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

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

PROVIDER: PRJNA964720 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR24376122_1.fastq.gz	Fastqsanger.gz
	SRR24376122_2.fastq.gz	Fastqsanger.gz
	SRR24376123_1.fastq.gz	Fastqsanger.gz
	SRR24376123_2.fastq.gz	Fastqsanger.gz

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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.

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

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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)

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

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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)

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