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Series GSE8489 Query DataSets for GSE8489
Status Public on Jul 19, 2007
Title ChIP-chip analysis of transcription factors GABP, SRF, TAF, and NRSF on Affymetrix whole genome tiling arrays 2.0R
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by genome tiling array
Summary As part of the ENCODE consortium project (NIH, NHGRI), we conducted genome-wide location analysis for various transcription factors in various cell types. The long-term goal of this project is to determine the function of each DNA nucleotide in the genome. Measurement of transcription factor binding events is an important part of this effort. Here we measure genome-wide binding events for a variety of important transcriptional regulators.
Keywords: ChIP-chip
 
Overall design ChIP-chip analyses were performed for the following transcription factors (TFs) and cell types:

1) transcriptional regulators GA-binding protein (GABP) and serum response factor (SRF) in GMO6990 cells
2) transcriptional regulators GABP, SRF, and TBP-associated factor 1 (TAF250) in HeLa cells
3) transcriptional regulators GABP and SRF in HepG2 cells
4) transcriptional repressor neural restrictive silencer factor (NRSF/REST) using two different antibodies in Jurkat cells
5) transcriptional regulators GABP, SRF, and TAF250 in k562 cells

Each Sample (GSMxxx) record comprises data from biological replicates.
 
Contributor(s) Johnson DS, Myers RM, Anton E, Nguyen L, Medina C
Citation(s) 18978777
Submission date Jul 16, 2007
Last update date Mar 21, 2017
Contact name David Scott Johnson
E-mail(s) seasquirtdoctor@gmail.com
Phone 650-725-3018
Organization name Stanford University
Department Genetics
Lab Richard M. Myers
Street address 300 Pasteur Drive
City Stanford
State/province CA
ZIP/Postal code 94305
Country USA
 
Platforms (7)
GPL4910 [Hs35b_P01R] Affymetrix Human Tiling 2.0R Set, Array 1
GPL4911 [Hs35b_P02R] Affymetrix Human Tiling 2.0R Set, Array 2
GPL4912 [Hs35b_P03R] Affymetrix Human Tiling 2.0R Set, Array 3
Samples (119)
GSM210567 GMO-GABP_Human Tiling 2.0R A Array
GSM210568 GMO-GABP_Human Tiling 2.0R B Array
GSM210569 GMO-GABP_Human Tiling 2.0R C Array
Relations
BioProject PRJNA101583

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
GSE8489_RAW.tar 16.2 Gb (http)(custom) TAR (of BAR, CEL)
GSE8489_gmo_gabp.bed 117.3 Kb (ftp)(http) BED
GSE8489_gmo_srf.bed 164.5 Kb (ftp)(http) BED
GSE8489_hela_gabp.bed 201.3 Kb (ftp)(http) BED
GSE8489_hela_srf.bed 133.9 Kb (ftp)(http) BED
GSE8489_hela_taf.bed 276.9 Kb (ftp)(http) BED
GSE8489_hepg2_gabp.bed 44.0 Kb (ftp)(http) BED
GSE8489_hepg2_srf.bed 56.1 Kb (ftp)(http) BED
GSE8489_jurk_nrsf_mono.bed 448.5 Kb (ftp)(http) BED
GSE8489_jurk_nrsf_upstate.bed 291.0 Kb (ftp)(http) BED
GSE8489_k562_gabp.bed 250.1 Kb (ftp)(http) BED
GSE8489_k562_srf.bed 182.7 Kb (ftp)(http) BED
GSE8489_k562_taf.bed 418.5 Kb (ftp)(http) BED
Processed data provided as supplementary file
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