Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: 1 Mismatch target library for VEGFA (T2)

PROVIDER: PRJNA1006083 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR25659074.fastq.gz	Fastqsanger.gz
	SRR25659075.fastq.gz	Fastqsanger.gz
	SRR25659076.fastq.gz	Fastqsanger.gz

Items per page:

1 - 3 of 3

Similar Datasets

Project description:Mismatch target library for VEGFA (T2)

| PRJNA1006348 | ENA

Project description:Mismatch target library for VEGFA (T3)

| PRJNA1006350 | ENA

Project description:Mismatch target library for EMX1

| PRJNA1006352 | ENA

Mouse brain LC-MS data in DWI-T2 mismatch area after cerebral ischemia

Project description:In ischemic stroke, DWI-T2 mismatch (positive signals on DWI but negative signals on T2) indicates ischemia within 4.5 h. However, the molecular expression pattern of this region remains elusive. This project aimed to reveal the proteomics profiling of the brain tissues at DWI-T2 mismatch, T2(+), and contralateral regions of brain within 4.5 h after middle cerebral artery occlusion compared with naïve brains of mice.

2022-02-17 | PXD027890 | Pride

Project description:CIRCLE-seq of VEGFA (T2)

| PRJNA1008361 | ENA

Nucleosome sliding by the Chd1 chromatin remodeler relies on the integrity of the DNA duplex

Project description:The experiments are done with three libraries by introducing base-pair perturbations on Widom 601: (1) poly(dA:dT) tract library (2) mismatch library (3) insertion library. And additional two more libraries based on native yeast genomic sequences: (4) Park97 mismatch library (5) Park97 insertion library. And we measured the nucleosome positioining in the base-pair resolution for before and after sliding by Chd1 chromatin remodeler.

2022-05-12 | GSE198440 | GEO

Cas13bt3 knockdown of VEGFA mRNA in mammalian cells and mouse retina [RNA-Seq]

Project description:Purpose: We report expression of a new Cas13 enzyme in retinal cells and evaluate its efficacy in targeting the VEGFA mRNA to establish safety and efficacy of the enzyme for anti-VEGFA therapy. Methods: Mammalian cells (HEK293FT) or mouse retina were treated with shRNA, CasRx or Cas13bt3 carrying VEGFA targeting sgRNA. Total RNA was collected for RNA seqeuencing to study VEGFA mRNA expression and well as off-target genes. Results: Significant knockdown of VEGFA mRNA was observed with no effect on predicted off-target genes in mammalina cells and mouse retina. No loss of mouse VEGFA was also detected. Conclusions: AAV2.7m8 can be used for retina-wide transduction, and Cas13bt3 may be a potential new tool for control of VEGFA.

2024-03-01 | GSE259220 | GEO

Gene expression data following Cyclin T2 and Cyclin T1 depletion by shRNA in HeLa cells

Project description:We have characterized gene expression changes in HeLa cells following long term depletion of Cyclin T2 or Cyclin T1 using shRNA HeLa cells were transduced with VSV-G pseudotyped lentiviral vectors expressing shRNA against either Cyclin T2 or Cyclin T1. As a control, cells were transduced with shRNA vector with four nucleotides mismatch in the Cyclin T1 mRNA that has been previously shown to have minimal effects on mRNA expression levels. The vectors have a GFP reporter that can be used to estimate transduction efficiency. Five days post-transduction, cells were harvested and total RNA extracted. Transcriptional profiling was carried out on these RNA samples. Two independent biological replicate experiments were carried out in this analysis and the xpression values normalized by GC-RMA and averaged. The following comparisons were made: MM to Cyclin T2 and MM to Cyclin T1.

2011-08-02 | E-GEOD-28339 | biostudies-arrayexpress

Whole-genome resequencing of wild-type and apomictic BRS CIRAD-302 rice

Project description:This experiment aims at analyzing genotype profiles of wild-type and apomictic BRS CIRAD-302 rice. Leaf samples from plants of the parental, F1, F2, T0, T1, and T2 were used for DNA purification and library preparation for Illumina sequencing (2x150 bp), performed by the Max Planck-Genome-centre Cologne, Germany (https://mpgc.mpipz.mpg.de/home/).

2022-12-02 | E-MTAB-11931 | biostudies-arrayexpress

Whole-genome resequencing of F2 populations from Arabidopsis Col x Ler crosses (sgo2 +/- and sgo2 -/-)

Project description:This experiment aims at analyzing crossover distribution in the Arabidopsis spf2, ctf18 and sgo2 compared to wild type and each other. T1 plants were selfed in the T2 generation, and we selected for mutants that are Cas9-free based on selecting non-fluorescent seeds and validating the T2 plants by PCR, genotyping for the mutation in the gene, and validating via sequencing. If the T2 plant is homozygous for the mutation, then the plant was backcrossed to Ler before crossing it to sgo2-1, ctf18-mp193, and spf2-2 alleles in Col-0. If the T2 Ler plant had the heterozygous mutation, then the plant was crossed to its allele in Col-0. This way we produced, ctf18-mp193/ctf18-del at G181, spf2-3/spf2-del at L90 and sgo2-1/sgo2-del at K74 Col/Ler F1 hybrids. These F1 were validated by PCR for the mutations in both Col and Ler backgrounds and were selfed to produce F2 progeny, which were sequenced. Leaf samples from the self-crossed population were used for DNA purification and library preparation for Illumina sequencing (HiSeq 3000 2 × 150 bp), performed at the Max Planck-Genome-center (https://mpgc.mpipz.mpg.de/home/).

2026-05-21 | E-MTAB-15438 | biostudies-arrayexpress

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