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Updated: Jul 3, 2026
07:41
Performing Data Mining And Integrative Analysis Of Biomarker in Breast Cancer Using Multiple Publicly Accessible Databases
Published on: May 17, 2019
Looking for cancer clues in publicly accessible databases
Djamel Medjahed1, Peter F Lemkin, Gary W Smythers
1National Cancer Institute at Frederick, 915 Tollhouse Avenue, Frederick, MD 21701, USA. medjahed@ncifcrf.gov
Comparative and Functional Genomics
|July 17, 2008
Summary
VIRTUAL2D is a web resource providing theoretical protein charts for 92 organisms. This cancer proteomics knowledge base helps identify common cancer markers and relate them to biological pathways.
Area of Science:
- Proteomics
- Bioinformatics
- Cancer Research
Background:
- 2D-PAGE maps are used for protein identification in cancer research.
- Publicly available expression data can be leveraged for comparative analysis.
Purpose of the Study:
- To develop VIRTUAL2D, a web-accessible repository for theoretical pI/MW charts.
- To create tissue-specific plots using differential gene expression data.
- To establish a comparative cancer proteomics knowledge base (TMAP) for marker discovery.
Main Methods:
- Generated theoretical isoelectric point (pI)/molecular weight (MW) charts for 92 organisms.
- Utilized public gene expression data to develop tissue-specific plots.
- Analyzed differential gene expression between normal and diseased tissues.
- Integrated data into the Tissue Molecular Anatomy Project (TMAP) knowledge base.
Main Results:
- Created VIRTUAL2D, a repository with theoretical pI/MW charts for 92 organisms.
- Developed tissue-specific expression plots based on comparative analysis.
- Identified potential cancer markers common across multiple cancer types within TMAP.
- Related identified markers to established biological pathways.
Conclusions:
- VIRTUAL2D serves as a valuable resource for theoretical protein analysis.
- TMAP facilitates the discovery of common cancer markers through comparative proteomics.
- The approach links molecular markers to biological pathways for deeper cancer understanding.
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