Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: Deep sequencing data for ABE based on ScCas9 variants in rice protoplast

PROVIDER: PRJNA1151142 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR30346300_1.fastq.gz	Fastqsanger.gz
	SRR30346300_2.fastq.gz	Fastqsanger.gz
	SRR30346301_1.fastq.gz	Fastqsanger.gz
	SRR30346301_2.fastq.gz	Fastqsanger.gz
	SRR30346302.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 250

Similar Datasets

Project description:Deep sequencing data for GE based on ScCas9 variants in rice protoplast

| PRJNA1150898 | ENA

Project description:Deep sequencing data for GE based on ScCas9 variants in rice protoplast

| PRJNA1151008 | ENA

Project description:Deep sequencing data for sequence specificity on four ScCas9-based variants in rice protoplast

| PRJNA1151135 | ENA

Project description:Deep sequencing data for cytosine base editing on ScCas9 variants in rice protoplast

| PRJNA1182029 | ENA

Project description:Deep sequencing data for prime editing in rice protoplast

| PRJNA918628 | ENA

Project description:Deep sequencing data for prime editing in rice protoplast

| PRJNA808973 | ENA

Systematic optimization of Cas12a base editors in wheat and maize using the ITER platform

Project description:Plant biotechnology needs new methods that accelerate design-build-test-learn cycles to develop new gene editing reagents. We have established ITER (Iterative Testing of Editing Reagents) based on arrayed protoplast transfections and high-content imaging, allowing one optimization cycle –from design to results– within three weeks. We validated ITER in wheat and maize protoplasts using Cas9 cytosine and adenine base editors and used it to develop an optimized LbCas12a-ABE system. Sequential improvement of five components –NLS, crRNA, LbCas12a nuclease, adenine deaminase and linker– led to a systematic, stepwise increase in ABE activity at extrachromosomal GFP reporter (from 0.5% to 40%) and endogenous target sites. We confirmed the activity of LbCas12a-ABE in stable wheat transformants and leveraged these improvements to develop a highly mutagenic LbCas12a nuclease and a LbCas12a-CBE. Our data show that ITER is a sensitive, versatile, and high-throughput platform that can be harnessed to accelerate the development of genome editing technologies in plants.

2022-11-21 | GSE200450 | GEO

S-acylproteomic analysis of human prostate cancer LNCaP cells by LB-ABE

Project description:Deep S-acylproteomic analysis of LNCaP cells by coupling LB-ABE with label-free quantitative proteomics

2021-09-08 | PXD013187 | Pride

Expression profiling of small RNAs in control and H2O2-treated rice seedlings

Project description:We aimed to identify putative H2O2-regulated miRNAs expressed in rice seedlings under oxidative stress by using a deep sequencing approach developed by Solexa (Illumina). Two small RNA libraries were constructed from H2O2-treated and control rice seedlings, and more than five million small RNA sequence reads were generated for each library. We identified seven H2O2-responsive miRNA families via expression profiling of the miRNAs based on a comparative miRNAomic analysis in combination with experimental validation. Furthermore, 32 miRNAs, 17 from known miRNA loci and 15 from novel miRNA loci, were also newly identified from the sequencing data. To the best of our knowledge, this is the first report of a systematic investigation of H2O2-regulated miRNAs and their targets in plants.

2010-08-15 | GSE23217 | GEO

Expression profiling of small RNAs in wild type and Osaba1-1 rice seedlings

Project description:We aimed to identify putative ABA-regulated miRNAs expressed in rice by using a deep sequencing approach developed by Solexa (Illumina). Two small RNA libraries were constructed from Osaba1-1 and wild type rice leaves, and more than ten million small RNA sequence reads were generated for each library. We identified 13 ABA-regulated miRNAs via expression profiling of the miRNAs based on a comparative miRNAomic analysis in combination with experimental validation. To the best of our knowledge, this is the first report of a systematic investigation of ABA-regulated miRNAs and their targets in rice.

2015-05-31 | GSE63367 | 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