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Cell 24, 469–479 (2006). 3. L. et al. Nature of the nucleosomal barrier to RNA polymerase II. Mol. Cell 18, 97–108 (2005). 4. L. et al. Nucleosome remodeling induced by RNA polymerase II: loss of the H2A/H2B dimer during transcription. Mol. Cell 9, 541–552 (2002). 5. P. & Felsenfeld, G. Mechanism of transcription through the nucleosome by eukaryotic RNA polymerase. Science 278, 1960–1963 (1997). 6. , Kashlev, M. & Felsenfeld, G. Chromatin remodeling by RNA polymerases. Trends Biochem. Sci. 29, 127–135 (2004).
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5 online). This result demonstrated that true FOX2 binding loci are indeed distributed non-randomly in proteincoding genes. To further group the clusters, we determined the reduction in cluster number as a function of increasing window size. The number of clusters decreased eight-fold as the window size increased until the threshold of 1,500 nt was reached (Supplementary Fig. 6 online). In contrast, the number of randomly chosen regions of similar sizes remained unaltered at any window size. Using this approach, we identified 3,547 combined clusters within the 1500-nt window, probably representing true FOX2 binding events, occurring either individually or in groups, in the human genome.
Nature Structural Molecular Biology February
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