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Sample GSM560240 Query DataSets for GSM560240
Status Public on Aug 11, 2010
Title TCF4 ChIP-chip in Ls174t Array F Rep 2
Sample type genomic
 
Source name TCF4 ChIP-chip in LS174t cells Array F
Organism Homo sapiens
Characteristics cell type: Ls174t colon cancer cells
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 12F_TCF4-Is174t-102008_Hs7F.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 GPL4915
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
GSM560240_12F_TCF4-Is174t-102008_Hs7F.CEL.gz 22.2 Mb (ftp)(http) CEL
Processed data are available on Series record

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