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Proteomics

Proteomics

A proteome is the entire set of proteins that a cell type produces. We can study proteomes using the knowledge of genomes because genes code for mRNAs, and the mRNAs encode proteins. Although mRNA analysis is a step in the right direction, not all mRNAs are translated into proteins.
Proteomics is the study of proteomes' function. It involves the large-scale systematic study of the proteome to denote the protein complement expressed by a genome. Scientist Mark Wilkins coined the term...

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Updated: Nov 4, 2025

Identifying Protein-protein Interaction Sites Using Peptide Arrays

Identifying Protein-protein Interaction Sites Using Peptide Arrays

Published on: November 18, 2014

Reverse-Phase Protein Array: Technology, Application, Data Processing, and Integration.

Cristian Coarfa^1,2,3, Sandra L Grimm¹, Kimal Rajapakshe¹

¹Department of Molecular and Cellular Biology, Baylor College of Medicine, Houston, Texas, USA.

Journal of Biomolecular Techniques : JBT

|May 24, 2021

Summary

This summary is machine-generated.

Reverse-phase protein array (RPPA) is a high-throughput proteomics platform for quantifying proteins in various biological samples. This study details optimized workflows and software for RPPA, enhancing its utility in cancer research.

Keywords:

post-translational protein array analysis proteomics software validation study

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Area of Science:

Proteomics
Biotechnology
Cancer Biology

Background:

Reverse-phase protein array (RPPA) is an antibody-based platform for high-throughput protein quantification.
RPPA enables analysis of total protein expression and post-translational modifications like phosphorylation.
It is valuable for analyzing large sample sets from various biological sources.

Purpose of the Study:

To describe optimized workflow protocols and software tools for RPPA in a core facility.
To present a robust RPPA platform for proteomic research.
To highlight the application of RPPA in cancer biology and integration with other omics data.

Main Methods:

Robotic arraying of protein samples onto nitrocellulose-coated slides.
Antibody-based probing for specific protein detection (total or modified forms).
Comprehensive workflow including sample prep, printing, labeling, scanning, image analysis, data normalization, QC, and statistical analysis.

Main Results:

Development and optimization of a complete RPPA workflow and associated software tools.
A platform capable of analyzing approximately 240 validated antibodies, focusing on cancer-relevant signaling pathways.
Demonstrated robustness for validation and discovery proteomic research.

Conclusions:

The described RPPA platform and protocols provide a valuable resource for large-scale proteomic analysis.
This technology supports both validation and discovery research, particularly in cancer biology.
RPPA facilitates the integration of proteomic data with other omics datasets for comprehensive biological insights.