An illustrated comparison of processing methods for MR phase imaging and QSM: combining array coil signals and phase unwrapping

Phase imaging benefits from strong susceptibility effects at very high field and the high signal‐to‐noise ratio (SNR) afforded by multi‐channel coils. Combining the information from coils is not trivial, however, as the phase that originates in local field effects (the source of interesting contrast) is modified by the inhomogeneous sensitivity of each coil. This has historically been addressed by referencing individual coil sensitivities to that of a volume coil, but alternative approaches are required for ultra‐high field systems in which no such coil is available. An additional challenge in phase imaging is that the phase that develops up to the echo time is “wrapped” into a range of 2π radians. Phase wraps need to be removed in order to reveal the underlying phase distribution of interest.

[1]  Jia-Hong Gao,et al.  3D phase unwrapping using global expected phase as a reference: Application to MRI global shimming , 2013, Magnetic resonance in medicine.

[2]  Ferdinand Schweser,et al.  A comprehensive numerical analysis of background phase correction with V‐SHARP , 2017, NMR in biomedicine.

[3]  Rolf Gruetter,et al.  A modulated closed form solution for quantitative susceptibility mapping — A thorough evaluation and comparison to iterative methods based on edge prior knowledge , 2015, NeuroImage.

[4]  S. Chavez,et al.  Understanding phase maps in MRI: a new cutline phase unwrapping method , 2002, IEEE Transactions on Medical Imaging.

[5]  Curtis L. Johnson,et al.  Real‐time 4D phase unwrapping applied to magnetic resonance elastography , 2015, Magnetic resonance in medicine.

[6]  E. Haacke,et al.  Quantitative susceptibility mapping: current status and future directions. , 2015, Magnetic resonance imaging.

[7]  J. Polimeni,et al.  Blipped‐controlled aliasing in parallel imaging for simultaneous multislice echo planar imaging with reduced g‐factor penalty , 2012, Magnetic resonance in medicine.

[8]  C. Sirlin,et al.  Optimal phased-array combination for spectroscopy. , 2008, Magnetic resonance imaging.

[9]  Ferdinand Schweser,et al.  Toward online reconstruction of quantitative susceptibility maps: Superfast dipole inversion , 2013, Magnetic resonance in medicine.

[10]  M. Dwyer,et al.  Iron Deposition on SWI-Filtered Phase in the Subcortical Deep Gray Matter of Patients with Clinically Isolated Syndrome May Precede Structure-Specific Atrophy , 2012, American Journal of Neuroradiology.

[11]  R. Bowtell,et al.  Fiber orientation-dependent white matter contrast in gradient echo MRI , 2012, Proceedings of the National Academy of Sciences.

[12]  Robert M. Harlick A Storage Efficient Way to Implement the Discrete Cosine Transform , 1976, IEEE Trans. Computers.

[13]  C. Collins,et al.  Calculation of radiofrequency electromagnetic fields and their effects in MRI of human subjects , 2011, Magnetic resonance in medicine.

[14]  Robert Zivadinov,et al.  Abnormal subcortical deep-gray matter susceptibility-weighted imaging filtered phase measurements in patients with multiple sclerosis A case-control study , 2012, NeuroImage.

[15]  D. Noll,et al.  Homodyne detection in magnetic resonance imaging. , 1991, IEEE transactions on medical imaging.

[16]  Andreas Greiser,et al.  The sign convention for phase values on different vendor systems: definition and implications for susceptibility-weighted imaging. , 2010, Magnetic resonance imaging.

[17]  Nick Todd,et al.  Phase reconstruction from multiple coil data using a virtual reference coil , 2014, Magnetic resonance in medicine.

[18]  P. Boesiger,et al.  SENSE: Sensitivity encoding for fast MRI , 1999, Magnetic resonance in medicine.

[19]  Jeff H. Duyn,et al.  Micro-compartment specific T2 ⁎ relaxation in the brain , 2013, NeuroImage.

[20]  Kristian Bredies,et al.  Fast quantitative susceptibility mapping using 3D EPI and total generalized variation , 2015, NeuroImage.

[21]  Peter Börnert,et al.  Parallel RF transmission in MRI , 2006, NMR in biomedicine.

[22]  Ali Bilgin,et al.  High‐resolution, large dynamic range field map estimation , 2014, Magnetic resonance in medicine.

[23]  D. O. Walsh,et al.  Adaptive reconstruction of phased array MR imagery , 2000, Magnetic resonance in medicine.

[24]  Joseph Dagher,et al.  MAGPI: A framework for maximum likelihood MR phase imaging using multiple receive coils , 2016, Magnetic resonance in medicine.

[25]  D. Sodickson,et al.  Comprehensive quantification of signal‐to‐noise ratio and g‐factor for image‐based and k‐space‐based parallel imaging reconstructions , 2008, Magnetic resonance in medicine.

