Figure 1

Schematics of ChIP-seq-derived DNA fragments targeting transcription factors and RNA polymerase II. Blue and red ellipses indicate transcription factors binding on specific cis-acting DNA element, and RNA polymerase II not targeting certain binding sites, respectively. Blue and red lines under the ellipses illustrate sheared DNA fragments bound by the DNA-binding protein and pulled down by the immunoprecipitation assay. Green box indicates the fragment derived by Solexa sequencing (~25–36 bp).