Copy number aberrations and chromosome deletions were based on available TCGA Acute Myeloid Leukemia data8 . Raw data was downloaded from TCGA Data Portal. Cancer genome datasets and bioinformatics tools for visualizing different parameters for analysis of genomic data are accessible through MSKCC cBioPortal (www.cbioportal.org ). Copy number states (homozygous deletion, hemizygous deletion, gain, and amplification) were determined from Affymetrix SNP 6.0 platform by the copy number analysis algorithms GISTIC (PMID:21527027) and RAE (PMID: 18784837).
Human AML samples were obtained from the University of Chicago. SNP array based copy number analyses of 35 samples are from published results9 , and data analysis and expression level estimates were performed as described9 . Gene set enrichment analysis was performed using the GSEA method GSEA v2.1.0 (Gene set enrichment analysis—Broad Insititute) (PMID: 16199517). Multiple testing adjusted p-value (FDR.q.val) less than 0.05 were considered statistically significant.
Human AML samples were obtained from the University of Chicago. SNP array based copy number analyses of 35 samples are from published results9 , and data analysis and expression level estimates were performed as described9 . Gene set enrichment analysis was performed using the GSEA method GSEA v2.1.0 (Gene set enrichment analysis—Broad Insititute) (PMID: 16199517). Multiple testing adjusted p-value (FDR.q.val) less than 0.05 were considered statistically significant.