Correlation-maximizing surrogate gene space for visual mining of gene expression patterns in developing barley endosperm tissue

Background: Micro- and macroarray technologies help acquire thousands of gene expression patterns covering important biological processes during plant ontogeny. Particularly, faithful visualization methods are beneficial for revealing interesting gene expression patterns and functional relationships of coexpressed genes. Such screening helps to gain deeper insights into regulatory behavior and cellular responses, as will be discussed for expression data of developing barley endosperm tissue. For that purpose, high-throughput multidimensional scaling (HiT-MDS), a recent method for similarity-preserving data embedding, is substantially refined and used for (a) assessing the quality and reliability of centroid gene expression patterns, and for (b) derivation of functional relationships of coexpressed genes of endosperm tissue during barley grain development (0–26 days after flowering). Results: Temporal expression profiles of 4824 genes at 14 time points are faithfully embedded into tw...

• Type: Journal
• Year: 2007
• Where: BMCBI
• Authors: Marc Strickert, Nese Sreenivasulu, Björn Usadel, Udo Seiffert
• Keywords: BMCBI 2007, Endosperm, Functional Relationships, Gene Expression Patterns