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Proteases: Pivot Points in Functional Proteomics.

Methods in molecular biology (Clifton, N.J.)·2018

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Making the Case for Functional Proteomics.

Ray C Perkins¹

¹New Liberty Proteomics Corporation, New Liberty, KY, USA. Ray_Perkins@newlibertyproteomics.com.

Methods in Molecular Biology (Clifton, N.J.)

|October 3, 2018

Summary

This summary is machine-generated.

The functional proteome, vastly larger than the genome due to posttranslational modifications and protein interactions, requires a shift towards functional proteomics for biological understanding and drug development. This approach, focusing on biological networks, is key to advancing medicine.

Keywords:

Biological networks Biomarker development Drug development Epigenetics Functional Proteome Functional proteomics Gene Gene expression Genome Microbiome Posttranslational modifications Precision medicine Protein Protein interactions Proteome Proteomics Systems biology

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Area of Science:

Proteomics
Systems Biology
Genomics

Background:

The functional proteome differs significantly from genetic protein expression due to posttranslational modifications (PTMs).
The functional proteome is orders of magnitude larger than the human genome, with the microbiome genome also being larger.
Genomics alone cannot map the complexity of the functional proteome.

Purpose of the Study:

To differentiate the Functional Proteome from genetic protein expression.
To establish Functional Proteomics as a crucial component of Systems Biology.
To advocate for a network-centric approach in biological research and development.

Main Methods:

Qualitative and quantitative analysis of posttranslational modifications (PTMs) and protein interactions.
Comparative analysis of the functional proteome, human genome, and microbiome genome.
Contextualization of Functional Proteomics within Systems Biology and network-based approaches.

Main Results:

The Functional Proteome vastly exceeds the genome in size and complexity.
Functionally related biological networks are the dominant motif for biological activity.
Current proteomics knowledge and tools are underdeveloped ('poor to fair') compared to genomics.

Conclusions:

Functional Proteomics, encompassing gene expression and epigenetics, is essential for Systems Biology.
A network focus in Functional Proteomics is critical for advancing basic knowledge and applied fields like drug and biomarker development.
A "Roadmap" is proposed to overcome current limitations and usher in a revolution in biological sciences through Functional Proteomics.