Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Bulk liver transcriptomics from Li-TSC1KO RagAGTP mice

ABSTRACT: RNA-seq from bulk liver was performed for wild-type, Li-TSC1KO and Li-TSC1KO RagAGTP livers.

ORGANISM(S): Mus musculus

PROVIDER: GSE225265 | GEO | 2024/01/12

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

scRNAseq from Li-TSC1KORagAGTP and wild-type livers

Project description:scRNAseq from liver was performed for two Li-TSC1KORagAGTP and two wild-type mice to examine different populations of hepatic cells

2024-01-12 | GSE229830 | GEO

Li-treatment-induced NDI (Li-NDI) in rats

Project description:5 rats were offered food containing 40mM Li/Kg dry weight for 4 weeks, and 5 control rats obtained standard food. The RNA from the inner medulla of the Li-treated rats was labeled red (channel 1), and from the control rats labeled green (channel 2). The samples from Li-treated rats 1+2 and control rats 1+2 were hybridized to array Li-NDI 1. The samples from Li-treated rats 3+4 and control rats 3+4 were hybridized to array Li-NDI 2. The samples from Li-treated rat 5 and control rat 5 were hybridized to array Li-NDI 3. Keywords: parallel sample

2004-09-01 | GSE1341 | GEO

Bulk liver transcriptomics from control and TPN-fed neonatal pigs

Project description:RNA-seq from bulk liver was performed from orally and TPN-fed piglets

2024-01-12 | GSE225266 | GEO

Li-treatment-induced NDI (Li-NDI) in rats

2004-09-01 | E-GEOD-1341 | biostudies-arrayexpress

Li Jinyou Aging

Project description:Li Jinyou Aging

| PRJEB48848 | ENA

Li Jinyou Aging

Project description:Li Jinyou Aging

| PRJEB48849 | ENA

A multi-omics approach to liver diseases: integration of Single Nuclei Transcriptomics with Proteomics and Hi-Cap Bulk Data in human liver

Project description:Abstract The liver is the largest solid organ and a primary metabolic hub. In recent years, intact cell nuclei were used to perform single-nuclei RNA-seq (snRNA-seq) for tissues difficult to dissociate and for flash-frozen archived tissue samples to discover unknown and rare cell sub-populations. In this study, we performed snRNA-seq of a liver sample to identify sub-populations of cells based on nuclear transcriptomics. In 4,282 single nuclei we detected on average 1,377 active genes and we identified seven major cell types. We integrated data from 94,286 distal interactions (p<0.05) for 7,682 promoters from a targeted chromosome conformation capture technique (HiCap) and mass spectrometry (MS) proteomics for the same liver sample. We observed a reasonable correlation between proteomics and in silico bulk snRNA-seq (r=0.47) using tissue-independent gene-specific protein abundancy estimation factors. We specifically looked at genes of medical importance. The DPYD gene is involved in the pharmacogenetics of fluoropyrimidines toxicity and some of its variants are analyzed for clinical purposes. We identified a new putative polymorphic regulatory element, which may contribute to variation in toxicity. Hepatocellular carcinoma (HCC) is the most common type of primary liver cancer and we investigated all known risk genes. We identified a complex regulatory landscape for the SLC2A2 gene with 16 candidate enhancers. Three of them harbor somatic motif breaking and other mutations in HCC in the Pan Cancer Analysis of Whole Genomes dataset and are candidates to contribute to malignancy. Our results highlight the potential of a multi-omics approach in the study of human diseases.

2020-12-21 | PXD017610 | Pride

SC35 (SRSF2) ChIP-Seq analysis of liver samples from wild type (WT) mice and XBP1 liver-specific knockout (LKO) mice over a 48 hour time series

Project description:Here, we show the in vivo genome-wide interactions of SC35 in the livers of wild type mice and mice with liver-specific knockouts of XBP1

2022-01-01 | GSE174170 | GEO

Effect of hematopoietic Tet2 deletion on bulk liver gene expression in a mouse model of steatohepatitis [bulk]

Project description:To investigate the role of hematopoietic Tet2 loss on the development of steatohepatitis, mice were transplanted with wild type or Tet2 deficient bone marrow cells and fed a choline-deficient, L-amino acid-defined, high-fat diet. Gene expression profiling analysis of bulk liver RNA was then performed.

2023-02-07 | GSE223692 | GEO

Liver miRNA profile of PiZ mice

Project description:Transgenic PiZ mice have been genetically engineered to express ATZ and have been a valuable experimental model for liver disease due to AAT polymerization. ATZ accumulates in these mice within the ER of hepatocytes in a nearly identical manner to livers of affected patients. MiRNAs play a key role in a wide range of biological processes and regulate gene expression mainly at the translational level. To search for miRNA with altered expression in AAT liver disease, we analyzed by miRNA next generation sequencing (NGS) the livers of 6-week-old PiZ mice and strain-, age-, and gender-matched wild-type mouse controls. This analysis revealed 70 miRNAs with differential expressions.

2017-03-23 | GSE85413 | 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