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Series GSE15292 Query DataSets for GSE15292
Status Public on Mar 20, 2009
Title Drosophila at different time points of development: ChIP-chip, ChIP-seq, RNA-seq
Project modENCODE
Organism Drosophila melanogaster
Experiment type Genome binding/occupancy profiling by genome tiling array
Genome binding/occupancy profiling by high throughput sequencing
Expression profiling by high throughput sequencing
Summary This is a dataset generated by the Drosophila Regulatory Elements modENCODE Project led by Kevin P. White at the University of Chicago. It contains ChIP-chip data on Agilent 244K dual-color arrays for 6 Histone modifications (H3K9me3, H3K27me3, H3K4me3, H3K4me1, H3K27Ac, H3K9Ac), PolII and CBP/p300. Each factor has been studied for 12 different time-points of Drosophila development.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODEDataReleasePolicyFinal2008.pdf

This SuperSeries is composed of the SubSeries listed below.
 
Overall design ChIP-chip: For each combination of time-point and antibody, triplicate ChIP experiments have been performed and hybridized on Agilent 244K arrays. 3 arrays per genome have been used so that each time-point is a set of 9 tiling arrays.

ChIP-seq: For each combination of time-point and antibody, triplicate ChIP experiments have been performed and hybridized on Agilent 244K arrays. The hybridizations have been verified by sequencing one replicate of IP and one replicate of Input following Solexa sequencing procedure.

RNA-seq: For each time-point (E-0-4h, E-4-8h, E-8-12h, E-12-16h, E-16-20h, E20-24h, L1, L2, L3, Pupae, Adult Males and Adult Females) a total RNA extraction has been performed. After conversion into double stranded DNA, the samples have been sequenced in duplicate on Solexa Genome Analyzer following Solexa sequencing procedure.
Web link http://www.ncbi.nlm.nih.gov/projects/geo/info/ENCODE.html
 
Citation(s) 21430782
BioProject PRJNA116485
Submission date Mar 19, 2009
Last update date May 15, 2019
Contact name Kevin P. White
E-mail(s) kpwhite@uchicago.edu
Organization name University of Chicago
Department Institute for Genomics and Systems Biology
Street address 900 E. 57th STR. 10th FL.
City Chicago
State/province IL
ZIP/Postal code 60615
Country USA
 
Platforms (4)
GPL6949 Agilent-019182 Drosophila melanogaster Whole Genome ChIP-on-Chip Set 244K, Microarray 1 of 3
GPL6950 Agilent-019183 Drosophila melanogaster Whole Genome ChIP-on-Chip Set 244K, Microarray 2 of 3
GPL6951 Agilent-019184 Drosophila melanogaster Whole Genome ChIP-on-Chip Set 244K, Microarray 3 of 3
Samples (936)
GSM382158 E-12-16h_H3K9Me3_1_of_3_rep_1
GSM382159 E-12-16h_H3K9Me3_1_of_3_rep_2
GSM382160 E-12-16h_H3K9Me3_1_of_3_rep_3
This SuperSeries is composed of the following SubSeries:
GSE15422 ChIP-chip of H3K9me3 in Drosophila at different time points of development
GSE15423 ChIP-chip of H3K27me3 in Drosophila at different time points of development
GSE15424 ChIP-chip of H3K4me3 in Drosophila at different time points of development

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE15292_RAW.tar 51.9 Gb (http)(custom) TAR (of BED, BEDGRAPH, TXT)
SRA Run SelectorHelp
Raw data provided as supplementary file
Processed data included within Sample table
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