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Series GSE21513 Query DataSets for GSE21513
Status Public on Jan 06, 2011
Title Role of DNA methylation in FOXA1 cell type-specific recruitment to chromatin
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by genome tiling array
Methylation profiling by genome tiling array
Summary CTCF, H2AFZ and FOXA1 genomic recruitment sites were determined using ChIP-chip while MeDIP-chip was used to monitor DNA methylation levels. Amplified and labeled DNA was hybridized to Affymetrix tiling arrays covering human chromosomes 8, 11 and 12. Cells used in this study are: MCF7 breast cancer cells, LNCaP prostate cancer cells, MDA-MB-231 breast cancer cells stably transfected with a FOXA1 expression vector (MDA231-FOXA1) or the empty control plasmid (MDA231-CTRL).

H3K4me2 genomic distribution was determined using ChIP-chip. Amplified and labeled DNA was hybridized to Affymetrix tiling arrays covering human chromosomes 8, 11 and 12. Cells used in this study are MDA-MB-231 breast cancer cells stably transfected with a FOXA1 expression vector (MDA231-FOXA1) or the empty control plasmid (MDA231-CTRL).
 
Overall design Cells were grown in full media and harvested to prepare genomic DNA used in MeDIP-chip (Weber et al. 2005). For ChIP-chip, cells were cross-linked and processed as in (Carroll et al. 2005). DNA was hybridized to Human Affymetrix tiled array F.
 
Contributor(s) Eeckhoute J
Citation(s) 21233399
Submission date Apr 26, 2010
Last update date Jun 05, 2012
Contact name Jérôme Eeckhoute
E-mail(s) jerome.eeckhoute@inserm.fr
Organization name CNRS
Lab INSERM UMR 1011, Université Lille-Nord de France
Street address Bâtiment J&K, Faculté de Médecine de Lille-Pôle Recherche, Boulevard du Professeur Leclerc
City Lille
ZIP/Postal code 59045
Country France
 
Platforms (1)
GPL4915 [Hs35b_P06R] Affymetrix Human Tiling 2.0R Set, Array 6
Samples (13)
GSM537458 MCF7_H2AZ
GSM537459 MCF7_CTCF
GSM537460 MCF7_MeDIP
Relations
BioProject PRJNA125969

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
GSE21513_RAW.tar 2.3 Gb (http)(custom) TAR (of BAR, CEL, TXT)
Processed data provided as supplementary file

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