Chromatin Accessibility

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Summary

We are using DNaseI-seq analysis to measure the accessibility of genomic DNA regions in nuclei isolated from Drosophila embryos. We have data for embryos at five stages of development: stages 5, 9, 10, 11 and 14.

The data are produced as follows. One hour collections of wild type embryos are aged to the appropriate developmental stage and then nuclei are isolated and briefly digested with DNase I. The DNA that is released by digestion is size fractionated through a sucrose gradient to capture 100 - 400 bp fragments, which are then used to generate an average of ~13 million sequence tags to the Drosophila genome with an Illumina Genome Analyzer I. Replica data from each developmental stage is derived from samples of nuclei subjected to independent digestion.

The data is then analyzed to determine short genomic regions that are accessible to digestion at a 5% false discovery rate. The browse data page allows downloading of various files of the raw and processed data.

These data were used to show the dynamics of chromatin accessibility during embryogenesis (Thomas et al, 2010) and that chromatin accessibility plays a dominant role in determining the widespread overlapping patterns of functionally distinct transcription factors in Drosophila embryos (Li et al, 2010).