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The potentially therapeutic targets of pediatric anaplastic ependymoma by transcriptome profiling
Jingsheng Wang1, Chen Sun2, Minggang Liu1
1Neurosurgery Department, Shenzhen Children's Hospital, Shenzhen, China.
Abstract:
Ependymoma (EPN) is a type of tumor that occurs in the central nervous system of children and adults. EPN produces resistance to chemotherapy, and there are no targeted drugs available as a proper cure. Therefore, the use of high-throughput sequencing technologies to elucidate pathogenic mechanisms is of prime importance to identify potential tumor target genes helpful for developing effective therapeutic approaches against EPN. With this objective, we used RNA-seq analysis to identify differentially expressed genes (DEGs) and pathways in 4 pairs of EPN tissues and adjacent tissues. In total, we found 5,445 differentially expressed genes. The synaptic vesicle cycle and extracellular matrix (ECM) receptor interaction pathways were highly enriched in the ependymoma group. Nine differentially expressed genes (SNAP25, GRM4, CELSR1, LAMA1, WNT5A, ROR2, CCND1, EPHB2, FOXJ1) were randomly verified by RT-qPCR, supporting the authenticity of our sequencing results. This study provides global gene information and some new potential biomarkers for the diagnosis and therapeutic targets of ependymoma.
Insights
This study identified 5,445 differentially expressed genes in ependymoma (EPN) tumors. Key pathways like synaptic vesicle cycle were enriched, offering potential new biomarkers and therapeutic targets for this central nervous system tumor.
Area of Science:
- Neuro-oncology
- Genomics
- Molecular Biology
Background:
- Ependymoma (EPN) is a central nervous system tumor resistant to chemotherapy with no targeted cures.
- Identifying pathogenic mechanisms is crucial for developing effective EPN therapies.
Purpose of the Study:
- To identify differentially expressed genes (DEGs) and enriched pathways in EPN using RNA-seq.
- To discover potential diagnostic biomarkers and therapeutic targets for ependymoma.
Main Methods:
- RNA-sequencing (RNA-seq) analysis was performed on 4 pairs of EPN and adjacent tissues.
- Differentially expressed genes (DEGs) and enriched pathways were identified.
- Key DEGs were validated using RT-qPCR.
Main Results:
- A total of 5,445 DEGs were identified between EPN and adjacent tissues.
- The synaptic vesicle cycle and extracellular matrix (ECM) receptor interaction pathways were significantly enriched in EPN.
- Nine specific DEGs (SNAP25, GRM4, CELSR1, LAMA1, WNT5A, ROR2, CCND1, EPHB2, FOXJ1) were validated.
Conclusions:
- This study provides comprehensive gene expression data for ependymoma.
- Identified DEGs and enriched pathways represent potential biomarkers for EPN diagnosis.
- These findings offer novel therapeutic targets for ependymoma treatment.
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