Novel adaptive reconstruction schemes for accelerated myocardial perfusion magnetic resonance imaging

Coronary artery disease (CAD) is one of the leading causes of death in the world. In the United States alone, it is estimated that approximately every 25 seconds, a new CAD event will occur, and approximately every minute, someone will die of one. The detection of CAD in its early stages is very critical to reduce the mortality rates. Magnetic resonance imaging of myocardial perfusion (MR-MPI) has been receiving significant attention over the last decade due to its ability to provide a unique view of the microcirculation blood flow in the myocardial tissue through the coronary vascular network. The ability of MR-MPI to detect changes in microcirculation during early stages of ischemic events makes it a useful tool in identifying myocardial tissues that are alive but at the risk of dying. However this technique is not yet fully established in the clinic due to fundamental limitations imposed by the MRI device physics in terms of slow imaging speed. The limitations of current MRI schemes often make it challenging to simultaneously achieve high spatio-temporal resolution, sufficient spatial coverage, and good image quality in myocardial perfusion MRI. Furthermore, the acquisitions are typically set up to acquire images during breath holding. This often results in motion artifacts due to improper breath hold patterns. This also limits its applicability to a large domain of patient populations such as those with impaired respiratory function, arrhythmias, pediatrics. The overall objective of this thesis is to develop a novel dynamic imaging framework that can enable free breathing myocardial perfusion imaging with high spatiotemporal resolutions and close to whole heart volume coverage. To achieve this, this thesis deals with developing novel image reconstruction methods for the reconstruction of dynamic MRI data from highly accelerated / under-sampled Fourier measurements. It specifically focuses on novel blind or adaptive image models that represent the dynamic image data set using adaptive temporal bases (bases derived from the data at hand). This is in sharp contrast to classical models that rely on predetermined temporal bases (such as Fourier bases), which require assumptions such as temporal

[1]  Rachel W Chan,et al.  The influence of radial undersampling schemes on compressed sensing reconstruction in breast MRI , 2012, Magnetic resonance in medicine.

[2]  Mathews Jacob,et al.  Real-time cardiac MRI using low-rank and sparsity penalties , 2010, 2010 IEEE International Symposium on Biomedical Imaging: From Nano to Macro.

[3]  Michael Lustig,et al.  k-t SPARSE: High frame rate dynamic MRI exploiting spatio-temporal sparsity , 2006 .

[4]  Mathews Jacob,et al.  Accelerated Dynamic MRI Exploiting Sparsity and Low-Rank Structure: k-t SLR , 2011, IEEE Transactions on Medical Imaging.

[5]  P. Roemer,et al.  The NMR phased array , 1990, Magnetic resonance in medicine.

[6]  Jeffrey A. Fessler,et al.  Regularization Parameter Selection for Nonlinear Iterative Image Restoration and MRI Reconstruction Using GCV and SURE-Based Methods , 2012, IEEE Transactions on Image Processing.

[7]  Yoram Bresler,et al.  ADMiRA: Atomic Decomposition for Minimum Rank Approximation , 2009, IEEE Transactions on Information Theory.

[8]  Jan Carl Budich,et al.  Resolution evaluation of MR images reconstructed by iterative thresholding algorithms for compressed sensing. , 2012, Medical physics.

[9]  M. A. Lukas Robust generalized cross-validation for choosing the regularization parameter , 2006 .

[10]  Kurt Keutzer,et al.  Practical parallel imaging compressed sensing MRI: Summary of two years of experience in accelerating body MRI of pediatric patients , 2011, 2011 IEEE International Symposium on Biomedical Imaging: From Nano to Macro.

[11]  S. Plein,et al.  Coronary artery disease: myocardial perfusion MR imaging with sensitivity encoding versus conventional angiography. , 2005, Radiology.

[12]  Yonina C. Eldar,et al.  Blind Compressed Sensing , 2010, IEEE Transactions on Information Theory.

[13]  P. Kellman,et al.  Imaging sequences for first pass perfusion --a review. , 2007, Journal of cardiovascular magnetic resonance : official journal of the Society for Cardiovascular Magnetic Resonance.

