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Series GSE247723 Query DataSets for GSE247723
Status Public on Nov 15, 2023
Title ISGF3 and STAT2/IRF9 direct basal and IFN-induced transcription through genome-wide binding of phosphorylated and unphosphorylated complexes to commonly ISRE containing ISGs  [RNA-Seq]
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary To further understand the role of phosphorylation in ISGF3- and STAT2/IRF9-mediated constitutive and long-term IFN-I-stimulated transcriptional responses, we performed RNA-Seq and ChIP-Seq, in combination with phosphorylation inhibition and anti-viral experiments. First, we identified a group of ISRE-containing ISGs that were commonly regulated in IFNα treated WT and STAT1-KO cells. Thus, in 2fTGH and Huh7.5 WT cells IFNα-inducible transcription and anti-viral activity relied on the recruitment of the ISGF3 components STAT1, STAT2 and IRF9 in a phosphorylation- and time-dependent manner. Likewise, in ST2-U3C and Huh-STAT1KO cells lacking STAT1, ISG expression correlated with DNA-binding of phosphorylated STAT2/IRF9. This pointed to a dominant role of classical ISGF3 and STAT2/IRF9, and not U-ISGF3 or U-STAT2/IRF9, in the regulation of early and prolonged ISG expression and viral protection, in WT and STAT1-KO cells. In addition, comparative experiments in U3C (STAT1-KO) cells overexpressing all ISGF3 components (ST1-ST2-IRF9-U3C), revealed a threshold-dependent role of U-ISFG3, and potentially U-STAT2/IRF9, in the regulation of constitutive and possibly long-term IFNα-treated ISG expression and anti-viral activity.
 
Overall design Gene expression profiling analysis for 2fTGH, ST2-U3C, Huh7.5, and Huh STAT1KO cells treated with IFN alpha and study of constitutive, IFNa-independent antiviral response in cells overexpressing ISGF3 components (ST1-ST2-IRF9-U3C) vs STAT1KO cells (U3C)
 
Contributor(s) Bluyssen HA, Nowicka H
Citation(s) 38139463
Submission date Nov 14, 2023
Last update date Jan 03, 2024
Contact name Hans A.R. Bluyssen
E-mail(s) h.bluyss@amu.edu.pl
Phone +48 061 8295832
Organization name Adam Mickiewicz University
Department Laboratory of Human Molecular Genetics
Street address Uniwersytetu Poznańskiego 6
City Poznan
ZIP/Postal code 61-614
Country Poland
 
Platforms (2)
GPL15456 Illumina HiScanSQ (Homo sapiens)
GPL18573 Illumina NextSeq 500 (Homo sapiens)
Samples (43)
GSM7899367 2fTGH,untreated,rep1
GSM7899368 2fTGH,untreated,rep2
GSM7899369 2fTGH,interferon alpha,1h,rep1
This SubSeries is part of SuperSeries:
GSE247728 ISGF3 and STAT2/IRF9 direct basal and IFN-induced transcription through genome-wide binding of phosphorylated and unphosphorylated complexes to commonly ISRE containing ISGs
Relations
BioProject PRJNA1040216

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SOFT formatted family file(s) SOFTHelp
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Supplementary file Size Download File type/resource
GSE247723_counts_2fTGH.csv.gz 1.3 Mb (ftp)(http) CSV
GSE247723_counts_ST2-U3C.csv.gz 1.4 Mb (ftp)(http) CSV
GSE247723_counts_U3C.csv.gz 882.9 Kb (ftp)(http) CSV
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Raw data are available in SRA
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