PMID- 38315381
OWN - NLM
STAT- Publisher
LR  - 20240205
IS  - 1899-5276 (Print)
IS  - 1899-5276 (Linking)
DP  - 2024 Feb 5
TI  - Combined bioinformatics and machine learning methodologies reveal 
      prognosis-related ceRNA network and propose ABCA8, CAT, and CXCL12 as independent 
      protective factors against osteosarcoma.
LID - 10.17219/acem/172663 [doi]
AB  - BACKGROUND: Aberrant circular RNA (circRNA) acts as an oncogene or suppressor 
      during neoplasm initiation and development. However, the functions of most 
      circRNAs in osteosarcoma (OS) remain unclear. OBJECTIVES: We aimed to investigate 
      the expression, molecular functions and mechanisms underlying circRNAs in OS. 
      MATERIAL AND METHODS: Network interaction, pathway enrichment and regression 
      analyses were performed to determine differentially expressed (DE) circRNAs, 
      microRNAs (miRNAs) and messenger RNAs (mRNAs). We constructed competitive 
      endogenous RcodeNA (ceRNA) networks and integrated patient clinical data to 
      analyze the relationship between the networks and prognosis. The circRNA, miRNA 
      and mRNA data were retrieved from Gene Expression Omnibus (GEO) microarray 
      datasets. A circRNA-miRNA-mRNA interaction network was established and visualized 
      using miRNet. Protein interactions were investigated using STRING and Cytoscape, 
      and hub genes were identified using the MCODE plug-in. Gene Ontology, Kyoto 
      Encyclopedia of Genes and Genomes (KEGG) and Reactome pathway analyses were 
      performed to determine the DEmRNAs. LIMMA and RobustRankAggreg were used to 
      screen for DERNAs. Node genes in the interaction network were analyzed using 
      least absolute shrinkage and selection operator (LASSO) and Cox regression to 
      obtain OS-related ceRNA networks. RESULTS: We identified 9 DEcircRNAs, 243 
      DEmiRNAs and 211 DEmRNAs. We found that a ceRNA subnetwork, based on 1 circRNA, 1 
      miRNA and 8 mRNAs, was closely associated with OS prognosis. Integrating the 
      proportional hazards model and survival analysis revealed 3 independent 
      protective factors: adenosine triphosphate (ATP)-binding cassette sub-family A 
      member 8 (ABCA8), catalase (CAT) and C-X-C motif chemokine ligand 12 (CXCL12). 
      CONCLUSIONS: Our study provides novel insights into circRNA-related ceRNA 
      networks and identifies potential prognostic biomarkers of OS.
FAU - Fan, Jiaqi
AU  - Fan J
AD  - Department of Orthopaedics, Capital Medical University Affiliated FuXing 
      Hospital, Beijing, China.
FAU - Liao, Jianhong
AU  - Liao J
AD  - Department of Otolaryngology Head and Neck Surgery, Beijing Tongren Hospital, 
      Capital Medical University, China.
FAU - Huang, Yuwen
AU  - Huang Y
AD  - Department of Gastrointestinal and Hepatology, Beijing Youan Hospital, Capital 
      Medical University, China.
LA  - eng
PT  - Journal Article
DEP - 20240205
PL  - Poland
TA  - Adv Clin Exp Med
JT  - Advances in clinical and experimental medicine : official organ Wroclaw Medical 
      University
JID - 101138582
SB  - IM
OTO - NOTNLM
OT  - circular RNA
OT  - competitive endogenous RNA
OT  - microRNA
OT  - osteosarcoma
OT  - prognosis
EDAT- 2024/02/05 14:45
MHDA- 2024/02/05 14:45
CRDT- 2024/02/05 11:19
PHST- 2022/12/16 00:00 [received]
PHST- 2023/07/30 00:00 [revised]
PHST- 2023/09/20 00:00 [accepted]
PHST- 2024/02/05 14:45 [medline]
PHST- 2024/02/05 14:45 [pubmed]
PHST- 2024/02/05 11:19 [entrez]
AID - 10.17219/acem/172663 [doi]
PST - aheadofprint
SO  - Adv Clin Exp Med. 2024 Feb 5. doi: 10.17219/acem/172663.