Learning to rank atlases for multiple-atlas segmentation

IEEE Transactions on Medical Imaging

Volumn 33, Issue 10, 2014, Pages 1939-1953

  Sanroma, Gerard ^a   Wu, Guorong ^a   Gao, Yaozong ^b   Shen, Dinggang ^a,c  

^a UNIVERSITY OF NORTH CAROLINA   (United States)

^b UNIVERSITY OF NORTH CAROLINA SCHOOL OF MEDICINE   (United States)

^c Korea University   (South Korea)

Author keywords

Atlas selection; feature selection; multi atlas based segmentation; support vector machine (SVM) rank

Indexed keywords

FEATURE EXTRACTION; IMAGE ANALYSIS; SUPPORT VECTOR MACHINES;

ATLAS SELECTION; CRITICAL PROBLEMS; EXPERIMENTAL EVALUATION; HEURISTIC CRITERION; LABELING ACCURACIES; MULTI ATLAS-BASED SEGMENTATIONS; SEGMENTATION PERFORMANCE; SELECTION METHODS;

MEDICAL IMAGING;

ARTICLE; BRAIN MAPPING; DIAGNOSTIC IMAGING; FIRST CERVICAL VERTEBRA; FRONTAL GYRUS; HISTOGRAM; HISTOGRAM OF ORIENTED GRADIENT; HUMAN; LEARNING; MULTIPLE ATLAS SEGMENTATION; ALZHEIMER DISEASE; ANATOMY AND HISTOLOGY; FACTUAL DATABASE; FRONTAL LOBE; HIPPOCAMPUS; IMAGE PROCESSING; NEUROIMAGING; PHYSIOLOGY; PROCEDURES; SUPPORT VECTOR MACHINE;

ALZHEIMER DISEASE; DATABASES, FACTUAL; FRONTAL LOBE; HIPPOCAMPUS; HUMANS; IMAGE PROCESSING, COMPUTER-ASSISTED; NEUROIMAGING; SUPPORT VECTOR MACHINES;

EID: 84907818508     PISSN: 02780062     EISSN: 1558254X     Source Type: Journal    
DOI: 10.1109/TMI.2014.2327516     Document Type: Article

References (44)

