A new module for on-line manipulation and display of molecular information in the brain architecture management system

Neuroinformatics

Volumn 4, Issue 4, 2006, Pages 275-298

  Bota, Mihail ^a   Swanson, Larry W ^a  

^a UNIVERSITY OF SOUTHERN CALIFORNIA   (United States)

Author keywords

Chemoarchitecture; Coexpression; Database; Immunohistochemistry; In situ hybridization; Inference engine; Molecular neuroanatomy; Molecules

Indexed keywords

ARTICLE; BRAIN; BRAIN ARCHITECTURE MANAGEMENT SYSTEM; CELL TYPE; CENTRAL NERVOUS SYSTEM; DATA ANALYSIS; DATA ANALYSIS SOFTWARE; DATA BASE; DATA EXTRACTION; DATA SYNTHESIS; EVALUATION; GENE EXPRESSION; IMMUNOHISTOCHEMISTRY; IN SITU HYBRIDIZATION; INFORMATION DISSEMINATION; INFORMATION RETRIEVAL; INFORMATION SERVICE; KNOWLEDGE BASE; KNOWLEDGE MANAGEMENT; NERVE FIBER; NEUROANATOMY; NEUROIMAGING; ONLINE SYSTEM; PRIORITY JOURNAL; PROTEIN EXPRESSION; STRUCTURE ANALYSIS; TIME;

ANIMALS; BRAIN; DATABASES, FACTUAL; GENE EXPRESSION; HUMANS; INTERNET;

EID: 33845466582     PISSN: 15392791     EISSN: None     Source Type: Journal    
DOI: 10.1385/NI:4:4:275     Document Type: Article

References (24)

1. Bota, M., Dong, H. W., and Swanson, L.W. (2003) From gene networks to brain networks. Nature Neurosci. 6, 795-799.
2. Bota, M., Dong, H. W., and Swanson, L.W. (2005) The Brain Architecture Management System. Neuroinformatics 3, 15-48.
3. Bota, M. and Arbib, M. A. (2004) Integrating Databases and Expert Systems for the Analysis of Brain Structures: Connections, Similarities and Homologies. Neuroinformatics 2, 19-58.
4. Bowden, D. M. and Martin, R. F. (1997) A digital Rosetta stone for primate brain terminology. In: Bloom, F. E., Bjorklund, A., and Hokfelt, T. (eds.) Handbook of Chemical Neuroanatomy vol. 13: The Primate Nervous System, part I, Academic Press, San Diego, pp. 1-37.
5. Bowden, D. M. and Dubach, F. M. (2003) NeuroNames 2002. Neuroinformatics 2, 63-83.
6. Burry, R. W. (2000) Specificity controls for immunocytochemical methods. J. Histochem. Cytochem. 48, 163-165.
7. Burns, G. A. P. C. (2001) Knowledge mechanics and the NeuroScholar project: a new approach to neuroscientific theory. In: Arbib, M. A. and Grethe, J. (eds.) Computing the Brain: A Guide to Neuroinformatics, Academic Press, San Diego, pp. 319-336.
8. Burt, D. R. (1985) Criteria for receptor identification. In: Yamamura, et al. (eds.) Neurotransmitter receptor binding, 2nd ed., Raven Press, New York, pp. 41-60.
9. Kötter, R. (2004) Online retrieval, processing, and visualization of primate connectivity data from the CoCoMac Database. Neuroinformatics 2, 127-144.
10. Kuhar, M. J. (1985) Receptor localization with the microscope, in Yamamura et al. (eds.) Neurotransmitter receptor binding, 2nd ed., Raven Press, New York, pp. 41-60.
11. Kuhar, M. J., De Souza, E. B., and Unnerstall, J. R. (1986) Neurotransmitter receptor mapping by autoradiography and other methods. Annu. Rev. Neurosci. 9, 27-59.
12. Marenco, L., Nadkarni, P., Skoufos, E., Shepherd, G., and Miller, P. (1999) Neuronal database integration, the Senselab EAV data model, Proceedings of AMIA Symposium, pp. 102-106.
13. MacKenzie-Graham, A., Lee, E. F., Dinov, I. D., et al. (2004) A multimodal, multidimensional atlas of the C57BL/6J mouse brain. J. Anat. 204, 93-102.
14. MacKenzie-Graham, A., Jones, E. S., Shattuck, D. W., Dinov, I. D., Bota, M., and Toga, A. W. (2003) The informatics of a C57BL/6J mouse brain atlas. Neuroinformatics 1, 397-410.
15. Saper, C. B. (2005) An open letter to our readers on the use of antibodies. J. Comp. Neurol. 493, 477-478.
16. Saper, C. B. and Sawchenko, P. E. (2003) Magic peptides, magic antibodies: guidelines for appropriate controls for immunohistochemistry. J. Comp. Neurol. 465, 161-163.
17. Stephan, K. E., Kamper, L., Bozkurt, A., Burns, G. A. P. C., Young, M. P., and Kötter, R. (2001) Advanced database methodology for the Collation of Connectivity data on the Macaque brain (CoCoMac). Philos. Trans. R. Soc. London B. Biol. Sci. 1159-1186.
18. Swanson, L. W. (1998) Brain Maps: Structure of the Rat Brain. Second Edition. Elsevier, San Diego.
19. Swanson, L. W. (2000a) What is the brain? Trends Neurosci. 23, 519-527.
20. Swanson, L. W. (2000b) Ahistory of neuroanatomical mapping. In: Brain Mapping: The Applications, Toga A. W. and Mazziotta J. C. (eds.) Academic Press, San Diego, pp. 77-109.
21. Swanson, L. W. and Simmons D. M. (1989) Differential steroid hormone and neural influences on peptide mRNA levels in CRH cells of the paraventricular nucleus: a hybridization histochemical study in the rat. J. Comp. Neurol. 285, 413-435.
22. Wada, E., Wada, K., Boulter, J., et al. (1989) Distribution of alpha 2, alpha 3, alpha 4, and beta 2 neuronal nicotinic receptor subunit mRNAs in the central nervous system: a hybridization histochemical study in the rat. J. Comp. Neurol. 284, 314-335.
23. Watts, A. G. and Sanchez-Watts, G. (2002) Interactions between heterotypic stressors and corticosterone reveal integrative mechanisms for controlling corticotropin-releasing hormone gene expression in the rat paraventricular nucleus. J. Neurosci. 22, 6282-6289.
24. Watts, A. G. and Swanson, L. W. (1989) Combination of in situ hybridization with histochemistry and retrograde tract-tracing. Methods in neurosciences, vol. I, Academic Press, San Diego, pp. 127-136.