[26]  J R Reichenbach,et al.  Small vessels in the human brain: MR venography with deoxyhemoglobin as an intrinsic contrast agent. , 1997, Radiology.

[27]  Robin M Heidemann,et al.  Controlled aliasing in parallel imaging results in higher acceleration (CAIPIRINHA) for multi‐slice imaging , 2005, Magnetic resonance in medicine.

[28]  J. Duyn,et al.  Design of a SENSE‐optimized high‐sensitivity MRI receive coil for brain imaging , 2002, Magnetic resonance in medicine.

[29]  R. Sweet,et al.  Fast Fourier transforms for direct solution of Poisson's equation with staggered boundary conditions , 1988 .

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

[31]  E. Haacke,et al.  High‐resolution BOLD venographic imaging: a window into brain function , 2001, NMR in biomedicine.

[32]  Yu-Chung N. Cheng,et al.  Susceptibility weighted imaging (SWI) , 2004, Zeitschrift fur medizinische Physik.

[33]  Robert Zivadinov,et al.  Iron deposition in multiple sclerosis lesions measured by susceptibility‐weighted imaging filtered phase: A case control study , 2012, Journal of magnetic resonance imaging : JMRI.

[34]  Petra Kaufmann,et al.  Two Dimensional Phase Unwrapping Theory Algorithms And Software , 2016 .

[35]  Lawrence L. Wald,et al.  A 32‐channel combined RF and B0 shim array for 3T brain imaging , 2016, Magnetic resonance in medicine.

[36]  Francis Lilley,et al.  Fast and robust three-dimensional best path phase unwrapping algorithm. , 2007, Applied optics.

[37]  C. Collins Radiofrequency Field Calculations for High Field MRI , 2006 .

[38]  P. Börnert,et al.  Transmit SENSE , 2003, Magnetic resonance in medicine.

[39]  Yimei Zhu,et al.  Fast phase unwrapping algorithm for interferometric applications. , 2003, Optics letters.

[40]  S. Posse,et al.  Enhancement of BOLD‐contrast sensitivity by single‐shot multi‐echo functional MR imaging , 1999, Magnetic resonance in medicine.

[41]  Guotian He,et al.  Phase unwrapping based on branch cut placing and reliability ordering , 2005 .

[42]  Wolfgang Bogner,et al.  Combining phase images from array coils using a short echo time reference scan (COMPOSER) , 2015, Magnetic resonance in medicine.

[43]  R. Cusack,et al.  New Robust 3-D Phase Unwrapping Algorithms: Application to Magnetic Field Mapping and Undistorting Echoplanar Images , 2002, NeuroImage.

[44]  S Trattnig,et al.  High‐resolution Fourier‐encoded sub‐millisecond echo time musculoskeletal imaging at 3 Tesla and 7 Tesla , 2013, Magnetic resonance in medicine.

[45]  Siegfried Trattnig,et al.  A method for unwrapping highly wrapped multi‐echo phase images at very high field: UMPIRE , 2014, Magnetic resonance in medicine.

[46]  Jorge Jovicich,et al.  B0 mapping with multi‐channel RF coils at high field , 2011, Magnetic resonance in medicine.

[47]  Ferdinand Schweser,et al.  Quantitative imaging of intrinsic magnetic tissue properties using MRI signal phase: An approach to in vivo brain iron metabolism? , 2011, NeuroImage.

[48]  Robert Turner,et al.  Toward in vivo histology: A comparison of quantitative susceptibility mapping (QSM) with magnitude-, phase-, and R2 ⁎-imaging at ultra-high magnetic field strength , 2013, NeuroImage.

[49]  W. Hackbusch Elliptic Differential Equations , 1992 .

[50]  Ferdinand Schweser,et al.  Quantitative susceptibility mapping (QSM) as a means to measure brain iron? A post mortem validation study , 2012, NeuroImage.

[51]  Rudolf Stollberger,et al.  Automated unwrapping of MR phase images applied to BOLD MR‐venography at 3 Tesla , 2003, Journal of magnetic resonance imaging : JMRI.

[52]  Bing Wu,et al.  Fast and tissue-optimized mapping of magnetic susceptibility and T2* with multi-echo and multi-shot spirals , 2012, NeuroImage.

[53]  Arthur W. Toga,et al.  A Probabilistic Atlas of the Human Brain: Theory and Rationale for Its Development The International Consortium for Brain Mapping (ICBM) , 1995, NeuroImage.

[54]  Yimei Zhu,et al.  Deterministic phase unwrapping in the presence of noise. , 2003, Optics letters.

