Browse
Submit Data
Databases
API
Help

Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Regulation of glycolytic activity in multiple cell types explains the ability of FDG-PET to measure disease activity in atherosclerosis

ABSTRACT: The aim of the single cell RNASeq experiment is to explore the molecular changes in the progressing and regressing plaques of an atherosclerosis pig mode and specifically the long-term changes glycolysis pathway. To produce these glycolysis signatures, we randomized male and female pigs into two experimental groups: an actively progressing atherosclerosis group subjected to 15 months of HFHC diet (HFHC group f, n=4; m, n=2), and an LF/MTPi group fed 12 months of HFHC diet and then transitioned to low-fat diet with MTP inhibitor for three months (f, n=4; m, n=1). At the time of euthanasia, plaque from the distal 0.5 cm of the abdominal aorta was quickly processed and analyzed by scRNA-sequencing.

INSTRUMENT(S): Illumina HiSeq 4000

ORGANISM(S): Sus scrofa

SUBMITTER: Carlos Torroja

PROVIDER: E-MTAB-13898 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Mouse, pig, and human atherosclerotic lesions have common and distinct mesenchymal cell populations

Project description:The single-cell RNA-seq experiment aims to explore the cell-type composition of right coronary artery plaques to provide an overview of human-like atherosclerosis. The PCSK9 transgenic minipigs were subjected to 15 months of HFHC diet (HFHC group f, n=4; m, n=1). At the time of euthanasia, plaque parts without media were quickly processed and analyzed by scRNA-sequencing.

2025-08-30 | E-MTAB-15464 | biostudies-arrayexpress

Protective effects of breviscapine on HFHC diet-induced C57 mice

Project description:The phosphorylomics data of liver tissue of 16-week-old HFHC-induced mice treated with saline or breviscapine for 8 weeks. The mice fed with high fat and high cholesterol were also divided into two groups. The control group was treated with normal saline for 8W, and the drug group was treated with breviscapine for 8W n=3.

2022-08-12 | PXD029975 | Pride

Effects of NAFLD/NASH on hepatic gene expression.

Project description:To characterize gene expression changes in arachidonic acid metabolism pathway genes in the presense of non-alcoholic fatty liver disease (NAFLD)/non-alcoholic steatohepatitis (NASH) mice administered were administered an atherogenic diet for a period of four weeks. Administration of the atherogenic diet resulted in significant enrichment of the arachidonic acid metabolism pathway by gene set enrichment analysis (GSEA). The core enrichment subset of genes was down-regulated in mice administered the atherogenic diet and the majority of the genes that were down-regulated were cytochrome P450s. A total of 4 wild-type mice were administered a standard diet (STD; control group) and 4 wild-type mice were administered a HFHC diet (HFHC).

2014-01-03 | E-GEOD-53381 | biostudies-arrayexpress

Cholesterol lowering depletes smooth muscle cell-derived fibromyocytes and chondromyocytes from atherosclerotic lesions

Project description:Study of the effect of low-density lipoprotein (LDL)-lowering therapies on the heterogeneous population of proliferating smooth muscle cells (SMCs) derived from atherosclerotic plaques in an atherosclerotic mouse model by inducing hypercholesterolemia followed by high or low fat diet.

2023-12-08 | E-MTAB-12019 | biostudies-arrayexpress

Dietary cholesterol promotes fatty liver-associated liver cancer by inducing aberrant genomic expression and mutations

Project description:We investigated the effects of cholesterol on nonalcoholic steatohepatitis (NASH) and hepatocellular carcinoma (HCC) in diethylnitrosamine-injected mice fed high-fat high-cholesterol (HFHC) diet versus high-fat (HF) alone. mRNA microarray analysis was applied for expressional aberrations.

2018-09-27 | E-MTAB-6002 | biostudies-arrayexpress

Regional specific changes in cardiac resident 1 macrophages and 2 fibroblasts modulate long-term atrial fibrillation maintenance

Project description:Most of the mechanistic insights into atrial fibrillation (AF) pathophysiology have been reported on cardiomyocytes, and it is commonly assumed that such apply in the same manner to the atria as a whole. This study shows that atrial remodeling during persistent AF (PsAF) underlies differential adaptative changes in non-myocyte populations, which depend on the functional relevance of individual-specific atrial regions to drive the overall arrhythmia. Radiofrequency delivery at driver regions can terminate the arrhythmia in pigs and achieve long-term arrhythmia AF-free survival in patients. Importantly, driver regions show overt compositional shifts in fibroblasts and myeloid populations that are highly consistent across pig models and patients. More specifically, driver regions underlie a phenotypic shift towards cardiac resident macrophages with an associated transcriptomic and proteomic profile favoring cardiomyocyte homeostasis and cell survival within a substrate prone to reentry. In fibroblasts, PTX3 represented a transcriptional hallmark exclusively present in driver regions, which supports their role on modulating the immune response of the surrounding tissue.

