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Series GSE16344 Query DataSets for GSE16344
Status Public on Jan 11, 2010
Title Expression in Aneuploid Drosophila S2 Cells
Organism Drosophila melanogaster
Experiment type Genome variation profiling by high throughput sequencing
Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by array
Expression profiling by array
Summary Chromosomal and segmental aneuploidies are usually lethal or common features of cancer cells and variety of disease, but little is known about how copy number relates to gene expression. Drosophila males have a single X chromosome and two sets of autosomes, but X chromosome and autosome transcripts are equally abundant. This 2-fold increase in X chromosome gene expression requires a dosage compensation complex (MSL) that acetylates histone 4 at lysine 16 (H4AcK16). To determine the contribution of general buffering and MSL to X chromosome dosage compensation, we analyzed genome-wide copy number, expression and histone modification pattern in male Drosophila S2 cells with and without MSL.

Keywords: Gene Regulation Study, genomic analyses
Overall design RNA-seq and microarray were performed in Drosophila non-treated or RNAi treated S2 cells. Two biological replicates were used for expression profile. DNA-seq and CGH were performed (CGH data forthcoming) to check the copy number variation in S2 cells. Chromatin immunoprecipitations were performed in Drosophila non-treated or RNAi treated S2 cells with different histone modification antibodies. At least three biological replicates were performed for each antibody and treatment.
Contributor(s) Zhang Y, Oliver B
Citation(s) 20186269
Submission date May 29, 2009
Last update date May 15, 2019
Contact name Brian Oliver
Phone 301-204-9463
Organization name NIDDK, NIH
Department LBG
Lab Developmental Genomics
Street address 50 South Drive
City Bethesda
State/province MD
ZIP/Postal code 20892
Country USA
Platforms (3)
GPL20 Incyte Drosophila LifeArray v1.0
GPL8593 NimbleGen Drosophila melanogaster 145K 12plex custom expression array (080523_D_melanogaster_5.5_expr)
GPL9058 Illumina Genome Analyzer (Drosophila melanogaster)
Samples (38)
GSM406455 Drosophila_S2_WT_H3diMeK4_ChIP_rep1
GSM406456 Drosophila_S2_WT_H3diMeK4_ChIP_rep2
GSM406457 Drosophila_S2_WT_H3diMeK4_ChIP_rep3
BioProject PRJNA116335
SRA SRP001794

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
GSE16344_RAW.tar 417.9 Mb (http)(custom) TAR (of FTR, GPR, TXT)
GSE16344_processed_data_files_README.txt 860 b (ftp)(http) TXT
SRA Run SelectorHelp
Processed data provided as supplementary file
Processed data included within Sample table
Raw data are available in SRA

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