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.
|2||GSM1248972.sga||H3|CTCF CP190 RNAi||H3||GSM1248972|
|5||GSM1248975.sga||MNase|CTCF CP190 RNAi||MNase||GSM1248975|
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.
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