Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Texas Bay Metagenomes

ABSTRACT: Oyster and water samples from Texas bays.

PROVIDER: PRJEB16362 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	ERR1698980_1.fastq.gz	Fastqsanger.gz
	ERR1698980_2.fastq.gz	Fastqsanger.gz
	ERR1698990_1.fastq.gz	Fastqsanger.gz
	ERR1698990_2.fastq.gz	Fastqsanger.gz
	ERR1698981_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 32

Similar Datasets

Texas Bay Metagenomes metagenomic assembly

Project description:EMG produced TPA metagenomics assembly of the Oyster and water samples from Texas bays. (Texas Bay Metagenomes) data set

| PRJEB22525 | ENA

Duke-UNC-Texas-EBI ENCODE expression project

Project description:These samples are being analyzed by the Duke-UNC-Texas-EBI ENCODE consortium. Expression from these cell types will compared to three whole genome open chromatin methodologies: DNaseI hypersensitivity (DNase-seq), Formaldehyde-Assisted Isolation of Regulatory elements (FAIRE-seq), and Chromatin Immunoprecipitation (ChIP-seq) . For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODEDataReleasePolicyFinal2008.pdf

2009-04-23 | GSE15805 | GEO

Acute host transcriptonal response to A/Texas/36/91 influenza and A/Texas/36/91 influenza containing the NS1 gene from r1918 in A549 cells

Project description:The “Spanish influenza” of 1918 claimed an unprecedented number of lives, yet the determinants of virulence for this virus are still not fully understood. Here, we used functional genomics and an in vitro human lung epithelial cell infection model to define the global host transcriptional response to the eight-gene 1918 virus. To better understand the role of the 1918 virus NS1 gene, we evaluated the host response to A/Texas/36/91 (a seasonal isolate of human influenza virus) and a reassortant of A/Texas/36/91 containing the 1918 NS1 gene.

2012-05-14 | GSE37829 | GEO

Acute host transcriptonal response to A/Texas/36/91 influenza and A/Texas/36/91 influenza containing the NS1 gene from r1918 in A549 cells

Project description:The M-bM-^@M-^\Spanish influenzaM-bM-^@M-^] of 1918 claimed an unprecedented number of lives, yet the determinants of virulence for this virus are still not fully understood. Here, we used functional genomics and an in vitro human lung epithelial cell infection model to define the global host transcriptional response to the eight-gene 1918 virus. To better understand the role of the 1918 virus NS1 gene, we evaluated the host response to A/Texas/36/91 (a seasonal isolate of human influenza virus) and a reassortant of A/Texas/36/91 containing the 1918 NS1 gene. A549 cells were infected at a MOI=2 with either A/Texas/36/91 (Tx/91) or A/Texas/36/91 (Tx/91) containing the NS1 gene from r1918 influenza. Virus was allowed to bind to cells for 1 h at 4M-BM-0C in serum-free infection medium supplemented with trypsin (1 g/ml). Mock-infected cells were treated with allantoic fluid instead of virus. Three replicate wells were used for each infection condition at each time point. Cells were harvested for array analysis at 2, 6, and 24hr post-infection. Cells from three individual cultures were pooled for each condition for microarray.

2012-05-13 | E-GEOD-37829 | biostudies-arrayexpress

cyanobacterium str. Texas

Project description:cyanobacterium str. Texas overview

| PRJNA166999 | ENA

Project description:Texas Oyster Mitochondrion Sequencing

| PRJNA717891 | ENA

ecological metagenomes

Project description:16S rRNA gene sequencing, bacterial diversity in surface water samples.

| PRJDB17232 | ENA

Texas Pediatric Patient Derived Xenograft

Project description:Texas Pediatric Patient Derived Xenograft

| PRJNA939343 | ENA

Mobile Bay Metagenomes

Project description:Estuarine Microbial assemblages

| PRJEB9286 | ENA

Year round patchiness of Vibrio vulnificus within a temperate Texas bay.

Project description:AimsTo investigate with high geographical resolution the small-scale spatial and temporal distribution of the pathogen Vibrio vulnificus throughout the water column in a temperate Texas bay where numerous V. vulnificus infections had been reported by the regional media the previous summer.Methods and resultsSurface and bottom water samples were collected from 19 sites between April 2005 and October 2006 from Matagorda Bay, TX. Physicochemical parameters were measured and V. vulnificus were analysed using quantitative polymerase chain reaction (Q-PCR) as a means of overcoming constraints of traditional culturing techniques. V. vulnificus was detected through out the year, although its temporal and spatial distribution was patchy. V. vulnificus abundances at individual sites ranged from <10 to >1·1×10(3)cellsml(-1) . No statistically reliable predictive model related to the physicochemical parameters could be developed for this pathogen.ConclusionsThis study demonstrates that year round detection of V. vulnificus while likely in the viable but nonculturable (VBNC) state during the winter months and emphasizes why physicochemical factors are insufficient metrics for robust regression modelling of this pathogen.Significance and impact of the studyThis study provides an effective new tool, Q-PCR, to study environmental distribution of V. vulnificus and that in the light of the patchy distribution observed, new reliable approaches and a mechanistic understanding of pathogen ecology need to be considered to effectively model the aquatic distribution of V. vulnificus.

| S-EPMC3293253 | biostudies-literature

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