Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: Cell synchronization experiments are consistent with adenine and cytosine base editors reliance on base excision repair

PROVIDER: PRJNA747989 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR15188573_1.fastq.gz	Fastqsanger.gz
	SRR15188573_2.fastq.gz	Fastqsanger.gz
	SRR15188574_1.fastq.gz	Fastqsanger.gz
	SRR15188574_2.fastq.gz	Fastqsanger.gz
	SRR15188575_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 18

Similar Datasets

Bimodal Adenine and Cytosine CRISPR Base Editing on DNA

Project description:Adenine and cytosine base editors (ABEs and CBEs) represent a new genome editing technology that allows the programmable installation of A-to-G or C-to-T alterations on DNA. We engineered Streptococcus pyogenes Cas9-based adenine and cytosine base editor (SpACE) that enables efficient simultaneous introduction of A-to-G and C-to-T substitutions in the same base editing window on DNA.

2020-07-02 | GSE137411 | GEO

Transcriptome-wide effects of cytosine and adenine deaminases on gene expression induced by base editors

Project description:We used RNA-sequencing data to explore the transcriptome-wide effects of cytosine and adenine deaminases on gene expression induced by base editors.

2021-06-01 | GSE158693 | GEO

One-step generation of tumor models by base editor multiplexing in adult stem cell-derived organoids

Project description:Optimization of CRISPR/Cas9-mediated genome engineering has resulted in base editors that hold promise for mutation repair and disease modeling. Here, we demonstrate the application of base editors for the generation of complex tumor models in human ASC-derived organoids. First we show Efficacy of cytosine and adenine base editors in modelingCTNNB1hot-spot mutations in hepatocyte organoids. Next, we use C>T base editors to insert nonsense mutations inPTENin endometrial organoids and demonstrate tumorigenicity even in the heterozygous state. Moreover, drug screening assays on organoids harboring eitherPTENorPTENandPIK3CAmutations reveal the mechanism underlying the initial stages of endometrial tumorigenesis. To further increase the scope of base editing we combine SpCas9 and SaCas9 for simultaneous C>T and A>G editing at individual target sites. Finally, we show that base editor multiplexing allow modeling of colorectal tumorigenesis in a single step by simultaneously transfecting sgRNAs targeting five cancer genes.

2023-07-30 | GSE236490 | GEO

Project description:Cas12a based cytosine base editors (CBEs) and adenine base editors (ABEs) in rice

| PRJNA910189 | ENA

Precise adenine base editors that exhibit minimized cytosine catalysis

Project description:Precise adenine base editors that exhibit minimized cytosine catalysis

| PRJNA693459 | ENA

Single-base resolution analysis of active DNA demethylation using methylase-assisted bisulfite sequencing

Project description:Active DNA demethylation in mammals involves TET-mediated iterative oxidation of 5-methylcytosine (5mC)/5-hydroxymethylcytosine (5hmC) and subsequent excision repair of highly oxidized cytosine bases 5-formylcytosine (5fC)/5-carboxylcytosine (5caC) by Thymine DNA glycosylase (TDG). However, quantitative and high-resolution analysis of active DNA demethylation activity remains challenging. Here we describe M.SssI methylase-assisted bisulfite sequencing (MAB-seq), a method that directly maps 5fC/5caC at single-base resolution. Genome-wide MAB-seq allows systematic identification of 5fC/5caC in Tdg-depleted embryonic stem cells, thereby generating a base-resolution map of active DNA demethylome. A comparison of 5fC/5caC and 5hmC distribution maps indicates that catalytic processivity of TET enzymes correlates with local chromatin accessibility. MAB-seq also reveals strong strand asymmetry of active demethylation within palindromic CpGs. Integrating MAB-seq with other base-resolution mapping methods enables quantitative measurement of cytosine modification states at key transitioning steps of active demethylation pathway, and reveals a regulatory role of 5fC/5caC excision repair in active DNA demethylation cascade. Analysis of 5fC/5caC excision repair-dependent active DNA demethylome by MAB-seq in mouse embryonic stem cells.

2014-11-02 | E-GEOD-62631 | biostudies-arrayexpress

Project description:Precision genome editing using cytosine and adenine base editors in human cells

| PRJNA655949 | ENA

Project description:Examination of the Cell Cycle Dependence of Cytosine and Adenine Base Editors

| PRJNA854675 | ENA

Project description:Examination of the Cell Cycle Dependence of Cytosine and Adenine Base Editors

| PRJNA855031 | ENA

CRISPR adenine and cytosine base editors with reduced RNA off-target activities

Project description:CRISPR adenine and cytosine base editors with reduced RNA off-target activities

| PRJNA533102 | ENA