Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: De Novo Transcriptome Assembly Database for Root and Leaf Tissues of the Endangered Plant Cathaya argyrophylla

PROVIDER: PRJNA1248396 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR33054822_1.fastq.gz	Fastqsanger.gz
	SRR33054822_2.fastq.gz	Fastqsanger.gz
	SRR33054823_1.fastq.gz	Fastqsanger.gz
	SRR33054823_2.fastq.gz	Fastqsanger.gz
	SRR33054824_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 100

Similar Datasets

Cathaya argyrophylla

Project description:Cathaya argyrophylla overview

| PRJNA1106106 | ENA

Comparative analysis of the root and leaf transcriptomes in Chelidonium majus L.

Project description:To understand the biosynthesis of C. majus BIAs, we performed de novo transcriptome sequencing of leaf and root tissues of C. majus using Illumina high-throughput sequencing technology.

2018-07-20 | GSE117393 | GEO

Catharanthus Transcriptome and Gene Expression

2014-07-29 | GSE57326 | GEO

Project description:Cathaya argyrophylla bacterial sequencing

| PRJNA902707 | ENA

Project description:RNA-Seq of Cathaya argyrophylla

| PRJNA844473 | ENA

Cathaya argyrophylla

Project description:Cathaya argyrophylla Raw sequence reads

| PRJNA1105731 | ENA

Catharanthus Transcriptome and Gene Expression

Project description:In this study, we aim to present a global transcriptome analysis of medicinal plant, Catharanthus roseus. We generated about 343 million high-quality reads from three tissues (leaf, root and flower) using Illumina platform. We performed an optimized de novo assembly of the reads and estimated transcript abundance in different tissue samples. The transcriptome dynamics was studied by differential gene expression analyses among tissue samples. We collected different tissue samples from the mature plants. Total RNA isolated from these tissue samples was subjected to Illumina sequencing. The sequence data was further filtered using NGS QC Toolkit to obtain high-quality reads. The filtered reads were used for de novo assembly optimization. The reads were further mapped to the Catharanthus transcripts via CLC Genomics Workbench and differential gene expression analysis was performed using DESeq software.

2014-07-29 | E-GEOD-57326 | biostudies-arrayexpress

De novo transcriptome assembly databases in the butterfly orchid Phalaenopsis equestris

Project description:Orchidaceae are renowned for their spectacular flowers as well as other reproductive and ecological adaptations. After the genome of the tropical epiphytic orchid Phalaenopsis equestris was sequenced, we combined Trinity data for de novo assembly and Illumina HiSeq1500 data for RNA-Seq analysis to characterize the transcriptomes of four different organs for a better understanding of the molecular mechanisms driving these characteristics. We present four de novo assembled transcripts reconstructed from RNA collected from the root, stem, leaf, and flower of Phalaenopsis equestris. These sets of transcripts greatly enrich the available data for Phalaenopsis equestris. Here, we present two databases, and each dataset allows for a different type of search for candidate homologues. The first dataset consists of the sets of assembled unigenes, which enable a sequence-based search. A comprehensive analysis of the assembled unigenes revealed the unigenes from root, stem, leaf, and flower with high e-values aligned versus the Nr, Swiss-Port, KEGG, COG, and GO database, respectively. This analysis enabled the production of a second database, which includes sequences correlated with annotated transcript names as well as the confidence of the best hit from BLAST.

2018-06-30 | GSE70411 | GEO

Transcriptome-wide analysis of wounded region gene expression using detached first-pair rosette leaves before culture (time 0) and 2 day after culture (DAC) from 12-day-old Col-0 seedlings

Project description:To reveal the molecular mechanism during de novo root regeneration from Arabidopsis leaf explants cultured on B5 medium without exogenous hormones, we carried out an RNA-seq experiment using detached leaf explants with partial petiole before culture (i.e. time 0) and 2 d after culturing (DAC) from12-d-old Col-0 seedlings. Gene expression of the wounded region (including the partial petiole and some surrounding tissues), which comprises regeneration-competent cells, was analyzed.

2019-10-22 | GSE139165 | GEO

Leaf excision evokes an ultradian gene expression rhythm to prime de novo root regeneration (eur1-11)

Project description:The eur1-11 which developed by EMS mutation has no ultradian rhythm in excised leaf. This data set was focused on how EUR and eur1-11 effect on de novo root regeneration.

2021-05-01 | GSE158133 | 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