Figure 4:
Comparison of different methods of mapping hotspots and coldspots on chromosome III.
a. Summary of hybridization ratios using microarrays for all chromosome III ORFs. These data were based on yeast strains FX4 and FX6, except for the HIS4 locus for which only the FX6 data were used. Each ORF was assigned the median hybridization ratio of the seven microarrays and we graphed the log function of this value. The 182 ORFs represented in the analysis (left to right on the X axis) are (inclusive SGD numbering system): YCL076W-YCL073C, YCL069W-YCL016C, YCL014W-YCL001W, YCR001W-YCR020C, YCR020C-A, YCR021C-YCR024C, YCR024C-A, YCR025C-YCR029C, YCR029C-A, YCR030C-YCR077C, YCR079W-YCR097WA, YCR097WB-YCR107W. The hotspot labels correspond to those listed in Table 1.
b. Summary of data of Baudat and Nicolas (13). These researchers monitored DSBs in an SK1 derivative by Southern analysis.
c. Analysis of hotspots in an SK1 derivative using DNA from immunoprecipitated Spo11p/HA-DNA complexes as a probe of nylon filters containing chromosome III ORFs. The Y-axis shows the log of the average normalized ratio of hybridization (DSB-enriched probe/total genomic DNA probe). Gaps on the X-axis reflect ORFs that were not present on the nylon filters.
d. Analysis of hotspots in FX6 using macroarrays. In this experiment, the probe was prepared by the method used in Fig. 4a.
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