Abstract
In this paper, we present IMaGe, a new, iterative two-stage probabilistic graphical model for detection and segmentation of Multiple Sclerosis (MS) lesions. Our model includes two levels of Markov Random Fields (MRFs). At the bottom level, a regular grid voxel-based MRF identifies potential lesion voxels, as well as other tissue classes, using local and neighbourhood intensities and class priors. Contiguous voxels of a particular tissue type are grouped into regions. A higher, non-lattice MRF is then constructed, in which each node corresponds to a region, and edges are defined based on neighbourhood relationships between regions. The goal of this MRF is to evaluate the probability of candidate lesions, based on group intensity, texture and neighbouring regions. The inferred information is then propagated to the voxel-level MRF. This process of iterative inference between the two levels repeats as long as desired. The iterations suppress false positives and refine lesion boundaries. The framework is trained on 660 MRI volumes of MS patients enrolled in clinical trials from 174 different centres, and tested on a separate multi-centre clinical trial data set with 535 MRI volumes. All data consists of T1, T2, PD and FLAIR contrasts. In comparison to other MRF methods, such as [5, 9], and a traditional MRF, IMaGe is much more sensitive (with slightly better PPV). It outperforms its nearest competitor by around 20 % when detecting very small lesions (3–10 voxels). This is a significant result, as such lesions constitute around 40 % of the total number of lesions.
Access this chapter
Tax calculation will be finalised at checkout
Purchases are for personal use only
Notes
- 1.
Partial volume denotes the class ascribed to voxels which are a mix of GM and CSF. This class is created in order to reduce the number of false negatives at the edges of the ventricles.
References
MacDonald, I.W., et al.: Recommended diagnostic criteria for multiple sclerosis: guidelines from the international panel on the diagnosis of multiple sclerosis. Ann. Neurol. 50(1), 121–127 (2001)
Garcia-Lorenzo, D., et al.: Review of automatic segmentation methods of multiple sclerosis white matter lesions on conventional magnetic resonance imaging. Med. Image Anal. 17(1), 1–18 (2013)
von Leemput, K., et al.: Automated segmentationo of multiple sclerosis lesions by model outlier detection. IEEE Trans. Med. Imag. 20(8), 677–688 (2001)
Souplet, J., et al.: An automatic segmentation of T2-FLAIR Multiple Sclerosis lesions. In: Midas Jounal (2008)
Schmidt, P., et al.: An automated tool for detection of FLAIR-hyperintense white-matter lesions in multiple sclerosis. NeuroImage 59, 3774–3783 (2012)
Subbanna, N., et al.: Existence conditions for non canonical multiwindow gabor functions. Trans. Signal Process. 55(11), 5112–5117 (2007)
Weiss, N., Rueckert, D., Rao, A.: Multiple sclerosis lesion segmentation using dictionary learning and sparse coding. In: Mori, K., Sakuma, I., Sato, Y., Barillot, C., Navab, N. (eds.) MICCAI 2013, Part I. LNCS, vol. 8149, pp. 735–742. Springer, Heidelberg (2013)
Harmouche, R., et al.: Bayesian MS Lesion classification modelling regional and local spatial information. In: Proceedings of ICPR 2006, pp. 984–987 (2006)
Subbanna, N., et al.: Adapted MRF Segmentation of MS Lesions uisng Local Contextual Information. In: Proceedings of MIUA 2011, pp. 445–450 (2011)
Wu, Y., et al.: Automated segmentation of multiple sclerosis subtypes with multichannel MRI. NeuroImage 32, 1205–1215 (2006)
Khayati, R., et al.: Fully automatic segmentation of multiple sclerosis lesions in brain MR FLAIR images using adaptive mixtures method and Markov Random field model. Comput. Bio. Med. 38, 379–390 (2008)
Karimaghaloo, Z., Rivaz, H., Arnold, D.L., Collins, D.L., Arbel, T.: Adaptive voxel, texture and temporal conditional random field for detection of gad-enhancing multiple sclerosis lesions in brain MRI. In: Mori, K., Sakuma, I., Sato, Y., Barillot, C., Navab, N. (eds.) Proceedings MICCAI 2013, Part I. LNCS, vol. 8149, pp. 543–550. Springer, Heidelberg (2013)
Subbanna, N.K., Precup, D., Collins, D.L., Arbel, T.: Hierarchical probabilistic gabor and MRF segmentation of brain tumours in MRI volumes. In: Mori, K., Sakuma, I., Sato, Y., Barillot, C., Navab, N. (eds.) MICCAI 2013, part i. LNCS, vol. 8149, pp. 751–758. Springer, Heidelberg (2013)
Sled, J.G., Pike, G.B.: Correction for b(1) and b(0) variations in quantitative T(2) measurements using MRI. Magn. Reson. Med. 43(4), 589–593 (2000)
Collins, D.L., et al.: Automatic 3D model based neuro-anatomical segmentation. Hum. Brain Mapp. 3, 190–208 (1995)
Smith, S.M.: Fast robust automated brain extraction. Hum. Brain Mapp. 17(3), 143–155 (2002)
Nyl, L.G., et al.: New variants of a method of MRI scale standardization. IEEE Trans. Med. Imag. 19(2), 143–150 (2000)
Subbanna, N., et al.: Iterative multilevel MRF leveraging context and voxel information for brain tumour segmentation in MRI. In: Proceedings of Computer Vision and Pattern Recognition 2014, Columbus, June 2014
Author information
Authors and Affiliations
Corresponding author
Editor information
Editors and Affiliations
Rights and permissions
Copyright information
© 2015 Springer International Publishing Switzerland
About this paper
Cite this paper
Subbanna, N., Precup, D., Arnold, D., Arbel, T. (2015). IMaGe: Iterative Multilevel Probabilistic Graphical Model for Detection and Segmentation of Multiple Sclerosis Lesions in Brain MRI. In: Ourselin, S., Alexander, D., Westin, CF., Cardoso, M. (eds) Information Processing in Medical Imaging. IPMI 2015. Lecture Notes in Computer Science(), vol 9123. Springer, Cham. https://doi.org/10.1007/978-3-319-19992-4_40
Download citation
DOI: https://doi.org/10.1007/978-3-319-19992-4_40
Published:
Publisher Name: Springer, Cham
Print ISBN: 978-3-319-19991-7
Online ISBN: 978-3-319-19992-4
eBook Packages: Computer ScienceComputer Science (R0)