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Multiple omics analysis of the protective effects of SFN on estrogen-dependent breast cancer cells

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Abstract

In recent years, sulforaphane (SFN) has been shown to have antitumor effects. To better understand the molecular basis of SFN intervention in estrogen-dependent breast cancer, integrated multi-omics data analysis was used to provide evidence and insights into molecular biology. MCF-7 breast cancer cells were treated with estradiol (E2) or/and SFN. Genome-wide DNA methylation analysis was performed by using microarray platforms. The protein profile was analyzed by TMT labeled HPLC-MS/MS. The metabolic profile was obtained by GC–MS and UPLC–MS methods. Multivariate statistics analyses, such as PCA and hierarchical clustering, were performed. The Gene Ontology (GO) and KEGG analysis were used to perform enrichment analysis of biological processes and pathways. A set of differentially methylated genes and differentially expressed proteins and metabolites were found, which indicated that SFN may reverse the adverse effects induced by E2. Integrated analysis revealed cancer genes that responded to estrogen and other pathways frequently associated with cancer. Co-pathway analysis revealed that the reversal effects of SFN were associated with purine metabolism and glutathione metabolism. The integrated omics analysis outlined a promising blueprint of the relationship of biological molecules in different dimensions, which will be beneficial for understanding the mechanism of anti-breast cancer effects and for new targets of medicines.

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Acknowledgements

The work was supported by the National Natural Science Foundation of China (Nos. 81903365, 81530088 and 81728018), Natural Science Foundation of Jiangsu Province (No. BK20161571), Natural Science Foundation of the Jiangsu Higher Education Institution of China (16KJA330002), the Priority Academic Program Development of Jiangsu Higher Education Institutions (PAPD) and Top-notch Academic Programs Project of Jiangsu Higher Education Institution, (TAPP,PPZY2015A067).The funders had no role in the study design, data collection and analyses, decision to publish, or preparation of the manuscript.

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  1. Hui Huang and Shuyuan Cao have equally contribution to this work.

Authors and Affiliations

  1. Department of Biostatistics and China International Cooperation Center for Environment and Human Health, School of Public Health, Nanjing Medical University, Nanjing, 211166, China

    Hui Huang & Feng Chen

  2. Department of Hygienic Analysis and the Key Laboratory of Modern Toxicology of Ministry of Education, School of Public Health, Nanjing Medical University, Nanjing, 211166, China

    Shuyuan Cao, Zhan Zhang, Lei Li & Qian Wu

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  1. Hui Huang
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Contributions

Conceived and designed the experiments: QW and FC. Performed the experiments: SYC. Analyzed the data: HH, YYW and ZZ. Contributed reagents/materials/analyses tools: LL and FC. Wrote the paper: SYC, QW. All the authors read and approved the final manuscript.

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Correspondence to Feng Chen or Qian Wu.

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Huang, H., Cao, S., Zhang, Z. et al. Multiple omics analysis of the protective effects of SFN on estrogen-dependent breast cancer cells. Mol Biol Rep 47, 3331–3346 (2020). https://doi.org/10.1007/s11033-020-05403-9

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