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GenomicsCDX2 ChIP-seq
Somatic DNA alteration underlies tumor development and progression, and gives rise to tumors with diverse genetic contexts. Here, we identify in a collection of 29 colorectal cancer cell lines and 226 primary colorectal tumors recurrent amplification of chromosome 13, an alteration highly restricted...
ORGANISM(S): Homo sapiens 
2012-11-02 | E-GEOD-30026 | biostudies-arrayexpress
GenomicsInduced Cdx2 binding in embryonic stem cells and endodermal cells
Regulatory proteins can bind to different sets of genomic targets in various cell types or conditions. To reliably characterize such condition-specific regulatory binding we introduce MultiGPS, an integrated machine learning approach for the analysis of multiple related ChIP-seq experiments. MultiGP...
ORGANISM(S): Mus musculus 
2014-03-27 | E-GEOD-39435 | biostudies-arrayexpress
TranscriptomicsCdx2 transcription factor binding in intestinal villus and gene expression profiling in Cdx mutant mice
We conditionally inactivated mouse Cdx2, a dominant regulator of intestinal development, and mapped its genome occupancy in adult intestinal villi. Although homeotic transformation, observed in Cdx2-null embryos, was absent in mutant adults, gene expression and cell morphology were vitally compromis...
ORGANISM(S): Mus musculus 
2011-04-13 | E-GEOD-24633 | biostudies-arrayexpress
TranscriptomicsTranscription profiling by array of mouse Cdx2 knock out intestinal epithelium
RNAs were extracted from E18.5 control and Cdx2/villin-cre mutant ileums. We aim to identify the gene network changes in the mutant epithelia. We are especially interested in genes related with proliferation, apoptosis and cell differentiation.
ORGANISM(S): Mus musculus 
2010-06-23 | E-MTAB-218 | biostudies-arrayexpress
TranscriptomicsThe transcription factor CDX2 maintains active enhancer in intestinal villus cells in vivo (expression data)
We established whether partner transcription factor binding, chromatin structure, or gene expression is compromised upon loss of partner factors cdx2 or hnf4a in mouse intestinal villi This metadata file describes the gene expression componant of that data Intestinal epithelia were collected from mo...
ORGANISM(S): Mus musculus 
2013-02-05 | E-GEOD-34567 | biostudies-arrayexpress
GenomicsCdx2 Binding Sites On Cdx2 Expressing ES Cells
A) Chromatins were prepared from Cdx2-inducible ES cells cultured for 48 - 60 hours in the Dox+ and Dox- conditions. Chromatin immunoprecipitation (ChIP) was carried out by using anti-FLAG M2 affinity gel. ChIP product was tested by Western blotting using anti-FLAG antibody. Nuclear extract from ES ...
ORGANISM(S): Mus musculus 
2009-10-01 | E-GEOD-14586 | biostudies-arrayexpress
GenomicsHistone methylation and transcription factor binding during intestinal cell differentation
Cell differentiation requires epigenetic modulation of tissue-specific genes and activities of master transcriptional regulators, which are recognized for their dominant control over cellular programs. Using novel epigenomic methods, we characterized enhancer elements specifically modified in differ...
ORGANISM(S): Mus musculus 
2010-11-17 | E-GEOD-23436 | biostudies-arrayexpress
TranscriptomicsLeukemogenesis by CDX2 involves KLF4 repression and deregulated PPARgamma signaling.
Aberrant expression of the homeodomain transcription factor CDX2 occurs in most cases of acute myeloid leukemia (AML) and promotes leukemogenesis, making CDX2, in principle, an attractive therapeutic target. Conversely, CDX2 acts as a tumor suppressor in colonic epithelium. The effectors mediating t...
ORGANISM(S): Mus musculus 
2012-12-21 | E-GEOD-40939 | biostudies-arrayexpress
TranscriptomicsExpression of Cdx2 or Gata3 in R1 mouse embryonic stem cells
To identify whether Cdx2 or Gata3 can activate trophoblast specific gene expression when expressed in R1 ES cells. To assess the dependency of Gata3 activity on Cdx2, Gata3 was also expressed in Cdx2-null ES cells. Keywords: gene expression a fusion construct of either Cdx2 or Gata3 and the tamoxif...
ORGANISM(S): Mus musculus 
2010-02-21 | E-GEOD-12986 | biostudies-arrayexpress
TranscriptomicsCOLO320 cells: siCDX2 vs. non-targeting control
Somatic DNA alteration underlies tumor development and progression, and gives rise to tumors with diverse genetic contexts. Here, we identify in a collection of 29 colorectal cancer cell lines and 226 primary colorectal tumors recurrent amplification of chromosome 13, an alteration highly restricted...
ORGANISM(S): Homo sapiens 
2012-11-02 | E-GEOD-30181 | biostudies-arrayexpress
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