Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Gut microbiota and gallstone formation - cohousing study

ABSTRACT: To investigate the role of gut microbiota on the formation of cholesterol gallstone in mice.

INSTRUMENT(S): HiSeq X Ten

ORGANISM(S): Mus musculus

SUBMITTER: Zhaoyan Jiang

PROVIDER: E-MTAB-8550 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Tissue proteome of visceral, subcutaneous and brown adipose as well as liver tissues in an obese mouse model after dietary exposure to the emerging phthalate substitute DINCH

Project description:Here, we analysed the global proteome of visceral, subcutaneous and brown adipose as well as liver tissues in a C57BL/6J mouse model of diet-induced obesity, following dietary exposure to 1,2-cyclohexane dicarboxylic acid diisononyl ester (DINCH). This study includes data on male and female mice, as well as on immediate DINCH exposure and retained effects after a recovery phase.

2025-02-03 | PXD054970 | Pride

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

Dynamics of compartment-specific proteomic landscapes of hepatotoxic and cholestatic models of liver fibrosis

Project description:This study suggests that the composition of the extracellular matrix in a mouse model of liver fibrosis changes depending on the cause of liver fibrosis.

2025-03-27 | PXD060305 | Pride

Proteomic analysis of mice pancreatic islet fed a high fat simple carbohydrate diet

Project description:This study aims to elucidate the molecular mechanisms linking dietary stress from a high-fat simple carbohydrate (HFSC) diet to an elevated risk of pancreatic cancer. Using label-free liquid chromatography-tandem mass spectrometry (LC-MS/MS), we performed a comprehensive proteomic analysis of collagenase-digested pancreatic islets from HFSC-fed mice. The study identified a significant upregulation and downregulation of 33 and 34 proteins respectively in HFSC group compared to the control group. The results revealed substantial alterations in the expression of proteins involved in key biological processes such as metabolic stress, protein synthesis, and endoplasmic reticulum (ER) stress, all of which are crucial for maintaining cellular homeostasis under dietary stress. Notably, the study identified several potential biomarkers, including MANF, VCP, HYOU1, and PRDX1, which are intricately linked to pancreatic function and the progression of cancer. These biomarkers play pivotal roles in managing cellular stress responses, protein folding, and metabolic regulation, offering insights into how a HFSC diet contributes to pancreatic carcinogenesis. This research highlights the significant impact of dietary factors on pancreatic cancer development and underscores the potential of these biomarkers as therapeutic targets for early detection and treatment, ultimately aiming to improve patient outcomes in PDAC.

2026-04-22 | PXD057058 | Pride

Gene expression in the liver, effect of maternal high-fat diet during or prior to pregnancy

Project description:The present study aimed to examine the effect of high-fat diet prior to pregnancy on the liver of mouse offspring. Female C57BL/6J mice were fed a normal chow (15.2% fat by energy) (CTR and CTR-PP groups) or a high-fat chow (31.2% fat by energy) (HFD and HFD-PP groups) for 3−4 weeks and then mated with male C57BL/6J mice fed normal chow. Some mothers continued on the same diet until pups reached 21 days of age (CTR and HFD), and others were fed the different chows from gestational day 0 (CTR-PP and HFD-PP) to determine the effects of a high-fat diet during the pre-pregnancy period in HFD-PP/CTR and HFD/CTR-PP comparisons. RNA sample was taken from liver of 3-week-old mouse prenatally received high-fat diet prior to pregnancy, during pregnancy and lactation, or through prior to and during pregnancy and lactation, while control RNA was taken from control counterpart prenatally received normal diet alone. Comparisons among groups were made by one-color method with normalized data from Cy3 channels for data analysis.

