Genome-wide differences in hepatitis C- vs alcoholism-associated hepatocellular carcinoma

Figure 2 Etiology-dependent clustering of patients with (tumor/cirrhosis) ratios. A: Selection of transcripts with a significantly abnormal ratio of abundance in (tumor/paired cirrhosis). Black + red dots: 2730 transcripts with an abnormal ratio in at least 1/22 patients. Red dots: 23 informative transcripts (29 probes) with a significantly increased ratio in alcoholic vs HCV patients as selected by SAM with an FDR < 1%; B: UHC of 22 HCC patients with the above 23 transcripts. Note that the misclassification of two samples (A18, V15) was further evaluated by a jacknife procedure (1000 iterations) which supported cluster assignment to a variable extent (A18, < 50%; V15, 100%). Note that several transcripts were each detected with 2 or more different cDNA probes. Bottom scale bar: decreased (green), increased (red) or identical ratio (black). Gray squares are missing values. All data given on a log₂ scale.