Supplementary Material for Borneman, et al. Science 2007

Borneman et al. Divergence of Transcription Factor Binding Sites across Related Yeast Species. Science 317, 815-819 (2007)

Materials and Methods

Perspectives in Science

Kruglyak L and Stern DL. An Embarrassment of Switches. Science 317, 758-759 (2007).

Comparison between Replicate Experiments

Supplemental Table 1. Comparison of Ste12 binding sites between replicate experiments

Supplemental Table 2. Comparison of Tec1 binding sites between replicate experiments

Binding Targets

Supplemental Table 3. Binding targets of Ste12 in S. mikatae

Supplemental Table 4. Binding targets of Tec1 in S. mikatae

Supplemental Table 5. Binding targets of Ste12 in S. bayanus

Supplemental Table 6. Binding targets of Tec1 in S. bayanus

Supplemental Table 12. Binding targets of Cph1 in C. albicans

Complete summary of regions bound in Saccharomyces sensu stricto species

Supplemental Table 7. Regions bound by Tec1 in the Saccharomyces sensu stricto species

Supplemental Table 8. Regions bound by Ste12 in the Saccharomyces sensu stricto species

Quantitative Differences in Binding Strength between Species

Supplemental Table 9. Ste12 targets with quantitative differences in binding strength between species

Supplemental Table 10. Tec1 targets with quantitative differences in binding strength between species

Miscellaneous

Supplemental Table 11. Genes bound by Tec1 and Ste12 and which change expression under pseudohyphal growth

Supplemental Table 13. qPCR Confirmation of chIP chip and HDO arrays

Supplemental Table 14. Sequence Independent array analysis

Supplementary Figures

Supplemental Figure S1. Tiling array design

Supplemental Figure S2. Measuring Threshold Effects

Supplemental Figure S3. Sequence alignment

Supplemental Figure S4. Difference in binding accounted for by Ty elements and genomic rearrangements

Supplemental Figure S5. Species specific motifs

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