E-CBIL-36 - Chromatin immunoprecipitation of wild type and Foxa2 knock-out mouse liver using anti-HNF6 anitbodies to test whether Foxa2 inhibits HNF6-mediated transcription in the liver

Status
Released on 14 September 2007, last updated on 1 May 2014
Organism
Mus musculus
Samples (13)
Arrays (2)
Protocols (10)
Description
The aim of this study was to test, in vivo, if Foxa2 inhibits HNF6-mediated transcription in the liver. We utilized hepatocyte-specific gene ablation of Foxa2 and the Mouse PromoterChip BCBC 3.0 and Mouse PancChip 5.0 cDNA microarrays to investigate HNF6 binding to its target promoters in vivo in the presence or absence of Foxa2. For the mouse promoter microarray analysis, chromatin immunoprecipitation using anti-HNF6 antibodies was performed on chromatin isolated from Foxa2loxP/loxP Alfp.Cre and control mouse livers. Along with sheared genomic DNA (common reference), the immunoprecipitated DNA was amplified, labeled and hybridized to the Mouse PromoterChip BCBC 3.0. For microarray analysis of gene expression, liver RNAs were isolated from three Foxa2loxP/loxP Alfp.Cre and three control mice. RNAs were reverse transcribed, labeled, and hybridized to the Mouse PancChip 5.0. Overall, our studies demonstrate that HNF6 binds to and regulates its target promoters in vivo in the presence and absence of Foxa2 and that the expression levels of HNF6 targets are not influenced by Foxa2.
Experiment types
ChIP-chip by array, binding site identification, dye swap, genetic modification, reference
Contacts
Citation
Transcriptional networks in the liver: hepatocyte nuclear factor 6 function is largely independent of Foxa2. Rubins N.E., Friedman J.R., Le P.P., Zhang L., Brestelli J., Kaestner K.H.
MIAME
PlatformsProtocolsVariablesProcessedRaw
Files
Investigation descriptionE-CBIL-36.idf.txt
Sample and data relationshipE-CBIL-36.sdrf.txt
Raw data (1)E-CBIL-36.raw.1.zip
Processed data (1)E-CBIL-36.processed.1.zip
Experiment designE-CBIL-36.biosamples.png, E-CBIL-36.biosamples.svg
Array designsA-CBIL-14.adf.txt, A-CBIL-2.adf.txt
Links