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E-GEOD-30734 - Genome-wide binding map of the HIV Tat protein to the human genome (gene expression)

Status
Released on 6 November 2011, last updated on 4 May 2014
Organism
Homo sapiens
Samples (4)
Array (1)
Protocols (7)
Description
The HIV-1 Trans-Activator of Transcription (Tat) protein binds to multiple host cellular factors and greatly enhances the level of transcription of the HIV genome. Here, we report the genome-wide binding map of Tat to the human genome in Jurkat T cells (Jurkat-Tat cells) using chromatin immunoprecipitation combined with next-generation sequencing. cDNA microarray was used to monitor gene expression changes between Jurkat and Jurkat-Tat cells. Additionally, we compared distribution of H3K9ac near gene promoters between Jurkat and Jurkat-Tat cells using ChIP-chip method and hybridized onto Agilent promoter array. Our data reveal that Tat’s interaction with the host genome is more extensive than previously thought, with potentially important implications for the viral life cycle. Agilent gene expression microarray was used to compare gene expression changes between Jurkat T cells and Jurkat T cells expressing HIV-Tat protein (Jurkat-Tat T cells) Expression profiles on Jurkat-Tat cells versus Jurkat cells. ChIP on chip for H3K9ac in Jurkat-Tat versus Jurkat cells. ChIP-seq for HIV-1 Tat protein in Jurkat-Tat cells.
Experiment type
transcription profiling by array 
Contacts
Siavash K Kurdistani <Skurdistani@mednet.ucla.edu>, Celine Marrban, Siavash Kurdistani, Trent Su
MIAME
PlatformsProtocolsVariablesProcessedRaw
Files
Investigation descriptionE-GEOD-30734.idf.txt
Sample and data relationshipE-GEOD-30734.sdrf.txt
Raw data (1)E-GEOD-30734.raw.1.zip
Processed data (1)E-GEOD-30734.processed.1.zip
Array designA-GEOD-7031.adf.txt
R ExpressionSetE-GEOD-30734.eSet.r
Links