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

[56]  Jaladhar Neelavalli,et al.  Catalytic multiecho phase unwrapping scheme (CAMPUS) in multiecho gradient echo imaging: Removing phase wraps on a voxel‐by‐voxel basis , 2013, Magnetic resonance in medicine.

[57]  Siegfried Trattnig,et al.  Combining phase images from multi‐channel RF coils using 3D phase offset maps derived from a dual‐echo scan , 2011, Magnetic resonance in medicine.

[58]  Dong-Hyun Kim,et al.  Simultaneous imaging of in vivo conductivity and susceptibility , 2014, Magnetic resonance in medicine.

[59]  Steffen Bollmann,et al.  WHEN TO PERFORM CHANNEL COMBINATION IN 7 TESLA QUANTITATIVE SUSCEPTIBILITY MAPPING , 2015 .

[60]  Wolfgang Hackbusch,et al.  Elliptic Differential Equations: Theory and Numerical Treatment , 2017 .

[61]  J. R. Reichenbach,et al.  Quantitative Susceptibility Mapping: Concepts and Applications , 2015, Clinical Neuroradiology.

[62]  J. Makhoul A fast cosine transform in one and two dimensions , 1980 .

[63]  R. Penrose,et al.  Impossible objects: a special type of visual illusion. , 1958, British journal of psychology.

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

[65]  A. Sukstanskii,et al.  On the role of neuronal magnetic susceptibility and structure symmetry on gradient echo MR signal formation , 2014, Magnetic resonance in medicine.

[66]  Peter M Jakob,et al.  Ultrashort echo time imaging using pointwise encoding time reduction with radial acquisition (PETRA) , 2012, Magnetic resonance in medicine.

[67]  Daniel B. Vigneron,et al.  Development of a robust method for generating 7.0 T multichannel phase images of the brain with application to normal volunteers and patients with neurological diseases , 2008, NeuroImage.

[68]  J. Reichenbach,et al.  Magnetic susceptibility-weighted MR phase imaging of the human brain. , 2005, AJNR. American journal of neuroradiology.

[69]  Tobias Voigt,et al.  Quantitative conductivity and permittivity imaging of the human brain using electric properties tomography , 2011, Magnetic resonance in medicine.

[70]  D. Larkman,et al.  Combination of signals from array coils using image‐based estimation of coil sensitivity profiles , 2002, Magnetic resonance in medicine.

[71]  Max A. Viergever,et al.  MR venography of the human brain using susceptibility weighted imaging at very high field strength , 2008, Magnetic Resonance Materials in Physics, Biology and Medicine.

[72]  Mark Jenkinson,et al.  Fast, automated, N‐dimensional phase‐unwrapping algorithm , 2003, Magnetic resonance in medicine.

[73]  Ferdinand Schweser,et al.  Foundations of MRI phase imaging and processing for Quantitative Susceptibility Mapping (QSM). , 2016, Zeitschrift fur medizinische Physik.

[74]  Yudong Zhu,et al.  Parallel excitation with an array of transmit coils , 2004, Magnetic resonance in medicine.

[75]  Markus Barth,et al.  Phase unwrapping of MR images using ΦUN - A fast and robust region growing algorithm , 2009, Medical Image Anal..

[76]  Jie Luo,et al.  Gradient Echo Plural Contrast Imaging — Signal model and derived contrasts: T2*, T1, Phase, SWI, T1f, FST2*and T2*-SWI , 2012, NeuroImage.

[77]  J. Duyn,et al.  Magnetic susceptibility mapping of brain tissue in vivo using MRI phase data , 2009, Magnetic resonance in medicine.

[78]  N J Pelc,et al.  Reconstructions of phase contrast, phased array multicoil data , 1994, Magnetic resonance in medicine.

[79]  M. Bronskill,et al.  Phase and sensitivity of receiver coils in magnetic resonance imaging. , 1986, Medical physics.

[80]  Zhaolin Chen,et al.  An optimised framework for reconstructing and processing MR phase images , 2010, NeuroImage.

[81]  Ferdinand Schweser,et al.  An illustrated comparison of processing methods for phase MRI and QSM: removal of background field contributions from sources outside the region of interest , 2017, NMR in biomedicine.

[82]  R Gruetter,et al.  Automatic, localized in Vivo adjustment of all first‐and second‐order shim coils , 1993, Magnetic resonance in medicine.

[83]  Matthew D Robson,et al.  Magnetic resonance imaging with ultrashort TE (UTE) PULSE sequences: Technical considerations , 2007, Journal of magnetic resonance imaging : JMRI.

[84]  Mark Bydder,et al.  Optimal phase difference reconstruction: comparison of two methods. , 2008, Magnetic resonance imaging.

[85]  S Trattnig,et al.  Coil combination of multichannel MRSI data at 7 T: MUSICAL , 2013, NMR in biomedicine.