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Matching Spatial Regions with Combinations of Interacting Gene Expression Patterns

TitleMatching Spatial Regions with Combinations of Interacting Gene Expression Patterns
Publication TypeConference Paper
Year of Publication2008
Authorsvan Hemert, JI, Baldock, RA
Conference NameCommunications in Computer and Information Science
PublisherSpringer Verlag
EditorElloumi, M, \emph,, et al,
Keywordsbiomedical; data mining; DGEMap; e-Science
Abstract

The Edinburgh Mouse Atlas aims to capture in-situ gene expression patterns in a common spatial framework. In this study, we construct a grammar to define spatial regions by combinations of these patterns. Combinations are formed by applying operators to curated gene expression patterns from the atlas, thereby resembling gene interactions in a spatial context. The space of combinations is searched using an evolutionary algorithm with the objective of finding the best match to a given target pattern. We evaluate the method by testing its robustness and the statistical significance of the results it finds.

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