Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

46 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

RNAseq of scWAT obtained from normoxic (21% oxygen) and hypoxic (10% oxygen) mice

ABSTRACT: Subcutaneous adipose tissue (scWAT) was collected from mice exposed to either 10% O2 or maintained under normoxic atmospheric conditions. 129Ev/Sv mice were housed in conventional cages from birth in a temperature- (23°C) and humidity-controlled environment with a 12 h photoperiod and given ad libitum access to standard rodent chow (RM1(E), Special Diet Services, UK) and water. At 7 weeks of age, mice were randomly assigned to remain under normoxic conditions, or transferred to a normobaric hypoxia chamber (10% O2; PFI systems, Milton Keynes, UK). Mice were maintained in hypoxia or normoxia for 28 days, after which they were killed by cervical dislocation. The scWAT was removed from the inguinal region, snap frozen and stored at -80°C until further analysis. The inguinal lymph node was removed from scWAT depots prior to RNA-seq analysis.

INSTRUMENT(S): Illumina TruSeq® Stranded mRNA Library Preparation Kit (Illumina), Illumina HiSeq 4000

ORGANISM(S): Mus musculus

SUBMITTER: Ioannis Kamzolas

PROVIDER: E-MTAB-12299 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

RNAseq of scWAT obtained from normoxic (21% oxygen) and hypoxic (10% oxygen) mice

Project description:RNAseq of scWAT obtained from normoxic (21% oxygen) and hypoxic (10% oxygen) mice

| PRJEB56726 | ENA

Transcriptional profile of Candida parapsilosis CLIB214 21% Oxygen (normoxia) versus at 1% oxygen (hypoxia).

Project description:Whole genome microarray were used to generate the transcriptional profile of C. parapsilosis in hypoxic condition. RNA was isolated from CLIB214 grown in YPD medium in normoxia or hypoxia at 30 degree Celsius for 3.5 h, and labeled with Cy3 or Cy5. Four independent biological replicates were compared. Isolates from normoxic condition were labeled with Cy3 and isolates from hypoxic condition were labeled with Cy5.

2011-11-30 | E-GEOD-32712 | biostudies-arrayexpress

NDUFS4 deficiency in female and male inguinal white fat

Project description:We compared gene expression between high fat diet (HFD)-fed Adipo-NDUFS4 knockout (KO) and WT mice in inguinal white adipose tissue (iWAT or scWAT).

2022-03-07 | GSE190645 | GEO

High oxygen prevents fetal lethality due to lack of catecholamines

Project description:The catecholamine norepinephrine is required for fetal survival, but its essential function is unknown. When catecholamine-deficient [tyrosine hydroxylase (Th) null] mouse fetuses die at E13.5-E14.5, they resemble wild type fetuses exposed to hypoxia. They exhibit bradycardia (28% reduction in heart rate), thin ventricular myocardium (20% reduction in tissue), epicardial detachment, and death with vascular congestion, hemorrhage and edema. At E12.5, prior to the appearance of morphological deficits associated with Th deletion, catecholamine-deficient fetuses are preferentially killed by experimentally-induced hypoxia and have lower tissue pO2 than wild type siblings. Catecholamine-deficient fetuses also induced HIF-1 target genes to a greater extent than wild type siblings, supporting the notion that null fetuses experience greater hypoxia or have an enhanced response to hypoxia. Hypoxia induces a 13-fold increase in plasma norepinephrine levels, which would be expected to increase heart rate, thereby, improving oxygen delivery in wild type mice. Surprisingly, increasing maternal oxygen (FiO2 33% or 63%) prevents the effects of catecholamine-deficiency, restoring heart rate, myocardial mass and survival of Th null fetuses. We suggest that norepinephrine mediates fetal survival by maintaining oxygen homeostasis as vulnerability to constitutive hypoxia increases as fetal growth accelerates during normal development. Keywords: Comparative with respect to genotype and oxygen conditions The first aim was to compare gene expression of E12.5 mouse fetuses between wild type (Th+/+) versus tyrosine hydroxylase null (Th-/-) animals from normoxic dams. This resulted in 6 arrays. The second aim compared wild type and tyrosine hydroxylase null E12.5 fetuses from dam exposed to hypoxia (8% oxygen) for 6 hours prior to sacrifice at E12.5 of gestation. This resulted in 6 arrays. The third aim was to compare HIF-1 targets behind wt and null fetuses

2008-06-03 | E-GEOD-10341 | biostudies-arrayexpress

Transcription profiling by array of human myometrial cells transfected by NFKB (p65) and CEBP alone and in combination.

