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Analysis of Protein Interaction Network for Colorectal Cancer

  • Zlate RistovskiEmail author
  • Kire Trivodaliev
  • Slobodan Kalajdziski
Conference paper
Part of the Advances in Intelligent Systems and Computing book series (AISC, volume 665)

Abstract

In this paper we create and analyze a protein-protein interaction network (PPIN) of colorectal cancer (CRC). First we identify proteins that are related to the CRC (set of seed proteins). Using this set we generate the CRC PPIN with the help of Cytoscape. We analyze this PPIN in a twofold manner. We first extract important topological features for proteins in the network which we use to determine CRC essential proteins. Next we perform a modular analysis by discovering CRC significant functional terms through the process of GO enrichment within densely connected subgroups (clusters) of the PPIN. The modular analysis results in a mapping from the CRC significant terms to CRC significant proteins. Finally, we combine the topological and modular evidence for the proteins in the CRC PPIN, exclude the initial seed proteins and obtain a list of proteins that could be taken as possible bio-markers for CRC.

Keywords

Colorectal cancer Protein-protein interaction network Network analysis Gene Ontology Clustering Cytoscape 

Notes

Acknowledgement

The work in this paper was partially financed by the Faculty of Computer Science and Engineering, Ss. Cyril and Methodius University, Skopje, as part of the “Analysis of nutrigenomic data” project.

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Copyright information

© Springer International Publishing AG 2018

Authors and Affiliations

  • Zlate Ristovski
    • 1
    Email author
  • Kire Trivodaliev
    • 1
  • Slobodan Kalajdziski
    • 1
  1. 1.Faculty of Computer Science and EngineeringSs. Cyril and Methodius UniversitySkopjeMacedonia

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