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Transcriptomic analysis of human gastric cancer and normal epithelial tissues

ABSTRACT: Small nucleolar RNAs (snoRNAs) are a highly conserved category of non-coding RNAs that play emerging roles in tumorigenesis and aggressiveness. However, the functions and underlying mechanisms of snoRNAs in regulating gastric cancer progression remain elusive. We identify SNORA37 as a driver of alternative splicing and gastric cancer progression. To explore the expression profiles of snoRNAs, we employed the Illumina HiSeq X Ten as a discovery platform to analyze the transcriptome profiling in three pairs of gastric cancer and corresponding normal epithelial specimens. The results showed 15 differentially expressed snoRNAs in gastric cancer tissues, including 9 up-regulated and 6 down-regulated snoRNAs. Meanwhile, 2204 alternative splicing events were also discovered in gastric cancer tissues compared to those in adjacent normal epithelial tissues. Furthermore, we validated the RNA-seq results by real-time RT-PCR with high identity. Overall, our results provided fundamental information about the transcriptomic changes in human gastric cancer tissues, and these findings will help us understand the pathogenesis of cancer progression.

ORGANISM(S): Homo sapiens

PROVIDER: GSE285296 | GEO | 2025/01/22

REPOSITORIES: GEO

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Transcriptomic analysis of gastric cancer cells in response to stable over-expression of SNORA37

Project description:Small nucleolar RNAs (snoRNAs) are a highly conserved category of non-coding RNAs that play emerging roles in tumorigenesis and aggressiveness. However, the functions and underlying mechanisms of snoRNAs in regulating gastric cancer progression remain to be determined. We identify that as an ELAVL1-generated 129-nt H/ACA box snoRNA derived from host gene methyl-CpG binding domain protein 2 (MBD2), SNORA37 is a driver of gastric cancer progression. To investigate the mechanisms underlying the functions of SNORA37, we employed the Illumina HiSeq X Ten as a discovery platform to analyze the transcriptome profiling changes of human gastric cancer MKN-45 cells in response to stable over-expression of SNORA37. The results showed that stable over-expression of SNORA37 led to 1521 alternative splicing events in MKN-45 cells. Furthermore, we validated the RNA-seq results by real-time RT-PCR with high identity. Overall, our results provided fundamental information about the transcriptomic changes in response to SNORA37 over-expression in human gastric cancer cells, and these findings will help us understand the pathogenesis of cancer progression.

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