2013-06-18 | E-GEOD-48014 | biostudies-arrayexpress

High Fat Diet Reduces the Expression of Glutathione Peroxidase 3 in Mouse Prostate

Project description:High fat diets are known to be a risk factor for prostate cancer. In this study, we investigated the effect of high fat diet on mouse prostate gene expression. C57BL/6J mice were fed either a control or high fat diet for 12 weeks. Microarray analyses were performed on mouse ventral prostate (VP) and dorsolateral prostate (DLP), followed by canonical pathway analysis and regulatory network identification. mRNA changes were confirmed by real time PCR. Approximately 2,125, and 1,194 genes responded significantly to the high fat diet in VP, DLP, respectively. Pathways and networks related to oxidative stress, glutathione metabolism, NRF-mediated oxidative stress response and NF-kappaB were all differentially regulated by high fat diet. GPx3 mRNA levels were decreased by approximately 2-fold by high fat diet in all 3 prostate lobes. In human non-transformed prostate cells (PrSC, PrEC and BPH-1), cholesterol loading decreased GPx3 expression, and increased H2O2 levels of culture medium. Troglitazone increased GPx3 expression in 3 normal prostate cells, and decreased H2O2 levels. In addition, troglitazone attenuated cholesterol-induced H2O2 increase. Tissue from prostate cancer biopsies had decreased GPx3 mRNA and its level was inversely related to the Gleason score. High fat diet alters pathways related to many genes concerned with oxidative stress. GPx3, a gene identified by this analysis, was found to be down regulated by high fat diet and appears be decreased in human prostate cancers, suggesting that GPx3 may have a possible role in modulating carcinogenesis. Control group:5 C57BL/6J mice (Taconic, Hudson, NY), 8-weeks of age, fed control diet ad libitum for 12 weeks; Experimental group: 5 C57BL/6J mice (Taconic, Hudson, NY), 8-weeks of age, fed ad libitum high fat diet for 12 weeks.

2012-01-02 | E-GEOD-26464 | biostudies-arrayexpress

A preclinical mouse model of nonalcoholic steatohepatitis and hepatocellular cancer that mimics human disease

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2016-07-25 | E-GEOD-67680 | biostudies-arrayexpress

Time-course microarrays reveal early activation of the immune transcriptome and adipokine dysregulation leads to fibrosis in visceral adipose depots during diet-induced obesity

Project description:Time-course analysis of adipocyte gene expression profiles response to high fat diet. The hypothesis tested in the present study was that in diet-induced obesity, early activation of TLR-mediated inflammatory signaling cascades by CD antigen genes, leads to increased expression of pro-inflammatory cytokines and chemokines, resulting in chronic low-grade inflammation. Early changes in collagen genes may trigger the accumulation of ECM components, promoting fibrosis in the later stages of diet-induced obesity. New therapeutic approaches targeting visceral adipose tissue genes altered early by HFD feeding may help ameliorate the deleterious effects of a diet-induced obesity. Total RNA obtained from isolated epididymal and mesenteric adipose tissue of C57BL/6J mice fed normal diet or high fat diet for 2, 4, 8, 20 and 24weeks

2014-03-01 | E-GEOD-39549 | biostudies-arrayexpress

Olive oil phenols and miRNA in the aging mouse brain

Project description:The aim of this study was to evaluate the effects of olive oil phenols on brain aging in mice, focusing on changes in the microRNA profile. A sister experiment focusing on gene expression changes is also submitted to ArrayExpress under accession number E-MTAB-1530 ( http://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-1530/ )

2013-09-10 | E-MTAB-1549 | biostudies-arrayexpress

Identification of early biomarkers in saliva in genetically engineered mouse model C(3)1-TAg of breast cancer

Project description:Breast cancer is one of leading causes of death worldwide in the female population. Deaths from breast cancer could be reduced significantly through earlier and more efficient detection of the disease. Saliva, an oral fluid that contains an abundance of protein biomarkers, has been recognized as a promising diagnostic biofluid that is easy to isolate through non-invasive techniques. Assays on saliva can be performed rapidly and are cost-effective. Therefore, our work aimed to identify salivary biomarkers present in the initial stages of breast cancer, where cell alterations are not yet detectable by histopathological analysis. Using state-of-the-art techniques, we employed a transgenic mouse model of mammary cancer to identify molecular changes in precancerous stage breast cancer through protein analysis in saliva. Through corroborative molecular approaches, we established that proteins related to metabolic changes, inflammatory process and cell matrix degradation are detected in saliva at the onset of tumor development. Our work demonstrated that salivary protein profiles can be used to identify cellular changes associated with precancerous stage breast cancer through non-invasive means even prior to biopsy-evident disease.

2022-08-12 | PXD031219 | Pride

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