Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcriptomic Analysis of High Fat Diet Fed Mouse Brain Cortex

ABSTRACT: High fat diet can lead to metabolic diseases such as obesity and diabetes known to be chronic inflammatory diseases with high prevalence worldwide. Recent studies have reported cognitive dysfunction in obese patients is caused by a high fat diet. Accordingly, such dysfunction is called “type 3 diabetes” or “diabetic dementia.” Although dysregulation of protein-coding genes has been extensively studied, profiling of non-coding RNAs including long non-coding RNAs (lncRNAs) and circular RNAs (circRNAs) has not been reported yet. Therefore, the objective of this study was to obtain profiles of diverse RNAs and determine their patterns of alteration in high fat fed brain cortex compared to normal brain cortex. To investigate regulatory roles of both coding and non-coding RNAs in high fat diet brain, we performed RNA sequencing of ribosomal RNA-depleted RNAs and identified genome-wide lncRNAs and circRNAs expression and co-expression patterns of mRNAs in high fat diet mouse brain cortex. Our results showed expression levels of mRNAs related to neurogenesis, synapse, and calcium signaling were highly changed in high fat diet fed cortex. In addition, numerous differentially expressed lncRNAs and circRNAs were identified. Our study provides valuable expression profiles and potential function of both coding and non-coding RNAs in high fat diet fed brain cortex.

ORGANISM(S): Mus musculus

PROVIDER: GSE179711 | GEO | 2021/07/11

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

RNA-seq analyses of liver samples in mice fed normal diet or subject to 60% high fat diet for 23 weeks

Project description:To systemically identify the long non-coding RNAs(lncRNAs) expression profile in the liver, specifically those involved in lipid metabolism, we generated a hyperlipemia model in mice. The hyperlipemia protocol was as follows:mice post natal 4 weeks fed normal diet or subjet to 60% high fat diet for 23 weeks, the mice were immediately sacrificed for liver and plasma collection.

2022-09-01 | GSE157482 | GEO

Transcriptomic Analysis of High Fat Diet Fed Mouse Brain Cortex

Project description:Transcriptomic Analysis of High Fat Diet Fed Mouse Brain Cortex

| PRJNA744745 | ENA

Genome-wide analysis of long noncoding RNA and messager RNA expression in ApoE-deficient mice

Project description:Atherosclerosis is a multifactorial chronic inflammatory disease with high prevalence and has become the first reason for death worldwide. Long non-coding RNAs (lncRNAs) are non-coding RNAs with a length of >200 bp. LncRNAs participate in many biological and pathological processes such as carcinogenesis, cardiovascular diseases. The present study was designed to investigate the lncRNA and mRNA expression in the aorta of diet-induced ApoE(-/-) mice using microarray analysis. The homozygous male apoE(-/-) mice were randomly divided into two groups, with 3 animals for each group. The normal diet group was fed with normal chow, while the treated group was fed with a high-fat, high-cholesterol diet containing 20% fat and 2.5% cholesterol. The treatment duration is 8-week. After treatment, the aorta of each mouse was taken, and the lncRNA and mRNAs profiles were detected using Agilent mouse lncRNA Microarray (4*180K, Design ID: 049801) which contains 51302 lncRNAs and 39430 mRNAs. As a result, a total of 354 differentially expressed lncRNAs, including 168 up-regulated and 186 down-regulated, were identified (≥2.0 folds). Simultaneously, we also identified 357 differentially expressed protein coding mRNAs from the same chip, including 211 up-regulated 146 down-regulated mRNAs. The present study identified a panel of dysregulated lncRNAs and mRNAs that may be potential biomarkers or drug targets and correlated with the pathogenesis of atherosclerosis.

2016-06-09 | GSE83112 | GEO

The differentially expressed circular and long non-coding RNAs in the prefrontal cortex of Nrf2-knockout mice

Project description:Circular RNAs (circRNAs), long non-coding RNAs (lncRNAs) and mRNAs have displayed dysregulated expression in the prefrontal cortex of Nrf2-knockout mice.

2020-12-01 | GSE162315 | GEO

Integrated analysis of lncRNA and mRNA expression profiles in the submandibular glands of DIO mice

Project description:Objective: Obesity contributes to the dysfunction of salivary gland. To explore the specific underlying mechanism for obesity-induced hyposalivation, a model for high-fat diet-induced obese (DIO) mice were constructed to analyze long non-coding RNAs (lncRNAs) and messenger RNAs (mRNAs) expression profiles. Methods: The DIO group and control group were fed a diet containing 60 kcal% fat and a normal chow diet for 16 weeks respectively. Microarray analyses were performed to detect the expression profiles of lncRNA and mRNA in submandibular gland tissues from control group mice and DIO mice. Gene ontology, kyoto encyclopedia of genes and genomes, protein-protein interaction, coding-non-coding gene co-expression, transcription factors and competing endogenous RNA analyses were performed to examine the function of differential expressed genes. Results: The microarray identified that 624 lncRNAs, along with 297 mRNAs were differentially expressed. Bioinformatic analyses revealed that “complement and coagulation cascades”, “glutathione metabolism”, “cysteine and methionine metabolism”, and “estrogen signaling pathway” were significantly associated with candidate lncRNAs, transcription factors analysis on candidate lncRNAs reveled several genes such as tribbles pseudokinase 3 may play regulatory roles. Conclusions: Our results revealed the expression profiles of lncRNAs and mRNAs and provided new insights into the mechanism of obesity-induced hyposalivation using bioinformatic analyses.

