Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: Meta-transcriptomic sequencing of crustaceans

PROVIDER: PRJNA860710 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR27709300_1.fastq.gz	Fastqsanger.gz
	SRR27709300_2.fastq.gz	Fastqsanger.gz
	SRR27709301_1.fastq.gz	Fastqsanger.gz
	SRR27709301_2.fastq.gz	Fastqsanger.gz
	SRR27709302_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 194

Similar Datasets

Project description:Meta-transcriptomic sequencing of marine copepods

| PRJNA700427 | ENA

Project description:spatial meta-transcriptomic analysis

| PRJNA789453 | ENA

Upload for 2012 MCP manuscript - "Shotgun protein sequencing with meta-contig assembly."

Project description:Shotgun protein sequencing with meta-contig assembly. Full-length de novo sequencing from tandem mass (MS/MS) spectra of unknown proteins such as antibodies or proteins from organisms with unsequenced genomes remains a challenging open problem. Conventional algorithms designed to individually sequence each MS/MS spectrum are limited by incomplete peptide fragmentation or low signal to noise ratios and tend to result in short de novo sequences at low sequencing accuracy. Our shotgun protein sequencing (SPS) approach was developed to ameliorate these limitations by first finding groups of unidentified spectra from the same peptides (contigs) and then deriving a consensus de novo sequence for each assembled set of spectra (contig sequences). But whereas SPS enables much more accurate reconstruction of de novo sequences longer than can be recovered from individual MS/MS spectra, it still requires error-tolerant matching to homologous proteins to group smaller contig sequences into full-length protein sequences, thus limiting its effectiveness on sequences from poorly annotated proteins. Using low and high resolution CID and high resolution HCD MS/MS spectra, we address this limitation with a Meta-SPS algorithm designed to overlap and further assemble SPS contigs into Meta-SPS de novo contig sequences extending as long as 100 amino acids at over 97% accuracy without requiring any knowledge of homologous protein sequences. We demonstrate Meta-SPS using distinct MS/MS data sets obtained with separate enzymatic digestions and discuss how the remaining de novo sequencing limitations relate to MS/MS acquisition settings.

2014-01-16 | MSV000078530 | MassIVE

Pestalotiopsis

Project description:Pestalotiopsis meta-transcriptomic sequence reads

| PRJNA661377 | ENA

Project description:food composition of crustaceans

| PRJNA900022 | ENA

Project description:Viral meta-transcriptomic from microalgal cultures

| PRJNA867582 | ENA

Project description:Meta-transcriptomic analysis of rodent animals.

| PRJNA795267 | ENA

Gem_G1, Gem_G8, Gem_G12, Gem_G13, Gem_G24, Gem_G25, Gem_G27, Gem_G30, Mat_B3, Mat_B4, Mat_B5, Mat_B8, Mat_B10, Mat_B11, Mat_B16

Project description:Meta-transcriptomic survey of groundnut viruses