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Sample GSM560249 Query DataSets for GSM560249
Status Public on Aug 11, 2010
Title IgG control CHIP in CaCo2 array C Rep 1
Sample type genomic
 
Source name IgG control CHIP in CaCo2 array C
Organism Homo sapiens
Characteristics cell type: Caco-2 colon cancer cells, 1 day post confluent
Growth protocol Cells were grown in 10% FBS DMEM and grown until 1 day post confluent on 15 cm plates
Extracted molecule genomic DNA
Extraction protocol Cells were fixed in 1% formaldehyde for 10 minutes at 37 degrees, then washed with cold PBS and scraped into PBS, and resuspended in ChIP lysis buffer and immunoprecipitated and processed as described by Carroll, et al, 2005, PMID: 16009131 and as described in our current work.
Label biotin
Label protocol labeling, hybridization, and scanning were done using manufacturer's instructions (Affymetrix)
 
Hybridization protocol labeling, hybridization, and scanning were done using manufacturer's instructions (Affymetrix)
Scan protocol labeling, hybridization, and scanning were done using manufacturer's instructions (Affymetrix)
Description 25C_Igg-2C_Hs7C.CEL
Data processing Model Based analysis of tiling arrays (MAT) was used to process the data as described previously: Johnson, et al, 2006, PMID: 16895995
.bar files were generated as the output of default MAT analysis and can be visualized using the publically available Affymetrix Ingtegrated Genome Browser
 
Submission date Jun 25, 2010
Last update date Aug 11, 2010
Contact name Michael P Verzi
Organization name Rutgers, the State University of New Jersey
Department Genetics
Lab Verzi
Street address 145 Bevier Road
City Piscataway
State/province NJ
ZIP/Postal code 08854
Country USA
 
Platform ID GPL4912
Series (1)
GSE22572 TCF4 and CDX2, major transcription factors for intestinal function, converge on the same cis-regulatory regions

Supplementary file Size Download File type/resource
GSM560249_25C_Igg-2C_Hs7C.CEL.gz 24.0 Mb (ftp)(http) CEL
Processed data are available on Series record

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