E-GEOD-45022 - Expression data from Control and HIRA knockdown cells

Status
Released on 18 April 2013, last updated on 2 June 2014
Organism
Homo sapiens
Samples (8)
Array (1)
Protocols (7)
Description
The HIRA chaperone complex, comprised of HIRA, UBN1 and CABIN1, collaborates with histone-binding protein ASF1a to incorporate histone variant H3.3 into chromatin in a DNA replication-independent manner. To better understand its function and mechanism, we integrated HIRA, UBN1, ASF1a and histone H3.3 ChIP-seq and gene expression analyses. Most HIRA-binding sites co-localize with UBN1, ASF1a and H3.3 at active promoters and active and weak/poised enhancers. At promoters, binding of HIRA/UBN1/ASF1a correlates with the level of gene expression. HIRA is required for deposition of histone H3.3 at its binding sites. There are marked differences in nucleosome and co-regulator composition at different classes of HIRA-bound regulatory site. Underscoring this, we report novel physical interactions between the HIRA complex and transcription factors, a chromatin insulator and an ATP-dependent chromatin-remodelling complex. Our results map the distribution of the HIRA chaperone across the chromatin landscape and point to different interacting partners at functionally distinct regulatory sites. We used microarrays to detail the global programme of gene expression after knockdown of HIRA HeLa cells were nucleofacted with Dharmacon control siRNA and siRNA to HIRA and RNA was isolated 72 hours after transfection in four biological replicates
Experiment type
transcription profiling by array 
Contacts
Tony McBryan <tony@mcbryan.co.uk>, Peter D Adams, Taranjit S Rai
MIAME
PlatformsProtocolsFactorsProcessedRaw
Files
Investigation descriptionE-GEOD-45022.idf.txt
Sample and data relationshipE-GEOD-45022.sdrf.txt
Raw data (1)E-GEOD-45022.raw.1.zip
Processed data (1)E-GEOD-45022.processed.1.zip
Array designA-AFFY-44.adf.txt
Links