Supplementary material for this article can be found on the H EPATOLOGY website ( ).

jws-hep.20910.fig1.tif5232KUnsupervised hierarchical clustering of 15,866 genes in liver distinguishes between choline sufficient (CS) and choline deficient (CD) treated rats. Hierarchical clustering analysis was conducted on control choline sufficient (CS) or choline deficient (CD) liver samples collected between 4 and 80 weeks. Tumor (T) samples were collected at 80 weeks from CD-treated rats. The dendrogram shows that the samples clustered into two groups according to treatment. The color of each gene is proportional to the mean expression level (in log 2units, see color bar) of the gene across the entire set of samples (red - median, black - no change, and green - below median value).
jws-hep.20910.fig2.tif2733KKEGG-annotated pathways that are significantly enriched in CD rats. Two significant gene lists were generated using intrinsic gene identifier (white bar) or SAM (grey bar) and the number of genes (as identified by each procedure) for a given KEGG pathway is shown in comparison to a total number of genes in that representative pathway (black bar).
jws-hep.20910.tbl1.doc707KSupporting Information file jws-hep.20910.tbl1.doc
jws-hep.20910.tbl2.doc536KSupporting Information file jws-hep.20910.tbl2.doc
jws-hep.20910.tbl3.doc456KSupporting Information file jws-hep.20910.tbl3.doc

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