Project description:Nuclear factor kappa B and C/EBP are two important transcription factors that independently and synergistically regulate different genes. In this experiment the expression of genes will be examined with the overexpression of NFKB (p65) and CEBP alone and in combination.

2010-03-24 | E-MEXP-2160 | biostudies-arrayexpress

A Novel Role for Subcutaneous Adipose Tissue in Exercise-Induced Improvements in Glucose Homeostasis.

Project description:Exercise training improves whole body glucose homeostasis through effects largely attributed to adaptations in skeletal muscle; however, training also affects other tissues including adipose tissue. To determine if exercise-induced adaptations to adipose tissue contribute to training-induced improvements in glucose homeostasis, subcutaneous white adipose tissue (scWAT) from trained or sedentary donor mice was transplanted into the visceral cavity of sedentary recipients. Remarkably, nine days post-transplantation, mice receiving trained scWAT had improved glucose tolerance and enhanced insulin sensitivity compared to mice transplanted with sedentary scWAT or sham-treated mice. Mice transplanted with trained scWAT had increased insulin-stimulated glucose uptake in tibialis anterior and soleus muscles and brown adipose tissue, suggesting that the transplanted scWAT exerted endocrine effects. Furthermore, the deleterious effects of high-fat feeding on glucose tolerance and insulin sensitivity were completely reversed if high-fat fed recipient mice were transplanted with trained scWAT. In additional experiments, voluntary exercise training by wheel running for only 11 days resulted in profound changes in scWAT including increased expression of ∼1550 genes involved in numerous cellular functions, including metabolism. Exercise training causes adaptations to scWAT that elicit metabolic improvements in other tissues, demonstrating a previously unrecognized role for adipose tissue in the beneficial effects of exercise on systemic glucose homeostasis. Microarray analysis of scWAT obtained from a cohort of mice that were housed in wheel cages for 11 days compared to sedentary control mice.

2015-04-22 | E-GEOD-68161 | biostudies-arrayexpress

Controlling pericellular oxygen tension in cell culture reveals distinct breast cancer responses to low oxygen tensions

Project description:In this study, the relationship between pericellular and gas phase oxygen concentration in cell culture was examined. To this end, we examined the influence of cellular oxygen consumption on primary human hepatocyte culture in physioxic (6% O2) and normoxic (18.6% O2) conditions. To understand how pericellular oxygen tension influenced hepatocyte biology in in vitro cell culture, we performed RNA-seq (this dataset).

2024-06-27 | GSE270930 | GEO

Transcriptional profile of Candida albicans DAY286 culture without ketoconazole versus DAY286 culture with 0.04 Î¼g/ml ketoconazole, both at 20% oxygen (normoxia).

Project description:Whole genome microarray were used to generate the transcriptional profile of C.albicans in the presence of ketoconazole. RNA was isolated from DAY286 grown with or without ketoconazole in YPD medium in normoxia at 30 degree Celsius for 3.5 h, and labeled with Cy3 or Cy5. Four independent biological replicates were compared. 2 dye swaps were perfomed so that 2 out of 4 samples isolated from DAY286 in normoxic culture without ketoconazole were labeled with Cy3, and 2 were labeled with Cy5.

2010-11-15 | E-GEOD-24074 | biostudies-arrayexpress

Transcriptional response of Candida parapsilosis in low oxygen (hypoxic) conditions in SD media

Project description:Whole genome microarray was used to compare the transcriptional profile of C. parapsilosis growing in normoxic (21% oxygen) and hypoxic (1% oxygen) conditions.

2009-01-15 | GSE13722 | GEO

Transcriptomic analysis of engineered cardiac tissue in an oxygen gradient

Project description:We report the use of RNA-seq for transcriptional analysis of engineered cardiac tissues cultured in microphysiological systems developed for tight control of oxygen levels, comparing normoxia, hypoxia, and a gradient divided into the normoxic side and hypoxic side.

2022-12-08 | GSE189108 | 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