Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Systematic comparison of CRISPR-based transcriptional activators uncovers gene-regulatory features of enhancer-promoter interactions

ABSTRACT: Systematic comparison of CRISPR-based transcriptional activators uncovers gene-regulatory features of enhancer-promoter interactions

PROVIDER: PRJNA847957 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Similar Datasets

Systematic comparison of CRISPR-based transcriptional activators uncovers gene-regulatory features of enhancer-promoter interactions

Project description:Nuclease-inactivated CRISPR/Cas-based (dCas-based) systems have emerged as powerful technologies to synthetically reshape the human epigenome and gene expression. Despite the increasing adoption of these platforms, their relative potencies and mechanistic differences are incompletely characterized, particularly at human enhancer-promoter pairs. Here we systematically compared the most widely adopted dCas9-based transcriptional activators, as well as a novel activator consisting of dCas9 fused to the catalytic core of the human CBP protein, at human enhancer-promoter pairs. We find that these platforms display variable comparative expression levels in different human cell types and that their relative transactivation efficacies vary based upon the effector domain, effector recruitment architecture, targeted locus, and cell type. We also show that each dCas9-based activator can induce the production of enhancer RNAs (eRNAs), and that this eRNA induction is highly correlated with downstream mRNA expression from a cognate promoter. Additionally, we use dCas9-based activators to show that an intrinsic transcriptional and epigenetic reciprocity can exist between human enhancers and promoters and that contact frequencies between an enhancer and corresponding downstream promoter can be increased by targeting dCas9-based transcriptional activators to an enhancer. Collectively, our study provides new insights into the enhancer-mediated control of human gene expression and the use of dCas9-based activators.

2022-06-21 | GSE205858 | GEO

Multi-task learning uncovers robust translation cis-regulatory features

Project description:Multi-task learning uncovers robust translation cis-regulatory features

| PRJNA832965 | ENA

Systematic analysis of paralogous regions in 41,755 exomes uncovers clinically relevant variation

Project description:As part of the study "Systematic analysis of paralogous regions in 41,755 exomes uncovers clinically relevant variation" we wanted to identiffy the SNVs that are located in STRC and which ones in STRCP1. For this we applied targeted long-read sequencing.

| EGAS00001007513 | EGA

Metabolic labeling of RNAs uncovers hidden features and dynamics of the Arabidopsis thaliana transcriptome

Project description:Metabolic labeling of RNAs uncovers hidden features and dynamics of the Arabidopsis thaliana transcriptome

| PRJNA485744 | ENA

Metabolic labeling of RNAs uncovers hidden features and dynamics of the Arabidopsis thaliana transcriptome [ERIC]

Project description:Metabolic labeling of RNAs uncovers hidden features and dynamics of the Arabidopsis thaliana transcriptome [ERIC]

| PRJNA485747 | ENA

Metabolic labeling of RNAs uncovers hidden features and dynamics of the Arabidopsis thaliana transcriptome [NEU]

Project description:Metabolic labeling of RNAs uncovers hidden features and dynamics of the Arabidopsis thaliana transcriptome [NEU]

| PRJNA485748 | ENA

Systematic mapping of RNA-chromatin interactions in vivo

Project description:Systematic mapping of RNA-chromatin interactions in vivo

| PRJNA357269 | ENA

Charting DENR-dependent translation reinitiation uncovers predictive uORF features and links to circadian timekeeping via Clock

Project description:Charting DENR-dependent translation reinitiation uncovers predictive uORF features and links to circadian timekeeping via Clock

| PRJNA477799 | ENA

Single-cell RNA sequencing of human, macaque, and mouse testes uncovers primate-specific features of spermatogenesis

Project description:Single-cell RNA sequencing of human, macaque, and mouse testes uncovers primate-specific features of spermatogenesis

| PRJNA597586 | ENA

Charting DENR-dependent translation reinitiation uncovers predictive uORF features and links to circadian timekeeping via Clock

Project description:Charting DENR-dependent translation reinitiation uncovers predictive uORF features and links to circadian timekeeping via Clock

| PRJNA513492 | ENA

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data