[14]  Martin Blaimer,et al.  Temporal filtering effects in dynamic parallel MRI , 2011, Magnetic resonance in medicine.

[15]  Peter Kellman,et al.  Real‐time accelerated interactive MRI with adaptive TSENSE and UNFOLD , 2003, Magnetic resonance in medicine.

[16]  Kay Nehrke,et al.  k‐t PCA: Temporally constrained k‐t BLAST reconstruction using principal component analysis , 2009, Magnetic resonance in medicine.

[17]  Justin P. Haldar,et al.  Low rank matrix recovery for real-time cardiac MRI , 2010, 2010 IEEE International Symposium on Biomedical Imaging: From Nano to Macro.

[18]  S. Yun,et al.  An accelerated proximal gradient algorithm for nuclear norm regularized linear least squares problems , 2009 .

[19]  Mathews Jacob,et al.  Accelerated imaging of rest and stress myocardial perfusion MRI using multi-coil k-t SLR: a feasibility study , 2012, Journal of Cardiovascular Magnetic Resonance.

[20]  Jeffrey A. Fessler,et al.  Parallel MR Image Reconstruction Using Augmented Lagrangian Methods , 2011, IEEE Transactions on Medical Imaging.

[21]  Jeffrey A. Fessler Optimization transfer approach to joint registration / reconstruction for motion-compensated image reconstruction , 2010, 2010 IEEE International Symposium on Biomedical Imaging: From Nano to Macro.

[22]  Pablo A. Parrilo,et al.  Guaranteed Minimum-Rank Solutions of Linear Matrix Equations via Nuclear Norm Minimization , 2007, SIAM Rev..

[23]  Stephen P. Boyd,et al.  Enhancing Sparsity by Reweighted ℓ1 Minimization , 2007, 0711.1612.

[24]  Michael Elad,et al.  Image Sequence Denoising via Sparse and Redundant Representations , 2009, IEEE Transactions on Image Processing.

[25]  Leon Axel,et al.  Combination of Compressed Sensing and Parallel Imaging for Highly-Accelerated 3 D First-Pass Cardiac Perfusion MRI , 2009 .

[26]  Robin M Heidemann,et al.  Generalized autocalibrating partially parallel acquisitions (GRAPPA) , 2002, Magnetic resonance in medicine.

[27]  Peter Boesiger,et al.  k‐t BLAST and k‐t SENSE: Dynamic MRI with high frame rate exploiting spatiotemporal correlations , 2003, Magnetic resonance in medicine.

[28]  Peter Boesiger,et al.  Compressed sensing in dynamic MRI , 2008, Magnetic resonance in medicine.

[29]  Mathews Jacob,et al.  Unified reconstruction and motion estimation in cardiac perfusion MRI , 2011, 2011 IEEE International Symposium on Biomedical Imaging: From Nano to Macro.

[30]  Mathews Jacob,et al.  A Fast Majorize–Minimize Algorithm for the Recovery of Sparse and Low-Rank Matrices , 2012, IEEE Transactions on Image Processing.

[31]  M. Yuan,et al.  Model selection and estimation in regression with grouped variables , 2006 .

[32]  Zhi-Pei Liang,et al.  Real-time cardiac MRI without triggering, gating, or breath holding , 2008, 2008 30th Annual International Conference of the IEEE Engineering in Medicine and Biology Society.

[33]  Leon Axel,et al.  Combination of compressed sensing and parallel imaging with respiratory motion correction for highly-accelerated cardiac perfusion MRI , 2011, Journal of Cardiovascular Magnetic Resonance.

[34]  Dianne P. O'Leary,et al.  The Use of the L-Curve in the Regularization of Discrete Ill-Posed Problems , 1993, SIAM J. Sci. Comput..

[35]  Hong Jiang,et al.  Dynamic imaging by model estimation , 2002, 5th IEEE EMBS International Summer School on Biomedical Imaging, 2002..

[36]  Mathews Jacob,et al.  A blind compressive sensing frame work for accelerated dynamic MRI , 2012, 2012 9th IEEE International Symposium on Biomedical Imaging (ISBI).

