(a) Correlation between gene expression values (log2 RPKM) for the AML and remission sample for robustly detected genes (⩾20 unique reads in each sample): The Spearman Rank correlation coefficient between the two samples was 0.82. (b) Work flow overview for the mutation detection. AML SNVs were stringently quality filtered to a set of high confidence, non-synonymous SNVs (n=612). This set was then compared with the unfiltered remission results at these positions to exclude positions with evidence for the same SNV in the remission sample. The alignments of candidate SNVs (31 SNVs) were manually inspected, yielding the final candidate list (11 SNVs). Finally, five heterozygous point mutations could be confirmed by capillary sequencing.