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Performing Data Mining And Integrative Analysis Of Biomarker in Breast Cancer Using Multiple Publicly Accessible Databases
Published on: May 17, 2019
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High-efficient Screening Method for Identification of Key Genes in Breast Cancer Through Microarray and
Zihao Liu1, Gehao Liang1, Luyuan Tan1
1Guangdong Provincial Key Laboratory of Malignant Tumor Epigenetic and Gene Regulation, Breast Tumor Center, Sun Yat-sen Memorial Hospital, Sun Yat-sen University, Guangzhou, P.R. China.
Anticancer Research
|July 26, 2017
Summary
This study identifies key genes and pathways in breast cancer using bioinformatics. It highlights specific genes like AURKA, CDH1, CDK1, and PPARG as potential diagnostic and therapeutic targets for breast cancer.
Area of Science:
- Bioinformatics
- Genomics
- Oncology
Background:
- Breast cancer is a complex disease with numerous genetic alterations.
- Identifying key genes and pathways is crucial for effective treatment and diagnosis.
Purpose of the Study:
- To identify key pathways and genes in breast cancer.
- To develop a bioinformatics method for screening genes with abnormal expression.
Main Methods:
- Utilized three Gene Expression Omnibus (GEO) datasets (GSE21422, GSE42568, GSE45827).
- Analyzed differentially expressed genes (DEGs) using GEO2R.
- Performed Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analysis.
- Constructed a protein-protein interaction (PPI) network using STRING and Cytoscape.
- Conducted overall survival (OS) analysis using Kaplan-Meier.
Main Results:
- Identified 811 DEGs enriched in cell cycle, mitosis, vessel development, and lipid metabolism.
- Up-regulated DEGs involved in cell cycle and immune response pathways.
- Down-regulated DEGs involved in lipid metabolism pathways.
- Identified 14 hub genes through PPI network analysis.
- High expression of AURKA, CDH1, and CDK1 correlated with worse OS.
- High expression of PPARG correlated with better OS.
Conclusions:
- Identified key pathways and genes in breast cancer.
- These findings offer potential molecular targets for breast cancer treatment and diagnosis.
