Genome-wide requirements for resistance to functionally distinct DNA-damaging agents.

"the relative fitness of each strain was then determined by comparing the signal intensity for each strain on the microarray to the corresponding intensities obtained from a series of no-drug control arrays (see materials and methods ; dataset s1 ; protocol s1 ).; the individual growth rates of these strains were measured both in the presence and absence of mechlorethamine by taking optical-density readings of liquid cultures every 15 min for 30 h ( dataset s2 ; protocol s2 ).; genomic dna preparation pcr amplification of molecular tags and microarray hybridization were as described ( datasets s3 and s4 ; protocol s3 ) [ ].; clustering along both experiment and gene axes was performed on the calculated fitness-defect scores (as described above) using average linkage and spearman's rank correlation as a distance metric ( dataset s5 ).; dataset s1 calculated fitness-defect scores for each microarray experiment are presented (7 2 kb xls) click here for additional data file.; dataset s2 each strain has three growth curves corresponding to growth in 1% dmso 31 3 ?; dataset s3 this file contains18 cel files output from affymetrix genechip operating system; these files constitute half of the total microarray dataset (9 2 mb zip) click here for additional data file.; dataset s4 this file contains18 cel files output from affymetrix genechip operating system; these files constitute half of the total microarray dataset (8 5 mb zip) click here for additional data file.; dataset s5 these text files can be opened by clustergram-viewing software to browse the cluster shown in figure 4 a (24 kb txt) click here for additional data file. table s2 (80 kb xls"

"Competing interests. The authors have declared that no competing interests exist."

"We thank Grant Brown for critical comments and advice on the manuscript. WL was supported by the Stanford Genome Training Program. RPS was supported by a postdoctoral fellowship from the Canadian Institutes of Health Research. AA and PF were funded by a grant from the Howard Hughes Medical Institute. This work was supported by a grant from the National Cancer Institute and the National Institute of Biomedical Imaging and Bioengineering."