Objective：To study the differentially expressed genes associated with lipid metabolism in adipose tissues of patients with insulin resistant （IR） type 2 diabetes mellitus（T2DM）, in an effort to explore the mechanism of IR. Methods： mRNA from the omental adipose tissues of T2DM patients （n=5） and normal controls （n=5） were reversely transcribed into cDNAs with the incorporation of fluorescent dUTP （cy-5 or cy-3） to prepare hybridization probes. The mixed probes were hybridized with a cDNA microarray containing the target genes. The results were scanned and subjected to computer analysis to search for the difference between the gene spectrum of T2DM patients and normal controls. The differentially expressed gene, FOXC2, was verified by Northern blot. Results： Eighty-two differentially expressed genes were identified between these 2 groups, with 10 associated with lipid metabolism, including 5 upregulated ones and 5 downregulated ones. Northern blotting confirmed that the expression of FOXC2 mRNA was increased in IR group, which was in accordance with the result of cDNA microarray analysis. Conclusion： The pathogenesis of IR is related with lipid metabolism and the FOXC2 gene may be a candidate gene of IR