Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Identification of sex-specific hepatic lincRNAs using nuclear RNA-Seq

ABSTRACT: Gene expression in adult male and female mouse liver was analyzed based on nuclear RNA-seq, as part of a study on hepatic lincRNAs.

ORGANISM(S): Mus musculus

PROVIDER: GSE66000 | GEO | 2015/10/21

SECONDARY ACCESSION(S): PRJNA275763

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Gene expression profile of hepatic lincRNAs in female mouse liver using nuclear RNA-Seq

Project description:Gene expression in adult female mouse liver was assayed by nuclear RNA-seq, as part of a study of hepatic lincRNAs.

2015-10-21 | GSE66007 | GEO

Expression and transcriptional regulation dynamics of hepatic lincRNAs

Project description:Gene expression in adult male and female mouse liver was assayed by RNA-seq, as part of a study on hepatic lincRNAs.

2015-10-21 | GSE65444 | GEO

Gene expression profile of hepatic lincRNAs in male mouse liver using nuclear RNA-Seq

Project description:Gene expression in adult male mouse liver was assayed by nuclear RNA-seq, as part of a study of hepatic lincRNAs.

2015-10-21 | GSE66009 | GEO

Gene expression profile of adult male mouse liver using total liver RNA-seq and nuclear liver RNA-Seq

Project description:Gene expression in male mouse liver was assayed by RNA-seq, as part of a study to study cellular compartmentalization of hepatic lincRNAs.

2015-10-21 | GSE66001 | GEO

Response of liver-expressed genes (including lincRNAs) to continuous growth hormone (GH) infusion

Project description:Gene expression in livers of adult male mice subjected to continuous GH infusion using Alzet osmotic minipumps for 1, 4 or 7 days was assayed by RNA-seq, as part of a study of growth hormone regulation of hepatic lincRNAs (PMID:26459762) and protein-coding genes (PMID:28694329).

2015-10-21 | GSE66008 | GEO

Sex-different hepatic glycogen content, glucose and amino acid output in rats.

Project description:In the present study we tested the hypothesis that male and female rat livers respond differently to a change in nutrient availability or to insulin treatment. We compared hepatic gene expression, hepatic glycogen and glucose output, insulin sensitivity and amino acids, using healthy rats. Keywords: Hepatic gene expression, sex-differences Two-condition experiment. Biological replicates: 4 male rat livers from rats on a standard diet and 4 female rat livers from rats on a standard diet. One replicate per array.

2011-03-01 | E-GEOD-20601 | biostudies-arrayexpress

Sex-different hepatic glycogen content, glucose and amino acid output in rats.

2011-03-01 | GSE20601 | GEO

The transposable element composition of human lincRNAs reveals a role for HERVH elements to promote stem cell specific expression of lincRNAs

Project description:Numerous studies over the past decade have elucidated a substantial set of long intergenic noncoding RNAs (lincRNAs). It has since become clear that lincRNAs constitute an important layer of genome regulation across a wide spectrum of species. Yet, the factors governing their evolution and origins remain relatively unexplored. One possible factor that may have shaped lincRNA biology are transposable elements (TEs). Here we set out to comprehensively characterize the TE content of lincRNAs relative to genomic averages and protein coding transcripts. Our analysis of the TE composition across 9241 human lincRNAs revealed that, in sharp contrast to protein coding genes, a striking majority (83%) of lincRNAs contain a TE, and TEs comprise 42% of lincRNA transcript sequences. LincRNA TE composition varies significantly from genomic averages, being depleted of LI and Alu elements and enriched for a broad class of endogenous retroviruses (ERVs). Furthermore, specific TE families occur in biased positions and orientations within lincRNAs, particularly at their transcription start sites, suggesting a role in the origin of those lincRNAs. Finally, we find that TEs can drive gene expression regulation of lincRNAs—we observed a dramatic correlation between lincRNAs containing HERVH elements and almost exclusive expression in pluripotent cells. Conversely, those lincRNAs that are devoid of TEs are more highly expressed in testis. Collectively, TEs pervade lincRNAs and have shaped lincRNA evolution and function via bestowing tissue-specific expression from donated transcriptional regulatory signals. We extracted profiled the transcriptome expression polyadenylated mRNA-Seq. We then used these to reconstruct the transcriptome using de-novo assemblers and identify long non coding RNAs and their expression.

2013-01-22 | E-GEOD-38993 | biostudies-arrayexpress

The transposable element composition of human lincRNAs reveals a role for HERVH elements to promote stem cell specific expression of lincRNAs

2013-01-22 | GSE38993 | GEO

Sex differences in FGF21-induced changes in hepatic metabolism

Project description:To investigate sex-dependent changes in hepatic metabolism in response to fibroblast growth factor-21 (FGF21), we administered FGF21 or vehicle to mice on a high-fat diet then performed gene expression profiling analysis using data obtained from RNA-seq from livers of male and female mice.

2022-08-22 | GSE210683 | GEO

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