A multimodal, multidimensional atlas of the C57BL/6J mouse brain

Journal of Anatomy

Volumn 204, Issue 2, 2004, Pages 93-102

  MacKenzie Graham, Allan ^a   Lee, Erh Fang ^a   Dinov, Ivo D ^a   Bota, Mihail ^b   Shattuck, David W ^a   Ruffins, Seth ^c   Yuan, Heng ^a   Konstantinidis, Fotios ^a   Pitiot, Alain ^a,d   Ding, Yi ^a   Hu, Guogang ^a   Jacobs, Russell E ^c   Toga, Arthur W ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

^b UNIVERSITY OF SOUTHERN CALIFORNIA   (United States)

^c CALIFORNIA INSTITUTE OF TECHNOLOGY   (United States)

^d INRIA   (France)

Author keywords

Brain atlas; C57BL 6J map; HRI; Infomatics; Mouse database

Indexed keywords

ANIMAL MODEL; ARTICLE; BRAIN; BREEDING; DATA BASE; DIAGNOSTIC IMAGING; GENOTYPE; HISTOLOGY; IMMUNOHISTOCHEMISTRY; INFORMATION RETRIEVAL; INTERNET; MALE; MAMMAL; MOUSE; MOUSE STRAIN; MUTATION; NONHUMAN; NUCLEAR MAGNETIC RESONANCE; PHENOTYPE; PRIORITY JOURNAL; PUBLICATION; STANDARD;

ANATOMY, ARTISTIC; ANIMALS; BRAIN; IMAGE PROCESSING, COMPUTER-ASSISTED; IMMUNOHISTOCHEMISTRY; MAGNETIC RESONANCE IMAGING; MALE; MEDICAL ILLUSTRATION; MICE; MICE, INBRED C57BL;

ANIMALIA; INSERTION SEQUENCES; MAMMALIA;

EID: 10744223881     PISSN: 00218782     EISSN: None     Source Type: Journal    
DOI: 10.1111/j.1469-7580.2004.00264.x     Document Type: Article

References (44)

