Figure 2

Genome wide expression changes in response to telomere uncapping. (a) Schematic representation of microarray time courses. For each of the three separate time course experiments, one CDC13⁺ and one cdc13-1 strain were inoculated into liquid culture and grown to early log phase at 23°C. Samples were taken (T = 0) and strains were transferred to 30°C with further samples taken every 30 minutes from 1 to 4.5 hours thereafter. Samples from 1, 2, 3 and 4 hours after the temperature shift (T = 1 - T = 4) were used for the array experiment and the remaining samples were stored. (b) Bioconductor was used to hierarchically cluster the 647 differentially expressed genes (DEGs) such that genes whose expression patterns are similar across the time course cluster together. Pearson correlation was used as the similarity measure and average linkage as the clustering algorithm. Expression levels are the averages of the three biological replicates of each sample. Each row represents the expression pattern of a single gene. Each column represents expression levels at a single time point. CDC13⁺ strains are on the left and cdc13-1 strains on the right. Gene names are on the right. Genes shown in yellow are up-regulated, genes shown in blue are down-regulated, while those shown in black are unchanged. All expression values are relative to the T = 0 time point in CDC13⁺ strains. Log₂ fold-change values are shown. Maximum induction or repression is 2⁽⁴⁾-fold.