Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: Changes of liver transcriptome caused by dissolved oxygen

PROVIDER: PRJNA1099145 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR28699478_1.fastq.gz	Fastqsanger.gz
	SRR28699478_2.fastq.gz	Fastqsanger.gz
	SRR28699479_1.fastq.gz	Fastqsanger.gz
	SRR28699479_2.fastq.gz	Fastqsanger.gz
	SRR28699480_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 18

Similar Datasets

Project description:Changes of skeletal muscle transcriptome caused by dissolved oxygen

| PRJNA1099435 | ENA

Project description:Changes of intestinal flora caused by dissolved oxygen water

| PRJNA1098462 | ENA

Comparative analysis on Corynebacterium glutamicum transcriptome in response to the change of dissolved oxygen in bioreactor

Project description:Purpose: dissolved oxygen (DO) level is an important factor that could significantly influence microorganisms’ growth, maintenance, metabolism and product yield. The goals of this study are to do comparative analysis on Corynebacterium glutamicum transcriptome in response to the change of dissolved oxygen in bioreactor, find the critical pathways and genes.

2016-02-03 | GSE77502 | GEO

Comparative analysis of Corynebacterium glutamicum transcriptome in response to expression of Egfp under the change of dissolved oxygen in bioreactor

Project description:Purpose:dissolved oxygen (DO) level is an important factor that could significantly influence microorganisms’ growth, maintenance, metabolism and product yield.The goals of this study are to comparative analysis on Corynebacterium glutamicum transcriptome in response to expression of eGFP under the change of dissolved oxygen in bioreactor,find the critical pathways and genes.

2016-09-20 | GSE87077 | GEO

Low oxygen responsive small RNAs in Arabidopsis

Project description:Low-oxygen stress associated with natural phenomena such as waterlogging, results in widespread transcriptome changes and a metabolic switch from aerobic respiration to anaerobic fermentation. High-throughput sequencing of small RNA libraries obtained from low-oxygen stressed and control root tissue identified a total of 65 unique microRNA (miRNA) sequences from 46 families, and 14 trans-acting small interfering RNA (tasiRNA) from 3 families. Low-oxygen stress resulted in changes to the abundance of 46 miRNAs from 19 families, and all 3 tasiRNA families. Chemical inhibition of mitochondrial respiration caused similar changes in expression in a majority of the low-oxygen responsive small RNAs analysed. Our data indicate that miRNAs and tasiRNAs play a role in gene regulation and possibly developmental responses to low oxygen, and that a major signal for these responses is likely to be dependent on mitochondrial function. Keywords: Small RNA transcriptome analysis

2009-10-01 | GSE16971 | GEO

MG1655_temperature_O2_response_normalized_data_Tavazoie

Project description:Microarray transcriptional profiling was utilized to observe the global cellular state correlates of the physiological responses to temperature and oxygen changes. We provide evidence for the existence of correlations of Escherichia coli transcriptional responses to temperature and oxygen perturbations-precisely mirroring the co-occurrence of these parameters upon transitions between the outside world and the mammalian gastrointestinal-tract. Keywords: time course Physiological perturbations were carried out under a controlled environment in the context of bioreactor (Bioflo 110, New Brunswick Scientific) growth. Thermoelectric sensors and heaters were used to shift temperature profiles between 25 C and 37 C, and polarographic dissolved oxygen sensors (Mettler Toledo) and nitrogen gas was used to rapidly change oxygen saturation between anaerobic (0% dissolved oxygen) and aerobic (16-21% dissolved oxygen) condition. The cultures were maintained in exponential phase (O.D.600 0.2-0.4) through controlled dilution, where fresh media is pumped in and spent media is pumped out at a controlled rate. Prior to the perturbations, cells were maintained in the pre-transition environment for at least eight generations (8-24 hours). All experiments were performed in duplicate.

2008-05-13 | E-GEOD-10855 | biostudies-arrayexpress

Combined analysis of transcriptome and metabolome in tilapia (GIFT, Oreochromis niloticus) exposed to acute hypoxia stress

Project description:Dissolved oxygen (DO) in cultured water is one of the important environment factor in fish farming. Hypoxic environment affects fish growth, metabolism and immune system. Multi-omics integrative analysis helps to uncover the underlying molecular mechanisms. In this study, the 96h median lethal hypoxia (96h-LH50) for Genetically Improved Farmed Tilapia (GIFT, Oreochromis niloticus) was first analyzed by linear interpolation. We built control (5mg/l) and hypoxic stress (96h-LH50) groups, and extracted the liver tissues for high-throughput transcriptome and metabolome sequencing. The identification and quantification results of metabolites showed that a total of 19656 metabolites had been obtained, of which 10390 were annotated. There were 3028 differentially expressed (DE) metabolites, of which 1596 metabolites were up-regulated and 1432 metabolites were down-regulated. We obtained 2375 DE genes, of which 1201 genes were up-regulated and 1174 genes were down-regulated. We verified 8 DE genes by quantitative real-time PCR. Our finding reveals the changes in metabolites and genes expression of GIFT and facilitate the understanding of regulatory pathways under hypoxic stress, which will help reduce the damage caused by hypoxic stress during culture.

2021-01-12 | GSE146142 | GEO

Low oxygen responsive small RNAs in Arabidopsis

2009-09-30 | E-GEOD-16971 | biostudies-arrayexpress

Explore the gene regulation mechanism under high temperature and low dissolved oxygen stress in the sea cucumber Apostichopus japonicus by high-throughput RNA-seq technology

Project description:High-throughput RNA-seq technology was used to explore the gene regulation mechanism under high temperature and low dissolved oxygen stress.

2024-11-10 | GSE252259 | GEO

Transcriptomic analysis of the oxygen response in Saccharomyces cerevisiae EC1118 under wine fermentation conditions

Project description:Oxygen additions play a critical role in winemaking. However, few studies have focused on how this oxygen affects yeast metabolism and physiology in wine making conditions. We performed microarrays to unveil the oxygen response in wine making conditions. We extracted RNA from nitrogen-limited chemostats, simulating wine making conditions, sparged with nitrogen and 1%, 5% and 20% oxygen-nitrogen mixtures to achieve different dissolved oxygen levels representative of those found during wine making. These correspond to 0, 0.8, 4 and 11 micromolar dissolved oxygen

2012-01-11 | E-GEOD-34964 | biostudies-arrayexpress

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