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Brain Res Rev. 2007 Nov;56(1):79-88. Epub 2007 May 26.

The neuron classification problem.

Author information

1
Department of Biological Sciences, University of Southern California, 3641 Watt Way, Los Angeles, CA 90089-2520, USA.

Abstract

A systematic account of neuron cell types is a basic prerequisite for determining the vertebrate nervous system global wiring diagram. With comprehensive lineage and phylogenetic information unavailable, a general ontology based on structure-function taxonomy is proposed and implemented in a knowledge management system, and a prototype analysis of select regions (including retina, cerebellum, and hypothalamus) presented. The supporting Brain Architecture Knowledge Management System (BAMS) Neuron ontology is online and its user interface allows queries about terms and their definitions, classification criteria based on the original literature and "Petilla Convention" guidelines, hierarchies, and relations-with annotations documenting each ontology entry. Combined with three BAMS modules for neural regions, connections between regions and neuron types, and molecules, the Neuron ontology provides a general framework for physical descriptions and computational modeling of neural systems. The knowledge management system interacts with other web resources, is accessible in both XML and RDF/OWL, is extendible to the whole body, and awaits large-scale data population requiring community participation for timely implementation.

PMID:
17582506
PMCID:
PMC2150566
DOI:
10.1016/j.brainresrev.2007.05.005
[Indexed for MEDLINE]
Free PMC Article

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