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Related Concept Videos

Western Blotting01:15

Western Blotting

Western blotting is an analytical technique for protein identification. It has various applications in immunology and medicine, including detecting diseases like bovine spongiform encephalopathy, mad cow disease, and human and feline immunodeficiency virus from biological samples.
The technique begins with separating proteins from the sample using sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE), followed by protein transfer, immunoblotting, and finally, protein detection.

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The Use of Reverse Phase Protein Arrays (RPPA) to Explore Protein Expression Variation within Individual Renal Cell Cancers
12:22

The Use of Reverse Phase Protein Arrays (RPPA) to Explore Protein Expression Variation within Individual Renal Cell Cancers

Published on: January 22, 2013

RPPanalyzer: Analysis of reverse-phase protein array data.

Heiko A Mannsperger1, Stephan Gade, Frauke Henjes

  • 1Department of Molecular Genome Analysis, German Cancer Research Center Heidelberg, Germany. h.mannsperger@dkfz.de

Bioinformatics (Oxford, England)
|July 17, 2010
PubMed
Summary
This summary is machine-generated.

RPPanalyzer is a free statistical tool for analyzing reverse-phase protein array (RPPA) data. It aids in comparing protein expression, normalizing data, and visualizing results for diverse experimental designs.

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Area of Science:

  • Biochemistry
  • Bioinformatics
  • Proteomics

Background:

  • Reverse-phase protein array (RPPA) technology enables high-throughput proteomic analysis.
  • RPPA data analysis requires specialized statistical tools for accurate interpretation.
  • Existing tools may lack flexibility for diverse experimental designs.

Purpose of the Study:

  • To introduce RPPanalyzer, a novel R-package for RPPA data analysis.
  • To provide comprehensive functions for data processing, normalization, and quality control.
  • To facilitate visualization of biological information derived from RPPA experiments.

Main Methods:

  • RPPanalyzer utilizes R programming language for statistical analysis.
  • The package includes functions for data import, quality assessment, and normalization.
  • Visualization tools include heatmaps, boxplots, time course plots, and correlation plots.

Main Results:

  • RPPanalyzer successfully processes and normalizes RPPA data.
  • Quality control functions effectively monitor data distribution and signal validity.
  • Visualizations provide clear insights into protein expression patterns and sample relationships.

Conclusions:

  • RPPanalyzer is a versatile and user-friendly statistical tool for RPPA data analysis.
  • Its flexibility accommodates a wide range of experimental designs.
  • The R-package enhances the interpretation of proteomic data from RPPA experiments.