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UC San Diego researchers use metagene 'portraits' to reveal distinct stages of kidney formation
Date:12/11/2008

s (SOMs).

Essentially acting as unsupervised learning neural networks, SOMs cluster genes with similar temporal expression profiles into metagene portraits. In this case, the SOMs were collected using microarray gene expression data and a high-dimensional data analysis program called Gene Expression Dynamics Inspector, or GEDI. UC San Diego scientists then performed a detailed time-series analysis of the kidney SOMs reflecting various stages of organogenesis. That was followed by entropy calculations for each SOM to measure the differences in states during the various stages, before correlating these results with morphometric parameters and specific gene networks.

Taken together, analysis of the metagene portraits suggested that kidney formation could be divided into as many as eight distinct stages.

"Although there is morphological support for the notion of stages, the beginning and end points of those stages can be difficult to define because many basic morphogenetic processes occur simultaneously," said Tsigelny. "Our research suggests that with the metagene analysis and entropy calculations, global gene expression can be used to more clearly define these stages and allow us to have a fuller understanding about how organs form."


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Contact: Jan Zverina
jzverina@sdsc.edu
858-534-5111
University of California - San Diego
Source:Eurekalert

Page: 1 2

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