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Generation of 12 major-terms for interpretating human cellular processes.

Yirui Liu1, Ruiqi Liu1, Jiaming Hu1

  • 1School of Life Sciences, Beijing University of Chinese Medicine, Beijing, China.

Computational and Structural Biotechnology Journal
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Summary

Researchers simplified complex Gene Ontology (GO) cellular process terms into 12 major terms. This new framework aids in understanding biological pathways and performing enrichment analysis.

Keywords:
Cellular processGene ontologyProtein-protein interactionTerms

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Area of Science:

  • Bioinformatics
  • Molecular Biology
  • Computational Biology

Background:

  • The Gene Ontology (GO) knowledgebase is increasingly complex, making it challenging for researchers to grasp cellular processes comprehensively.
  • Existing GO term structures can hinder efficient analysis and understanding of biological functions.

Purpose of the Study:

  • To develop a novel classification strategy for streamlining the Gene Ontology (GO) knowledgebase.
  • To simplify the intricate network of human cellular processes into a manageable set of major terms for improved research accessibility.

Main Methods:

  • Systematically investigated shared genes between GO terms to identify relationships.
  • Developed a classification strategy to reduce 66 direct child terms of human cellular processes to 12 major terms.
  • Validated the interactions of these major terms using protein-protein interaction networks.

Main Results:

  • Successfully streamlined 66 direct child terms of human cellular processes into 12 major terms.
  • Demonstrated the utility of these 12 major terms in analyzing the distribution of transcription factors, kinases, and cancer genomes.
  • Compared the proposed framework favorably against existing GO term redundancy reduction tools.

Conclusions:

  • The 12 GO major terms offer a more comprehensive overview of cellular processes for researchers.
  • This streamlined approach serves as an effective tool for biological pathway enrichment analysis.
  • A web-based tool is provided to facilitate the practical application of this new classification strategy.