Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Site-specific manipulation of Arabidopsis loci using CRISPR-Cas9 SunTag systems

ABSTRACT: Site-specific manipulation of Arabidopsis loci using CRISPR-Cas9 SunTag systems

PROVIDER: PRJNA515610 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR8450380.fastq.gz	Fastqsanger.gz
	SRR8450390.fastq.gz	Fastqsanger.gz
	SRR8450400.fastq.gz	Fastqsanger.gz
	SRR8450410.fastq.gz	Fastqsanger.gz
	SRR8450420.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 138

Similar Datasets

Site-specific manipulation of Arabidopsis loci using CRISPR-Cas9 SunTag systems

Project description:Understanding genomic functions requires site-specific manipulation of loci via efficient protein effector targeting systems. However, few approaches for targeted manipulation of the epigenome are available in plants. Here, we adapt the dCas9-SunTag system to engineer targeted gene activation and DNA methylation in Arabidopsis. We demonstrate that a dCas9-SunTag system utilizing the transcriptional activator VP64 drives robust and specific activation of several loci, including protein coding genes and transposable elements, in diverse chromatin contexts. In addition, we present a CRISPR-based methylation targeting system for plants, utilizing a SunTag system with the catalytic domain of the Nicotiana tabacum DRM methyltransferase, which efficiently targets DNA methylation to specific loci, including the FWA promoter, triggering a developmental phenotype, and the SUPERMAN promoter. These SunTag systems represent valuable tools for the site-specific manipulation of plant epigenomes.

2019-01-22 | GSE125230 | GEO

Site-specific manipulation of Arabidopsis loci using CRISPR-Cas9 SunTag systems.

| S-EPMC6374409 | biostudies-literature

DNA epigenome editing using CRISPR-Cas SunTag-directed DNMT3A [RRBS]

Project description:We demonstrate that dCas9-SunTag-DNMT3A dramatically increased CpG methylation at the HOXA5 locus in human embryonic kidney 293T cells (HEK293T). Furthermore, using a single sgRNA, dCas9-SunTag-DNMT3A was able to methylate a 4.5 kb genomic region and repress HOXA5 gene expression. Reduced representation bisulfite sequencing (RRBS) and RNA-seq showed that dCas9-SunTag-DNMT3A methylated regions of interest with minimal impact on the global DNA methylome and transcriptome.

2017-08-22 | GSE97813 | GEO

DNA epigenome editing using CRISPR-Cas SunTag-directed DNMT3A [WGBS]

2017-08-22 | GSE97814 | GEO

DNA epigenome editing using CRISPR-Cas SunTag-directed DNMT3A [BS-Seq]

Project description:Here, we demonstrate that dCas9-SunTag-DNMT3A dramatically increased CpG methylation at the HOXA5 locus in human embryonic kidney 293T cells (HEK293T). Furthermore, using a single sgRNA, dCas9-SunTag-DNMT3A was able to methylate a 4.5 kb genomic region and repress HOXA5 gene expression. Reduced representation bisulfite sequencing (RRBS) and RNA-seq showed that dCas9-SunTag-DNMT3A methylated regions of interest with minimal impact on the global DNA methylome and transcriptome.

2017-08-22 | GSE97812 | GEO

DNA epigenome editing using CRISPR-Cas SunTag-directed DNMT3A [RNA-Seq]

2017-08-22 | GSE97815 | GEO

"TRADES": Targeted RNA demethylation by Suntag system

Project description:We engineered a new m6A editing system consisting of GCN4 (SunTag)-dCas13b, anti-GCN4 single chain variable fragment (scFv)-FTO or ALKBH5-GBI and sgRNA to provide an applicable method to remove m6A modification at specific loci.

2020-10-09 | GSE139647 | GEO

Efficient manipulation of gene dosage in human iPSCs using CRISPR/Cas9 nickases

Project description:Efficient manipulation of gene dosage in human iPSCs using CRISPR/Cas9 nickases

| PRJNA672661 | ENA

"TRADES": Targeted RNA demethylation by Suntag system

Project description:"TRADES": Targeted RNA demethylation by Suntag system

| PRJNA586772 | ENA

Targeted DNA demethylation of the Arabidopsis genome using the SunTag-dCpf1-TET1cd system

Project description:DNA methylation is a stable and heritable epigenetic mark, and it plays an important role in regulation of gene expression and transposon silencing. Here we developed a CRISPR/dCpf1-based targeted demethylation system using the catalytic domain of the human demethylase TEN-ELEVEN TRANSLOCATION1 (TET1cd) and a SunTag system. The SunTag-dCpf1-TET1cd system is able to achieve targeted DNA demethylation and ur-regulate gene expression when guided to the FWA or CACTA1 loci in Arabidopsis thaliana. Our study provides tools for targeted removal of DNA cytosine methylation, and activation of protein-coding genes or transposons expression.

2023-05-02 | GSE221829 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

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