File S1 - Gene Expression Profiling Identifies Microphthalmia-Associated Transcription Factor (MITF) and Dickkopf-1 (DKK1) as Regulators of Microenvironment-Driven Alterations in Melanoma Phenotype

Supporting tables. Table S1, Primer sequences, forward (F) and reverse(R) used in the qRT-PCR study. Table S2, Genes up-regulated in melanospheres. Table S3, Genes up-regulated in monolayers. Table S4, A: The roles of Wnt pathway-related components linked to this pathway in GSEA. The average fold change (FC) based on the microarray results for 3 patient-derived melanoma samples was determined for the gene expression in cells grown as monolayers in comparison with melanospheres. B: The roles of Wnt pathway-related components linked to this pathway based on literature search. The average fold change (FC) index bases on the microarray results for 3 patient-derived melanoma samples and was determined for the gene expression in monolayers in comparison with melanospheres. Table S5, MITF target genes were strongly up-regulated in melanospheres. Table S6, Melan-A/MART-1 and gp100 were expressed in melanospheres at higher percentages of cells than in monolayers. The frequencies of Melan A/MART-1- and gp100-positive melanoma cells were assessed by flow cytometry in freshly dissociated melanospheres cultured in SCM and in monolayers maintained in the presence of 10% FBS. (PDF)