A three-dimensional MRI atlas of the mouse brain with estimates of the average and variability

Cerebral Cortex

Volumn 15, Issue 5, 2005, Pages 639-645

  Kovacevic N ^a   Henderson, J T ^b   Chan, E ^b   Lifshitz, N ^a   Bishop, J ^a   Evans, A C ^c   Henkelman, R M ^a,d   Chen, X J ^a,d  

^a HOSPITAL FOR SICK CHILDREN   (Canada)

^b UNIVERSITY OF TORONTO   (Canada)

^c MCGILL UNIVERSITY   (Canada)

^d UNIVERSITY OF TORONTO   (Canada)

Author keywords

Central nervous system; Image processing; Magnetic resonance imaging; Phenotyping

Indexed keywords

ANATOMICAL VARIATION; ANIMAL EXPERIMENT; ANIMAL TISSUE; ARTICLE; CENTRAL NERVOUS SYSTEM; CONTROLLED STUDY; IMAGE PROCESSING; INBRED STRAIN; MOUSE; NEUROIMAGING; NONHUMAN; NUCLEAR MAGNETIC RESONANCE IMAGING; PHENOTYPE; PRIORITY JOURNAL; THREE DIMENSIONAL IMAGING;

ALGORITHMS; ANIMALS; BRAIN; IMAGE ENHANCEMENT; IMAGING, THREE-DIMENSIONAL; MAGNETIC RESONANCE IMAGING; MALE; MICE; MODELS, ANATOMIC; REFERENCE VALUES; REPRODUCIBILITY OF RESULTS; SENSITIVITY AND SPECIFICITY; SUBTRACTION TECHNIQUE;

EID: 17744394309     PISSN: 10473211     EISSN: None     Source Type: Journal    
DOI: 10.1093/cercor/bhh165     Document Type: Article

References (25)

1. Balaban RS, Hampshire VA (2001) Challenges in small animal non-invasive imaging. ILAR J 42:248-62.
2. Benveniste H, Blackband S (2002) MR microscopy and high resolution small animal MRI: applications in neuroscience research. Prog Neurobiol 67:393-420.
3. Benveniste H, Kim K, Zhang L, Johnson GA (2000) Magnetic resonance microscopy of the C57BL mouse brain. Neuroimage 11:601-611.
4. Bock NA, Konyer NB, Henkelman RM (2003) Multiple-mouse MRI. Magn Res Med 49:158-167.
5. Coffins DL, Evans AC (1997) ANIMAL: validation and applications of non-linear registration based segmentation Int J Pattern Recogn 11:1271-1294.
6. Crawley JN (2000) What's wrong with my mouse? Behavioral phenotyping of transgenic and knockout mice, pp. 9-29. New York: Wiley-Liss.
7. Dhenain M, Ruffins SW, Jacobs RE (2001) Three-dimensional digital mouseatlas using high-resolution MRI. Dev Biol 232:458-470.
8. Franklin K, Paxinos G (1997) The mouse brain in stereotaxic coordinates. San Diego: Academic Press.
9. Grenander U, Miller MI (1998) Computational anatomy: an emerging discipline. Q Appl Math 56:617-694.
10. Guilfoyle DN, Dyakin W, O'Shea J, Pell GS, Helpern JA (2003) Quantitative measurements of proton spin-latitice (T1) and spin-spin (T2) relaxation times in the mouse brain at 7.0 T. Magn Reson Med 49:576-580.
11. Guimond A, Meunier J, Thirion JP (2000) Average brain models: a convergence study. Comput Vis Image Understand 77:192-210.
12. Idziak S, Haeberlen U (1982) Design and construction of high homogeneity RF coil for solid-state multiple-pulse NMR. J Magn Reson 50:281-288.
13. Johnson GA, Benveniste H, Black RD, Hedlund LW, Maronpot RR, Smith BR (1993) Histology by magnetic resonance microscopy. Magn Reson Q 9:1-30.
14. Johnson GA, Benveniste H, Engelhardt RT, Qiu H, Hedlund LW (1997) Magnetic resonance microscopy in basic studies of brain structure and function. Ann N Y Acad Sci 820:139-147.
15. Johnson GA, Cofer GP, Fubara B, Gewalt SL, Hedlund LW, Maronpot RR (2002) Magnetic resonance histology for morphologic phenotyping. J Magn Reson Imaging 16:423-429.
16. Kochunov P, Lancaster JL, Thompson P, Woods R, Mazziotta J, Hardies J, Fox P (2001) Regional spatial normalization: towards an optimal target. J Comput Assist Tomogr 25:805-816.
17. Kovacevic N, Lobaugh NJ, Bronskill MJ, Levine B, Feinstein A, Black SE (2002) A robust method for extraction and automatic segmentation of brain images. Neuroimage 17:1087-1100.
18. MacKenzie-Graham A, Jones ES, Shattuck DW, Dinov ID, Bota M, Toga AW (2004) A multimodal, multidimensional atlas of the C57BL/6J mouse brain. J Anat 204:93-102.
19. Nolan PM, Peters J, Strivens M, Rogers D, Hagan J, Spurr N, Gray IC, Vizor L, Brooker D, Whitehill E, et al. (2000) A systematic genome-wide, phenotype-driven mutagenesis programme for gene function studies in the mouse. Nat Genet 25:440-443.
20. Sled JG, Zijdenbos AP, Evans AC (1998) A nonparametric method for automatic correction of intensity nonuniformity in MRI data. IEEE Trans Med Imag 17:87-97.
21. Taguchi M, Chida K (2003) Computer reconstruction of the three-dimensional structure of mouse cerebral ventricles. Brain Res Brain Res Protoc 12:10-15.
22. Thompson PM, Toga AW (2002) A framework for computational anatomy. Comput Vis Sci 5:13-34.
23. Van Essen, DC. (2002) Surface-based atlases of cerebellar cortex in the human, macaque, and mouse. Ann NY Acad Sci 978:468-479.
24. Woods RP, Grafton ST, Coffins JH, Cherry SR, Mazziotta JC (1998a) Automated image registration: I. General methods and intrasubject, intramodality validation. J Comput Assist Tomogr 22:139-152.
25. Woods RP, Grafton ST, Watson JD, Sicotte NL, Mazziotta JC (1998b) Automated image registration: II. Intersubject validation of linear and nonlinear models. J Comput Assist Tomogr 22:153-165.