Abstract
Breast cancer is the most common cancer in women both in the developed and less developed countries, and it imposes a considerable threat to human health. Therefore, in order to develop effective targeted therapies against Breast cancer, a deep understanding of its underlying molecular mechanisms is required. The application of deep transcriptional sequencing has been found to be reported to provide an efficient genomic assay to delve into the insights of the diseases and may prove to be useful in the study of Breast cancer. In this study, ChIP-Seq data for normal samples and Breast cancer were compared, and differential peaks identified, based upon fold enrichment (with P-values obtained via t-tests). The Protein–protein interaction (PPI) network analysis was carried out, following which the highly connected genes were screened and studied, and the most promising ones were selected. Biological pathway involved in the process were then identified. Our findings regarding potential Breast cancer-related genes enhances the understanding of the disease and provides prognostic information in addition to standard tumor prognostic factors for future research.
Highlights
Breast cancer is the most common cancer in women both in the developed and less developed countries, and it imposes a considerable threat to human health
We identified an array of key genes related to Breast cancer by the analysis of ChIP-Seq data
LEF1 was found to be prominent in colon cancer and was discovered in several types of MCF7 breast cancer
Summary
Breast cancer is the most common cancer in women both in the developed and less developed countries, and it imposes a considerable threat to human health. The study reports that the molecular signature at histone H3K4me[3] and H3K27me[3] are involved in the epigenetic control of normal (MCF10A) and transformed (MCF7, MDA-MB-231) breast cells using ChIP-Seq technology[11, 12]. MCF7 belongs to the class estrogen receptor-positive breast cancer cell lines, while MDA-MB-231 belongs to the class estrogen receptor-negative breast cancer cell line, known as triple negative breast cancer, where the receptors for estrogen, progesterone and HER2 are all negative (ER-, PR- and HER-) Such studies provide meaningful insights for understanding the molecular mechanisms and the dynamic distribution of H3K4me[3], associated with active chromatin, and H3K27me[3], associated with repressed chromatin, histone modifications to provide an understanding of the changes in epigenetic regulation associated with the unique breast cancer subtypes from ChIP-Seq data[12]. Very few studies using ChIP-Seq data for Breast cancer-related gene identification has been carried out till date[13, 14]
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