Dataset features

Specifications


Application: RNA-seq analysis, ChIP-on-chip analysis
Number of samples: 124
Release date: Oct 1 2010
Last update date: Aug 11 2017
Access: Public
Taxon: Drosophila melanogaster, Saccharomyces cerevisiae
Dataset link Protein profiling reveals five principal chromatin types in Drosophila cells

Experimental Protocol


[1] RNA tag sequences were optained on an Illumina GAII with the digital gene expression (DGE) module from duplicate RNA samples. [2] All DamID and ChIP experiments were done in Drosophila Kc167 cells in duplicate. Samples were hybridized to 380k NimbleGen arrays with 300 bp probe spacing. Every experiment was done in duplicate in the reverse dye orientation, where Dam-fusion material was hybridized over Dam-only material. For ChIP, immunoprecipitated material was hybridized over ChIP input material. 18 previously-submitted Samples were included in this study. 10 of 18 Samples have been renormalized for the GSE22069 study: GSM509087, GSM509088, GSM509089, GSM509090, GSM509091, GSM509092, GSM509093, GSM509094, GSM509095, GSM509096 New GSM accession numbers have been issued for these 10 samples. 8 of 18 Samples are identical in the original studies and in GSE22069: GSM423290, GSM423291, GSM423298, GSM423299, GSM493592, GSM493593, GSM509085, GSM509086 [3] The genomic locations in files GSE22069_norm_aggregated_discretized_tiling_arrays.txt and GSE22069_norm_aggregated_tiling_arrays.txt are relative to FlyBase release 5 (BDGP R5/dm3).

Repositories


GEO

GSE22069

ArrayExpress

E-GEOD-22069

ENA

SRP002674

BioProject

PRJNA128945

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Contact


Bas van Steensel