Systematic image-driven analysis of the spatial Drosophila embryonic expression landscape

Frise, Erwin; Hammonds, Ann S.; Celniker, Susan E.

doi:10.1038/msb.2009.102

Title: Systematic image-driven analysis of the spatial Drosophila embryonic expression landscape

Journal Article · 01 January 2010 · Molecular Systems Biology

DOI: https://doi.org/10.1038/msb.2009.102 · OSTI ID:1623791

Frise, Erwin ^[1]; Hammonds, Ann S. ^[2]; Celniker, Susan E. ^[2]

Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). Berkeley Drosophila Genome Project. Dept. of Genome Dynamics; DOE/OSTI
Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). Berkeley Drosophila Genome Project. Dept. of Genome Dynamics

Discovery of temporal and spatial patterns of gene expression is essential for understanding the regulatory networks and development in multicellular organisms. We analyzed the images from our large-scale spatial expression data set of early Drosophila embryonic development and present a comprehensive computational image analysis of the expression landscape. For this study, we created an innovative virtual representation of embryonic expression patterns using an elliptically shaped mesh grid that allows us to make quantitative comparisons of gene expression using a common frame of reference. Demonstrating the power of our approach, we used gene co-expression to identify distinct expression domains in the early embryo; the result is surprisingly similar to the fate map determined using laser ablation. We also used a clustering strategy to find genes with similar patterns and developed new analysis tools to detect variation within consensus patterns, adjacent non-overlapping patterns, and anti-correlated patterns. Of the 1800 genes investigated, only half had previously assigned functions. The known genes suggest developmental roles for the clusters, and identification of related patterns predicts requirements for co-occurring biological functions.

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Research Organization:: Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)

Sponsoring Organization:: USDOE Office of Science (SC), Biological and Environmental Research (BER). Biological Systems Science Division

Grant/Contract Number:: AC02-05CH11231

OSTI ID:: 1623791

Journal Information:: Molecular Systems Biology, Journal Name: Molecular Systems Biology Journal Issue: 1 Vol. 6; ISSN 1744-4292

Publisher:: WileyCopyright Statement

Country of Publication:: United States

Language:: English

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