Systems Medicine pp 353-374

Part of the Methods in Molecular Biology book series (MIMB, volume 1386)

Network-Assisted Disease Classification and Biomarker Discovery

  • Sonja Strunz
  • Olaf Wolkenhauer
  • Alberto de la Fuente

Abstract

Developing improved approaches for diagnosis, treatment, and prevention of diseases is a major goal of biomedical research. Therefore, the discovery of biomarker signatures from high-throughput “omics” data is an active research topic in the field of bioinformatics and systems medicine. A major issue is the low reproducibility and the limited biological interpretability of candidate biomarker signatures identified from high-throughput data. This impedes the use of discovered biomarker signatures into clinical applications. Currently, much focus is placed on developing strategies to improve reproducibility and interpretability. Researchers have fruitfully started to incorporate prior knowledge derived from pathways and molecular networks into the process of biomarker identification. In this chapter, after giving a general introduction to the problem of disease classification and biomarker discovery, we will review two types of network-assisted approaches: (1) approaches inferring activity scores for specific pathways which are subsequently used for classification and (2) approaches identifying subnetworks or modules of molecular networks by differential network analysis which can serve as biomarker signatures.

Key words

Biomarker discovery Classification Feature selection Pathways Molecular networks 

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Copyright information

© Springer Science+Business Media New York 2016

Authors and Affiliations

  • Sonja Strunz
    • 1
  • Olaf Wolkenhauer
    • 2
    • 3
  • Alberto de la Fuente
    • 1
  1. 1.Biomathematics and Bioinformatics UnitLeibniz-Institute for Farm Animal Biology (FBN), Institute of Genetics and BiometryDummerstorfGermany
  2. 2.Department of Systems Biology and BioinformaticsUniversity of RostockRostockGermany
  3. 3.Stellenbosch Institute for Advanced Study (STIAS)Wallenberg Research Centre at Stellenbosch UniversityStellenboschSouth Africa

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