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This article includes Supplementary material available at http://www.interscience.wiley.com/jpages/0270-9139/suppmat

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jws-hep.20878.fig1.tif298K. Comparison of expression profiling of nontumorigenic tissues, dysplastic nodules, and HCCs. Hundred outlier genes for each grade (LGDN, HGDN, G1-3 HCCs) were selected by combination of OVA T-test and ANOVA (see Materials and Methods), and the corresponding outliers were also selected from nontumorigenic tissues with cirrhosis (designated as "NL"), then combined and analyze the expression pattern of all outlier genes. The heat-map of hierarchical clustering analysis (a) and its dendrogram (b) show that NL arrays located very close together with dysplastic nodule cluster, and formed subscluter within dysplastic nodule cluster, suggesting molecular nature of dysplastic nodule is more like NL, but may have distinct signature with dysplastic nodule.
jws-hep.20878.tbl1-.doc236K Supplementary Table 1.Clinical data and diagnostic details on experimental samples. Supplementary Table 2.The list of 120 early stage genes for discriminating among early-stage samples * Any probes selected twice in a classification problem are marked with an asterisk. Supplementary Table 3.The list of 120 late stage genes for discriminating among late-stage samples * Any probes selected twice in a classification problem are marked with an asterisk.

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