Identification of the potential crucial genes in invasive ductal carcinoma using bioinformatics analysis.

Chunguang Li,Xiongbiao Wang,Sheng Wei,Liangtao Luo

doi:10.18632/oncotarget.23239

Abstract

Invasive ductal carcinoma (IDC) is a common histological type of breast cancer. The aim of this study was to identify the potential crucial genes associated with IDC and to provide valid biological information for further investigations. The gene expression profiles of GSE10780 which contained 42 histologically normal breast tissues and 143 IDC tissues were downloaded from the GEO database. Functional and pathway enrichment analysis of differentially expressed genes (DEGs) were performed and protein-protein interaction (PPI) network was analyzed using Cytoscape. In total, 999 DEGs were identified, including 667 up-regulated and 332 down-regulated DEGs. Gene ontology analysis demonstrated that most DEGs were significantly enriched in mitotic cell cycle, adhesion and protein binding process. Through PPI network analysis, a significant module was screened out, and the top 10 hub genes, CDK1, CCNB1, CENPE, CENPA, PLK1, CDC20, MAD2L1, HIST1H2BK, KIF2C and CCNA2 were identified from the PPI network. The expression levels of the 10 genes were validated in Oncomine database. KIF2C, MAD2L1 and PLK1 were associated with the overall survival. And we used cBioPortal to explore the genetic alterations of hub genes and potential drugs. In conclusion, the present study identified DEGs between normal and IDC samples, which could improve our understanding of the molecular mechanisms in the development of IDC, and these candidate genes might be used as therapeutic targets for IDC.

Highlights

Breast cancer is the most common malignancy diagnosed in women worldwide, and is the second leading cause of cancer death among women
differentially expressed genes (DEGs) expression heat map is shown in Supplementary Figure 1, and the hierarchical cluster analysis of the data demonstrated that the DEGs could be used to distinguish Invasive ductal carcinoma (IDC) samples from the normal samples
The DEGs were categorized into three functional groups: biological process (BP), molecular function (MF) and cellular component (CC)

Summary

Introduction

Breast cancer is the most common malignancy diagnosed in women worldwide, and is the second leading cause of cancer death among women. It has become one of the austerity issues in the world. Treatment strategies for patients are designed based on the histological characteristics of tumor and other prognostic factors [4]. To treat patients with invasive breast carcinoma, it is necessary for us to understand the specific biological characteristics of a given histological type [4]. According to a reported data, invasive ductal carcinoma (IDC) is a www.impactjournals.com/oncotarget common histological type of breast cancer, accounting for about 75% of all invasive breast carcinoma cases [5]. Despite clinicians suggest that invasive ductal carcinoma always requires radical treatment, chemotherapy, and radiotherapy, to date, a lack of knowledge regarding the precise molecular targets for IDC limits the ability to treat advanced diseases [6]

Objectives

Methods

Results

Conclusion