Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Aedes aegypti isolate:T02

ABSTRACT: Aedes aegypti isolate:T02 Genome sequencing and assembly

PROVIDER: PRJNA946909 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR24965242_1.fastq.gz	Fastqsanger.gz
	SRR24965242_2.fastq.gz	Fastqsanger.gz
	SRR24965243_1.fastq.gz	Fastqsanger.gz
	SRR24965244_1.fastq.gz	Fastqsanger.gz
	SRR24965245_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 8

Similar Datasets

Aedes aegypti strain:LVP_AGWG (yellow fever mosquito)

Project description:Aedes aegypti mosquitoes infect hundreds of millions of people each year with dangerous viral pathogens including dengue, yellow fever, Zika, and chikungunya. Progress in understanding the biology of this insect, and developing tools to fight it, depends on the availablity of a high-quality genome assembly. Here we use DNA proximity ligaton (Hi-C) and Pacific Biosciences long reads to create AaegL5 - a highly contiguous A. aegypti reference.

2018-08-23 | GSE113256 | GEO

Aedes aegypti sex specific gene expression

Project description:This analysis compare gene expression between 4 day old sugar fed female and male Aedes aegypti mosquitoes. Keywords: Aedes aegypti sex specific expression

2007-05-15 | GSE7813 | GEO

Expression analysis of Meiotic drive system in Aedes aegypti during spermatogenesis

2010-07-21 | GSE23039 | GEO

Aedes aegypti aegypti strain:IR13 | isolate:IR13

Project description:Aedes aegypti aegypti strain:IR13 | isolate:IR13 Assembly

| PRJNA999502 | ENA

Developmental analysis of Aedes aegypti gene expression

Project description:This analysis defines the adult female and developmental specific transcriptomes of Aedes aegypti. Keywords: Aedews aegypti, development, gene expression

2007-05-15 | GSE7811 | GEO

Expression analysis of Meiotic drive system in Aedes aegypti during spermatogenesis

Project description:Investigation of whole genome gene expression level changes of testes in the meiotic drive system in aedes aegypti during spermatogenesis compared to non drive strain. The meiotic drive system in Aedes aegypti causes the female determining chromosome to fragment during spermatogenesis. A six chip study using total RNA from three separately extracted non driving strain testes of Aedes aegypti and three separately extracted meiotic drive strain testes of Aedes aegypti.

2010-07-21 | E-GEOD-23039 | biostudies-arrayexpress

De novo assembly of Aedes aegypti using Hi-C yields chromosome-length scaffolds

Project description:The Zika outbreak, spread by the Aedes aegypti mosquito, highlights the need to create high-quality assemblies of large genomes in a rapid and cost-effective fashion. Here, we combine Hi-C data with existing draft assemblies to generate chromosome-length scaffolds. We validate this method by assembling a human genome, de novo, from short reads alone (67X coverage, Sample GSM1551550). We then combine our method with draft sequences to create genome assemblies of the mosquito disease vectors Aedes aegypti and Culex quinquefasciatus, each consisting of three scaffolds corresponding to the three chromosomes in each species. These assemblies indicate that virtually all genomic rearrangements among these species occur within, rather than between, chromosome arms. The genome assembly procedure we describe is fast, inexpensive, accurate, and can be applied to many species.

2017-03-24 | GSE95797 | GEO

Aedes aegypti aegypti

Project description:Aedes aegypti aegypti genome-wide variation

| PRJNA273913 | ENA

Analysis of the Aedes aegypti transcriptome during flavivirus infection

Project description:Microarray analysis on days 1, 2 and 7 post-infection with dengue, yellow fever and West Nile virus in Aedes aegypti Rockefeller strain mosquitoes RNA was purified and hybridized with Nimblegen X4 microarray chips using 81-mer probes designed from 18,000 open reading frames (ORF) found in the Ae. aegypti genome, with 2 different probes per ORF

2013-03-31 | GSE28208 | GEO

Proteomics Informed by Transcriptomics for Characterising Active Transposable Elements and Genome Annotation in Aedes aegypti

Project description:The incomplete genome annotation of non-model organisms hampers molecular and proteomic studies. Proteomics informed by transcriptomics (PIT) is suited to non-model organisms because peptides are identified using transcriptomic, not genomic, data. Aedes aegypti is the mosquito vector for the (re-)emerging dengue, chikungunya, yellow fever and Zika viruses. An Ae. aegypti genome sequence is available, however experimental evidence for >90% of the Ae. aegypti proteome or the activity of transposable elements (TEs) that constitute 50% of the Ae. aegypti genome is lacking. We used PIT to characterise the proteome of the Aedes aegypti derived cell line Aag2. Hotspots of incomplete genome annotation were identified which are not explained by poor sequence and assembly quality. We developed criteria for the characterisation of proteomically active TEs and demonstrate that protein expression does not correlate with a TE’s genomic abundance. Finally, we identify Phasi Charoen-like virus as an unrecognised contaminant of Aag2 cells. We therefore present the first proteomic characterisation of mobile genetic elements, and provide proof-of-principle that PIT can evaluate a genome’s annotation to guide annotation efforts.

2017-02-15 | PXD003799 | 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