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Title: Expression data of human CD4 T cells with chronic or acute simian immunodeficiency virus (SIV) infection      
dateReleased:
08-27-2014
description:
We compared gene expression profiles of a human CD4+ T-cell line 24 h after infection with a cell line of the same origin permanently releasing SIVmac251/32H. A new knowledge-based-network approach (Inter-Chain-Finder) was used to identify subnetworks leading to resistance to SIV-induced cell death. Notably, the method can identify not only differentially-expressed key hub genes but also non-differentially expressed, critical, ‘hidden’ regulators. 6 out of the 13 predicted major hidden key regulators were among the landscape of proteins known to interact with HIV. Several subnetworks were dysregulated upon chronic infection with SIV. Most prominently, factors engaged in early stages of viral infection were affected, e.g. entry, integration and provirus transcription or cellular responses like apoptosis and proliferation. Human CD4 T cells with different types of SIV infection were used for RNA extraction and hybridization on Affymetrix HG_U133A microarrays. Our aim is to identify subnetworks in T cells leading to resistance to SIV-induced cell death. To the end, we compared acute infection with chronic infection and mock control infection. Each pair (including three types of infection) was done in duplicate.
privacy:
not applicable
aggregation:
instance of dataset
ID:
E-GEOD-51594
refinement:
raw
alternateIdentifiers:
51594
keywords:
functional genomics
dateModified:
09-01-2014
availability:
available
types:
gene expression
name:
Homo sapiens
ID:
A-AFFY-33
name:
Affymetrix GeneChip Human Genome HG-U133A [HG-U133A]
accessURL: https://www.ebi.ac.uk/arrayexpress/files/E-GEOD-51594/E-GEOD-51594.raw.1.zip
storedIn:
ArrayExpress
qualifier:
gzip compressed
format:
TXT
accessType:
download
authentication:
none
authorization:
none
accessURL: https://www.ebi.ac.uk/arrayexpress/files/E-GEOD-51594/E-GEOD-51594.processed.1.zip
storedIn:
ArrayExpress
qualifier:
gzip compressed
format:
TXT
accessType:
download
authentication:
none
authorization:
none
accessURL: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE51594
storedIn:
Gene Expression Omnibus
qualifier:
not compressed
format:
HTML
accessType:
landing page
primary:
true
authentication:
none
authorization:
none
abbreviation:
EBI
homePage: http://www.ebi.ac.uk/
ID:
SCR:004727
name:
European Bioinformatics Institute
homePage: https://www.ebi.ac.uk/arrayexpress/
ID:
SCR:002964
name:
ArrayExpress

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