Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Jurkat CRISPRi ATAC-seq [Series 3]

ABSTRACT: We develop a system for bidirectional epigenetic editing (CRISPRai), in which orthogonal activating (CRISPRa) and repressive (CRISPRi) perturbations are applied simultaneously to multiple loci the same cell. We perform ATAC-seq on CRISPRi perturbed Jurkat T cells to investigate chromatin accessibility changes upon perturbation of individual regulatory elements.

ORGANISM(S): Homo sapiens

PROVIDER: GSE261695 | GEO | 2024/03/16

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

CRISPRai Perturb-seq [Series 1]

Project description:We develop a system for bidirectional epigenetic editing (CRISPRai), in which orthogonal activating (CRISPRa) and repressive (CRISPRi) perturbations are applied simultaneously to multiple loci the same cell. We perform Perturb-seq, a method for single-cell RNA-seq paired with CRISPR guide RNA (gRNA) detection, on cells perturbed using CRISPRai for a panel of pairwise combinations of genes in K562 cells.

2024-03-14 | GSE220974 | GEO

CRISPRai Regulatory Element Screens [Series 2]

Project description:We develop a system for bidirectional epigenetic editing (CRISPRai), in which orthogonal activating (CRISPRa) and repressive (CRISPRi) perturbations are applied simultaneously to multiple loci the same cell. We perform CRISPR gRNA enrichment screens to investigate pairwise CRISPRai perturbations of enhancers and the promoter of IL2 and IFNG genes in order to investigate enhancer-enhancer and enhancer-promoter interactions and regulatory element heirarchies.

2024-03-14 | GSE220975 | GEO

Jurkat CRISPRi ATAC-seq [Series 3]

Project description:Jurkat CRISPRi ATAC-seq [Series 3]

| PRJNA1088439 | ENA

CRISPRi Screen for Investigating the RORC RNA Switch Mechanisms in Jurkat Cells

Project description:CRISPRi Screen for Investigating the RORC RNA Switch Mechanisms in Jurkat Cells

| PRJNA1105615 | ENA

CRISPRi/a functional screen with PARP7 inhibitor in NCI-H1373 cells

Project description:PARP7 is a monoPARP that catalyzes the transfer of single units of ADP-ribose onto substrates to change their function. PARP7 expression is increased by aromatic hydrocarbons and cellular stress, and the PARP7 gene is amplified in cancers, especially in those of the upper aerodigestive tract. PARP7 is a negative regulator of nucleic acid sensing in tumor cells. Inhibition of PARP7 restores Type I IFN signaling responses to nucleic acids in tumor models. Restored signaling can directly inhibit cell proliferation and activate the immune system, both of which contribute to tumor regression. RBN-2397 is a potent and selective inhibitor of PARP7. To further explore how RBN-2397 inhibits NCI-H1373 cell proliferation, we performed unbiased genetic screens using whole-genome CRISPRi and CRISPRa libraries (le Sage et al., 2017; Jost and Weissman, 2018). Comparison of CRISPRi and CRISPRa phenotype scores highlights genes with opposing functionality upon RBN-2397 treatment.

2021-06-18 | GSE178386 | GEO

ChIP-seq following CRISPRi perturbations to MYC enhancers in K562 cells

Project description:We previous identified enhancers that regulate MYC expression in K562 cells (Fulco et al. Science 2016). Here, we perturbed MYC enhancers with individual CRISPRi gRNAs and performed ChIP-seq to study the effects on chromatin state.

2023-11-14 | GSE225157 | GEO

CRISPR-based epigenome editing screens identify transcriptional and epigenetic regulators of human CD8 T cell function [CRISPRi/a TF scRNA-seq characterization]

Project description:Human CD8+CCR7+ T cells from three donors were transduced with CRISPRi and CRISPRa TF gRNA libraries and expanded for 10 days. After 10 days, we used single-cell RNA sequencing (scRNA-seq) to analyze the transcriptomic effects of silencing or activating each gene candidate.

2023-05-24 | GSE218985 | GEO

RNA-seq of CSMD1 enhancer CRISPRi in LUHMES cells and differentiated neurons

Project description:we performed lentiviral CRISPR interference (CRISPRi) by recruiting dCas9 fused with the KRAB domain to the CSMD1 enhancer (fam3) in the neuronal precursor cell line – Lund human mesencephalic (LUHMES). Given that the expression of CSMD1 was not detectable in LUHMES cells we differentiated these cells into neurons. Differentiated neurons with CRISPRi of CSMD1 enhancer showed significantly higher expression of CSMD1 than control.

2022-06-30 | E-MTAB-8027 | biostudies-arrayexpress

iPSC RNA-seq upon CRISPRn or CRISPRi manipulation

Project description:Assess the on- and off-target effects of dox-inducible CRISPR/Cas9 and CRISPRi constructs in a human iPS cell line. Transcript quantification of 3 cell lines, each plus or minus doxycycline and with or without specific single guide RNAs (sgRNAs), with 2 biological replicates each.

2016-01-19 | E-GEOD-76980 | biostudies-arrayexpress

Targeted modulation of chicken genes in vitro using CRISPRa and CRISPRi toolkit

Project description:Targeted modulation of chicken genes in vitro using CRISPRa and CRISPRi toolkit

| PRJNA898374 | ENA