1. Adelman L, Riedel SL (1997) Handbook for Evaluating Knowledge-Based Systems. Conceptual Frameworks and Compendium of Methods. Boston: Kluwer Academic Publishers.
2. Ahrens ET, Laidlaw DH, Readhead C, Brosnan CF, Fraser SE, Jacobs RE (1998) MR microscopy of transgenic mice that spontaneously acquire experimental allergic encephalomyelitis. Magnetic Resonance Med. 40, 119-132.
3. Bard JL, Kaufman MH, Dubreuil C, Brune RM, Burger A, Baldock RA, et al. (1998) An internet-accessible database of mouse developmental anatomy based on a systematic nomenclature. Mech. Dev. 74, 111-120.
4. Benveniste H, Qui H, Hedlund LW, D'Ercole F, Johnson GA (1998) Spinal cord neural anatomy in rats examined by in vivo magnetic resonance microscopy. Regional Anesthesia Pain Med. 23, 589-599.
5. Benveniste H, Kim K, Zhang L, Johnson GA (2000) Magnetic resonance microscopy of the C57BL mouse brain. Neuroimage 11, 601-611.
6. Bota M, Arbib MA (2000) The NeuroHomology Database. In Computing the Brain: a Guide to Neuroinformatics (eds Arbib MA, Grethe J), pp. 337-351. San Diego: Academic Press.
7. Bota M, Arbib MA (2002) The NeuroHomology Database: an online-KMS for handling and evaluation of the neurobiological information. In A Practical Guide to Neuroscience Databases and Associated Tools (ed. Kotter R), pp. 203-220. Boston: Kluwer Academic Publishers.
8. Bota M, Dong HW, Swanson LW (2003) From gene networks to brain networks. Nat. Neurosci. 6, 795-799.
9. Bowden DM, Martin RF (1995) NeuroNames Brain Hierarchy. Neuroimage 2, 63-83.
10. Cannestra AF, Santori EM, Holmes CJ, Toga AW (1997) A three-dimensional multimodality brain map of the nemestrina monkey. Brain Res. Bull. 43, 141-148.
11. Colby CL, Gattass R, Olson CR, Gross CG (1988) Topographical organization of cortical afferents to extrastriate visual area PO in the macaque: a dual tracer study. J. Comp. Neurol. 269, 392-413.
12. Dhenain M, Ruffins SW, Jacobs RE (2001) Three-dimensional digital mouse atlas using high-resolution MRI. Dev. Biol. 232, 458-470.
13. Farrar TC, Becker ED (1971) Pulse and Fourier Transform NMR. New York: Academic Press.
14. Franklin KBJ, Paxinos G (1997) The Mouse Brain in Stereotaxic Coordinates. San Diego: Academic Press.
15. Fukushima E, Roeder SBW (1981) Experimental Pulse NMR. Reading, MA: Addison-Wesley.
16. Gallyas F (1979) Silver staining of myelin by means of physical development. Neurol. Res. 1, 203-209.
17. Ghosh P, O'Dell M, Narasimhan PT, Fraser SE, Jacobs RE (1994) Mouse lemur microscopic MRI brain atlas. Neuroimage 1, 345-349.
18. Gibaud B, Garlatti S, Barillot C, Faure E (1998) Computerized brain atlases as decision support systems: a methodological approach. Artificial Intelligence Med. V14, 83-100.
19. Hof PR, Young WG, Bloom FE, Belichenko PV, Celia MR (2000) Comparative Cytoarchitectonic Atlas of the C57BL6 and 129 Sv Mouse Brains. New York: Elsevier.
20. International Anatomical Nomenclature Committee and International Congress of Anatomists (1983) Nomina Anatomica: approved by the Eleventh International Congress of Anatomists at Mexico City, 1980: together with Nomina Histologica, 2nd edn and Nomina Embryologica, 2nd edn. Baltimore, MD: Williams & Wilkins.
21. Jacobs RE, Ahrens ET, Dickinson ME, Laidlaw D (1999) Towards a microMRI atlas of mouse development. Computerized Med. Imaging Graphics 23, 15-24.
22. Kaufman MH (1992) The Atlas of Mouse Development. London: Academic Press.
23. Mazziotta JC, Toga AW, Evans A, Fox P, Lancaster J (1995) A probabilistic atlas of the human brain: theory and rationale for its development. The International Consortium for Brain Mapping (ICBM). Neuroimage 2, 89-101.
24. Ourselin S, Roche A, Subsol G, Pennec X, Ayache N (2001) Reconstructing a 3D structure from serial histological sections. Image Vision Computing 19, 25-31.
25. Paxinos G, Franklin KBJ (2001) The Mouse Brain in Stereotaxic Coordinates, 2nd edn. San Diego: Academic Press.
26. Rex DE, Ma JQ, Toga AW (2003) The LONI Pipeline Processing Environment. Neuroimage 19, 1033-1048.
27. Riedel A, Hartig W, Seeger G, Gartner U, Brauer K, Arendt T (2002) Principles of rat subcortical forebrain organization: a study using histological techniques and multiple fluorescence labeling. J. Chem. Neuroanat. 23, 75-104.
28. Ringwald M, Baldock R, Bard J, Kaufman M, Eppig JT, Richardson JE, et al. (1994) A database for mouse development. Science 265, 2033-2034.
29. Rosen GD, Williams AG, Capra JA, Connolly MT, Cruz B, Lu L, et al. (2000) The Mouse Brain Library. http://www.mbl.org.
30. Shattuck DW, Leahy RM (2002) BrainSuite: an automated cortical surface identification tool. Med. Image Anal. 6, 129-142.
31. Simmons DM, Swanson LW (1993) The Nissl stain. In Neuroscience Protocols (ed. Wouterlood FG), pp. 93-050-12-01-93-050-12-07. Amsterdam, New York: Elsevier.
32. Smith BR, Johnson GA, Groman EV, Linney E (1994) Magnetic resonance microscopy of mouse embryos. Proc. Natl Acad. Sci. USA 91, 3530-3533.
33. Swanson LW (1992) Brain Maps: Structure of the Rat Brain. Amsterdam: Elsevier.
34. Swanson LW (1998) Brain Maps: Structure of the Rat Brain: a Laboratory Guide with Printed and Electronic Templates for Data, Models, and Schematics, 2nd rev. edn. Amsterdam: Elsevier.
35. Swanson LW (2000) What is the brain? Trends Neurosci. V23, 519-527.
36. Swanson LW (2001) Interactive brain maps and atlases. In Computing the Brain: a Guide to Neuroinformatics (eds Arbib MA, Grethe JS), pp. 167-177. San Diego: Academic Press.
37. Thompson PM, Toga AW (1997) Detection, visualization and animation of abnormal anatomic structure with a deformable probabilistic brain atlas based on random vector field transformations. Med. Image Anal. 1, 271-294.
38. Toga AW, Santori EM, Hazani R, Ambach K (1995) A 3D digital map of rat brain. Brain Res. Bull. 38, 77-85.
39. Toga AW, Goldkorn A, Ambach K, Chao K, Quinn BC, Yao P (1997) Postmortem cryosectioning as an anatomic reference for human brain mapping. Computerized Med. Imaging Graphics 21, 131-141.
40. Toga AW, Thompson PM (1998) Multimodal brain atlases. In Advances in Biomedical Image Databases (ed. Wong S), pp. 53-88. Dordrecht, The Netherlands: Kluwer Academic Press.
41. Vacca LL (1985) Laboratory Manual of Histochemistry, 1st edn. New York: Raven Press.
42. Van Essen DC, Drury HA, Joshi S, Miller MI (1998) Functional and structural mapping of human cerebral cortex: solutions are in the surfaces. Proc. Natl Acad. Sci. USA 95, 788-795.
43. Woods RP, Grafton ST, Holmes CJ, Cherry SR, Mazziotta JC (1998a) Automated image registration. I. General methods and intrasubject, intramodality validation. J. Computer Assisted Tomogr. 22, 139-152.
44. Woods RP, Grafton ST, Watson JDG, Sicotte NL, Mazziotta JC (1998b) Automated image registration. II. Intersubject validation of linear and nonlinear models. J. Computer Assisted Tomogr. 22, 153-165.