A visualization platform for high-throughput, follow-up, co-registered multi-contrast MRI rat brain data

Progress in Biomedical Optics and Imaging - Proceedings of SPIE

Volumn 8672, Issue , 2013, Pages

  Khmelinskii, A ^a   Mengler, L ^b   Kitslaar, P ^a   Staring, M ^a   Hoehn, M ^b   Lelieveldt, B P F ^a,c  

^a LEIDEN UNIVERSITY MEDICAL CENTER   (Netherlands)

^b MAX PLANCK INSTITUTE FOR NEUROLOGICAL RESEARCH   (Germany)

^c DELFT UNIVERSITY OF TECHNOLOGY   (Netherlands)

Author keywords

Brain; Cross sectional; Exploration; Follow up; High throughput; Image processing; Image registration; Multi contrast MRI; Rat; Side by side; Visualization

Indexed keywords

BRAIN DEFORMATIONS; CROSS-SECTIONAL; CROSS-SECTIONAL STUDY; FOLLOW-UP; HETEROGENEOUS DATA; HIGH THROUGHPUT; SIDE BY SIDES; VISUALIZATION PLATFORMS;

BRAIN; DATA VISUALIZATION; DEFORMATION; FLOW VISUALIZATION; IMAGE PROCESSING; IMAGE REGISTRATION; IMAGING TECHNIQUES; INFORMATION MANAGEMENT; MEDICAL APPLICATIONS; MOLECULAR IMAGING; NATURAL RESOURCES EXPLORATION; RATS; RESEARCH; VISUALIZATION;

NEUROIMAGING;

EID: 84878272974     PISSN: 16057422     EISSN: None     Source Type: Conference Proceeding    
DOI: 10.1117/12.2006529     Document Type: Conference Paper

References (24)

1. Maintz, J.B.A. and Viergever, M.A.,"A survey of medical image registration, " Med Image Anal, 2, 1-36 (1998).
2. Zitova, B. and Flusser, J., "Image registration methods: a survey, " Image Vision Comput 21, 977-1000 (2003).
3. Lester, H. and Arridge, S.R., "A survey of hierarchical non-linear medical image registration, " Pattern Recognit 32(1), 129-149.
4. Hill, D.L.G., Batchelor, P.G., Holden, M. and Hawkes, D.J., "Medical image registration, " Phys Med Biol 46(3), R1-R45 (2001).
5. Hajnal, J.V., Hill, D.L.G. and Hawkes, D.J. editors [Medical image registration], CRC Press, (2001).
6. Modersitzki, J., [Numerical methods for image registration], Oxford University Press, (2004).
7. Klein, S., Staring, M., Murphy, K., Viergever, M.A. and Pluim, J.P.W., "elastix: a toolbox for intensity based medical image registration, " IEEE T Med Imaging, 29(1), 196-205 (2010).
8. Gouws, A., Woods, W., Millman, R., Morland, A. and Green, G., "DataViewer3D: An Open-Source, Cross- Platform Multi-Modal Neuroimaging Data Visualization Tool, " Front Neuroinformatics, 3: 9 (2009).
9. http://www.fmrib.ox.ac.uk/fsl/index.html (Version 4.1.7, 15 October 2012).
10. http://www.freesurfer.net/(15 October 2012).
11. Rohlfing, T., Maurer, Jr.C.R., Bluemke, D.A. and Jacobs, M.A., "Volume-preserving nonrigid registration of MR breast images using free-form deformation with an incompressibility constraint, " IEEE T Med Imaging, 22(6), 730- 741, (2003).
12. Lorenzi, M., Ayache, N. and Pennec, X., "Alzheimer's Disease Neuroimaging Initiative, Schild's Ladder for the Parallel Transport of Deformations in Time Series of Images, " Inf Process Med Imaging, 22, 463-74, (2011).
13. Maheswaran, S., Barjat, H., Rueckert, D., Batec, S.T., Howlett, D.R., Tilling, L., et al., "Longitudinal regional brain volume changes quantified in normal aging and Alzheimer's APP×PS1 mice using MRI, " Brain Res, 1270, 19-32 (2009).
14. Lau, J.C., Lerch, J.P., Sled, J.G., Henkelman, R.M., Evans, A.C., and Bedell, B.J., "Longitudinal neuroanatomical changes determined by deformation-based morphometry in a mouse model of Alzheimer's disease, " Neuroimage, 42(1), 19-27 (2008).
15. Zamyadi, M., Baghdadi, L., Lerch, J.P., Bhattacharya, S., Schneider, J.E., Henkelman, R.M., et al., "Mouse embryonic phenotyping by morphometric analysis of MR images, " Physiol Genomics, 42A(2), 89-95 (2010).
16. Spring, S., Lerch, J.P. and Henkelman, R.M., "Sexual dimorphism revealed in the structure of the mouse brain using three-dimensional magnetic resonance imaging, " Neuroimage, 35(4), 1424-33 (2007).
17. Falangola, M.F., Ardekani, B.A., Lee, S.P., Babb, J.S., Bogart, A., Dyakin, V.V., et al., "Application of a non-linear image registration algorithm to quantitative analysis of T2 relaxation time in transgenic mouse models of AD pathology, " J Neurosci Methods, 144(1), 91-7 (2005).
18. Lerch, J.P., Carroll, J.B., Spring, S., Bertram, L.N., Schwab, C., Hayden, M.R., et al., "Automated deformation analysis in the YAC128 Huntington disease mouse model, " Neuroimage, 39(1): 32-9 (2008).
19. Yin, R. K., [Case study research: design and methods], 4th edn. Sage (2009).
20. Mattson, M. P., and Wan, R. Q., "Beneficial effect of intermittent fasting and caloric restriction on the cardiovascular and cerebrovascular systems, " J Nutr Biochem 16, 129-137 (2005).
21. http://elastix.isi.uu.nl (15 October 2012).
22. http://www.mevislab.de/(Version 2.1(VC8), 15 October 2012).
23. Khmelinskii, A., Mengler, L., Kitslaar, P., Staring, M., Po, C., Reiber, J.H.C., Hoehn, M. and Lelieveldt, B.P.F., "Interactive system for exploration of multi-modal rat brain data, " Proc EMIM (2011).
24. Mengler, L., Khmelinskii, A., Po, C., Staring, M., Reiber, J.H.C., Lelieveldt, B.P.F., and Hoehn, M., "Juvenile development and ageing mediated changes in cortical structure and volume in the rat brain, " Proc EMIM (2011).