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Series GSE17682 Query DataSets for GSE17682
Status Public on Jun 03, 2010
Title Chromatin localization of Gli1 in granule neuron precursor cells and medulloblastoma
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by genome tiling array
Summary Sonic hedgehog (Shh) signals via Gli transcription factors to stimulate proliferation of granule neuron precursor cells (GNPs) in the cerebellum. Deregulation of Shh target genes often results in unrestrained GNP proliferation and eventually medulloblastoma, the most common pediatric brain malignancy. Transcription factor binding location analysis (chIP-chip) revealed 510 and 1,060 genomic loci bound by Gli1 with high confidence in murine GNP and medulloblastoma cells, respectively. In primary tumors, Gli1 associated with only one-third of the Gli1-bound regions in GNPs. Gene expression profiling, coupled with our binding results, indicated that there were more than one hundred target genes in common between the two cell populations, and importantly, there was an equivalent number of tumor-specific targets. These results indicate that the transformation of normal GNPs into deadly tumor cells is accompanied by some changes in the battery of genes regulated by Gli1.
Overall design Murine RosaGli1-FLAG GNPs and RosaGli1-FLAG;Ptc+/- medulloblastoma cells were isolated and chIPed with anti-FLAG antibody vs. total chromatin input. 3 replicates each.

The supplementary files contain log2(IP/Input) fold changes for each probe, the files contain a moving average statistic (i.e., the MA statistic in TileMap) for each probe, and the .bed files contain the 510 and 1,060 high-quality Gli1-bound regions in GNPs and medulloblastoma (MB), respectively, reported in the paper.
Contributor(s) Lee EY, Scott MP, Ji H, Wong WH
Citation(s) 20460306
Submission date Aug 17, 2009
Last update date Oct 14, 2014
Contact name Eunice Lee
Organization name Stanford University
Department Developmental Biology
Lab Matthew Scott
Street address 318 Campus Drive
City Stanford
State/province CA
ZIP/Postal code 94305
Country USA
Platforms (1)
GPL5811 [Mm_PromPR] Affymetrix Mouse Promoter 1.0R Array
Samples (2)
GSM441165 Gli1FLAG GNP Chip
GSM441166 Gli1FLAG MB Chip
This SubSeries is part of SuperSeries:
GSE17719 Gli1 regulatory networks in granule neuron precursor and medulloblastoma cells
BioProject PRJNA123279

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
GSE17682_RAW.tar 300.5 Mb (http)(custom) TAR (of BAR, BED, CEL)
Processed data provided as supplementary file

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