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Understanding missing proteins: a functional perspective

Longjian Zhou1, Limsoon Wong2, Wilson Wen Bin Goh3

  • 1School of Pharmaceutical Science and Technology, Tianjin University, Tianjin 300072, PR China.

Drug Discovery Today
|November 22, 2017
PubMed

Insights

Missing proteins (MPs) are unconfirmed genetic sequences lacking detected protein products. We propose a broader functional classification for MPs to address limitations in current protein existence (PE) tiers, highlighting informatics solutions for the missing protein problem (MPP).

Area of Science:

  • Proteomics
  • Bioinformatics
  • Genomics

Background:

  • Missing proteins (MPs) are genetic sequences without detected protein products.
  • Current classification relies on protein existence (PE) tiers, which is overly restrictive.
  • Proteins can be missed in proteomics due to low abundance, splice variants, or lack of specificity.

Purpose of the Study:

  • To propose a broader functional classification for MPs.
  • To identify major causes of missing proteins.
  • To examine biological, technical, and informatics solutions for the missing protein problem (MPP).

Main Methods:

  • Reviewing current MP classification systems.
  • Analyzing common reasons for protein detection failures in proteomics.
  • Evaluating potential solutions across biological, technical, and informatics domains.

Main Results:

  • The existing PE classification for MPs is insufficient.
  • Multiple factors contribute to proteins being 'missing' in experimental data.
  • Informatics-driven approaches show significant promise for resolving the MPP.

Conclusions:

  • A functional classification should complement the PE classification for MPs.
  • Addressing the MPP requires a multi-faceted approach.
  • Informatics solutions are crucial for advancing our understanding of the proteome.

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