Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Sensitive dissection of a genomic regulatory landscape using bulk and targeted single-cell activation [bulkCRISPR-screen]

ABSTRACT: Sensitive dissection of a genomic regulatory landscape using bulk and targeted single-cell activation [bulkCRISPR-screen]

PROVIDER: PRJNA1145464 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other
	SRR30164487.fastq.gz	Fastqsanger.gz
	SRR30164493.fastq.gz	Fastqsanger.gz
	SRR30164494.fastq.gz	Fastqsanger.gz
	SRR30164497.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 6

Similar Datasets

Sensitive dissection of a genomic regulatory landscape using bulk and targeted single-cell activation [NuCaptureC]

Project description:Sensitive dissection of a genomic regulatory landscape using bulk and targeted single-cell activation [NuCaptureC]

| PRJNA1145466 | ENA

Sensitive dissection of a genomic regulatory landscape using bulk and targeted single-cell activation [ATAC-seq]

Project description:Sensitive dissection of a genomic regulatory landscape using bulk and targeted single-cell activation [ATAC-seq]

| PRJNA1145462 | ENA

Sensitive dissection of a genomic regulatory landscape using bulk and targeted single-cell activation [TESLA-seq]

Project description:Sensitive dissection of a genomic regulatory landscape using bulk and targeted single-cell activation [TESLA-seq]

| PRJNA1145465 | ENA

Sensitive dissection of a genomic regulatory landscape using bulk and targeted single-cell activation [bulkCRISPR-screen]

Project description:Transcriptional enhancers are non-coding DNA elements that regulate gene transcription in a temporal and tissue-specific manner. Despite advances in computational and experimental methods, identifying enhancers and their target genes essential for specific biological processes remains challenging. Determining target genes for enhancers is also complex and often relies on indirect, low-resolution, and/or assumptive methodologies. To identify and functionally perturb enhancers at their endogenous sites without altering their sequence, we performed a pooled tiling CRISPR activation (CRISPRa) screen surrounding PHOX2B, a master regulator of neuronal cell fate and a key player in neuroblastoma development. This screen allowed the identification of CRISPRa- responsive elements (CaREs) that alter cellular growth within the 2 Mb genomic region. To determine CaRE target genes, we developed TESLA-seq (TargEted- SingLe- cell- Activation), which combines CRISPRa screening with targeted single-cell RNA-sequencing, and identified functional CaRE-target gene pairs. While most TESLA-revealed CaRE-gene relationships involved neuroblastoma-related regulatory elements already active in the system, we found many CaREs and target connections normally active only in other tissue types or with no previous evidence and induced out of context by CRISPRa. This highlights the power of TESLA-seq to reveal gene regulatory networks active outside of a given experimental system.

2025-06-01 | GSE274255 | GEO

Sensitive dissection of a genomic regulatory landscape using bulk and targeted single-cell activation [Chromatin RNA-seq]

Project description:Sensitive dissection of a genomic regulatory landscape using bulk and targeted single-cell activation [Chromatin RNA-seq]

| PRJNA1145467 | ENA

Sensitive dissection of a genomic regulatory landscape using bulk and targeted single-cell activation [NuCaptureC]

2025-06-01 | GSE274257 | GEO

Sensitive dissection of a genomic regulatory landscape using bulk and targeted single-cell activation [ATAC-seq]

2025-06-01 | GSE274254 | GEO

Sensitive dissection of a genomic regulatory landscape using bulk and targeted single-cell activation [TESLA-seq]

2025-06-01 | GSE274256 | GEO

Sensitive dissection of a genomic regulatory landscape using bulk and targeted single-cell activation [Chromatin RNA-seq]

2025-06-01 | GSE274258 | GEO