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Series GSE28115 Query DataSets for GSE28115
Status Public on May 24, 2012
Title CBX3 Regulates Efficient RNA Processing Genome Wide
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by genome tiling array
Genome binding/occupancy profiling by high throughput sequencing
Expression profiling by high throughput sequencing
Summary HP1 alpha, beta, and gamma play an evolutionarily conserved role in the formation and maintenance of heterochromatin. In addition, some HP1 family members may also participate in transcriptional regulation of genes. Recently, HP1 gamma binding to the bodies of a subset of genes has been observed in human and murine cells. However, the generality of this phenomenon and the role HP1 gamma may play in this context are unknown. Genome-wide localization analysis reveals broad and general HP1 gamma binding at actively transcribed genes, which strongly correlates with gene activity across multiple cell types. Unexpectedly, we find HP1 gamma binding is necessary for efficient RNA processing of its target genes. Loss of HP1 gamma results in defective recruitment of splicing factors including U1-70K, and leads to accumulation of unspliced nascent transcripts genome-wide. Therefore, our data argue that the primary role of HP1 gamma is to ensure efficient RNA processing in mammalian cells.
 
Overall design Genome-wide localization and function of HP1 gamma in multiple cell types using ChIP-chip, ChIP-seq, and RNA-seq
 
Contributor(s) Smallwood A, Hon GC, Jin F, Henry RE, Espinosa JM, Ren B
Citation(s) 22684280
Submission date Mar 22, 2011
Last update date May 15, 2019
Contact name Bing Ren
E-mail(s) biren@ucsd.edu
Organization name University of California, San Diego
Street address 9500 Gilman Drive
City La Jolla
State/province CA
ZIP/Postal code 92093
Country USA
 
Platforms (8)
GPL1454 RenLab ENCODE PCR tiling array
GPL7874 Nimblegen 2.1M HD2 Human Economy tiling array of hg18 at 205bp resolution set 01 of 4
GPL7879 Nimblegen 2.1M HD2 Human Economy tiling array of hg18 at 205bp resolution set 02 of 4
Samples (39)
GSM692139 HP1g MDA-MB-231 RenLab ENCODE PCR tiling array replicate 1
GSM692140 HP1g K562 Chromatin RenLab ENCODE PCR tiling array replicate 1
GSM692141 HP1g HCT116 RenLab ENCODE PCR tiling array replicate 1
Relations
SRA SRP006309
BioProject PRJNA139835

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
GSE28115_RAW.tar 5.8 Gb (http)(custom) TAR (of BED, BEDGRAPH, GFF, GPR, PAIR)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data included within Sample table
Processed data provided as supplementary file
Raw data included within Sample table
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