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

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

PROVIDER: PRJEB63278 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR11573967_1.fastq.gz	Fastqsanger.gz
	ERR11573967_2.fastq.gz	Fastqsanger.gz
	ERR11573968_1.fastq.gz	Fastqsanger.gz
	ERR11573968_2.fastq.gz	Fastqsanger.gz

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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 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

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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 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

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

| PRJEB43169 | ENA

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

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Editing the core region in HPFH deletions alters fetal and adult globin expression for treatment of β-hemoglobinopathies [4C]

Project description:We have identified putative repressor region (PRR) to exon-1 of β-globin (βE1) in the β-globin cluster as a core region in alll the HPFH deletions that activates fetal hemoglobin and silences adult hemoglobin. To test the impact of PRR-βE1 gene editing in β-globin cluster configuration, we employed Circular chromosome conformation capture (4C) analysis to assess the LCR interaction to the gamma-globin promoter. Using HBG2 promoter as viewpoint,4C analysis showed an increased interaction of HBG promoter to the hypersensitive (HS) sites of the LCR in HUDEP-2 clones harbouring PRR-βE1 biallelic deletions compared to control HUDEP-2 cells. Link for 4C output files Mendeley - Venkatesan, Vigneshwaran (2022), “4C data set ”, Mendeley Data, V1, doi: 10.17632/cz3thnr9kf.1

2022-04-26 | GSE201388 | GEO

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