Figure 1c: All 51 down-regulated genes in progressive fibrotic (P-F) disease compared with N-SL by fold change

Table 2. List of transcripts differentially expressed between Epiblast Stem Cell lines belonging to the abnormal and the FT-like cluster (adjusted p value <.05; fold change greater than or equal to 2)

Table S1a. Top 400 multilineage dysplasia (MLD) Gene list; 40 cases were NPM1 mutated  8 cases were NPM1 wildtype  respectively; the resulting signature of the top 400 differentially expressed probe sets clearly separated these 2 AML subgroups  indicating they are biologically distinct.

Table S1b. Top 400 NPM1 Gene list; 40 cases were NPM1 mutated  8 cases were NPM1 wildtype  respectively; the resulting signature of the top 400 differentially expressed probe sets clearly separated these 2 AML subgroups  indicating they are biologically distinct.

SuppTable1. Gene expression ratios comparing SCO and SPG subtypes for selected genes obtained by microarray technology (MA) and quantitative real-time PCR (qPCR)

SuppTable2. Differential genes after Bayesian t-test and Benjamini-Hochberg multiple testing correction

Supplementary Table 1. Affimetrix chips data were analysed with the Robust Multi-array Analysis of the Partek Genomics Suite (http://www.partek.com/partekgs). The table shows the genes with a fold change of at least 1.5 and the P value not above 0.05 and it has been sorted according to the fold change. It is worth to note that the analysis performed with the Partek Genomics Suite shows almost the same genes identified with the GenePicker and GeneSpring programs.

Table 1. Microarray results. The Affimetrix chips were analyzed by both software programs: GeneSpring and GenePicker. The genes indicated by both software programs as differentially expressed in GT1.7c.31 cells versus GT1-7 cl.11 cells were selected. All the genes were modulated at least 1.5-fold with a p-value less of 0.01. We show the first 18 genes up-regulated and 11 genes with the highest inhibition

Table S4. 180 genes prioritized as markers of cell line response to AZD6244 following complementary statistical and biological filtering.