Bohla 14, CTCF/CP190 and ISWI dependent regulation of nucleosome occupancy

Description

Changes in chromatin organisation are investigated for two RNAi lines: CTCS (an insulator) and ISWI (a component of the nucleosome remodelling factor NURF). Moreover a luciferase control is also investigated.

Source

Raw data can be downloaded from: GEO dataset GSE51600

Samples

From D. melanogaster genome dm3.

Filename Description Feature GEO-ID
1 GSM1248973.sga H3|ISWI RNAi H3 GSM1248973
2 GSM1248972.sga H3|CTCF CP190 RNAi H3 GSM1248972
3 GSM1248971.sga H3|luciferase RNAi H3 GSM1248971
4 GSM1248976.sga MNase|ISWI RNAi MNase GSM1248976
5 GSM1248975.sga MNase|CTCF CP190 RNAi MNase GSM1248975
6 GSM1248974.sga MNase|luciferase RNAi MNase GSM1248974

Technical Notes

Raw data was downloaded from NCBI SRA database and mapped to Zv9/danRer7 genome using Bowtie aligner. The resulting SAM files were converted to BED using SAMtools and BEDtools. Final conversion to SGA files was done using ChIP-Seq.

References

Bohla D, Herold M, Panzer I, Buxa MK et al.
A functional insulator screen identifies NURF and dREAM components to be required for enhancer-blocking. PLoS One 2014;9(9):e107765 25247414

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