Browse
Submit Data
Databases
API
Help

Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

16 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcriptomic profiles of white adipose tissue and liver in rats fed either a high-sucrose diet or high-sucrose diet combined with quercetin treatment

ABSTRACT: Adult male rats of the PD/Cub (PD hereafter) strains were fed a laboratory chow diet (STD, ssniff RZ, ssniff Spezialdiäten GmbH, Soest, Germany). At the age of 12 months, rats within each strain were randomly divided into two groups. The control group was fed a high-sucrose diet (HSD, sucrose 70 cal%) while the experimental group was fed a HSD fortified with quercetin (10 g/kg food, Sigma-Aldrich).

ORGANISM(S): Rattus norvegicus

SUBMITTER: Ondřej Šeda

PROVIDER: E-MTAB-11061 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Transcriptomic profiles of white and brown adipose tissue in rats fed either a high-sucrose diet or high-sucrose diet combined with quercetin treatment

Project description:Adult male rats of the SHR/OlaIpcv (SHR hereafter) and SHR.PD-Zbtb16 strains were fed a laboratory chow diet (STD, ssniff RZ, ssniff Spezialdiäten GmbH, Soest, Germany). At the age of 12 months, rats within each strain were randomly divided into two groups. The control group was fed a high-sucrose diet (HSD, sucrose 70 cal%) while the experimental group was fed a HSD fortified with quercetin (10 g/kg food, Sigma-Aldrich).

2022-10-07 | E-MTAB-11128 | biostudies-arrayexpress

Microarray expression of white adipose tissue, brown adipose tissue and liver in adult rat offspring of dams fed high-sucrose diet vs. standard diet

Project description:We established a new minimal congenic rat strain containing only a single gene, Zbtb16, from a metabolic syndrome model, the polydactylous rat (PD/Cub) strain, within the spontaneously hypertensive rat (SHR) strain genomic background. 16-week-old SHR and SHR-Zbtb16 rat dams were fed either standard diet during pregnancy and 4 weeks of lactation (control groups) or a high-sucrose diet (HSD, 70% calories as sucrose) during the same period. We have compared the transcriptome profile (GeneChip Rat Gene 2.1 ST Array Strip) in liver, brown and white adipose tissue in adult male offspring of SHR and SHR-Zbtb16 rat dams.

2019-06-28 | E-MTAB-6838 | biostudies-arrayexpress

Transcriptomic profiles of white adipose tissue, brown adipose tissue and liver in rats fed either a high-fat diet or high-fat diet combined with ellagic acid treatment

Project description:In this study, we assessed the effect of acute oral administration of ellagic acid on metabolic parameters, oxidative stress and transcriptomic profiles in an inbred rodent model, carrying a variant of one of the metabolic syndrome-related genes, Zbtb16 (Zinc Finger And BTB Domain Containing 16). Over a period of three weeks, adult male rats of the SHR-Lx/k.o. strain were fed a high-fat diet accompanied with daily intragastric gavage of ellagic acid (50 mg/kg body weight; HFD-EA rats) or solvent only (HFD rats). At the end of the protocol, morphometric and metabolic parameters, including glucose tolerance test, serum lipid concentration and oxidative stress markers along with transcriptomic profile of liver, brown, and epididymal adipose tissues were assessed.

2021-02-19 | E-MTAB-8928 | biostudies-arrayexpress

Transcription profiling of liver, pancreas and lung tissue of male SD rats and CRISPR/Cas-9-mediated knockout SD-Nme7-/- male rats

Project description:We aimed to compare the transcriptome of liver, pancreas, and lung tissue of adult male SD rats and the novel CRISPR/Cas-9-mediated knockout SD-Nme7-/- adult male rats using Affymetrix Rat Gene 2.1 ST Array Strip. Total RNA was isolated from the liver, pancreas, and lung tissues (RNeasy Mini Kit, Qiagen) of SD and SDNme7-/- rats. The quality and integrity of the total RNA was evaluated on the Agilent 2100 Bioanalyzer system (Agilent, Palo Alto, CA). Microarray experiments were performed using the Rat Gene 2.1 ST Array Strip. The whole hybridization procedure was performed using the Affymetrix GeneAtlas® system according to the manufacturer's instructions. The quality control of the chips was performed using Affymetrix Expression Console. After applying quality filters and data normalization by the Robust Multichip Average (RMA) algorithm implemented in Affymetrix Expression Console, the set of obtained differentially expressed probesets was filtered by the false discovery rate (FDR) method implemented in PARTEK Genomics Suite 7 (Partek, St. Louis, Missouri). Transcriptomic data were then processed by a standardized sequence of analyses (hierarchical clustering and principal component analysis, gene ontology, gene set enrichment, Upstream Regulator Analysis, Mechanistic Networks, Causal Network Analysis, and Downstream Effects Analysis) using Ingenuity Pathway Analysis.