[37]  Mathews Jacob,et al.  Accelerated first pass cardiac perfusion MRI using improved k − t SLR , 2011, 2011 IEEE International Symposium on Biomedical Imaging: From Nano to Macro.

[38]  Ganesh Adluru,et al.  Compression2: compressed sensing with compressed coil arrays , 2012, Journal of Cardiovascular Magnetic Resonance.

[39]  A. Manduca,et al.  Local versus Global Low-Rank Promotion in Dynamic MRI Series Reconstruction , 2010 .

[40]  Thierry Blu,et al.  Monte-Carlo Sure: A Black-Box Optimization of Regularization Parameters for General Denoising Algorithms , 2008, IEEE Transactions on Image Processing.

[41]  Leslie Ying,et al.  Joint image reconstruction and sensitivity estimation in SENSE (JSENSE) , 2007, Magnetic resonance in medicine.

[42]  Shiqian Ma,et al.  Fixed point and Bregman iterative methods for matrix rank minimization , 2009, Math. Program..

[43]  D. Parker,et al.  On the dark rim artifact in dynamic contrast‐enhanced MRI myocardial perfusion studies , 2005, Magnetic resonance in medicine.

[44]  E. Kholmovski,et al.  Acquisition and reconstruction of undersampled radial data for myocardial perfusion magnetic resonance imaging , 2009, Journal of magnetic resonance imaging : JMRI.

[45]  Mathews Jacob,et al.  Blind compressed sensing with sparse dictionaries for accelerated dynamic MRI , 2013, 2013 IEEE 10th International Symposium on Biomedical Imaging.

[46]  Michael Salerno,et al.  Noninvasive assessment of myocardial perfusion. , 2009, Circulation. Cardiovascular imaging.

[47]  C. L. Ham,et al.  Peripheral nerve stimulation during MRI: Effects of high gradient amplitudes and switching rates , 1997, Journal of magnetic resonance imaging : JMRI.

[48]  M. Elad,et al.  $rm K$-SVD: An Algorithm for Designing Overcomplete Dictionaries for Sparse Representation , 2006, IEEE Transactions on Signal Processing.

[49]  Yoram Bresler,et al.  Guaranteed Minimum Rank Approximation from Linear Observations by Nuclear Norm Minimization with an Ellipsoidal Constraint , 2009, ArXiv.

[50]  D. Donoho,et al.  Sparse MRI: The application of compressed sensing for rapid MR imaging , 2007, Magnetic resonance in medicine.

[51]  Leon Axel,et al.  On compressed sensing in parallel MRI of cardiac perfusion using temporal wavelet and TV regularization , 2010, 2010 IEEE International Conference on Acoustics, Speech and Signal Processing.

[52]  Rick Chartrand,et al.  Fast algorithms for nonconvex compressive sensing: MRI reconstruction from very few data , 2009, 2009 IEEE International Symposium on Biomedical Imaging: From Nano to Macro.

[53]  Bruno Madore Using UNFOLD to remove artifacts in parallel imaging and in partial‐Fourier imaging , 2002, Magnetic resonance in medicine.

[54]  Joe Y. Chang,et al.  Validation of an accelerated ‘demons’ algorithm for deformable image registration in radiation therapy , 2005, Physics in medicine and biology.

[55]  Mathews Jacob,et al.  Blind linear models for the recovery of dynamic MRI data , 2011, Optical Engineering + Applications.

[56]  Yoram Bresler,et al.  MR Image Reconstruction From Highly Undersampled k-Space Data by Dictionary Learning , 2011, IEEE Transactions on Medical Imaging.

[57]  Jean-Philippe Thirion,et al.  Non-rigid matching using demons , 1996, Proceedings CVPR IEEE Computer Society Conference on Computer Vision and Pattern Recognition.

[58]  Ganesh Adluru,et al.  Model‐based registration for dynamic cardiac perfusion MRI , 2006, Journal of magnetic resonance imaging : JMRI.

[59]  Zhi-Pei Liang,et al.  Improving temporal resolution of pulmonary perfusion imaging in rats using the partially separable functions model , 2010, Magnetic resonance in medicine.

