Datasets exploring putative lncRNA-miRNA-mRNA axes in breast cancer cell lines

Marie-Claire D Wasson; Justin M Brown; Jaganathan Venkatesh; Wasundara Fernando; Paola Marcato

doi:10.1016/j.dib.2021.107241

Datasets exploring putative lncRNA-miRNA-mRNA axes in breast cancer cell lines

Data Brief. 2021 Jun 24:37:107241. doi: 10.1016/j.dib.2021.107241. eCollection 2021 Aug.

Authors

Marie-Claire D Wasson¹, Justin M Brown¹, Jaganathan Venkatesh¹, Wasundara Fernando¹, Paola Marcato^{1

2}

Affiliations

¹ Department of Pathology, Dalhousie University, Halifax, NS, B3H 4R2, Canada.
² Department of Microbiology & Immunology, Dalhousie University, Halifax, NS, B3H 4R2, Canada.

Abstract

Long non-coding RNA (lncRNA)/microRNA (miRNA)/messenger RNA (mRNA) interactions regulate oncogenesis and tumour suppression in breast cancer. Oncogenic lncRNA/miRNA/mRNA axes may offer novel therapeutic targets; therefore, identifying such axes is a clinically relevant undertaking. To explore miRNAs regulated by oncogenic lncRNAs, we queried the NCBI Gene Expression Omnibus (GEO) database to find datasets that profiled gene expression changes upon lncRNA knockdown in breast cancer. We identified four microarray datasets that permitted our interrogation of genes regulated by lncRNAs LincK, LincIN, SPRY4-IT1 and AC009283.1. We specifically analysed changes in miRNA transcripts within these datasets to study miRNAs regulated by each of the four lncRNAs. We subsequently identified the predicted mRNA targets for these miRNAs to uncover possible lncRNA/miRNA/mRNAs axes in breast cancer. These axes may be candidates for future investigation of gene regulation in breast cancer.

Keywords: Breast cancer; Long non-coding RNA; Oncogenesis; Regulation; mRNA; microRNA.