1. D. Zhang, Y.Wang, L. Zhou, H. Yuan, and D. Shen, "Multimodal classification of Alzheimer's disease andmild cognitive impairment," NeuroImage, vol. 55, pp. 856-867, 2011.
2. Y. Fan, H. Rao, H. Hurt, J. Giannetta, M. Korczykowski, D. Shera, B. B. Avants, J. C. Gee, J.Wang, and D. Shen, "Multivariate examination of brain abnormality using both structural and functional MRI," NeuroImage, vol. 36, pp. 1189-1199, 2007.
3. D. Zhang and D. Shen, "Multi-modal multi-task learning for joint prediction of multiple regression and classification variables in Alzheimer's disease," NeuroImage, vol. 59, pp. 895-907, 2012.
4. C. Y. Wee, P. T. Yap, D. Zhang, K. Denny, J. N. Browndyke, G. G. Potter, K. A. Welsh-Bohmer, L. Wang, and D. Shen, "Identification of MCI individuals using structural and functional connectivity networks," NeuroImage, vol. 59, pp. 2045-2056, 2012.
5. M. Liu, D. Zhang, and D. Shen, "Ensemble sparse classification of Alzheimer's disease," NeuroImage, vol. 60, pp. 1106-1116, 2012.
6. D. Zhang and D. Shen, "Predicting future clinical changes of MCI patients using longitudinal and multimodal biomarkers," PloS One, vol. 7, 2012.
7. P. Aljabar, R. A. Heckemann, A. Hammers, J. V. Hajnal, and D. Rueckert, "Multi-atlas based segmentation of brain images: Atlas selection and its effect on accuracy," NeuroImage, vol. 46, pp. 726-738, 2009.
8. X. Artaechevarria, A. Munoz-Barrutia, and C. Ortiz-de-Solorzano, "Combination strategies in multi-atlas image segmentation: Application to brain MR data," IEEE Trans. Med. Imag., vol. 28, no. 8, pp. 1266-1277, Aug. 2009.
9. T. Rohlfing, R. Brandt, R. Menzel, and C. R. Maurer, Jr., "Evaluation of atlas selection strategies for atlas-based image segmentation with application to confocal microscopy images of bee brains," NeuroImage, vol. 21, pp. 1428-1442, 2004.
10. R. Wolz, P. Aljabar, J. V. Hajnal, A. Hammers, and D. Rueckert, "LEAP: Learning embeddings for altas propagation," NeuroImage, vol. 49, pp. 1316-1325, 2010.
11. G.Wu, P. T. Yap,M. Kim, and D. Shen, "TPS-HAMMER: Improving HAMMER registration algorithm by soft correspondence matching and thin-plate splines based deformation interpolation," NeuroImage, vol. 49, 2010.
12. D. Shen and C. Davatzikos, "HAMMER: Hierarchical attribute matching mechanism for elastic registration," IEEE Trans. Med. Imag., vol. 21, no. 11, pp. 1421-1439, Nov. 2002.
13. T. Vercauteren, X. Pennec, A. Perchant, and N. Ayache, "Diffeomorphic demons: Efficient non-parametric image registration," NeuroImage, vol. 45, 2009.
14. G. Wu, F. Qi, and D. Shen, "Learning-based deformable registration of MR brain images," IEEE Trans. Med. Imag., vol. 25, no. 9, pp. 1145-1157, Sep. 2006.
15. J. Yang, D. Shen, C. Davatzikos, and R. Verma, "Diffusion tensor image registration using tensor geometry and orientation features," in Medical Image Comput. and Comput.-Assisted Intervetion-MICCAI, 2008.
16. E. Zacharaki,D. Shen, S. K. Lee, and C.Davatzikos, "ORBIT:Amultiresolution framework for deformable registration of brain tumor images," IEEE Trans. Med. Imag., vol. 27, no. 8, pp. 1003-1017, Aug. 2008.
17. H. Qiao, H. Zhang, Y. Zheng, D. E. Ponde, D. Shen, F. Gao, A. B. Bakken, A. Schmitz, H. F. Kung, V. A. Ferrari, and R. Zhou, "Embryonic stem cell grafting in normal and infarcted myocardium: Serial assessment withMR imaging and PET dual detection," Radiology, vol. 250, pp. 821-829, 2009.
18. Z. Xue, D. Shen, and C. Davatzikos, "Statistical representation of highdimensional deformation fields with application to statistically constrained 3-D warping," Med. Image Anal., vol. 10, pp. 740-751, 2006.
19. S. Tang, Y. Fan, G. Wu,M.Kim, andD. Shen, "RABBIT:Rapid alignment of brains by building intermediate templates," NeuroImage, vol. 47, pp. 1277-1287, 2009.
20. P.T.Yap,G.Wu, H. Zhu,W. Lin, andD. Shen, "TIMER:Tensor image morphing for elastic registration," NeuroImage, vol. 47, pp. 549-563, 2009.
21. T. Rohlfing, R. Brandt, R. Menzel, D. B. Russakoff, J. Maurer, and R. Calvin, "Quo Vadis, Atlas-based segmentation?," in The Handbook of Medical Image Analysis-Volume III: Registration Models. New York: Kluwer Academic/Plenum, 2005.
