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4C-Seq identify the interaction between IRF8 promoter and rs2280381-containing region

ABSTRACT: 4C-Seq identify the interaction between IRF8 promoter and rs2280381-containing region

PROVIDER: PRJEB43169 | ENA |

REPOSITORIES: ENA

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4C-Seq identify the interaction between IRF8 promoter and rs2280381-containing region

Project description:To test if there is a physical interaction between the IRF8 promoter and the rs2280381-containing region, we conducted circular chromatin conformation capture assay in the U937 cell. For the IRF8 viewpoint group, we used CSP6I as the first digested enzyme and NlaIII as the second enzyme. For the rs2280381-containing region, we used MboI as the first digested enzyme and NlaIII as the second enzyme. We use 4C-PCR primer to construct IRF8 point view and rs2280381-containing region 4C library.

2021-07-01 | E-MTAB-10120 | biostudies-arrayexpress

4C-Seq identify the interaction between IRF8 promoter and rs2280381-containing region in human primary monocyte

Project description:To test if lncRNA AC092723.1 play a role in physical interaction between the IRF8 promoter and the rs2280381-containing region, we conducted circular chromatin conformation capture assay in the human primary monocyte. We knock down lncRNA AC092723.1 by electro-transfecting ASOs, the control group is transfected negtive ASOs with no impact on lncRNA AC092723.1.We used CSP6I as the first digested enzyme and NlaIII as the second enzyme. After constructing 4C library,we then utilize 4C-PCR primer to construct IRF8 point view 4C library.

2022-02-25 | E-MTAB-11175 | biostudies-arrayexpress

4C-Seq identify the interaction between IRF8 promoter and rs2280381-containing region in human primary monocyte

Project description:4C-Seq identify the interaction between IRF8 promoter and rs2280381-containing region in human primary monocyte

| PRJEB48918 | ENA

4C-Seq identify the interaction between miR-146a promoter and rs2431697-containing region

Project description:To test the genomic region containing rs2431697 whether forms a cognate enhancer-promoter loop with the miR-146a promoter and modulates the expression of miR-146a, we perfomed 4C-seq in U-937 cell line based on the rs2431697 view point and miR-146a promoter view point.

2020-11-05 | E-MTAB-8974 | biostudies-arrayexpress

4C-Seq identify the interaction between miR-146a promoter and rs2431697-containing region

Project description:To test the genomic region containing rs2431697 whether forms a cognate enhancer-promoter loop with the miR-146a promoter and modulates the expression of miR-146a, we perfomed 4C-seq in U-937 cell line based on miR-146a promoter view point (First digestion enzyme MboI, second digestion enzyme NlaIII) and rs2431697 view point (First digestion enzyme CSP6I, second digestion enzyme NlaIII).

2020-11-05 | E-MTAB-9581 | biostudies-arrayexpress

4C-Seq identify the interaction between miR-146a promoter and rs2431697-containing region

Project description:4C-Seq identify the interaction between miR-146a promoter and rs2431697-containing region

| PRJEB40393 | ENA

4C-Seq identify the interaction between miR-146a promoter and rs2431697-containing region

Project description:4C-Seq identify the interaction between miR-146a promoter and rs2431697-containing region

| PRJEB37911 | ENA

4C-seq on MYC/IRF8

Project description:4C-seq on MYC/IRF8

| PRJNA664745 | ENA

4C-Seq identifies the chromatin interaction landscape of the miR-146a promoter region

Project description:To test the chromatin interaction landscape of the miR-146a promoter region, we performed 4C-seq in JURKAT and RAJI cell lines based on the miR-146a promoter viewpoint. (First digestion enzyme MboI, second digestion enzyme NlaIII)

2023-06-19 | E-MTAB-13082 | biostudies-arrayexpress

4C-seq on MYC/IRF8

Project description:Cancer cell type-selective addiction of transcription-chromatin regulatory program provides opportunities for therapeutic interventions. Here, we uncovered an IRF8-MEF2D transcription factor (TF) regulatory circuit as an acute myeloid leukemia (AML)-biased dependency. Combining CRISPR-based genetic screens, transcriptional analysis, and chromatin profiling, we demonstrated that a chromatin regulator, ZMYND8, directly regulates IRF8 and MYC expression through occupying AML-specific enhancer regions. ZMYND8 was essential for AML proliferation both in vitro and in vivo. The ZMYND8-occupied IRF8 enhancer was further characterized using Circular Chromosome Conformation Capture and CRISPRi-based perturbation assays and was observed in primary patient cells. Importantly, mutagenesis experiments revealed that the PHD/Bromodomain/PWWP reader module is required for ZMYND8 tethering to leukemia-essential co-activator BRD4 for enhancer-mediated gene regulation. Our results rationalize ZMYND8 as a potential selective therapeutic target for modulating the IRF8/MYC transcriptional networks in AML.

2021-09-06 | GSE158281 | GEO

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