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A Comparative Approach to Characterize the Landscape of Host-Pathogen Protein-Protein Interactions
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A virus-target host proteins recognition method based on integrated complexes data and seed extension.

Shengrong Xia1,2, Yingchun Xia1,2, Chulei Xiang1,2

  • 1School of Information and Computer, Anhui Agricultural University, Hefei, 230036, Anhui, China.

BMC Bioinformatics
|June 28, 2022
PubMed
Summary
This summary is machine-generated.

This study introduces a new method, CCA-SE, to identify host proteins targeted by viruses. By analyzing protein complexes, CCA-SE effectively recognizes virus-target host proteins, offering a strategy against drug resistance.

Keywords:
Host proteinProtein complexes recognitionProtein–protein interaction networkVirus–target protein

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Area of Science:

  • Virology
  • Computational Biology
  • Drug Discovery

Background:

  • Virus-encoded proteins are common drug targets, but mutations lead to drug resistance.
  • Host proteins are crucial for virus replication and offer alternative drug targets.
  • Existing methods often overlook protein complexes, limiting their effectiveness against mutated viruses.

Purpose of the Study:

  • To develop a novel method for identifying virus-target host proteins by incorporating protein complexes.
  • To address the challenge of drug resistance in viral diseases.
  • To reduce the cost of disease treatment by accurately identifying therapeutic targets.

Main Methods:

  • Proposed the Coverage Clustering-core-subsidiary (CCA) and Seed Expansion (SE) method, termed CCA-SE.
  • Integrated known virus-target host proteins, human protein-protein interaction networks, and known human protein complexes.
  • Utilized network topology and protein complex information for target recognition.

Main Results:

  • The CCA-SE method effectively recognizes protein complexes containing virus-target host proteins.
  • Identified potential unknown virus-target human host proteins.
  • Enrichment experiments validated the effectiveness of the proposed method.

Conclusions:

  • The CCA-SE method comprises two stages: protein complex recognition (CCA) and seed node selection (SE).
  • CCA-SE demonstrates efficient recognition of virus-target host proteins.
  • The approach offers a promising strategy for discovering new therapeutic targets against viral infections.