Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: Eukaryotes in the sediment

PROVIDER: PRJNA1136825 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR29866231_1.fastq.gz	Fastqsanger.gz
	SRR29866231_2.fastq.gz	Fastqsanger.gz
	SRR29866232_1.fastq.gz	Fastqsanger.gz
	SRR29866232_2.fastq.gz	Fastqsanger.gz
	SRR29866233_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 20

Similar Datasets

Sediment eukaryotes

Project description:Sediment eukaryotes Raw sequence reads

| PRJNA1133151 | ENA

Project description:Sediment eukaryotes in the southern Yellow Sea

| PRJNA894490 | ENA

Eukaryotes associated with seagrass sediment

Project description:Raw sequence reads of eukaryotes associated with seagrass sediment

| PRJNA597113 | ENA

Linkage of genomic biomarkers to whole organism endpoints in a Toxicity Identification Evaluation (TIE)

Project description:Aquatic organisms are exposed to many toxic chemicals and interpreting the cause and effect relationships between occurrence and impairment is difficult. Toxicity Identification Evaluation (TIE) provides a systematic approach for identifying responsible toxicants. TIE relies on relatively uninformative and potentially insensitive toxicological endpoints. Gene expression analysis may provide needed sensitivity and specificity aiding in the identification of primary toxicants. The current work aims to determine the added benefit of integrating gene expression endpoints into the TIE process. A cDNA library and a custom microarray were constructed for the marine amphipod Ampelisca abdita. Phase 1 TIEs were conducted using 10% and 40% dilutions of acutely toxic sediment. Gene expression was monitored in survivors and controls. An expression-based classifier was developed and evaluated against control organisms, organisms exposed to low or medium toxicity diluted sediment, and chemically selective manipulations of highly toxic sediment. The expression-based classifier correctly identified organisms exposed to toxic sediment even when little mortality was observed, suggesting enhanced sensitivity of the TIE process. The ability of the expression-based endpoint to correctly identify toxic sediment was lost concomitantly with acute toxicity when organic contaminants were removed. Taken together, this suggests that gene expression enhances the performance of the TIE process. Wild-collected Ampelisca abdita were exposed to either control (from sites in Long Island Sound, labeled LIS) sediment, toxic (from site on Elizabeth River, labeled ER) sediment, a series of mixtures of LIS and ER sediment, sediments manipulated to alter toxin bioavailability, or toxicant amended sediments. Lethality was scored, and survivors were subjected to mRNA expression analysis via oligo microarray.

2012-12-21 | E-GEOD-41463 | biostudies-arrayexpress

Linkage of genomic biomarkers to whole organism endpoints in a Toxicity Identification Evaluation (TIE)

2012-12-21 | GSE41463 | GEO

Project description:eukaryotes

| PRJNA1017630 | ENA

16s RNA sequencing data from environmental and steel corrosion samples, Shoreham Harbour, UK

Project description:16s RNA gene sequencing data from seawater, bed sediment and steel corrosion samples from Shoreham Harbour, UK, collected to allow bacterial species comparisons between microbially influenced corrosion, the surrounding seawater, and the sea bed sediment at the seafloor and 50cm depth below seafloor.

2019-10-06 | E-MTAB-8373 | biostudies-arrayexpress

The efficacy of an endoscopic continuous aspiration catheter in maintaining the permeability of the operative field and preventing excessive water injection in colorectal submucosal dissection using the water pressure method: A prospective observational study

Project description:Primary outcome(s): Aspiration volume by continuous aspiration catheter and mass of sediment extracted from endoscopically collected intestinal fluid over time.

| 34503 | ecrin-mdr-crc

Molecular responses of European flounder (Platichthys flesus) chronically exposed to contaminated estuarine sediments

Project description:Flounder fish were exposed in mesocosms for seven months to a contaminated estuarine sediment made by mixing material from the Forth (high organics) and Tyne (high metals and tributyltin) estuaries (FT) or control sediment from the Ythan estuary (Y). Their gene expression profiles were compatred by cDNA microarrays.

2014-03-01 | E-MTAB-1847 | biostudies-arrayexpress

Urinary sediment mRNA level of CREBBP and CYBA in children with steroid-resistant nephrotic syndrome

Project description:This study aimed to evaluate gene expression patterns in urinary sediment samples of children with steroid-resistant nephrotic syndrome (SRNS).

2022-02-23 | GSE189734 | 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