E-GEOD-46645 - The Swi/Snf tumor suppressor complex establishes nucleosome occupancy at target promoters [expression]

Status
Released on 4 June 2013, last updated on 3 June 2014
Organism
Mus musculus
Samples (10)
Array (1)
Protocols (7)
Description
Precise nucleosome-positioning patterns at promoters are thought to be crucial for faithful transcriptional regulation. However, the mechanisms by which these patterns are established and dynamically maintained and subsequently contribute to transcriptional control are poorly understood. The Swi/Snf (Baf) chromatin remodeling complex is a master developmental regulator and tumor suppressor that is capable of mobilizing nucleosomes in biochemical assays. Yet, its role in establishing the nucleosome landscape in vivo is unclear. Here we have inactivated Snf5 and Brg1, core subunits of the mammalian Swi/Snf complex, to evaluate their effects on chromatin structure and transcription levels genome-wide. We find that inactivation of either subunit leads to disruptions of specific nucleosome patterning combined with a loss of overall nucleosome occupancy at a large number of promoters, regardless of their association with CpG islands. These rearrangements are accompanied by gene expression changes that promote cell proliferation. Collectively, these findings define a direct relationship between chromatin-remodeling complexes, chromatin structure, and transcriptional regulation. Gene expression was measured in three cell types using multiple replicates for each sample.
Experiment type
transcription profiling by array 
Contacts
Peter J Park <peter_park@harvard.edu>, Boris G Wilson, Burak H Alver, Charles W Roberts, Courtney G Sansam, Edward C Koellhoffer, Erik J Tillman, Julia A Evans, Katherine C Helming, Michael Y Tolstorukov, Ping Lu
Citation
Swi/Snf chromatin remodeling/tumor suppressor complex establishes nucleosome occupancy at target promoters. Tolstorukov MY, Sansam CG, Lu P, Koellhoffer EC, Helming KC, Alver BH, Tillman EJ, Evans JA, Wilson BG, Park PJ, Roberts CW. , Europe PMC 23723349
MIAME
PlatformsProtocolsFactorsProcessedRaw
Files
Investigation descriptionE-GEOD-46645.idf.txt
Sample and data relationshipE-GEOD-46645.sdrf.txt
Raw data (1)E-GEOD-46645.raw.1.zip
Processed data (1)E-GEOD-46645.processed.1.zip
Array designA-AFFY-36.adf.txt
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