Figure 1

Heat map showing cluster analysis of the microarray experiments used in the cattle-specific response to three different pathogens ( E. coli , S. aureus , and S. uberis ). The x-axis shows the time points {from 1 to 11} of each different cattle experiment (1A, 1B, 1C, 2, and 3; Table 2), while the y-axis displays the clustered genes. The map itself contains gene fold changes Z-score normalized over all time points. They are color coded, with red corresponding to down-regulation and green to up-regulation. White lines in experiment 3 represent missing genes not present on the microarray. The first clustering step is primarily based on experiment number (Tables 1 and 2) (experiment 1A {1-3} clustered together, 1B {4-5} clustered together, 1C {7-8} clustered together along with the 1B time point {6}, and 3 {10-11} clustered together). The final clustering steps indicated a pathogen-specific pattern as all S. aureus time points (along with the S. uberis time point {9}) clustered together, separately from the E. coli time points.