Identification of key differentially expressed genes and gene mutations in breast ductal carcinoma in situ using RNA-seq analysis.

ABSTRACT:

Background

The aim of this study was to identify the key differentially expressed genes (DEGs) and high-risk gene mutations in breast ductal carcinoma in situ (DCIS).

Methods

Raw data (GSE36863) were downloaded from the database of Gene Expression Omnibus (GEO), including three DCIS samples (DCIS cell lines MCF10.DCIS, Sum102, and Sum225) and one normal control sample (normal mammary epithelial cell line MCF10A). The DEGs were analyzed using NOIseq and annotated via DAVID. Motif scanning in the promoter region of DEGs was performed via SeqPos. Additionally, single nucleotide variations (SNVs) were identified via GenomeAnalysisTK and SNV risk was assessed via VarioWatch. Mutant genes with a high frequency and risk were validated by RT-PCR analyses.

Results

Finally, 539

SUBMITTER: Zhu C 

PROVIDER: S-EPMC7063758 | biostudies-literature | 2020 Mar

REPOSITORIES: biostudies-literature