A dual cis-regulatory code links IRF8 to constitutive and inducible gene expression in macrophages.
Transcriptomics Dataset
FAIR Metrics
0 evaluations
General Information
| Accession | GSE56122 |
| Title | A dual cis-regulatory code links IRF8 to constitutive and inducible gene expression in macrophages. |
| Description | IThe transcription factor (TF) interferon regulatory factor 8 (IRF8) controls both developmental and inflammatory stimulus-inducible genes in macrophages, but the mechanisms underlying these two different functions are largely unknown. One possibility is that these different roles are linked to the ability of IRF8 to bind alternative DNA sequences. We found that IRF8 is recruited to distinct sets of DNA consensus sequences before and after lipopolysaccharide (LPS) stimulation. In resting cells, IRF8 was mainly bound to composite sites together with the master regulator of myeloid development PU.1. Basal IRF8PU.1 binding maintained the expression of a broad panel of genes essential for macrophage functions (such as microbial recognition and response to purines) and contributed to basal expression of many LPS-inducible genes. After LPS stimulation, increased expression of IRF8, other IRFs, and AP-1 family TFs enabled IRF8 binding to thousands of additional regions containing low-affinity multimerized IRF sites and composite IRFAP-1 sites, which were not premarked by PU.1 and did not contribute to the basal IRF8 cistrome. While constitutively expressed IRF8-dependent genes contained only sites mediating basal IRF8/PU.1 recruitment, inducible IRF8-dependent genes contained variable combinations of constitutive and inducible sites. Overall, these data show at the genome scale how the same TF can be linked to constitutive and inducible gene regulation via distinct combinations of alternative DNA-binding sites. |
| Landing Page | https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE56122 |
| Repository | Gene Expression Omnibus |
Related Datasets
GSE77885
The macrophage IRF8-IRF1 regulome is required for protection against infections, and is associated with chronic inflammation (RNA-Seq)
1
GSE40726
Transcriptional profiling of IRF4 -/- vs IRF4 +/- T-cells under Th17 polarizing conditions
7
GSE26817
Impact of IRF1 on transcriptome changes in Huh-7 human hepatoma cells and STAT1-deficient human fibroblasts
7
GSE51932
Expression data from murine irf4-/- and irf4+/+ mature B cells purified by magnetic cell separation
7
Tools
used to analyze the dataset
Canned Analyses
generated with the dataset
FAIR Evaluation
Sorry, you must be signed in to evaluate this object.
