E.P.E, Coimbra, Portugal
| | - Josefina Mateus
- Medical Physics Department, IPOCFG, E.P.E, Coimbra, Portugal
| | - Miguel Capela
- Medical Physics Department, IPOCFG, E.P.E, Coimbra, Portugal
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Gurney‐Champion OJ, Rauh SS, Harrington K, Oelfke U, Laun FB, Wetscherek A. Optimal acquisition scheme for flow-compensated intravoxel incoherent motion diffusion-weighted imaging in the abdomen: An accurate and precise clinically feasible protocol. Magn Reson Med 2020; 83:1003-1015. [PMID: 31566262 PMCID: PMC6899942 DOI: 10.1002/mrm.27990] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/10/2019] [Revised: 08/14/2019] [Accepted: 08/17/2019] [Indexed: 12/16/2022]
Abstract
PURPOSE Flow-compensated (FC) diffusion-weighted MRI (DWI) for intravoxel-incoherent motion (IVIM) modeling allows for a more detailed description of tissue microvasculature than conventional IVIM. The long acquisition time of current FC-IVIM protocols, however, has prohibited clinical application. Therefore, we developed an optimized abdominal FC-IVIM acquisition with a clinically feasible scan time. METHODS Precision and accuracy of the FC-IVIM parameters were assessed by fitting the FC-IVIM model to signal decay curves, simulated for different acquisition schemes. Diffusion-weighted acquisitions were added subsequently to the protocol, where we chose the combination of b-value, diffusion time and gradient profile (FC or bipolar) that resulted in the largest improvement to its accuracy and precision. The resulting two optimized FC-IVIM protocols with 25 and 50 acquisitions (FC-IVIMopt25 and FC-IVIMopt50 ), together with a complementary acquisition consisting of 50 diffusion-weighting (FC-IVIMcomp ), were acquired in repeated abdominal free-breathing FC-IVIM imaging of seven healthy volunteers. Intersession and intrasession within-subject coefficient of variation of the FC-IVIM parameters were compared for the liver, spleen, and kidneys. RESULTS Simulations showed that the performance of FC-IVIM improved in tissue with larger perfusion fraction and signal-to-noise ratio. The scan time of the FC-IVIMopt25 and FC-IVIMopt50 protocols were 8 and 16 min. The best in vivo performance was seen in FC-IVIMopt50 . The intersession within-subject coefficients of variation of FC-IVIMopt50 were 11.6%, 16.3%, 65.5%, and 36.0% for FC-IVIM model parameters diffusivity, perfusion fraction, characteristic time and blood flow velocity, respectively. CONCLUSIONS We have optimized the FC-IVIM protocol, allowing for clinically feasible scan times (8-16 min).
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Affiliation(s)
- Oliver J. Gurney‐Champion
- Joint Department of PhysicsThe Institute of Cancer Research and The Royal Marsden NHS Foundation TrustLondonUnited Kingdom
| | - Susanne S. Rauh
- Joint Department of PhysicsThe Institute of Cancer Research and The Royal Marsden NHS Foundation TrustLondonUnited Kingdom
- Institute of RadiologyUniversity Hospital Erlangen, Friedrich‐Alexander‐Universität Erlangen‐Nürnberg (FAU)ErlangenGermany
| | - Kevin Harrington
- Targeted Therapy teamThe Institute of Cancer Research and The Royal Marsden NHS Foundation TrustLondonUnited Kingdom
| | - Uwe Oelfke
- Joint Department of PhysicsThe Institute of Cancer Research and The Royal Marsden NHS Foundation TrustLondonUnited Kingdom
| | - Frederik B. Laun
- Institute of RadiologyUniversity Hospital Erlangen, Friedrich‐Alexander‐Universität Erlangen‐Nürnberg (FAU)ErlangenGermany
| | - Andreas Wetscherek
- Joint Department of PhysicsThe Institute of Cancer Research and The Royal Marsden NHS Foundation TrustLondonUnited Kingdom
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