The combination of gene perturbation assay and ChIP-chip reveals functional direct target genes for IRF8 in THP-1 cells

Kubosaki, A, Lindgren, G, Tagami, M, Simon, C, Tomaru, Y, Miura, H, Suzuki, T, Arner, E, Forrest, ARR, Irvine, KM, Schroder, K, Hasegawa, Y, Kanamori-Katayama, M, Rehli, M, Hume, DA, Kawai, J, Suzuki, M, Suzuki, H and Hayashizaki, Y (2010) The combination of gene perturbation assay and ChIP-chip reveals functional direct target genes for IRF8 in THP-1 cells. Molecular Immunology, 47 14: 2295-2302. doi:10.1016/j.molimm.2010.05.289


Author Kubosaki, A
Lindgren, G
Tagami, M
Simon, C
Tomaru, Y
Miura, H
Suzuki, T
Arner, E
Forrest, ARR
Irvine, KM
Schroder, K
Hasegawa, Y
Kanamori-Katayama, M
Rehli, M
Hume, DA
Kawai, J
Suzuki, M
Suzuki, H
Hayashizaki, Y
Title The combination of gene perturbation assay and ChIP-chip reveals functional direct target genes for IRF8 in THP-1 cells
Journal name Molecular Immunology   Check publisher's open access policy
ISSN 0161-5890
1872-9142
Publication date 2010-08
Sub-type Article (original research)
DOI 10.1016/j.molimm.2010.05.289
Volume 47
Issue 14
Start page 2295
End page 2302
Total pages 8
Place of publication Oxford, United Kingdom
Publisher Pergamon
Collection year 2011
Language eng
Abstract Gene regulatory networks in living cells are controlled by the interaction of multiple cell type-specific transcription regulators with DNA binding sites in target genes. Interferon regulatory factor 8 (IRF8), also known as interferon consensus sequence binding protein (ICSBP), is a transcription factor expressed predominantly in myeloid and lymphoid cell lineages. To find the functional direct target genes of IRF8, the gene expression profiles of siRNA knockdown samples and genome-wide binding locations by ChIP-chip were analyzed in THP-1 myelomonocytic leukemia cells. Consequently, 84 genes were identified as functional direct targets. The ETS family transcription factor PU.1, also known as SPI1, binds to IRF8 and regulates basal transcription in macrophages. Using the same approach, we identified 53 direct target genes of PU.1; these overlapped with 19 IRF8 targets. These 19 genes included key molecules of IFN signaling such as OAS1 and IRF9, but excluded other IFN-related genes amongst the IRF8 functional direct target genes. We suggest that IRF8 and PU.1 can have both combined, and independent actions on different promoters in myeloid cells. © 2010 Elsevier Ltd.
Keyword ChIp-chip
IRF8
PU 1
Interferon
REGULATORY FACTOR FAMILY
Q-Index Code C1
Q-Index Status Confirmed Code
Institutional Status UQ

Document type: Journal Article
Sub-type: Article (original research)
Collections: Official 2011 Collection
Institute for Molecular Bioscience - Publications
 
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Created: Sun, 12 Dec 2010, 00:02:50 EST