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Sample GSM537468 Query DataSets for GSM537468
Status Public on Jan 06, 2011
Title MDA231-FOXA1_FOXA1
Sample type genomic
 
Channel 1
Source name FOXA1 ChIP in MDA231-FOXA1 cells
Organism Homo sapiens
Characteristics antibody: Ab5089 (against FOXA1) from Abcam
Growth protocol Cells were grown in DMEM or RPMI supplemented with 10% FBS.
Extracted molecule genomic DNA
Extraction protocol Cells were cross-linked with 1% formaldehyde and processed as in Carroll et al. 2005 for ChIP-chip, or genomic DNA was directly prepared for MeDIP-chip as in Weber et al. 2005.
Label Biotin
Label protocol Standard Affymetrix protocol
 
Channel 2
Source name Input from MDA231-FOXA1 cells
Organism Homo sapiens
Characteristics antibody: None (input control)
Growth protocol Cells were grown in DMEM or RPMI supplemented with 10% FBS.
Extracted molecule genomic DNA
Extraction protocol Cells were cross-linked with 1% formaldehyde and processed as in Carroll et al. 2005 for ChIP-chip, or genomic DNA was directly prepared for MeDIP-chip as in Weber et al. 2005.
Label Biotin
Label protocol Standard Affymetrix protocol
 
 
Hybridization protocol Standard Affymetrix protocol
Scan protocol Scanned at the Nantes microarray core facility
Description FOXA1 ChIP in MDA231-FOXA1 cells
Data processing Model-based analysis of tiling array (MAT) (chip.dfci.harvard.edu/~wli/MAT/). Bar files provide individual probe signal level after MAT normalization (MAT score) (Johnson WE et al. PNAS 2006)
 
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
 
Platform ID GPL4915
Series (1)
GSE21513 Role of DNA methylation in FOXA1 cell type-specific recruitment to chromatin

Supplementary file Size Download File type/resource
GSM537468_MDA231-FOXA1_FOXA1.bar.gz 33.4 Mb (ftp)(http) BAR
GSM537468_MDA231-FOXA1_FOXA1.bar.txt.gz 38.6 Mb (ftp)(http) TXT
GSM537468_MDA231-FOXA1_FOXA1_1.CEL.gz 25.5 Mb (ftp)(http) CEL
GSM537468_MDA231-FOXA1_FOXA1_2.CEL.gz 24.9 Mb (ftp)(http) CEL
GSM537468_MDA231-FOXA1_inputChIP_1.CEL.gz 24.8 Mb (ftp)(http) CEL
GSM537468_MDA231-FOXA1_inputChIP_2.CEL.gz 25.3 Mb (ftp)(http) CEL
Processed data provided as supplementary file

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