Registering and analyzing rat fMRI data in the stereotaxic framework by exploiting intrinsic anatomical features

Magnetic Resonance Imaging

Volumn 28, Issue 1, 2010, Pages 146-152

  Lu, Hanbing ^a   Scholl, Clara A ^a   Zuo, Yantao ^a   Demny, Steven ^a   Rea, William ^a   Stein, Elliot A ^a   Yang, Yihong ^a  

^a NATIONAL INSTITUTE ON DRUG ABUSE   (United States)

Author keywords

CBV weighted fMRI; fMRI; Forepaw stimulation; Neuroimaging; Rat brain atlas

Indexed keywords

ULTRASMALL SUPERPARAMAGNETIC IRON OXIDE;

ANIMAL ANATOMY; ANIMAL EXPERIMENT; ARTICLE; BRAIN MAPPING; BRAIN RADIOGRAPHY; BRAIN REGION; BRAIN SIZE; BRAIN WEIGHT; CONTROLLED STUDY; DIAGNOSTIC ACCURACY; DIAGNOSTIC VALUE; ELECTROSTIMULATION; FUNCTIONAL MAGNETIC RESONANCE IMAGING; IMAGE ANALYSIS; IMAGE DISPLAY; IMAGE PROCESSING; NEUROANATOMY; NEUROIMAGING; NONHUMAN; PRIORITY JOURNAL; RAT; SENSITIVITY AND SPECIFICITY; STEREOTACTIC PROCEDURE; THREE DIMENSIONAL IMAGING; VALIDATION PROCESS;

ANIMALS; BRAIN MAPPING; EVOKED POTENTIALS, SOMATOSENSORY; IMAGE INTERPRETATION, COMPUTER-ASSISTED; MAGNETIC RESONANCE IMAGING; RATS; REPRODUCIBILITY OF RESULTS; SENSITIVITY AND SPECIFICITY; SOMATOSENSORY CORTEX; STEREOTAXIC TECHNIQUES; SUBTRACTION TECHNIQUE;

RATTUS; RODENTIA;

EID: 71049130379     PISSN: 0730725X     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.mri.2009.05.019     Document Type: Article

References (23)

1. Hyder F., Behar K.L., Martin M.A., and Shulman R.G. Dynamic magnetic resonance imaging of the rat brain during forepaw stimulation. J Cereb Blood Flow Metab 14 (1994) 649-655
2. Duong T.Q., Silva A.C., Lee S.P., and Kim S.G. Functional MRI of calcium-dependent synaptic activity: cross correlation with CBF and BOLD measurements. Magn Reson Med 43 (2000) 383-392
3. Lu H., Patel S., Luo F., Li S.J., Hillard C.J., Ward B.D., et al. Spatial correlations of laminar BOLD and CBV responses to rat whisker stimulation with neuronal activity localized by Fos expression. Magn Reson Med 52 (2004) 1060-1068
4. Brey W.W., and Narayana P.A. Correction for intensity falloff in surface coil magnetic resonance imaging. Med Phys 15 (1987) 241-245
5. Paxinos G., Watson C., Pennisi M., and Topple A. Bregma, lambda and the interaural midpoint in stereotaxic surgery with rats of different sex, strain and weight. J Neurosci Methods 13 (1985) 139-143
6. Toga A.W. A digital three-dimensional atlas of structure/function relationships. J Chem Neuroanat 4 (1991) 313-318
7. Schweinhardt P., Fransson P., Olson L., Spenger C., and Andersson J.L. A template for spatial normalisation of MR images of the rat brain. J Neurosci Methods 129 (2003) 105-113
8. Schwarz A.J., Danckaert A., Reese T., Gozzi A., Paxinos G., Watson C., et al. A stereotaxic MRI template set for the rat brain with tissue class distribution maps and co-registered anatomical atlas: application to pharmacological MRI. Neuroimage 32 (2006) 538-550
9. Leergaard T.B., Bjaalie J.G., Devor A., Wald L.L., and Dale A.M. In vivo tracing of major rat brain pathways using manganese-enhanced magnetic resonance imaging and three-dimensional digital atlasing. Neuroimage 20 (2003) 1591-1600
10. Keilholz S.D., Silva A.C., Raman M., Merkle H., and Koretsky A.P. BOLD and CBV-weighted functional magnetic resonance imaging of the rat somatosensory system. Magn Reson Med 55 (2006) 316-324
11. Cox R.W. AFNI: software for analysis and visualization of functional magnetic resonance neuroimages. Comput Biomed Res 29 (1996) 162-173
12. Lu H., Xi Z.X., Gitajn L., Rea W., Yang Y., and Stein E.A. Cocaine-induced brain activation detected by dynamic manganese-enhanced magnetic resonance imaging (MEMRI). Proc Natl Acad Sci USA 104 (2007) 2489-2494
13. Lu H., Scholl C.A., Zuo Y., Stein E.A., and Yang Y. Quantifying the blood oxygenation level dependent effect in cerebral blood volume-weighted functional MRI at 9.4T. Magn Reson Med 58 (2007) 616-621
14. Paxinos G., and Watson C. The rat brain in stereotaxic coordinates (2005), Academic Press, Inc, San Diego
15. Arun K.S., Huang T.S., and Blostein S.D. Least-squares fitting of 2 3-D point sets. IEEE Trans Pattern Anal Mach Intell 9 (1987) 699-700
16. Fitzpatrick J.M., West J.B., and Maurer Jr. C.R. Predicting error in rigid-body point-based registration. IEEE Trans Med Imaging 17 (1998) 694-702
17. Liu C.H., Greve D.N., Dai G., Marota J.J., and Mandeville J.B. Remifentanil administration reveals biphasic phMRI temporal responses in rat consistent with dynamic receptor regulation. Neuroimage 34 (2007) 1042-1053
18. Mandeville J.B., Jenkins B.G., Chen Y.C., Choi J.K., Kim Y.R., Belen D., et al. Exogenous contrast agent improves sensitivity of gradient-echo functional magnetic resonance imaging at 9.4 T. Magn Reson Med 52 (2004) 1272-1281
19. Zhao F., Wang P., Hendrich K., Ugurbil K., and Kim S.G. Cortical layer-dependent BOLD and CBV responses measured by spin-echo and gradient-echo fMRI: insights into hemodynamic regulation. Neuroimage 30 (2006) 1149-1160
20. Nieman B.J., Flenniken A.M., Adamson S.L., Henkelman R.M., and Sled J.G. Anatomical phenotyping in the brain and skull of a mutant mouse by magnetic resonance imaging and computed tomography. Physiol Genomics 24 (2006) 154-162
21. Chen X.J., Kovacevic N., Lobaugh N.J., Sled J.G., Henkelman R.M., and Henderson J.T. Neuroanatomical differences between mouse strains as shown by high-resolution 3D MRI. Neuroimage 29 (2006) 99-105
22. Pascau J., Gispert J.D., Michaelides M., Thanos P.K., Volkow N.D., Vaquero J.J., et al. Automated method for small-animal PET image registration with intrinsic validation. Mol Imaging Biol 11 (2009) 107-113
23. Clements L.W., Chapman W.C., Dawant B.M., Galloway Jr. R.L., and Miga M.I. Robust surface registration using salient anatomical features for image-guided liver surgery: algorithm and validation. Med Phys 35 (2008) 2528-2540