Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: WGS and RNAseq of grapevines infected with trunk diseases

PROVIDER: PRJNA352065 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR4786040_1.fastq.gz	Fastqsanger.gz
	SRR4786040_2.fastq.gz	Fastqsanger.gz
	SRR4786150.fastq.gz	Fastqsanger.gz
	SRR4786240_1.fastq.gz	Fastqsanger.gz
	SRR4786240_2.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 124

Similar Datasets

Project description:The microbiome of grapevine trunk disease escape grapevines

| PRJNA978637 | ENA

Project description:Biocontrol of Grapevine Trunk Diseases

| PRJNA748884 | ENA

RNA-Seq, WGS, WXS of mouse myeloma tumors derived from Vk*MYC transgenic mice

Project description:Comprehensive genomic analysis (WXS, WGS, RNAseq) identifies shared pathways of progression between human and mouse myeloma.

2024-04-04 | GSE255233 | GEO

Project description:TrunkBioCode - Metagenomic analysis of the trunk microbiome of GTD affected grapevines

| PRJNA1081177 | ENA

Response of Vitis vinifera to Eutypa lata infection

Project description:Three grapevines cultivars (Merlot, Cabernet-Sauvignon and Ugni Blanc) were infected by E. lata. The expression profiles of the wood part near the infection point were determined for both infected and non infected plant for each cultivars with Nimblegen microarrays vitis. Three plants were used for biological replicates. Comparisons between infected and non infected conditions allow, for each cultivars, the identifcation of genes which the expression is modified by E. lata.

2014-02-19 | E-MTAB-1514 | biostudies-arrayexpress

sWGS on paired cfDNA and tissue DNA from pediatric cancer patients

Project description:We performed shallow whole genome sequencing (WGS) on circulating free (cf)DNA extracted from plasma or cerebrospinal fluid (CSF), and shallow WGS on the tissue DNA extracted from the biopsy in order to evaluate the correlation between the two biomaterials. After library construction and sequencing (Hiseq3000 or Ion Proton), copy number variations were called with WisecondorX.

2021-11-17 | E-MTAB-10548 | biostudies-arrayexpress

RNA-Seq of Shiraz grapevines infected with GVA

Project description:RNA-Seq of Shiraz grapevines infected with GVA

| PRJNA1085026 | ENA

Project description:DNA metabarcoding of grapevine trunk disease fungi present within mature grapevines of New Zealand

| PRJNA658210 | ENA

Whole Genome Sequencing of Tongue cancer samples and cell line

Project description:Whole genome sequencing (WGS) of tongue cancer samples and cell line was performed to identify the fusion gene translocation breakpoint. WGS raw data was aligned to human reference genome (GRCh38.p12) using BWA-MEM (v0.7.17). The BAM files generated were further analysed using SvABA (v1.1.3) tool to identify translocation breakpoints. The translocation breakpoints were annotated using custom scripts, using the reference GENCODE GTF (v30). The fusion breakpoints identified in the SvABA analysis were additionally confirmed using MANTA tool (v1.6.0).

2024-02-17 | E-MTAB-12534 | biostudies-arrayexpress

Gene regulation in wild and cultivated Vitis species during deacclimation and budbreak

Project description:Dormant grapevine buds from 4 genotypes were collected over a variable time series after being exposed to growth room temperatures. Buds were collected from the field during winter and assessed for the loss of cold hardiness (deacclimation) in tandem with analysis of gene expression changes. DEGs are examined for various enriched pathways. Wild grapevines deacclimate faster than cultivated grapevines and the entire gene regulation cascade was also faster in wild grapevines. No keystone genes were identified that could explaint he faster phenotype, suggesting all the regulatory pathways are tuned faster in wild grapes.

2020-01-01 | GSE124820 | 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