Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Rhizophora mangle

ABSTRACT: Rhizophora mangle Transcriptome or Gene expression

PROVIDER: PRJNA476540 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR7366890_1.fastq.gz	Fastqsanger.gz
	SRR7366890_2.fastq.gz	Fastqsanger.gz
	SRR7366900_1.fastq.gz	Fastqsanger.gz
	SRR7366900_2.fastq.gz	Fastqsanger.gz
	SRR7366910_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 60

Similar Datasets

Rhizophora mangle strain:Belize

Project description:Rhizophora mangle transcriptome project

| PRJNA65413 | ENA

Rhizophora mangle strain:Belize

Project description:Rhizophora mangle overview

| PRJNA65415 | ENA

Resequencing data of Rhizophora mangle

Project description:Resequencing data of Rhizophora mangle.

| PRJEB21001 | ENA

Rhizophora mucronata

Project description:Rhizophora mucronata Transcriptome or Gene expression

| PRJNA345155 | ENA

Rhizophora mucronata Lam. de novo transcriptome - Gene expression estimation

Project description:Rhizophora mucronata Lam., a prevalent mangrove variety of Indo-Pacific region is reported to defy saline stress up to 40 ppt, but the genome or transcriptome behind this tolerance is yet to be investigated. As an initiative to create a reference sequence database, we have forged a set of 46,366,348 paired end RNA-Seq raw reads of Rhizophora mucronata Lam. leaf tissues from Illumina HiSeq 2500 platform (SRA study accession SRP093200 ; Bioproject accession PRJNA345155). All possible gene transcripts were then reconstructed from the RNA raw seq data and 93960 Trinity assembled, annotated transcripts that are being actively expressed at a given time is proposed (TSA accession GGEC00000000). To estimate gene transcript expression, we used Bowtie 2 programme and successfully aligned back up to 95.14% of the filtered reads to the assembled transcriptome. We allowed up to 1-mismatches in the seed region (length =31bp) and all multiple mapped position were reported. Of all filtered reads about 95.14% of reads from each sample were properly aligned back to the assembled transcriptome. Overall we found 52,153 unique transcripts which have expression >=1 FPKM.

2018-03-22 | GSE112162 | GEO

Rhizophora apiculata

Project description:Rhizophora apiculata overview

| PRJNA598492 | ENA

Rhizophora stylosa

Project description:Rhizophora stylosa overview

| PRJNA551071 | ENA

Rhizophora stylosa

Project description:Rhizophora stylosa Raw sequence reads

| PRJNA477757 | ENA

Rhizophora apiculata

Project description:Rhizophora apiculata Raw sequence reads