Integrative competing endogenous RNA network analyses identify novel lncRNA and genes implicated in metastatic breast cancer
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Description
Competing endogenous RNAs (ceRNAs) have gained attention in cancer research owing to their involvement in microRNA-mediated gene regulation. Previous studies have identified ceRNA networks of individual cancers. Nevertheless, none of these studies has investigated different cancer stages. We identify stage-specific ceRNAs in breast cancer using the cancer genome atlas data. Moreover, we investigate the molecular functions and prognostic ability of ceRNAs involved in stage I–IV networks. We identified differentially expressed candidate ceRNAs using edgeR and limma R packages. A three-step analysis was used to identify statistically significant ceRNAs of each stage. Survival analysis and functional enrichment analysis were conducted to identify molecular functions and prognostic ability. We found five genes and one long non-coding RNA unique to the stage IV ceRNA network. These genes have been described in previous breast cancer studies. Genes acted as ceRNAs are enriched in cancer-associated pathways. Two, three, and three microRNAs from stages I, II, and III were prognostic from the Kaplan–Meier survival analysis. Our results reveal a set of unique ceRNAs in metastatic breast cancer. Further experimental work is required to evaluate their role in metastasis. Moreover, identifying stage-specific ceRNAs will improve the understanding of personalised therapeutics in breast cancer.
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| ID Code: | 238018 | ||||||
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| Item Type: | Contribution to Journal (Journal Article) | ||||||
| Refereed: | Yes | ||||||
| ORCID iD: |
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| Additional Information: | Funding: This research was supported by QUT postgraduate research allowance (QUTPRA); QUT HDR tuition fee sponsorship; Advance Queensland Industry Research Fellowship; the NHMRC Career Development Fellowship; and the Cancer Council Queensland Grant. | ||||||
| Measurements or Duration: | 10 pages | ||||||
| DOI: | 10.1038/s41598-023-29585-x | ||||||
| ISSN: | 2045-2322 | ||||||
| Pure ID: | 125064193 | ||||||
| Divisions: | Current > Research Centres > Centre for Genomics and Personalised Health Current > QUT Faculties and Divisions > Faculty of Science Current > Schools > School of Chemistry & Physics Current > QUT Faculties and Divisions > Faculty of Health Current > Schools > School of Biomedical Sciences |
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| Copyright Owner: | 2023 The Authors | ||||||
| Copyright Statement: | This work is covered by copyright. Unless the document is being made available under a Creative Commons Licence, you must assume that re-use is limited to personal use and that permission from the copyright owner must be obtained for all other uses. If the document is available under a Creative Commons License (or other specified license) then refer to the Licence for details of permitted re-use. It is a condition of access that users recognise and abide by the legal requirements associated with these rights. If you believe that this work infringes copyright please provide details by email to qut.copyright@qut.edu.au | ||||||
| Deposited On: | 15 Feb 2023 01:00 | ||||||
| Last Modified: | 29 Feb 2024 13:16 |
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