[60]  F H Epstein,et al.  Adaptive sensitivity encoding incorporating temporal filtering (TSENSE) † , 2001, Magnetic resonance in medicine.

[61]  Jong Chul Ye,et al.  Radial k‐t FOCUSS for high‐resolution cardiac cine MRI , 2010, Magnetic resonance in medicine.

[62]  Hans-Peter Meinzer,et al.  Evaluation of Lung Volumetry Using Dynamic Three-Dimensional Magnetic Resonance Imaging , 2005, Investigative radiology.

[63]  David P. Wipf,et al.  Iterative Reweighted 1 and 2 Methods for Finding Sparse Solutions , 2010, IEEE J. Sel. Top. Signal Process..

[64]  Zhi-Pei Liang,et al.  Real-time cardiac MRI using prior spatial-spectral information , 2009, 2009 Annual International Conference of the IEEE Engineering in Medicine and Biology Society.

[65]  Peter Boesiger,et al.  Array compression for MRI with large coil arrays , 2007, Magnetic resonance in medicine.

[66]  Mathews Jacob,et al.  Accelerated dynamic MRI using sparse dictionary learning , 2013, Optics & Photonics - Optical Engineering + Applications.

[67]  P. Lions,et al.  Image recovery via total variation minimization and related problems , 1997 .

[68]  Bhaskar D. Rao,et al.  Sparse signal reconstruction from limited data using FOCUSS: a re-weighted minimum norm algorithm , 1997, IEEE Trans. Signal Process..

[69]  Armando Manduca,et al.  Relaxed Conditions for Sparse Signal Recovery With General Concave Priors , 2009, IEEE Transactions on Signal Processing.

[70]  Zhi-Pei Liang,et al.  SPATIOTEMPORAL IMAGINGWITH PARTIALLY SEPARABLE FUNCTIONS , 2007, 2007 4th IEEE International Symposium on Biomedical Imaging: From Nano to Macro.

[71]  Junfeng Yang,et al.  Alternating Direction Algorithms for 1-Problems in Compressive Sensing , 2009, SIAM J. Sci. Comput..

[72]  Mathews Jacob,et al.  Motion compensated reconstruction for myocardial perfusion MRI , 2012, Journal of Cardiovascular Magnetic Resonance.

[73]  Junfeng Yang,et al.  A New Alternating Minimization Algorithm for Total Variation Image Reconstruction , 2008, SIAM J. Imaging Sci..

[74]  Emmanuel J. Candès,et al.  A Singular Value Thresholding Algorithm for Matrix Completion , 2008, SIAM J. Optim..

[75]  Ganesh Adluru,et al.  Accelerating free breathing myocardial perfusion MRI using multi coil radial k − t SLR , 2013, Physics in medicine and biology.

[76]  José M. Bioucas-Dias,et al.  An Augmented Lagrangian Approach to the Constrained Optimization Formulation of Imaging Inverse Problems , 2009, IEEE Transactions on Image Processing.

[77]  J. Reilly Peripheral nerve stimulation by induced electric currents: Exposure to time-varying magnetic fields , 1989, Medical and Biological Engineering and Computing.

[78]  Yoram Bresler,et al.  Patient‐adaptive reconstruction and acquisition in dynamic imaging with sensitivity encoding (PARADISE) , 2010, Magnetic resonance in medicine.

[79]  Junfeng Yang,et al.  A Fast TVL1-L2 Minimization Algorithm for Signal Reconstruction from Partial Fourier Data , 2008 .

[80]  Suyash P. Awate,et al.  Temporally constrained reconstruction of dynamic cardiac perfusion MRI , 2007, Magnetic resonance in medicine.

[81]  Ganesh Adluru,et al.  The effect of obesity on regadenoson-induced myocardial hyperemia: a quantitative magnetic resonance imaging study , 2011, The International Journal of Cardiovascular Imaging.

[82]  D. Mozaffarian,et al.  Heart disease and stroke statistics--2012 update: a report from the American Heart Association. , 2012, Circulation.

[83]  Armando Manduca,et al.  Highly Undersampled Magnetic Resonance Image Reconstruction via Homotopic $\ell_{0}$ -Minimization , 2009, IEEE Transactions on Medical Imaging.

