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Series GSE24633 Query DataSets for GSE24633
Status Public on Apr 13, 2011
Title Cdx2 transcription factor binding in intestinal villus and gene expression profiling in Cdx mutant mice
Organism Mus musculus
Experiment type Expression profiling by array
Genome binding/occupancy profiling by high throughput sequencing
Summary 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 compromised. Lethality was accelerated in mice lacking both Cdx2 and its homolog Cdx1, with exaggeration of defects in crypt cell replication and enterocyte differentiation. Cdx2 occupancy correlated with hundreds of transcripts that fell but not with equal numbers that rose with Cdx loss, indicating a predominantly activating role at intestinal cis-regulatory regions. Integrated consideration of a mutant phenotype and cistrome hence reveals the continued and distinct requirement in adults of a master developmental regulator that activates tissue-specific genes.
 
Overall design Cdx2 ChIP-seq in mouse villus, and gene expression data from Cdx1, Cdx2 and compound knockout mouse intestine
 
Contributor(s) Shivdasani RA, Liu XS, Verzi MP, Shin H
Citation(s) 21402776
Submission date Oct 12, 2010
Last update date May 15, 2019
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
 
Platforms (2)
GPL9250 Illumina Genome Analyzer II (Mus musculus)
GPL11044 Affymetrix GeneChip Mouse Genome 430 2.0 Array [CDF: Mouse4302_Mm_REFSEQ]
Samples (13)
GSM607495 CDX2 ChIP-seq in mouse jejunum villus cells
GSM607496 Mouse villus cell input DNA
GSM607497 Control expression array-1
Relations
SRA SRP003791
BioProject PRJNA132465

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SOFT formatted family file(s) SOFTHelp
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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE24633_RAW.tar 142.8 Mb (http)(custom) TAR (of BED, CEL, TXT, XLS)
GSE24633_expression_changes_cdxx_binding.txt.gz 430.7 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Processed data provided as supplementary file
Raw data are available in SRA
Processed data included within Sample table

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