Comparison of HCC transcript profiles of <i>Iqgap2^−/−</i> mouse model and human HCC.

Abstract

<p>Cross-species clustering profiles were obtained using comparative functional genomics approach. The clustering dendrogram was generated based on 1 - Pearson correlation and an average distance linkage. The data scale was also confined to a range of −3 to 3 for a more comparable heat map. Hierarchical clustering analysis was performed on 151 ortholog genes shared between 24-month-old wild-type and the age-matched <i>Iqgap2^−/−</i> mice (N = 3 in each group, see <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0071826#pone-0071826-g003" target="_blank"><b>Figure 3</b></a> legend), and the human GSE6222 integrated microarray data set. This data set included four T1 HCC tumors (early stage HCC), six T3 HCC tumors (advanced HCC), and 2 normal liver controls. Mouse and human tumor-free samples have blue font labels; human T1 HCC samples have red font labels; and <i>Iqgap2^−/−</i> HCC and human T3 HCC samples have maroon font labels. All three <i>Iqgap2^−/−</i> HCC samples (KO.4 through KO.6) co-clustered with four out of six human T3 HCC samples. Genes differentially expressed between mouse and human livers are enclosed in a box at the top of the heat diagram.</p