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Nguyen2013 - Dynamic model of HIF regulation in hypoxia (reduced model)

ABSTRACT: Its a mathematcial model explaining regulation of HIF via FIH and oxygen. Model is further validated by Experimental data and various hypothesis has been tested on the same.

SUBMITTER: Krishna Kumar Tiwari

PROVIDER: MODEL1912100005 | BioModels | 2019-12-10

REPOSITORIES: BioModels

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	MODEL1912100005?filename=Nguyen2013_HIF_reduced.cps	Other
	MODEL1912100005?filename=Nguyen2013_HIF_reduced.sedml	Other
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Publications

A dynamic model of the hypoxia-inducible factor 1α (HIF-1α) network.

Nguyen Lan K LK Cavadas Miguel A S MA Scholz Carsten C CC Fitzpatrick Susan F SF Bruning Ulrike U Cummins Eoin P EP Tambuwala Murtaza M MM Manresa Mario C MC Kholodenko Boris N BN Taylor Cormac T CT Cheong Alex A

Journal of cell science 20130206 Pt 6

Activation of the hypoxia-inducible factor (HIF) pathway is a critical step in the transcriptional response to hypoxia. Although many of the key proteins involved have been characterised, the dynamics of their interactions in generating this response remain unclear. In the present study, we have generated a comprehensive mathematical model of the HIF-1α pathway based on core validated components and dynamic experimental data, and confirm the previously described connections within the predicted ...[more]

PMID: 23390316

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Tissue culture model of hypoxia

2014-03-01 | GSE54228 | GEO

Tissue culture model of hypoxia

Project description:Validation of an in vitro model of hypoxia using a primary cell culture of mouse embryonic fibroblasts (MEF) exposed to 1% oxygen at 37 degrees celsius. Control cells were exposed to atmospheric oxygen. Hypoxic and normoxic MEF (in 100 mm dishes, four replicates per group) were submitted to gene expression analysis using Affymetrix Exon microarrays. Differential gene expression analysis was performed with R package DEMI (http://biit.cs.ut.ee/demi/).

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Project description:Background: Excessive white adipose tissue (WAT) expansion as in obesity is generally associated with chronic inflammation of WAT, which contributes to obesity associated complications. Low oxygen availability in WAT is hypothesized to be the initiator of this inflammatory response. Hypothesis: We examined the hypothesis that local tissue hypoxia is responsible for the initiation of inflammation in WAT. Research design and methods: Diet-induced obese male C57BL/6JOlaHsd mice, housed at thermoneutrality, were exposed to mild environmental oxygen restriction (OxR, to 13% oxygen) for five days and compared with mice kept at normoxia, after which WAT and serum were collected. Body composition, systemic metabolic parameters, WAT macrophage infiltration (as marker for tissue inflammation) and whole genome microarray analysis, and circulating adipokines were measured. Results: Five days OxR decreased body weight and fat mass, and increased blood levels of haemoglobin and haematocrit, as well as lactate to glucose ratio, which indicated systemic hypoxia. No difference in adipose tissue inflammation was found, which was supported by down regulation of inflammation-associated transcript levels of S100a8, Saa1, and Saa3. Serum metabolomics revealed an increase of branched chain amino acid Valine and propionylcarnitine. Adipokines CCDC3, CCK, and Adiponectin are reduced by OxR on transcript (Cck) or serum protein level (Adiponectin), or both (CCDC3). Conclusions: Mild oxygen restriction does not increase white adipose tissue inflammation in obese mice. However, a systemic adaptation together with a metabolic response in WAT was observed.

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Muscle Ring Finger-1 regulation of right-sided heart transcriptional responses to hypoxia in vivo.

Project description:To determine the role of cardiomyocyte muscle ring finger-1 (MuRF1) in vivo, we employed whole genome microarray expression profiling as a discovery platform to identify genes differentially regulated by MuRF1 using MuRF1-/- and alphaMHC (cardiomyocyte-specific) MuRF1 transgenic mice in a model of pulmonary hypertension-induced right sided heart failure. Mice were placed in hypoxia chambers set at 10.0% oxygen (partial pressure of oxygen roughly 65 mmHg in Albuquerque) and monitored both by the digital feedback control system (Biospherix, Colorado) as well as by a secondary O2/CO2 monitor (O2Cap, OxiGraf, Inc.; Mountain View, CA). The hypoxia exposure lasted 3 weeks with twice-weekly cage changes and standard 12 h light:dark cycle. Multiple genes from the microarray expression profile were quantified in the same RNA samples by real-time PCR to confirm their expression.

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Hypoxia promotes osteonesis via regulation of the mito-nuclear communication [RNA-seq]

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2022-10-18 | GSE200070 | GEO