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Chromatin accessibility assay at single-cell level (scATAC-seq) of the K562 cells with CRISPR-Cas9 KO of either HUB162 or HUB161

ABSTRACT: chromatin accessibility assay at single-cell level (scATAC-seq) of the K562 cells with CRISPR-Cas9 KO of either HUB162 or HUB161

PROVIDER: PRJNA964719 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR24376015_1.fastq.gz	Fastqsanger.gz
	SRR24376015_2.fastq.gz	Fastqsanger.gz
	SRR24376016_1.fastq.gz	Fastqsanger.gz
	SRR24376016_2.fastq.gz	Fastqsanger.gz

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chromatin accessibility assay at single-cell level (scATAC-seq) of the K562 cells with CRISPR-Cas9 KO of either HUB162 or HUB161

Project description:HUB162 (chr11:42,878,450-42,883,450, hg38) was identified as an essential locus in the quiescent region in the K562 cells, and HUB161 (chr11:42,873,450-42,878,450, hg38) as a nonessential one. We used scATAC-seq of 10x Genomics Chromium to study chromatin accessibiliy after CRISPR-Cas9 deletion of either HUB162 (Ess) or HUB161 (Noness)

2023-06-01 | GSE231380 | GEO

RNA-seq of engineered K562 cell line by CRISPR/Cas9 generation of t(7;12)(q36;p13) chromosomal translocation

Project description:We recreated the t(7;12) translocation in K562 cells by CRISPR/Cas9 to understand its effects on haematopoietic cells, which is of relevance to understand how this cytogenetic abnormalities causes and promotes acute leukaemia in infants. Wild-type K562 were edited by electroporation of ribonucleoprotein complexes consisting of Cas9 enzyme and two guide RNAs targeting patient-specific breakpoint loci. K562 electroporated with Cas9 enzyme only were used as control. Edited K562 harbouring the t(7;12) were single-cell cloned to obtain homogeneous populations (hereby referred to as K562-t(7;12)). We performed RNA sequencing analysis of K562-t(7;12) compared to K562 control to uncover transcriptional changes associated with the translocation.

2022-09-06 | E-MTAB-11851 | biostudies-arrayexpress

Single-cell chromatin accessibility data from K562 cells using scATAC-seq

Project description:Profiles of single cell epigenomes, assayed using scATAC-seq, in K562 cells.

2017-05-23 | GSE99172 | GEO

gene profiling at single-cell level of the K562 cells with CRISPR-Cas9 KO of either HUB162 or HUB161

Project description:HUB162 (chr11:42,878,450-42,883,450, hg38) was identified as an essential locus in the quiescent region in the K562 cells, and HUB161 (chr11:42,873,450-42,878,450, hg38) as a nonessential one. We used scRNA-seq of 10x Genomics Chromium to study gene expression after CRISPR-Cas9 deletion of either HUB162 (Ess) or HUB161 (Noness)

2023-06-01 | GSE231382 | GEO

CRISPR-Cas9 knockdown of RBM48 in K562 cells

Project description:CRISPR-Cas9 knockdown of RBM48 in K562 cells

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Hi-C of the K562 cells with CRISPR-Cas9 KO of either HUB162 or HUB161

Project description:HUB162 (chr11:42,878,450-42,883,450, hg38) was identified as an essential locus in the quiescent region in the K562 cells, and HUB161 (chr11:42,873,450-42,878,450, hg38) as a nonessential one. We used Arima Hi-C to study chromosomal structure after CRISPR-Cas9 deletion of either HUB162 (Ess) or HUB161 (Noness)

2023-06-01 | GSE231381 | GEO

gene profiling at single-cell level of the K562 cells with CRISPR-Cas9 KO of either HUB162 or HUB161

Project description:gene profiling at single-cell level of the K562 cells with CRISPR-Cas9 KO of either HUB162 or HUB161

| PRJNA964720 | ENA

Hi-C of the K562 cells with CRISPR-Cas9 KO of either HUB162 or HUB161

Project description:Hi-C of the K562 cells with CRISPR-Cas9 KO of either HUB162 or HUB161

| PRJNA964721 | ENA

Expression data from Ribonuclease Inhibitor (RI/Rnh1) deficient Human K562 cells

Project description:Summary: Ribonuclease Inhibitor (RI also known as Rnh1) is a 50 kDa, ubiquitously expressed leucine-rich repeat (LRR) protein. It is localized in cytosol and binds to pancreatic-type ribonucleases and inhibit their function. However, the entire biological role for Rnh1 is unknown. We generated RNH1 knock out K562 cells by CRISPR/Cas9 method. Here we studied differential gene expression from wild type and RNH1 knock out K562 cells by RNA-Seq analysis. Overall design: Total RNA was isolated from wild type and RNH1 deficient K562 cells.

2017-03-05 | E-MTAB-5162 | biostudies-arrayexpress

HSCB KO vs NC K562 cells TMT LC/MS

Project description:We utilized tandem mass tag (TMT)-based mass spectrometry to characterize nuclear proteomic changes between HSCB KO and NC K562 cells.

2024-05-16 | PXD041272 | Pride

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