2020-12-31 | GSE162953 | GEO

Are you also what Your Mother Eats? Distinct Proteomic Portrait as a Result of Maternal High-Fat Diet in the Cerebral Cortex of the Adult Mouse.

Project description:Background: Epidemiological studies suggest an association between maternal obesity and adverse neurodevelopmental outcomes in offspring. Objective: To compare the global proteomic portrait in the cerebral cortex between mice born to mothers on a high-fat or control diet who themselves were fed a high-fat or control diet. Methods: Male mice born to dams fed a control (C) or high fat (H) diet four weeks before conception and during gestation and lactation were assigned to either C or H diet at weaning. Mice (n=24) were sacrificed at 19-weeks and their cerebral cortices were pooled into 8 samples and analysed using an iTRAQ based 2D LC-MS methodology. Results: A total of 6,695 proteins were identified and fully quantified (q<0.01). Approximately 10% of these proteins demonstrated a minimum of one Standard Deviation of regulation across all biological replicates in at least one of the experimental groups (CH, HC, HH) relative to the control (CC). Principal component analysis and hierarchical clustering analysis showed that mice clustered based on the diet of the mother and not their current diet. In silico bioinformatics analysis revealed that maternal high-fat diet was significantly associated with response to hypoxia/oxidative stress and apoptosis in the cerebral cortex of the adult offspring. Conclusion: Maternal high-fat diet was associated with distinct endophenotypic changes of the adult mouse cerebral cortex independent of the diet of the offspring. The identified modulated proteins could represent novel therapeutic targets for the prevention of neuropathological features resulting from maternal obesity.

2018-01-29 | PXD001540 | Pride

Transcriptome Analyses of LncRNA Metabolic Regulators from High Fat Diet Induced T2DM Mouse Adipose Tissue

Project description:To search long noncoding RNAs (lncRNAs) which regulating energy metabolism in high fat diet induced T2DM mouse, we performed transcriptome analyses to simultaneously profile mRNAs and lncRNAs in epididymal adipose tissue in normal and high fat diet induced mouse. Combining genome-wide screens, bioinformatics function predictions, and cell-based analyses, we developed an integrative roadmap to identify lncRNA metabolic regulators in epididymal adipose tissue under high fat diet induced T2DM mouse.

2019-06-01 | GSE100028 | GEO

Differentially expressed genes in livers and abdominal fats between normal- and high-fat diet-fed chickens

Project description:To investigate genes involved in abdominal fat deposition and fat metabolism of broilers, we used highthroughput sequencing to detect the differentially expressed genes in livers and abdominal fats of broilers which were fed with a normal diet and a high-fat diet, respectively. The broilers began to fed with a normal or a high-fat diet in 1-week-old. After 7 weeks, the broilers were be executed and the livers and abdominal fats were used to extracted total RNAs. Finally, the total RNAs were be sequenced used BGISEQ-500 platform.

2019-03-16 | GSE128340 | GEO

Differentially expressed genes in livers and abdominal fats between normal- and high-fat diet-fed dwarf broilers

Project description:To investigate genes involved in abdominal fat deposition and fat metabolism of broilers with dw gene, we used highthroughput sequencing to detect the differentially expressed genes in livers and abdominal fats of dwarf broilers which were fed with a normal diet and a high-fat diet, respectively. The broilers began to fed with a normal or a high-fat diet in 1-week-old. After 7 weeks, the broilers were be executed and the livers and abdominal fats were used to extracted total RNAs. Finally, the total RNAs were be sequenced used BGISEQ-500 platform.

2019-04-16 | GSE129840 | GEO

Profiles of Differentially Expressed Long-Noncoding RNAs and mRNAs in Non-alcoholic Fatty Liver Disease Mice

Project description:Non-coding RNAs (ncRNAs), including piwi-interacting RNA (piRNAs), circular RNAs (circRNAs) and long ncRNAs (lncRNAs), have been recently emerged as key regulators of pathological process of metabolic diseases. Since previous studies have reported that piRNAs and circRNAs involve in non-alcoholic fatty liver disease (NAFLD), this study was designed to explore more potential regulators of lncRNAs in NAFLD. A NAFLD mouse model was successfully constructed by providing high-fat diet (HFD) for 16 weeks as determined by immunohistology and serology assay. The lncRNAs expression profile including 549 upregulated lncRNAs and 108 downregulated lncRNAs was observed using microarray analysis, which was further confirmed by quantitative real-time Polymerase Chain Reaction (qRT-PCR). Moreover, we identified 308 differentially expressed mRNAs in the NAFLD group. Importantly, the sphingolipid signaling pathway may be significantly enriched pathways closely related to NAFLD using Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis. Further study revealed that lncRNAs and their interacting mRNAs may participate in the pathophysiological process of NAFLD by regulating sphingolipid signaling pathway. Taken together, the current study demonstrated more potential regulators of lncRNAs and the interacting pathways between lncRNAs and mRNAs, which may provide new insights into the pathogenesis of NAFLD.

2022-05-03 | GSE202035 | 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