RT Journal
A1 Lee, Homin K.
A1 Hsu, Amy K.
A1 Sajdak, Jon
A1 Qin, Jie
A1 Pavlidis, Paul
T1 Coexpression Analysis of Human Genes Across Many Microarray Data Sets
JF Genome Research 
JO Genome Research 
YR 2004 
FD June 01 
VO 14 
IS 6 
SP 1085 
OP 1094 
DO 10.1101/gr.1910904 
UL http://genome.cshlp.org/content/14/6/1085.abstract 
AB We present a large-scale analysis of mRNA coexpression based on 60 large human data sets containing a total of 3924 microarrays. We sought pairs of genes that were reliably coexpressed (based on the correlation of their expression profiles) in multiple data sets, establishing a high-confidence network of 8805 genes connected by 220,649 “coexpression links” that are observed in at least three data sets. Confirmed positive correlations between genes were much more common than confirmed negative correlations. We show that confirmation of coexpression in multiple data sets is correlated with functional relatedness, and show how cluster analysis of the network can reveal functionally coherent groups of genes. Our findings demonstrate how the large body of accumulated microarray data can be exploited to increase the reliability of inferences about gene function.