Identification of Three lncRNA-Related Prognostic Signatures in Gastric Cancer by Integrated Multi-Omics Analysis

Abstract

Aims: The systematic identification of molecular features correlated with the clinical status of gastric cancer (GC) in patients is significant, although such investigation remains insufficient. Methods: GC subtyping based on RNA sequencing, copy number variation and DNA methylation data were derived from The Cancer Genome Atlas program. Prognostics lncRNA biomarkers for GC were identified by univariate Cox, LASSO and SVM-RFE analysis. Results: Three molecular subtypes with significant survival discrepancies, and their specific DEmRNAs and DElncRNAs were identified. Three reliable prognostic-associated lncRNA, including LINC00670, LINC00452 and LINC00160, were selected for GC. Conclusion: Our findings expanded the understanding on the regulatory network of lncRNAs in GC, providing potential targets for prognosis and treatment of GC patients.

Keywords::

• biomarker
• epigenetics
• gastric cancer
• long non-coding RNAs
• multi-omics
• OS

Supplementary data

To view the supplementary data that accompany this paper please visit the journal website at: www.tandfonline.com/doi/suppl/10.2217/epi-2023-0349

Author contributions

X Deng, HQ Jiang, M Guan, J Chen and FY Kong: conception; YX Song: data acquisition; J Wang and YX Song: sample collection; YX Song, X Xu and XJ Zhang: data analysis; HQ Jiang and YX Song: experimental validations; HQ Jiang, QQ Xu, L Dong and RS Cao: data interpretation; HQ Jiang, J Wang and YX Song: manuscript drafting; X Deng, M Guan and FY Kong: manuscript revising.

Financial disclosure

This work was supported by the Innovation Group Project of Shanghai Municipal Health Commission (2019CXJQ03); Shanghai Sailing Program (grant nos. 20YF1403300 and 19YF1447200); the National Natural Science Foundation of China (no. 82002232) and Baoshan District Medical and Health Project (no. 20-E-1). The authors have no other relevant affiliations or financial involvement with any organization or entity with a financial interest in or financial conflict with the subject matter or materials discussed in the manuscript apart from those disclosed.

Competing interests disclosure

The authors have no competing interests or relevant affiliations with any organization or entity with the subject matter or materials discussed in the manuscript. This includes employment, consultancies, honoraria, stock ownership or options, expert testimony, grants or patents received or pending, or royalties.

Writing disclosure

No writing assistance was utilized in the production of this manuscript.

Ethical conduct of research

The studies involving human participants were reviewed and approved by the medical ethics committee of Fudan University (approval number: 2019-567, date: 2020-07-28). The patients provided their written informed consent to participate in this study.

Data sharing statement

Data associated with this study were sourced from UCSC database (https://xenabrowser.net/datapages/, TCGA-STAD dataset) and GEO database (https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE84426, GSE84426 dataset).

Additional information

Funding

This work was supported by the Innovation Group Project of Shanghai Municipal Health Commission (2019CXJQ03); Shanghai Sailing Program (grant nos. 20YF1403300 and 19YF1447200); the National Natural Science Foundation of China (no. 82002232) and Baoshan District Medical and Health Project (no. 20-E-1). The authors have no other relevant affiliations or financial involvement with any organization or entity with a financial interest in or financial conflict with the subject matter or materials discussed in the manuscript apart from those disclosed.