DocumentCode :
2529371
Title :
Toward automatic annotation of in situ mRNA expression patterns of drosophila embryos
Author :
Zhou, Jie ; Peng, Hanchuan
Author_Institution :
Dept. of Comput. Sci., Northern Illinois Univ., DeKalb, IL, USA
fYear :
2005
fDate :
8-11 Aug. 2005
Firstpage :
353
Abstract :
The in situ mRNA hybridization gene expression pattern images of Drosophila melanogaster in the course of embryogenesis provide spatial-temporal information of the expression patterns of a target gene. This information is critical for understanding the roles of genes during the development of embryos. Currently, the annotation of these images is often done by manually assigning a subset of image ontology terms to the images. This approach is time consuming and depends heavily on the consistency of the experts. Alternatively, if the annotation process can be automated or semi-automated, efficiency and consistency are likely to be greatly enhanced. We formulate this task as a pattern classification problem, and present preliminary results. We consider both the template-based global matching and the multi-objective classification based on neural networks (e.g. multi-layer perceptron). We develop a method to combine them to optimize efficiency and accuracy. This method has been applied to the gene expression pattern image database generated by the Berkeley Drosophila Genome Project.
Keywords :
biological techniques; biology computing; genetics; image classification; macromolecules; multilayer perceptrons; ontologies (artificial intelligence); organic compounds; Berkeley Drosophila Genome Project; Drosophila melanogaster; annotation process; embryogenesis; gene expression image database; image ontology; mRNA expression pattern image; multilayer perceptron; multiobjective classification based neural network; pattern classification; spatial-temporal information; template-based global matching; Embryo; Gene expression; Image databases; Image generation; Multi-layer neural network; Multilayer perceptrons; Neural networks; Ontologies; Optimization methods; Pattern classification;
fLanguage :
English
Publisher :
ieee
Conference_Titel :
Computational Systems Bioinformatics Conference, 2005. Workshops and Poster Abstracts. IEEE
Print_ISBN :
0-7695-2442-7
Type :
conf
DOI :
10.1109/CSBW.2005.134
Filename :
1540643
Link To Document :
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