Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Alectoris rufa (de novo assembly Long Reads)

ABSTRACT: De novo assembly of Alectoris rufa using Long Reads

PROVIDER: PRJEB57443 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Alectoris rufa

Project description:Alectoris rufa

| PRJNA850009 | ENA

Alectoris rufa

Project description:Alectoris rufa overview

| PRJNA328531 | ENA

Alectoris rufa

Project description:Alectoris rufa gene expression

| PRJNA268542 | ENA

Alectoris rufa

Project description:Alectoris rufa Transcriptome or Gene expression

| PRJNA289204 | ENA

Alectoris rufa

Project description:Alectoris rufa Genome sequencing and assembly

| PRJNA662415 | ENA

Alectoris rufa isolate:AQ0044

Project description:Alectoris rufa isolate:AQ0044 Genome sequencing

| PRJNA1050768 | ENA

Red-legged partridge (Alectoris rufa) de-novo transcriptome assembly and identification of gene-related markers.

Project description:The red-legged partridge (Alectoris rufa) has a great socio-economic importance as a game species and is reared by millions in farms in several European countries. The ability to respond to a wide spectrum of pathogens and environmental changes is key for farm-reared animals that, as such, face even higher pathogen exposure and specifically for those submitted to restocking programs. In this study, RNA-sequencing and de-novo assembly of genes expressed in different immune tissues were performed. The raw FASTQ files were submitted to the NCBI SRA database with accession number PRJNA289204. A total of 94.2 million reads were obtained and assembled into 51,403 contigs using OASES software. The final annotated partridge immune transcriptome comprises almost 7000 unigenes, available as FASTA in the supplementary material. A total of 12,828 microsatellites and 33,857 Single Nucleotide Polymorphisms (SNPs) were identified. The candidate gene sequences and the large number of potential genetic markers from the red-legged partridge transcriptome reliably identified through the use for the first time of a high coverage 100-bp paired-end RNA-seq protocol, provide new tools for future studies in this and related species, thus contributing to the ongoing development of genomic resources in avian species. Further investigation into candidate genes and gene-associated markers will help to uncover individual variability in the resistance to infections and other external aggressions in partridges.

| S-EPMC5304236 | biostudies-literature

genome assembly and annotation of the Alectoris rufa

Project description:An almost chromosome-level assembly and annotation of the Alectoris rufa genome

| PRJEB67643 | ENA

Alectoris rufa breed:red-legged partridge

Project description:Alectoris rufa breed:red-legged partridge Genome sequencing

| PRJNA932231 | ENA

Template-based assembly of proteomic short reads for de novo antibody sequencing and repertoire profiling

Project description:We developed a software package STITCH (https://github.com/snijderlab/stitch) to perform template-based assembly of de novo peptide reads from antibody samples. As a test case we generated de novo peptide reads from protein G purified whole IgG from COVID-19 patients.

2022-07-21 | PXD031941 | Pride

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