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Integrating Multi-scale Gene Features for Cancer Diagnosis

  • Peng Hang
  • Mengjun Shi
  • Quan Long
  • Hui Li
  • Haifeng Zhao
  • Meng Ma
Conference paper
Part of the Lecture Notes in Computer Science book series (LNCS, volume 10996)

Abstract

Cancer is one of the major diseases that threaten human life. The advancement of high-throughput sequencing technology provides a way to accurately diagnose cancer and reveal the pathogenesis of cancer at the molecular level. In this study, we integrated the differentially expressed genes, and differential DNA methylation patterns, and applied multiple machine learning methods to conduct cancer diagnosis. The experimental results show that the performance of cancer diagnosis can be significantly improved with the integrated multi-scale gene features of RNA and epigenetic level. The AUC of classifier can be increased by 7.4% with multi-scale gene features compared to only differentially expressed genes, which verifies the effectiveness of the integration of multi-scale gene features for cancer diagnosis.

Keywords

Cancer diagnosis Machine learning Gene expression  DNA methylation High-Throughput sequencing technology 

Notes

Acknowledgments

The project sponsored by the Scientific Research Foundation for the Returned Overseas Chinese Scholars, State Education Ministry (NO. 48, 2014-1685) and the Key Natural Science Project of Anhui Provincial Education Department (KJ2017A016).

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Copyright information

© Springer Nature Switzerland AG 2018

Authors and Affiliations

  1. 1.Key Lab of Intelligent Computing and Signal Processing of MOE and School of Computer and TechnologyAnhui UniversityHefeiPeople’s Republic of China
  2. 2.Icahn School of Medicine at Mount SinaiNew YorkUSA
  3. 3.Departments of Biochemistry & Molecular Biology, Medical Genetics, and Mathematics & Statistics, Alberta Children’s Hospital Research Institute and O’Brien Institute for Public HealthUniversity of CalgaryCalgaryCanada

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