Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Oriolus adenovirus

ABSTRACT: Genome sequencing and assembly of a novel aviadenovirus discovered in wild birds

PROVIDER: PRJNA749622 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR17301511.fastq.gz	Fastqsanger.gz
	SRR17301511_1.fastq.gz	Fastqsanger.gz
	SRR17301511_2.fastq.gz	Fastqsanger.gz
	SRR19372317.fastq.gz	Fastqsanger.gz
	SRR19372317_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 6

Similar Datasets

Fowl aviadenovirus E strain:ANK-UNI-VET-FAK-Adenovirus | breed:Poultry

Project description:Fowl aviadenovirus E strain:ANK-UNI-VET-FAK-Adenovirus | breed:Poultry Genome sequencing and assembly

| PRJNA1048176 | ENA

Oriolus oriolus

Project description:Oriolus oriolus overview

| PRJNA996280 | ENA

unidentified adenovirus

Project description:unidentified adenovirus Genome sequencing and assembly

| PRJNA399039 | ENA

Fowl adenovirus

Project description:Fowl adenovirus Genome sequencing and assembly

| PRJNA1043458 | ENA

unidentified adenovirus

Project description:unidentified adenovirus Genome sequencing and assembly

| PRJNA806996 | ENA

Novel comammox Nitrospira discovered in the subterranean estuary

Project description:Novel comammox Nitrospira discovered in the subterranean estuary Genome sequencing and assembly

| PRJNA1222784 | ENA

Human adenovirus sp.

Project description:Human adenovirus sp. Genome sequencing and assembly

| PRJNA531150 | ENA

Human adenovirus sp.

Project description:Human adenovirus sp. Genome sequencing and assembly

| PRJNA930027 | ENA

Oncogenic BRAFV600E remodels the melanocyte transcriptome and induces BANCR to regulate melanoma cell migration [HT-seq]

Project description:Most cancer genomics papers to date have focused on aberrations in genomic DNA and protein-coding transcripts. However, around 50% of transcripts have no coding potential and may exist as non-coding RNA. We performed RNA-seq in BRAFv600e melanoma skin cancer and on melanocytes over-expressing oncogenic BRAF to catalog transcriptome remodeling. We discovered that BRAF regulates expression of 1027 protein coding transcripts, 39 annotated lncRNAs and 70 novel transcripts. Many of the novel transcripts are lncRNAs. We used an indepenedent dataset to interrogate our novel transcripts and found that the novel lncRNA BANCR is a BRAF-regulated lncRNA recurrently upregulated in melanoma. Knockdown of BANCR impairs melanoma cell migration. Whole transcriptome RNA-seq followed assembly to Refseq/Gencode and de novo transcript assembly. RNA-seq performed on: 2 BRAFv600e melanomas, melanocytes+RFP control and melanocytes + BRAFv600e. We discovered protein-coding transcripts, annotated ncRNAs and novel transcripts (including lncRNAs) regulated by BRAFv600e also coordinately expressed in melanoma.

2012-04-28 | E-GEOD-33092 | biostudies-arrayexpress

Affymetrix SNP array data for beak deformity and normal Beijing-You Chickens

Project description:Beak deformities (BD) of different forms have been documented in many wild birds. The phenomenon is termed as “the largest epizootic of gross abnormalities ever recorded among wild bird populations.” Frequencies of 1% to 3% of BD (crossed beaks) were found in several indigenous chickens including Silkies, Qingyuan Partridge, Huxu, and the Beijing-You (BJY) chickens (studied here). Birds with deformed beaks have poor production performance and induce higher mortality. Therefore, BD represents an economic as well as a welfare problem. Our lab have focused and performed studies on this complex trait/disease for 7 years. Therefore, we performed a single SNP, a pathways-based genome-wide association study (GWAS), and a genome-wide CNV detection with the genotype data of 48 BD (case) and 48 normal (control) birds from Affymetrix 600K HD genotyping arrays, using ROADTRIPS, SNP ratio test (SRT) and PennCNV, respectively. To the best of our knowledge, this is the first GWAS and CNV study to investigate the mutations and genomic structural variations in the deformed and normal beaks of chickens. The findings herein are worth of further functional characterization for better understanding the genetic mechanisms of BD in chickens and wild birds as well.

2017-07-21 | GSE101703 | 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