Development and Validation of the Trans-Omics Model for Pancreatic Adenocarcinoma

Abstract

Aim: To develop a trans-omics-based molecular clinicopathological algorithm for predicting pancreatic adenocarcinoma prognosis, we performed a comprehensive analysis of the expression levels of mRNA, DNA methylation and DNA copy number in The Cancer Genome Atlas dataset. Materials&methods: Based on the least absolute shrinkage and selection operator method – COX regression analysis, a trans-omics-based classifier was established to predict overall survival. Nomogram was constructed by combining the classifier band clinical pathological characterization. Results: Based on trans-omics, we developed a 10-gene-based classifier and a molecular-clinicopathologic nomogram for predicting overall survival with satisfactory accuracy. Conclusion: Trans-omics-based classifier and molecule-clinicopathological nomogram based on the classifier can accurately predict the prognosis of pancreatic adenocarcinoma patients

Keywords::

• copy number variation
• DNA methylation
• interchromosomal gene conversion
• pancreatic adenocarcinoma
• The Cancer Genome Atlas
• trans-omics

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-2020-0184

Financial&competing interests disclosure

This work was supported by grants from Key projects of Wenzhou science and technology bureau (ZY2019016), Provinces and Ministries Co-Contribution of Zhejiang, China (WKJ-ZJ-2035), the Natural Science Foundation of Zhejiang Province (LY17H160057) and National Natural Sciences Foundation of China (81800567). 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.

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

Ethical conduct of research

The authors state that they have obtained appropriate institutional review board approval or have followed the principles outlined in the Declaration of Helsinki for all human or animal experimental investigations.

Availability of data&material

These data were derived from the following resources available in the public domain: TCGA: https://tcga-data.nci.nih.gov; the Ensembl Genomes website: http://asia.ensembl.org/index.html; cBioportal: www.cbioportal.org/.

Additional information

Funding

This work was supported by grants from Key projects of Wenzhou science and technology bureau (ZY2019016), Provinces and Ministries Co-Contribution of Zhejiang, China (WKJ-ZJ-2035), the Natural Science Foundation of Zhejiang Province (LY17H160057) and National Natural Sciences Foundation of China (81800567). 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.