2025-11-06 | E-MTAB-14275 | biostudies-arrayexpress

Basement Membranes from Human Retinal Blood Vessels, Inner Limiting Membranes, and Lens Capsules

Project description:Three types of BMs from adult human eyes, the inner limiting membrane, the retinal vascular BMs and the lens capsule, were isolated for analysis by 1D-SDS-PAGE and LC-MS/MS.

2014-07-16 | PXD001025 | Pride

Hif1α down-regulation is associated with transposition of great arteries in mice treated with a RA antagonist

Project description:Aims: Congenital heart defect (CHD) account for 25% of all human congenital abnormalities. Very few CHD-causing genes have been identified so far; so, to discover further genes we performed a global transcriptome analysis in mouse models of CHD. Methods and results: By the use of a retinoic acid competitive antagonist (BMS-189453) we caused CHD, thymic abnormalities and neural tube defects in mouse newborns. Transposition of great arteries was the prevalent cardiac defect observed (61%). Recently we were able to partially rescue this abnormal phenotype by oral administration of folic acid. Now we have performed a microarray analysis in mouse embryos (8.5 dpc) treated with BMS-189453 alone and with BMS-189453 plus folic acid (FA). On the basis of microarray and QRT-PCR results, we deeper analysed Hif1α because of its down-regulation in BMS-treated embryos vs WT and its increased expression level in BMS+FA treated embryos compared to BMS-treated ones. Immunofluorescence experiments confirmed the under-expression of Hif1α protein in BMS-treated embryos compared to WT and BMS+FA treated ones and moreover demonstrated that at 8.5 dpc Hif1α is mainly expressed in the embryo’s heart. Conclusion: We propose that Hif1α down-regulation by blocking retinoic acid binding, may contribute to the development of the cardiac defects of mouse newborns. In line with our hypothesis, when Hif1α expression level is restored (by supplementation of folic acid) a decrement of CHD is found. At the best of our knowledge this is the first report that link retinoic acid metabolism to Hif1α regulation and the development of TGA 2 samples w/ 2 dye-swaps

2010-09-20 | E-GEOD-19012 | biostudies-arrayexpress

Temporal changes of carotid endothelial transcriptome in hyperlipidemic pigs

Project description:Atherosclerosis is a progressive disease characterized by the accumulation of lipids in the large and medium sized arteries. Lipoproteins and the endothelium play critical roles in the onset of atherosclerosis through the regulation of trans-endothelial lipoprotein flux in the subintima, the expression of adhesion molecules and proinflamatory cytokine, and the recruitment of monocytic precursors to intimal macrophage foam cells. Although it has been greatly studied in animal models, including rabbits, pigs, non-human primates and rodents, little is known about the regression of the disease. There are beneficial effects seen clinically in modification of diet and blood lipid. To determine the effect of withdrawl of risk factors (diet) on endothelial gene expression, in this study we characterized the temporal changes of carotid endothelial transcriptome in hyperlipidemic pigs using next-generation RNA sequencing. Ten litters of castrated barrows swine (Yorkshire x Landrace) were raised on a normal diet. The swine (~250 lbs) were then fed with a diet high in fat and cholesterol (HFHC). One cohort (5 animals) was on HFHC for 20 weeks prior to tissue collections. Another cohort (5 animals) was on HFHC for 12 weeks and then on a normal diet (ND) for 8 weeks. The normal diet consisted of a standard commercial corn/soybean meal diet (18% crude protein) at 100% ad libitum intake. The isocaloric HFHC diet consisted of 16.5% crude protein, 15% fat and 1.5% cholesterol at 80% of the ad libitum feed rate (by weight) such that the caloric intake/kg BW were approximately the same as the control diet. Diets were adjusted biweekly according to body weight. Food was withheld for 24 hours prior to endothelium collection in order to permit the collection of blood for fasting lipid levels.

2019-12-31 | E-MTAB-3776 | biostudies-arrayexpress

Single cell experiment with iPS derived neural stem cells and 28 day differentiated neuronal cells from healthy individual and NRXN1-a biallelic deletion individual

Project description:iPS cell derived neural stem cells and differentiated cells from one healthy individual and one indivudal carrying NRXN1-a biallelic deletion investigated with single cell RNA-sequencing. Celltype characterization and comparison revealed variations between stem cell identity and in cell differentiation outcome across the two individuals.

2019-07-20 | E-MTAB-7744 | 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