Figure 1

Dex- and LPS-regulated genes in BMMФ form distinct clusters depending on specific patterns of expression. ANOVA-filtered RNA-seq expression values (RPKM) were Z score-transformed and subjected to k-mean clustering. For each cluster, the upper left panel shows the cluster average Z score-transformed log2 RPKM for each treatment condition where the central square represents standardized cluster mean, the rectangle is the mean +/- standard deviation (SD) and the whiskers are a 95% confidence interval; the upper right panel shows log-transformed raw cluster mean expression values. Symbols representing treatment conditions are black - untreated (U), blue - Dex-treated (D), pink - LPS-treated (L) and purple - co-treated (DL) cells. The expression of two representative genes per cluster were determined by RT-qPCR with gene-specific primers and shown at the bottom. The statistical significance of differences (Mann–Whitney test) is indicated by asterisks as following: * - p < 0.05, ** - p < 0.01, *** - p < 0.001 and ns is non-significant.