Table 1.

Overview of modENCODE data that were used in this study

modENCODE Experiment	Method	Cell Line or Tissue Type	Sample
Genomic Distributions of Histone Modifications	ChIP-chip/ChIP-seq	S2-DRSC, ML-DmBG3-c2	H3K18ac, H3K23ac, H3K27Ac, H3K27Me3, H3K36me1, H3K36me3, H3K4Me3, H3K4me1, H3K4me2, H3K79Me2, H3K79Me1, H3K9ac, H3K9me2, H3K9me3, H4AcTetra, H4K16ac, H4K5ac, H4K8ac
Transcriptional profiling of Drosophila cell lines	RNA-seq	S2-DRSC
Developmental Stage Timecourse Transcriptional Profiling	RNA-seq	Embryo 10–12h, White Pre-pupae 24h, Larvae L1, Adult Female Eclosure 1d