Figure 3

Differentially expressed apoptosis-related genes in Mk cells. Expression profiles of genes related to apoptosis (per Gene Ontology) that were differentially expressed temporally in Mk cultures and/or between Mk and G cultures. (A – D) Genes were divided into four groups according to their distinct expression patterns based on hierarchical clustering using the Euclidian distance metric. Color denotes degree of differential expression (saturated red = 4-fold up-regulation, saturated green = 4-fold down-regulation, blank = unchanged, gray = no data available). The first block shows expression ratios, averaged across the biological replicates (n = 3), with respect to the average expression from days 1 – 4.; the second block shows average expression profiles as compared to equivalent-day G cells (day 12 Mk vs. day 11 for G cells) (n = 2); and the last block shows expression profiles of G cells as compared to average expression of G cells on days 1–4 (n = 2). The median ratio, along with the maximum (for up-regulated genes) or minimum (for down-regulated genes) ratio of Mk cells on days 5 – 12 (with respect to average expression of days 1–4) is provided (a negative value represents down-regulation). Pro-apoptotic genes names and descriptions are highlighted in red, anti-apoptotic genes are highlighted green and genes with both pro- and anti-apoptosis roles are highlighted blue. Genes with unknown functions in apoptosis are in black.