Dataset features

Specifications


Dataset type: Genome binding/occupancy profiling by genome tiling array, Genome binding/occupancy profiling by array, Epigenomics
Number of samples: 16
Release date: Nov 5 2009
Last update date: Jun 26 2012
Access: Public
Genes: DEFA3
Taxon: Drosophila melanogaster
Dataset link The network of targeting interactions in chromatin

Experimental Protocol


DamID experiments for multiple chromatin proteins was performed in Drosophila cell cultures. Samples were hybridized to spotted cDNA arrays. Every experiment was done at least in duplicate with one sample in the reverse dye orientation. Where indicated, one biological sample was hybridized to two arrays (a and b) in the same dye orientation; values from these arrays were first averaged before averaging dye-swapped biological replicates. Samples represent averaged results of replicates. A metadata file and a value matrix for the individual replicates are linked below as supplementary files. Change in chromatin accessibility was probed by Dam methylase expression in white vs. brahma RNAi treated Kc167 cells. Material from two test and control experiments was isolated according to DamID procedure and co-hybridized in reverse dye orientations. Sample represents averaged results of replicates. A metadata file and a value matrix for the individual replicates are linked below as supplementary files. An additional processed data file 'GATCfragments_deltaAcc.gff' whose rows represent normalized values averaged per GATC fragment rather than normalized values per array reporter is linked below as a supplementary file.

Repositories


GEO

GSE15807

BioProject

PRJNA116717

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Contact


Bas van Steensel