Document Type : Research Paper

Authors

• Pegah Mahboobnia ¹
• Mostafa Rafiepour ¹
• Reza Mahdian ²
• farinaz behfarjam ³

¹ Department of Genetics, Faculty of Science, Danesh Alborz University, Qazvin, Iran

² Department of Molecular Medicine, Pasteur Institute of Iran

³ Assistant Professor: Department of Genetics, Faculty of Science, Danesh Alborz University, Qazvin, Iran

Abstract

Introduction: Triple Negative breast cancer is a common cancer in the world that grows in breast tissue. The disease has became the biggest human health problem worldwide. Therefore, identifying the key genes involved in this disease can be useful in the diagnosis, prognosis and treatment. The aim of this study was to identify genes with significant expression differences affecting triple negative breast cancer using RNA sequencing transcriptomic data analysis of breast cancer patients compared to healthy individuals.

Methods: Illumina-sequenced transcriptomic data of three breast cancer patients and four healthy individuals were collected from the NCBI and SRA databases, and after controlling the quality of the readings using FastQC software, the sequences were aligned with Reference genome was performed with STAR software. Finally, featureCounts and DESeq2 softwares were used to investigate the differential expression of genes. Volcano graph was used to show genes with significant expression differences.

Results: In this study, 31 genes with differential expression were identified with a significance level of p <0.05. Among these 31 genes, 11 genes showed reduced expression and 20 genes showed increased expression. Among of these gene set, we can mention to NEURL3, UPS34, CACNA1S, ETV3L, RNF223, FABP4, CRYBG3 genes.

Conclusion: Studies on these genes indicate their important role in the pathways and molecular processes involved in the pathogenesis of triple negative breast cancer. Therefore, the introduction of these important biomarkers in the vital molecular mechanisms of cells can be very important and unique for diagnostic, therapeutic and preventive purposes.

Keywords

• Breast cancer
• Differential gene expression
• Transcriptome
• NCBI

Main Subjects

• Bioinformatics