Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ITag labelling of Liver, Plasma and VsWAT RNA

ABSTRACT: iTag labelling of Liver, Plasma and VsWAT RNA

PROVIDER: PRJNA600955 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR10878619.fastq.gz	Fastqsanger.gz
	SRR10878620.fastq.gz	Fastqsanger.gz
	SRR10878621.fastq.gz	Fastqsanger.gz
	SRR10878622.fastq.gz	Fastqsanger.gz
	SRR10878623.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 77

Similar Datasets

iTag labelling of Liver, Plasma and VsWAT RNA

Project description:iTag labelling of Liver, Plasma and VsWAT RNA

| PRJNA551493 | ENA

iTag labelling of Liver, Plasma and VsWAT RNA

Project description:Using a novel method for metabolic labelling of RNA called iTag RNA we isolate hepatocytes' and kidney proximal epithelial cells' transcriptional response to a dietary challenge and identify multiple hepatocyte-secreted small ccfRNAs in plasma, and transfer of these hepatic derived ccfRNAs to VsWAT.

2020-03-02 | GSE143562 | GEO

iTag labelling of Liver, Plasma and VsWAT RNA

2022-06-27 | GSE133458 | GEO

RNA-seq analysis of liver cancer patients' plasma

Project description:RNA-seq analysis of liver cancer patients' plasma

| PRJNA598835 | ENA

RNA-seq analysis of liver cancer patients' plasma

Project description:Liver cancer is one of the most lethal cancers worldwide. Liquid biopsy provides a noninvasive approach in detecting and monitoring cancer biomarkers to overcome current limitations associated with tissue biopsies, comprising the analysis of circulating tumor-derived material. In this study, we profiled plasma cell-free RNA-seq to identify recurrently dysregulated RNA biomarkers for the liquid biopsy of cancer.

2020-09-30 | GSE142987 | GEO

Murine liver: Sperm vs. seminal plasma influences

Project description:Murine liver: Sperm vs. seminal plasma influences

| PRJNA870644 | ENA

Murine liver: Sperm vs. seminal plasma influences

Project description:Transcriptional profiling of adult mouse liver tissue comparing offspring derived from sperm and seminal plasma of normal protein diet fed males (controls, NN), sperm and seminal plasma from males fed a low protein diet fed males (LL), sperm from normal protein fed males and seminal plasma from low protein fed males (NL) or sperm from low protein diet fed males and seminal plasma from normal protein diet males (NL). The first letter denotes the diet of the sperm donor and the second letter the diet of the seminal plasma donor. Three-condition experiment: NN vs. LL, NN vs. NL, NN vs. LN. Adult offspring liver tissue. Biological replicates: 7 control (NN), 9 LL, 7 NL and 7 LN. One replicate per array chip.

2022-09-20 | GSE211520 | GEO

DNA-seq from plasma of 14 liver transplantation patients

Project description:We performed DNA sequencing on the plasma of 14 liver transplantation patients to study the liver DNA in the plasma.

| EGAS00001003116 | EGA

Direct detection of circulating microRNA-122 using dynamic chemical labelling with single molecule detection overcomes stability and isomiR challenges for biomarker qualification

Project description:Circulating microRNAs are biomarkers reported to be stable and translational acrossspecies. miR-122 (miR-122-5p) is a hepatocyte-specific microRNA biomarker for drug-induced liver injury (DILI). Our objective was to develop an extraction-free andamplification-free detection method for measuring miR-122 that has translationalutility in context of DILI. We developed a single molecule dynamic chemical labelling(DCL) assay based on miR-122 hybridization to an abasic peptide nucleic acid probethat contained a reactive amine instead of a nucleotide at a specific position in thesequence. The single molecule DCL assay specifically measured miR-122 directly from10 μL of serum or plasma without any extraction steps, with a fit-for-purpose limit ofdetection of 1.32 pM. In 192 human serum samples, DCL accurately identified patientsat risk of DILI (area under ROC curve 0.98 (95%CI 0.96-1), P<0.0001). The miR-122assay also quantified liver injury in rats and dogs. When DCL beads were added toserum, the miR-122 signal was stabilised (no loss of signal after 14 days at roomtemperature). By contrast, there was substantial degradation of miR-122 in the absenceof beads (≈60% lost in 1 day). RNA sequencing demonstrated the presence of multiplemiR-122 isomiRs with DILI that were at low concentration or not present in healthypatient serum. Sample degradation over time produced more isomiRs, particularlyrapidly with DILI. PCR was inaccurate when analysing miR-122 isomiRs, whereas theDCL assay demonstrated accurate quantification. In summary, the DCL assay canaccurately measure miR-122 directly from serum and plasma to diagnose liver injury inhumans and other species, and can overcome important microRNA biomarker analyticaland biological challenges.

2019-11-23 | GSE140833 | GEO

Discovery of plasma membrane associated RNAs through APEX-seq

Project description:In addition to nucleic acids, a variety of biomolecules have been found on the plasma membrane. Whereas, researchers have realized that RNA has the ability to bind to membrane vesicles in vitro and connect to the plasma membrane of the cell. Hence, the combination of high-throughput sequencing and in suit labelling methods provides approaches for large-scale identification of subcellular RNAs. Here, we applied the recently published method APEX-seq, and identified 75 plasma membrane-associated RNAs, of which lncRNA PMAR72 is located around the membrane. In addition, we observed that PMAR72 was concentrated into foci in specific membrane areas. Our findings will provide some new evidence to elaborate the relationship between RNA and the plasma membrane of mammalian cells.

2021-05-25 | GSE166725 | 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