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Development and analysis of long non-coding RNA-associated competing endogenous RNA network for osteosarcoma metastasis
- Source :
- Hereditas, Hereditas, Vol 158, Iss 1, Pp 1-14 (2021)
- Publication Year :
- 2021
- Publisher :
- Springer Science and Business Media LLC, 2021.
-
Abstract
- Background Osteosarcoma is the primary bone malignant neoplasm that often develops metastasis. Increasing evidences have shown that non-coding RNAs (ncRNAs) relate to the progression of osteosarcoma. However, the ncRNAs’ roles in osteosarcoma metastasis are still unknown. Methods Differentially expressed (DE) RNAs were identified from Gene Expression Omnibus (GEO) database. Protein-protein interaction (PPI) of DE messenger RNAs (DEmRNAs) was built through STRING database. The target mRNAs and long ncRNAs (lncRNAs) of microRNAs (miRNA) were predicted through miRDB, Targetscan and Genecode databases, which then cross-checked with previously obtained DERNAs to construct competing endogenous RNA (ceRNA) network. All networks were visualized via Cytoscape and the hub RNAs were screened out through Cytoscape plug-in Cytohubba. The gene functional and pathway analyses were performed through DAVID and MirPath databases. The survival analyses of hub RNAs were obtained through Kaplan-Meier (KM) survival curves. Results Five hundred sixty-four DEmRNAs, 16 DElncRNAs and 22 DEmiRNAs were screened out. GO functional and KEGG pathway analyses showed that DERNAs were significantly associated with tumor metastasis. The ceRNA network including 6 lncRNAs, 55 mRNAs and 20 miRNAs were constructed and the top 10 hub RNAs were obtained. Above all, PI3K/AKT signaling pathway was identified as the most important osteosarcoma metastasis-associated pathway and its hub ceRNA module was constructed. The survival analyses showed that the RNAs in hub ceRNA module closely related to osteosarcoma patients’ prognosis. Conclusions The current study provided a new perspective on osteosarcoma metastasis. More importantly, the RNAs in hub ceRNA module might act as the novel therapeutic targets and prognostic factors for osteosarcoma patients.
- Subjects :
- lcsh:QH426-470
Kaplan-Meier Estimate
Computational biology
Biology
Metastasis
03 medical and health sciences
0302 clinical medicine
Bioinformatic analysis
microRNA
Genetics
medicine
Humans
Protein Interaction Maps
RNA, Messenger
Neoplasm Metastasis
Gene
PI3K/AKT/mTOR pathway
030304 developmental biology
Osteosarcoma
0303 health sciences
Akt/PKB signaling pathway
Competing endogenous RNA
Research
General Medicine
Prognosis
medicine.disease
Long non-coding RNA
Gene Expression Regulation, Neoplastic
lcsh:Genetics
MicroRNAs
030220 oncology & carcinogenesis
RNA, Long Noncoding
Subjects
Details
- ISSN :
- 16015223
- Volume :
- 158
- Database :
- OpenAIRE
- Journal :
- Hereditas
- Accession number :
- edsair.doi.dedup.....7dff801049b8f4dc8a86f8b5557fb621