Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Profiling of mRNAs, long chain non-coding RNAs and circular RNAs in gastric cancer tissues and adjacent normal tissues

ABSTRACT: Purpose: To investigate the role and mechanism of mRNAs, long chain non-coding RNAs and circular RNAs in gastric cancer. Methods: RNA-seq of ribosomal RNA-depleted total RNA were performed to screen differential expressed mRNAs, long chain non-coding RNAs between paired gastric cancer tissues and adjacent normal tissues.For the linear RNA was digested with 3 U of RNase R per µg of RNA. Results: A total of 83672 mRNAs, 105998 long chain non-coding RNAs, 25441 distinct circRNAs were identified in these samples, and 13929 of these circRNAs were identified as novel circRNAs.

ORGANISM(S): Homo sapiens

PROVIDER: GSE193453 | GEO | 2022/03/15

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Identification and characterization of MCF01A circular RNAs [RNA-seq]

Project description:Circular RNAs (circRNAs) are widespread circular forms of non-coding RNAs with largely unknown function. Because stimulation of mammary cells with the epidermal growth factor (EGF) leads to dynamic changes in the abundance of both coding and non-coding RNA molecules, and culminates in the acquisition of a robust migratory phenotype, this cellular model might disclose functions of circRNAs. Here we show that circRNAs of EGF-stimulated mammary cells are stably expressed, while mRNAs and micro-RNAs change within minutes. In general, the circRNAs we detected are relatively long-lived and weakly expressed. Interestingly, they are almost ubiquitously co-expressed with the corresponding linear transcripts, and the respective, shared promoter regions are more active compared to genes producing linear isoforms only. These findings imply that altered abundance of circRNAs, unlike changes in the levels of other RNAs, might not play critical roles in signaling cascades and downstream transcriptional networks that rapidly commit cells to specific outcomes. Detection of circRNAs from RNA-Seq â triplicate

2015-12-17 | E-GEOD-71195 | biostudies-arrayexpress

Profiling of mRNAs, long chain non-coding RNAs and circular RNAs in gastric cancer tissues and adjacent normal tissues

Project description:Profiling of mRNAs, long chain non-coding RNAs and circular RNAs in gastric cancer tissues and adjacent normal tissues

| PRJNA796293 | ENA

Identification and characterization of MCF01A circular RNAs [ChIP-seq]

2015-12-17 | E-GEOD-71196 | biostudies-arrayexpress

RNA sequencing of circular RNAs, long non-coding RNAs ,and mRNAs in human keloid dermal tissues

Project description:Keloid is a dermal fibroproliferative disease with various etiologies and unclear pathogenesis. Recent studies have revealed that circular RNAs (circRNAs) and long non-coding RNAs (lncRNAs) exerted regulatory functions through a competing endogenous RNA (ceRNA) pathway in keloid progression. However, the expression profiles of circRNAs and lncRNAs in keloid dermal tissues (KDTs) remain unknown. This study aimed to identify differentially expressed circRNAs, lncRNAs and genes in KDTs.

2023-09-07 | GSE212954 | GEO

The differentially expressed circular and long non-coding RNAs in the prefrontal cortex of Nrf2-knockout mice

Project description:Circular RNAs (circRNAs), long non-coding RNAs (lncRNAs) and mRNAs have displayed dysregulated expression in the prefrontal cortex of Nrf2-knockout mice.

2020-12-01 | GSE162315 | GEO

Identification and characterization of MCF01A circular RNAs [RNA-seq]

2015-12-17 | GSE71195 | GEO

Identification and characterization of MCF01A circular RNAs [ChIP-seq]

2015-12-17 | GSE71196 | GEO

Profiling of circular RNAs in gastric cancer tissues and adjacent normal tissues

Project description:Purpose: To investigate the role and mechanism of circRNAs in gastric cancer. Methods: RNA-seq of ribosomal RNA-depleted total RNA and qRT-PCR were performed to screen differential expressed circRNAs between paired gastric cancer tissues and adjacent normal tissues. Results: A total of 57623 distinct circRNAs were identified in these samples, and 35120 of these circRNAs contained at least two independent back-spliced reads in at least two samples. Compared with circBase, we found that there were 29007 matched circRNAs and 28616 novel circRNAs in our study.

2019-11-01 | GSE121445 | GEO

Noncoding RNA and mRNA expression data from human colorectal cancer tissues and adjacent non-cancerous tissues

Project description:Total RNA from 6 pairs colorectal cancer tissues and its matched adjacent non-cancerous tissues was extracted and sequenced by high throughput sequencing. Then, differentially expressed circRNAs, long noncoding RNAs, and mRNAs were showed in colorectal cancer.

2023-01-18 | GSE143939 | GEO

Identification and characterization of circular RNAs as a new class of putative biomarkers in human blood

Project description:Covalently closed circular RNA molecules (circRNAs) have recently emerged as a class of RNA isoforms with widespread and tissue specific expression across animals, oftentimes independent of the corresponding linear mRNAs. circRNAs are remarkably stable and sometimes highly expressed molecules. Here, we sequenced RNA in human peripheral whole blood to determine the potential of circRNAs as biomarkers in an easily accessible body fluid. We report the reproducible detection of thousands of circRNAs. Importantly, we observed that hundreds of circRNAs are much higher expressed than corresponding linear mRNAs. Thus, circRNA expression in human blood reveals and quantifies the activity of hundreds of coding genes not accessible by classical mRNA specific assays. Our findings suggest that circRNAs could be used as biomarker molecules in standard clinical blood samples. Sequencing of blood RNA from five healthy individuals (biological replicates) plus technical replicate of one sample and detection of circRNAs.

2015-10-26 | E-GEOD-73570 | 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