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Series GSE34627 Query DataSets for GSE34627
Status Public on Apr 22, 2013
Title Genome-wide analysis of monocytes and T cells' response to interferon beta
Organism Homo sapiens
Experiment type Expression profiling by array
Summary The research hypothesis was that the unique expression profile of monocytes in response to Interferon-beta (IFN-β) might be masked by the response profile of the more abundant T cells. The analysis of monocytes response may highlight novel IFN-β functions and pathways that have not been recognized previously. The aim of this study was to characterized the IFN-β transcriptional response in monocytes, a small but influential cell-subset, using gene expression profile and pathway analysis. The expression profiles of purified human monocytes and T cells pulse with IFN-β overnight were compared, and revealed 276 and 42 Differentially Expressed Genes (DEGs) in monocytes and T cells respectively, with only 5 genes common to both sets. Many of the DEGs detected in monocytes were novel with respect to the recognized IFN-β response, and included genes involved in immune-specific activities, communication between cells, regulation of apoptosis, cell migration, and protein translation. Network and pathway analysis of the T cells response revealed the familiar immune pathways, response to virus pathways, and IFN canonical pathway. In monocytes, however, we detected along with known IFN-β-related pathways, such as cell migration also pathways that had not been previously described in the context of IFN-β response, such as the High-Mobility Group Box-1 (HMGB1) signaling pathway. However, most DEGs in monocytes did not cluster to specific networks or canonical pathways. The monocyte-specific DEGs and pathways described herein are beyond the current knowledge regarding the biology of the IFN-β response and the differential response to IFN-β of monocytes versus T cells described emphasizes the importance of cell-specific studies for elucidating the spectrum of cytokine-mediated immunomodulation.
 
Overall design Monocytes and T lymphocytes were isolated from 3 healthy volunteers. For each sample the expression profile of untreated cells was compared to the profile of IFN-β treated cells, i.e. 4 samples from each donor (2 cell types, with and without treatment), 12 samples total.
 
Contributor(s) Henig N, Avidan N, Paperna T, Pinter RY, Miller A
Citation(s) 23626809
Submission date Dec 21, 2011
Last update date Feb 18, 2019
Contact name Noa Henig
Organization name Technion Israel Institute of Technology
Department Faculty of Medicine
Street address Efron st.
City Haifa
ZIP/Postal code 31096
Country Israel
 
Platforms (1)
GPL6884 Illumina HumanWG-6 v3.0 expression beadchip
Samples (12)
GSM852149 T lymphocytes not treated with IFN-β, individual 1
GSM852150 T lymphocytes treated with IFN-β, individual 1
GSM852151 Monocytes not treated with IFN-β, individual 1
Relations
BioProject PRJNA151275

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
GSE34627_RAW.tar 6.3 Mb (http)(custom) TAR
GSE34627_non-normalized.txt.gz 5.3 Mb (ftp)(http) TXT
Processed data included within Sample table

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