2021-04-06 | E-MTAB-10000 | biostudies-arrayexpress

Transcriptome profiling of liver and white adipose tissue of male SD rats and CRISPR/Cas-9-mediated heterozygous knockout SD-Nme7+/- male rats

Project description:We aimed to compare the transcriptome of liver and white adipose tissue of adult male SD rats and the novel CRISPR/Cas-9-mediated heterozygous knockout SD-Nme7+/- adult male rats using Affymetrix Rat Gene 2.1 ST Array Strip. Total RNA was isolated from the liver and visceral adipose tissue (RNeasy Mini Kit, Qiagen) of SD and SDNme7+/- rats. The quality and integrity of the total RNA was evaluated on the Agilent 2100 Bioanalyzer system (Agilent, Palo Alto, CA). Microarray experiments were performed using the Rat Gene 2.1 ST Array Strip. The whole hybridization procedure was performed using the Affymetrix GeneAtlas® system according to the manufacturer's instructions. The quality control of the chips was performed using Affymetrix Expression Console. After applying quality filters and data normalization by the Robust Multichip Average (RMA) algorithm implemented in Affymetrix Expression Console, the set of obtained differentially expressed probesets was filtered by the false discovery rate (FDR) method implemented in PARTEK Genomics Suite 7 (Partek, St. Louis, Missouri). Transcriptomic data were then processed by a standardized sequence of analyses (hierarchical clustering and principal component analysis, gene ontology, gene set enrichment, Upstream Regulator Analysis, Mechanistic Networks, Causal Network Analysis, and Downstream Effects Analysis) using Ingenuity Pathway Analysis.

2022-01-07 | E-MTAB-10011 | biostudies-arrayexpress

Microarray expression of kidney cortex in adult male rats treated with methylglyoxal vs. controls

Project description:In our study, we investigated the effect of methylglyoxal on metabolic, transcriptomic, metabolomic and proteomic profiles in the context of the development of kidney impairment in an experimental model of metabolic syndrome. Dicarbonyl stress was induced in experimental group by intragastrical administration of methylglyoxal (3x/ week in dose 0.5 mg/kg b.wt.for 4 weeks) in a strain of hereditary hypertriglyceridaemic rats (HHTg). Transcriptome assessment in kidney cortex was performed in 8 male adult rats of experimental group and compared to that of 6 age- and sex- matched rats of control group.

2020-02-08 | E-MTAB-7690 | biostudies-arrayexpress

Microarray expression of white adipose tissue in adult male rats treated with methylglyoxal vs. controls

Project description:In our study, we investigated the effect of methylglyoxal on metabolic, transcriptomic, metabolomic and proteomic profiles in the context of metabolic syndrome in an experimental model. Dicarbonyl stress was induced in experimental group by intragastrical administration of methylglyoxal (3x/ week in dose 0.5 mg/kg b.wt.for 4 weeks) in a strain of hereditary hypertriglyceridaemic rats (HHTg). Transcriptome assessment in white adipose tissue was performed in 7 male adult rats of experimental group and compared to that of 6 age- and sex- matched rats of control group.

2021-04-06 | E-MTAB-9013 | biostudies-arrayexpress

Transcription profiling of Hsd:ICR(CD-1) mouse intestines to study regional variations in ABC transporter expression along the mouse intestinal tract.

Project description:8 week-old male Hsd:ICR(CD-1) mice were fed ad libitum a standard chow (Harlan Teklad diet 2018S) and housed in groups of five. Animals were then divided into 3 pools (n=10) and sacrificed. The small intestine was extracted and divided into three sections, where the first 2-3 cm after the stomach comprised the duodenum, the middle third the jejunum, and the section before the ileo-ceco-colic junction comprised the ileum. Colon was not divided into proximal and distal sections and was treated as a single intestinal section.

2007-12-13 | E-GEOD-849 | biostudies-arrayexpress

Single cell RNA-seq of liver cells from B6J mice fed a chow or a high-fat-and-high-sucrose diet

Project description:Cannabinoid receptor-1 (CB-1) blockage in brain is responsible for weight loss, many of the metabolic benefits associated with CB-1 blockade have been attributed to inhibition of CB-1 signaling in the periphery. We produced mice that lacked CB-1 receptors in hepatocytes or stellate cells to determine if CB-1 signaling contributes to the development of NAFLD or liver fibrosis. Deletion of CB-1 receptors in hepatocytes did not alter the development of NAFLD in mice fed a high sucrose high fat diet (HSD) or high fat diet (HFD). Similarly, deletion of CB-1 deletion specifically in stellate cells also did not prevent the development of NAFLD in mice fed the HFD nor did it protect mice for carbon tetrachloride-induced fibrosis. To determine if a small population of cells in liver express CB-1 at high levels either before and/or after HSD feeding, here we performed single cell RNA-sequencing of livers from wild-type mice fed chow or a HSD for 17 weeks and analyzed CB-1 expression. Single-cell sequencing of hepatocytes and stellate cells reveals low Cnr1 expression in livers of mice fed a chow or HSD. Combined, these studies do not support a direct role for hepatocyte or stellate cell CB-1 signaling in the development of NAFLD or liver fibrosis.

2021-09-01 | GSE182365 | GEO

Expression data from junctional zone of placenta in Brown Norway and Holtzman-Sprague Dawley rat strains at gestation day 18.5

Project description:Placentation differs in the BN rat strain when compared to HSD and DSS rat strains. Intrauterine trophoblast invasion is shallow and the junctional zone is underdeveloped in the BN rat. These structural differences are striking but their quantification is not conducive to high throughput analyses. In the rat, the junctional zone can be readily dissected and is more homogenous than other components of the placentation site. HSD and BN rat gestation day 18.5 junctional zone gene expression profiles were determined using DNA microarray analysis to identity placenta-associate quantitate traits. Total RNAs from Junctional zone tissues of gestation day18.5 HSD and BN rat strains were subjected to microarray analyses. Three biological replicates of each strains were analyzed.

2011-05-13 | E-GEOD-29247 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

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