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SRX27143963: GSM8694522: CACO2NC-1.Input; Homo sapiens; RNA-Seq
1 ILLUMINA (Illumina HiSeq 1500) run: 37.1M spots, 11.1G bases, 4.2Gb downloads

External Id: GSM8694522_r1
Submitted by: Guangdong Provincial Key Laboratory of Gastroenterology, Department of Gastroenterology, Nanfang Hospital
Study: Overview of distinct 8-Oxoguanine profiles of messenger RNA in normal and senescent cancer cells
show Abstracthide Abstract
Background: Cellular senescence plays a key role in the development of cancer, but the underlying mechanisms are unknown.Recently, several recent studies have shown that RNA methylation is closely related to cancer cell aging. 8-Oxoguanine (o8G) is an important and widely distributed methylation modification whose role in cancer cell senescence is far from elucidated. Methods: In this study, senescent cancer cell models (CaCO2 cells) were constructed by knocking down the ADAR1 gene. RNA immunoprecipitation sequencing was used to identify the o 8 G peaks on messenger RNA (mRNA) of normal CaCO2 cells and senescent CaCO2 cells, and the distribution characteristics of mRNA o 8 G modification were identified. Further bioinformatics analysis of the sequencing data was performed to preliminarily elucidate the potential function of the o8G-modified mRNA. Results: There were significant differences in mRNA o 8 G modification distribution between normal and senescent CaCO2 cells.It is suggested that o8G modification may play a key role in inducing cancer cells or promoting cancer cell senescence. Gene ontology (GO) enrichment analysis showed that the genes modified by o 8 G were enriched in Cellular component organization or biogenesis, Focal adhesion,and RNA binding. Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis showed that the genes modified by o8G areconcentrated in Focal adhesion signaling pathway, Small cell lung cancer signaling pathway and Proteoglycans in cancer signaling pathway. Conclusion: This study preliminarily revealed the different distribution patterns of o8G modification between normal CaCO2 cells and senescent CaCO2 cells. Our study established the link between o 8 G modification and cancer cell senescence, which provides a new insight into the mechanism of cancer cell senescence and a potential therapeutic target for subsequent cancer treatment. Overall design: Methylated RNA immunoprecipitation sequencing (MeRIP-seq) was used to investigate the O8G modification level and distribution characteristics of mRNA in normal and senescent cancer cells
Sample: CACO2NC-1.Input
SAMN45912805 • SRS23599416 • All experiments • All runs
Organism: Homo sapiens
Library:
Name: GSM8694522
Instrument: Illumina HiSeq 1500
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: cDNA
Layout: PAIRED
Construction protocol: We extracted total RNA using Trizol reagent (Invitrogen, California, USA) following the manufacturer's instructions. Use the Ribo-Zero rRNA Removal Kit (Illumina, Inc., CA, USA) to reduce rRNA content. The quality of RNA is assessed using its OD260/OD280 ratio, which is a measure of nucleotide-to-protein ratio based on optical density measured using spectrophotometry. RNA purity with OD260/OD280 values in the range of 1.8-2.1 is considered acceptable, and RNA extracted from all samples meets this standard. Total RNA was cleaved into 100 base pair fragments using the GenSeqTM O8G RNA IP Kit (GenSeq Inc, China), followed by O8G immunoprecipitation using the NEBNext® Ultra II Directed RNA Library Preparation Kit (New England Biolaboratories, USA), followed by RNA-seq library generation.The cDNA library was evaluated using the Bioanalyzer 2100 System (Agilent Technologies USA) and the library was sequenced using an Illumina Hiseq instrument with 150 bp pairing readings.
Runs: 1 run, 37.1M spots, 11.1G bases, 4.2Gb
Run# of Spots# of BasesSizePublished
SRR3178258037,117,01811.1G4.2Gb2024-12-21

ID:
36627782

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