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Series GSE54374 Query DataSets for GSE54374
Status Public on Oct 16, 2014
Title An integrated cell purification and genomics strategy reveals multiple regulators of pancreas development.
Organism Mus musculus
Experiment type Expression profiling by array
Summary The regulatory logic underlying global transcriptional programs controlling development of visceral organs like the pancreas remains undiscovered. Here, we profiled gene expression in 12 purified populations of fetal and adult pancreatic epithelial cells representing crucial progenitor cell subsets, and their endocrine or exocrine progeny. Using probabilistic models to decode the general programs organizing gene expression, we identified co-expressed gene modules in cell subsets that revealed patterns and processes governing progenitor cell development, lineage specification, and endocrine cell maturation. Module network analysis linked established regulators like Neurog3 to unrecognized roles in endocrine secretion and protein transport, and nominated multiple candidate regulators of pancreas development. Phenotyping mutant mice revealed that candidate regulatory genes encoding transcription factors, including Bcl11a, Etv1, Prdm16 and Runx1t1, are essential for pancreas development or glucose control. Our integrated approach provides a unique framework for identifying regulatory networks underlying pancreas development and diseases like diabetes mellitus.
 
Overall design Gene expression analysis: 12 primary cell populations from wild-type pancreas and 1 cell type from a mutant background (E15 Ngn3-null cells) pancreas (in fetal and adult stage) were purified using a combination of cell surface markers and transgenic reporters. Total RNA was isolated from each cell type in at least biological triplicates, amplified and hybridized to Affymetrix Mouse 430 2.0 arrays.
 
Contributor(s) Benitez CM, Qu K, Sugiyama T, Pauerstein PT, Liu Y, Chang HY, Kim SK
Citation(s) 25330008
Submission date Jan 24, 2014
Last update date Feb 11, 2019
Contact name Seung Kim
E-mail seungkim@stanford.edu
Organization name Stanford University
Department Developmental Biology
Lab Seung Kim Lab
Street address 279 Campus Dr B303
City Stanford
State/province CA
ZIP/Postal code 94305
Country USA
 
Platforms (1)
GPL1261 [Mouse430_2] Affymetrix Mouse Genome 430 2.0 Array
Samples (48)
GSM1314051 E11.5 Sox9-1
GSM1314052 E11.5 Sox9-2
GSM1314053 E11.5 Sox9-3
Relations
BioProject PRJNA236356

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
GSE54374_RAW.tar 183.0 Mb (http)(custom) TAR (of CEL)
Raw data provided as supplementary file
Processed data included within Sample table

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