Fig. 2

MM134 and SUM44 long-term estrogen deprivation (LTED) cells show different top enriched pathways. (a, b) Heatmaps (a) and principal component analysis (PCA) plots (b) of the top 1000 most variable genes. The top 1000 most variable genes were selected using interquartile range (IQR) in MM134 or SUM44 cells independently. The clustering of genes in heatmaps was based on complete-linkage, Euclidean distance hierarchical clustering. c Top 10 upregulated pathways in MM134 or SUM44 LTED cells. Ranked by –log10(P value). –log10(0.05) is marked with a red line. Cholesterol- and fatty acid-related pathways are labeled in bold. Pathway analyses were performed with Ingenuity Pathway Analysis (IPA) with the commonly upregulated differential expression (DE) genes in at least three MM134 LTED variants (n = 1653) or in the two SUM44 LTED variants (n = 1448). P values were corrected with the Benjamini-Hochberg method