References¶
When you use SEPIA in your research, please cite the method(s) that you used:
Brain extraction¶
FSL bet Smith, S. M. Fast robust automated brain extraction. Hum. Brain Mapp. 17, 143–155 (2002).
Phase unwrapping¶
Laplacian-based method Schofield, M. A. & Zhu, Y. Fast phase unwrapping algorithm for interferometric applications. Opt Lett 28, 1194–1196 (2003).
Echo phase combination - Optimum weights Robinson, S. D. et al. An illustrated comparison of processing methods for MR phase imaging and QSM: combining array coil signals and phase unwrapping. NMR Biomed 30, e3601 (2017).
Echo phase combination - MEDI nonlinear fit Liu, T. et al. Nonlinear formulation of the magnetic field to source relationship for robust quantitative susceptibility mapping. Magn Reson Med 69, 467–476 (2012).
Background field removal¶
QSM¶
Closed-form solution Bilgic, B. et al. Fast image reconstruction with L2‐regularization. J Magn Reson Imaging 40, 181–191 (2014).
NDI Polak D., Chatnuntawech I., Yoon J., Srinivasan Iyer S., Lee J., Setsompop K., and Bilgic B. VaNDI: Variational Nonlinear Dipole Inversion enables QSM without free parameters (program number 0319). Proceedings of the International Society for Magnetic Resonance in Medicine 2019, Montreal Canada
MRI Susceptibility Calculation Methods For the TKD software implementation, the following citation shall be included in the acknowledgements: Shmueli, K et al. (2009). Magnetic susceptibility mapping of brain tissue in vivo using MRI phase data, Magnetic Resonance in Medicine vol 62 issue 6, 1510-1522 and Schweser, F et al. (2013). Toward online reconstruction of quantitative susceptibility maps: superfast dipole inversion, Magnetic Resonance in Medicine vol 69 issue 6, 1581-1593.
For the dirTik and iterTik software implementations in the package, the following citation shall be included in the acknowledgements: Karsa, A et al. (2019). High Repeatability of Quantitative Susceptibility Mapping (QSM) in the Head and Neck With a View to Detecting Hypoxic Cancer Sites, In Proceedings of the 27th Annual Meeting of the ISMRM, Montreal, p. 4939 and Schweser, F et al. (2013). Toward online reconstruction of quantitative susceptibility maps: superfast dipole inversion, Magnetic Resonance in Medicine vol 69 issue 6, 1581-1593.