22. R. A. Heckemann, J. V. Hajnal, P. Aljabar, D. Rueckert, and A. Hammers, "Automatic anatomical brainMRI segmentation combining label propagation and decision fusion," NeuroImage, vol. 33, pp. 115-126, 2006.
23. P. Coupe, J. V. Manjon, V. Fonov, J. Pruessner,M. Robles, and D. L. Collins, "Patch-based segmentation using expert priors: Application to hippocampus and ventricle segmentation," NeuroImage, vol. 54, pp. 940-954, 2011.
24. F. Rousseau, P. A. Habas, and C. Studholme, "A supervised patchbased approach for human brain labeling," IEEE Trans. Med. Imag., vol. 30, no. 10, pp. 1852-1862, Oct. 2011.
25. C. Studholme, D. L. G. Hill, and D. J. Hawkes, "An overlap invariant entropy measure of 3-D medical image alignment," Pattern Recognit., vol. 32, pp. 71-86, 1999.
26. M. Wu, C. Rosano, P. Lopez-Garcia, C. S. Carter, and H. J. Aizenstein, "Optimum template selection for atlas-based segmentation," NeuroImage, pp. 1612-1618, 2007.
27. Y. Cao, Y. Yuan, X. Li, B. Turkbey, P. L. Choyke, and P. Yan, "Segmenting images by combining selected atlases on manifold," Proc. MICCAI, pp. 272-279, 2011.
28. E.Konukoglu, B. Glocker, D. Zikic, andA. Criminisi, "Neighbourhood Approximation Forests," in Proc. MICCAI, 2012.
29. N. Dalal and B. Triggs, "Histograms of oriented gradients for human detection," in Proc. Int. Conf. Comput. Vis. Pattern Recognit., 2005, pp. 886-893.
30. T. Joachims, "Optimizing search engines using clickthrough data," in Proc. 8th ACM SIGKDD Int. Conf. KnowledgeDiscoveryDataMining, 2002, pp. 133-142.
31. Y. Freund, R. Iyer, R. E. Schapire, and Y. Singer, J. Mach. Learn. Res., vol. 4, pp. 933-969, 2003.
32. C. J. C. Burges, R. Ragno, and Q. V. Le, "Learning to rank with nonsmooth cost functions," in Neural Inf. Process. Syst., 2006.
33. O. Chapelle and S. S. Keerthi, "Efficient algorithms for ranking with SVMs," Inf. Retr., vol. 13, pp. 201-215, 2010.
34. H. Peng, F. Long, and C. Ding, "Feature selection based on mutual information: Criteria of Max-dependency, Max-relevance, and Minredundancy," IEEE Trans. Pattern Anal. Mach. Intell., vol. 27, pp. 1226-1238, Aug. 2005.
35. D.W. Shattuck,M.Mirza, V. Adisetiyo, C. Hojatkashani, G. Salamon, K. L. Narr, R. A. Poldrack, R. M. Bilder, and A. W. Toga, "Construction of a 3-D probabilistic atlas of human cortical structures," NeuroImage, vol. 39, 2008.
36. F. Shi, L.Wang, Y. Dai, J. H. Gilmore, W. Lin, and D. Shen, "LABEL: Pediatric brain extraction using learning-based meta-algorithm," NeuroImage, vol. 62, 2012.
37. N. J. Tustison, B. B. Avants, P. A. Cook, Y. Zheng, A. Egan, P. A. Yushkevich, and J. C. Gee, "N4ITK: Improved N3 bias correction," IEEE Trans. Med. Imag., vol. 29, no. 6, pp. 1310-1320, Jun. 2010.
38. M. Jenkinson, P. Bannister, M. Brady, and S. Smith, "Improved optimization for the robust and accurate linear registration and motion correction of brain images," NeuroImage, vol. 17, pp. 825-841, 2002.
39. Y.-Y. Hsu, N. Schuff, A.-T. Du, K. Mark, X. Zhu, D. Hardin, and M. W. Weiner, "Comparison of automated and manual MRI volumetry of hippocampus in normal aging and dementia," J. Magn. Reson. Imag., vol. 16, pp. 305-310, 2002.
40. G. Li, J. Nie, G. Wu, Y. W. D. Shen, and A. s. D. N. Initiative, "Consistent reconstruction of cortical surfaces from longitudinal brain MR images," NeuroImage, vol. 59, pp. 3805-20, 2012.
41. A.Hammers,C.H.Chen, L. Lemieux,R. Allom, S.Vossos, S. L. Free, R. Myers, D. J. Brooks, J. S. Duncan, and M. J. Koepp, "Statistical neuroanatomy of the human inferior frontal gyrus and probabilistic atlas in a standard stereotaxic space," Human Brain Mapp., vol. 40, no. 2, pp. 672-684, 2007.
42. I. S. Gousias, D. Rueckert, R. A. Heckemann, L. E. Dyet, J. P. Boardman, A. D. Edwards, and A. Hammers, "Automatic segmentation of brain MRIs of 2-year-olds into 83 regions of interest," NeuroImage, vol. 28, no. , pp. 34-48, 2008.
43. D. Zhang, Q. Guo, G. Wu, and D. Shen, "Sparse patch-based label fusion for multi-atlas segmentation," presented at the Int. Workshop Multimodal Brain Image Anal., Nice, France, 2012.
44. G. Wu, Q. Wang, D. Zhang, F. Nie, and D. Shen, "A generative probability model of joint label fusion for multi-atlas based brain segmentation," Med. Image Anal., to be published.