Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

50 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

The acute cold response of brown adipose tissue analyzed by RNA-seq

ABSTRACT: We applied RNA sequencing (RNA-seq) to map the global changes in gene expression of interscapular brown adipose tissue (iBAT) of mice subjected to acute cold exposure for 3 days. Here we find extensive changes in the iBAT transcriptome in response to cold with a prominent induction of genes associated to lipid-related metabolic processes. RNA-seq of poly-A enriched RNA isolated from brown adipose tissue of 5 mice housed at room temperature (22Â°C) and 5 mice exposed to cold (4Â°C) for 3 days.

ORGANISM(S): Mus musculus

SUBMITTER: Anne Loft

PROVIDER: E-GEOD-70437 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

The acute cold response of brown adipose tissue analyzed by RNA-seq

Project description:We applied RNA sequencing (RNA-seq) to map the global changes in gene expression of interscapular brown adipose tissue (iBAT) of mice subjected to acute cold exposure for 3 days. Here we find extensive changes in the iBAT transcriptome in response to cold with a prominent induction of genes associated to lipid-related metabolic processes.

2015-11-25 | GSE70437 | GEO

Transcriptome analysis in brown adipose tissue of mice lacking ATF4 in thermogenic adipocytes.

Project description:mRNA expression profiles from interscapular brown adipose (iBAT) tissue male ATF4 BAT KO mice and their WT counterparts after 3 days of cold exposure.

2024-01-24 | GSE227060 | GEO

Transcriptome profiling of leaves in two genotypes of perennial ryegrass during cold acclimation

Project description:The changes in the transcriptome of leaves between 0, 9, 13 and 17 days of cold acclimation were analyzed using RNA-Seq in Veyo and Falster genotypes of perennial ryegrass.

2016-04-20 | E-MTAB-2779 | biostudies-arrayexpress

iRNA-seq: Computational method for genome wide assessment of acute transcriptional regulation from total RNA-seq data

Project description:RNA-seq is a sensitive and accurate technique to compare steady state levels of RNA between different cellular states. However, as it does not provide an account of transcriptional activity per se, other technologies are needed to more precisely determine acute transcriptional responses. Here, we have developed an easy, sensitive and accurate novel method, iRNA-seq, for genome-wide assessment of transcriptional activity based on analysis of intron coverage from total RNA-seq data. To test our method, we have performed total RNA-seq and RNA polymerase II (RNAPII) ChIP-seq profiling of the acute transcriptional response of human adipocytes to TNFM-NM-1 treatment and analyzed these using iRNA-seq in addition to different publically availbale dataset. Comparison of the results derived from iRNA-seq analyses with results derived using current methods for genome-wide determination of transcriptional activity, i.e. Global Run-On (GRO)-seq and RNA polymerase II (RNAPII) ChIP-seq, demonstrate that iRNA-seq provides very similar results in terms of number of regulated genes and their fold change. However, unlike the current methods that are all very labor-intensive and demanding in terms of sample material and technologies, iRNA-seq is cheap and easy and requires very little sample material. In conclusion, iRNA-seq offers an attractive novel alternative to current methods for determination of changes in transcriptional activity at a genome-wide level. Genome-wide assesment of the acute transcriptional response to TNFa in human SGBS adiposytes using total RNA-seq data end RNAPII ChIP-seq

2015-02-04 | E-GEOD-60462 | biostudies-arrayexpress

Macrophage specific Mafb deficiency effects brown adipose tissue's cold adaptability

Project description:To investigate the Cold exposure adaptation under macrophage-specific Mafb deficiency, we put the Mafbf/f (Control) mice and Mafbf/f::LysM-cre (Macrophage specific Mafb deficient) under cold exposure for 10 days and collected the interscapular brown adipose tissue (iBAT) of these mice to compare the changes using RNA sequencing.

2024-02-29 | GSE225421 | GEO

Transcriptome profiling of brown adipose tissue during cold exposure

Project description:We applied a deep-sequencing based method – digital gene expression profiling (DGEP), to investigate gene expression in interscapular brown adipose tissue (iBAT), inguinal white adipose tissue (iWAT) and epididymal white adipose tissue (eWAT) in acute cold exposure

2014-12-19 | GSE63031 | GEO

RNA-Seq of human cell lines, MCF-7, HepG2 and HepaRG treated with a dose range of Coumarin from 0.001uM to 200uM against untreated vehicle controls

Project description:The application of RNA-seq profiling of cell lines following compound treatment has been highlighted as a line of evidence for Next Generation Risk Assessment of ingredients. We demonstrate as part of a use case the evaluation of a targeted RNAseq using Tempo-Seq platform as a general unbiased approach to complement more targeted approaches. We show impact of the use of different cell lines to the point of departure.

2020-06-30 | E-MTAB-8985 | biostudies-arrayexpress

Transcriptome profiling of brown adipose tissue during cold exposure

2014-12-19 | E-GEOD-63031 | biostudies-arrayexpress

Small RNA and mRNA expression profiling during axolotl forelimb regeneration

Project description:Previous studies of appendage regeneration in the axolotl have shown that multiple genetic programs are modulated through regulatory factors. MicroRNAs are short highly conserved non-coding genes that suppress expression of target genes and thereby control multiple genetic programs. Given their important regulatory roles and evolutionary conservation, we hypothesize that microRNAs define a conserved genetic regulatory circuit important for appendage regeneration. We characterized microRNA expression during Axolotl forelimb regeneration using small RNA sequencing. The same samples were assayed for mRNA expression using mRNA sequencing. Small RNA and mRNA gene expression profiling during 0, 3, 6 and 14 days post amputation.

2016-06-01 | E-GEOD-74372 | biostudies-arrayexpress

Small RNA and mRNA expression profiling during Polypterus senegalus (bichir) pectoral fin regeneration

Project description:Previous studies of vertebrate appendage regeneration have shown that multiple genetic programs are moduled through regulatory factors. MicroRNAs are short highly conserved non-coding genes that suppress expression of target genes and thereby control multiple genetic programs. Given their important regulatory roles and evolutionary conservation, we hypothesize that microRNAs define a conserved genetic regulatory circuit important for appendage regeneration. We characterized microRNA expression during Polypterus senegalus (bichir) pectoral fin regeneration using small RNA sequencing. The same samples were assayed for mRNA expression using mRNA sequencing. Small RNA and mRNA gene expression profiling during 0, 3, 7 and 14 days post amputation.

2016-06-01 | E-GEOD-74374 | 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