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Series GSE6383 Query DataSets for GSE6383
Status Public on Mar 12, 2007
Title Mouse small intestine epithelium vs. mesenchyme
Organism Mus musculus
Experiment type Expression profiling by array
Summary During organogenesis of the intestine, reciprocal crosstalk between the endodermally-derived epithelium and the underlying mesenchyme is required for regional patterning and proper differentiation. Though both of these tissue layers participate in patterning, the mesenchyme is thought to play a prominant role in the determination of epithelial phenotype during development and in adult life. However, the molecular basis of this instructional dominance is unclear. In fact, surprisingly little is known about the cellular origins of many of the critical signaling molecules and the gene transcriptional events that they impact. Here, we profile genes that are expressed in separated mesenchymal and epithelial compartments of the perinatal mouse intestine. The data indicate that the vast majority of soluble modulators of signaling pathways such as Hedgehog, Bmp, Wnt, Fgf and Igf are expressed predominantly or exclusively by the mesenchyme, accounting for its ability to dominate instructional crosstalk. We also catalog the most highly enriched transcription factors in both compartments and find evidence for a major role for Hnf4alpha and Hnf4 gamma in the regulation of epithelial genes. Finally, we find that while epithelially enriched genes tend to be highly tissue-restricted in their expression, mesenchymally-enriched genes tend to be broadly expressed in multiple tissues. Thus, the unique tissue-specific signature that characterizes the intestinal epithelium is instructed and supported by a mesenchyme that itself expresses genes that are largely non-tissue specific.
Keywords: comparative genomic hybridization: epithelium vs. mesenchyme
 
Overall design Mouse small intestine (E18.5) is separated to epithelium and mesenchyme. Total RNA is extracted from epithelium and mesenchyme. There are 6 samples in this microarray experiment: 3 for epithelium and 3 for mesenchyme. Samples are hybridized the affymetrix Mouse Genome 430 2.0 Array. We compare the gene expression between epithelium and mesenchyme to study the gene expression profiles in these two compartments.
 
Contributor(s) Li X, Madison B, Gumucio DL
Citation(s) 17299133
Submission date Nov 28, 2006
Last update date Feb 11, 2019
Contact name Xing Li
Phone 734-647-0171
URL http://0-www.ncbi.nlm.nih.gov.brum.beds.ac.uk/entrez/query.fcgi?cmd=retrieve&db=pubmed&list_uids=17299133&dopt=Abstract
Organization name Universtiy of Michigan
Department Bioinformatics Program & CDB
Lab Dr. Gumucio Lab
Street address 109 Zina Pitcher Place,045 BSRB
City Ann Arbor
State/province MI
ZIP/Postal code 48109-2200
Country USA
 
Platforms (1)
GPL1261 [Mouse430_2] Affymetrix Mouse Genome 430 2.0 Array
Samples (6)
GSM147125 small intestine EPI-MES Epi A
GSM147127 small intestine EPI-MES Epi B
GSM147128 small intestine EPI-MES Epi C
Relations
BioProject PRJNA99555

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE6383_RAW.tar 27.1 Mb (http)(custom) TAR (of CEL)
Raw data provided as supplementary file

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