[84]  Rick Chartrand,et al.  Exact Reconstruction of Sparse Signals via Nonconvex Minimization , 2007, IEEE Signal Processing Letters.

[85]  Mathews Jacob,et al.  Blind Compressive Sensing Dynamic MRI , 2013, IEEE Transactions on Medical Imaging.

[86]  Emmanuel J. Candès,et al.  Exact Matrix Completion via Convex Optimization , 2008, Found. Comput. Math..

[87]  W. Segars,et al.  Study of the efficacy of respiratory gating in myocardial SPECT using the new 4-D NCAT phantom , 2001 .

[88]  José M. Bioucas-Dias,et al.  An augmented Lagrangian approach to linear inverse problems with compound regularization , 2010, 2010 IEEE International Conference on Image Processing.

[89]  Mathews Jacob Optimized Least-Square Nonuniform Fast Fourier Transform , 2009, IEEE Transactions on Signal Processing.

[90]  David Atkinson,et al.  Motion corrected compressed sensing for free‐breathing dynamic cardiac MRI , 2013, Magnetic resonance in medicine.

[91]  Jong Chul Ye,et al.  Motion estimated and compensated compressed sensing dynamic magnetic resonance imaging: What we can learn from video compression techniques , 2010 .

[92]  Hildur Ólafsdóttir,et al.  A unifying model of perfusion and motion applied to reconstruction of sparsely sampled free-breathing myocardial perfusion MRI , 2010, 2010 IEEE International Symposium on Biomedical Imaging: From Nano to Macro.

[93]  Justin P. Haldar,et al.  Spatiotemporal imaging with partially separable functions: A matrix recovery approach , 2010, 2010 IEEE International Symposium on Biomedical Imaging: From Nano to Macro.

[94]  Sajan Goud,et al.  Free breathing cardiac perfusion MRI reconstruction using a sparse and low rank model: Validation with the Physiologically Improved NCAT phantom , 2011, 2011 International Conference on Communications and Signal Processing.

[95]  Justin P. Haldar,et al.  Further development of image reconstruction from highly undersampled (k, t)-space data with joint partial separability and sparsity constraints , 2011, 2011 IEEE International Symposium on Biomedical Imaging: From Nano to Macro.

[96]  Yoram Bresler,et al.  ADAPTIVE REAL-TIME CARDIAC MRI USING PARADISE: VALIDATION BY THE PHYSIOLOGICALLY IMPROVED NCAT PHANTOM , 2007, 2007 4th IEEE International Symposium on Biomedical Imaging: From Nano to Macro.

[97]  Jean-Philippe Thirion,et al.  Image matching as a diffusion process: an analogy with Maxwell's demons , 1998, Medical Image Anal..

[98]  René M. Botnar,et al.  First-Pass Contrast-Enhanced Myocardial Perfusion MRI in Mice on a 3-T Clinical MR Scanner , 2010, Magnetic resonance in medicine.

[99]  Zhi-Pei Liang,et al.  Spatiotemporal Imaging with Partially Separable Functions , 2007, 2007 Joint Meeting of the 6th International Symposium on Noninvasive Functional Source Imaging of the Brain and Heart and the International Conference on Functional Biomedical Imaging.

[100]  Sankey V. Williams,et al.  2012 ACCF/AHA/ACP/AATS/PCNA/SCAI/STS Guideline for the diagnosis and management of patients with stable ischemic heart disease: a report of the American College of Cardiology Foundation/American Heart Association Task Force on Practice Guidelines, and the American College of Physicians, American Ass , 2012, Journal of the American College of Cardiology.

[101]  Michael Elad,et al.  Image Denoising Via Sparse and Redundant Representations Over Learned Dictionaries , 2006, IEEE Transactions on Image Processing.

[102]  A. Majumdar,et al.  An algorithm for sparse MRI reconstruction by Schatten p-norm minimization. , 2011, Magnetic resonance imaging.

[103]  Karen O. Egiazarian,et al.  Video Denoising, Deblocking, and Enhancement Through Separable 4-D Nonlocal Spatiotemporal Transforms , 2012, IEEE Transactions on Image Processing.