Protocol for characterizing craniopharyngioma subtypes and their microenvironments using single-cell RNA sequencing
Takashi Kono1, Tatsuma Matsuda2, Masanori Fujimoto3
1Department of Molecular Diagnosis, Graduate School of Medicine, Chiba University, Chiba 260-8677, Japan; Research Institute of Disaster Medicine, Chiba University, Chiba 260-8677, Japan.
STAR Protocols
|April 16, 2025
Summary
This study details a single-cell analysis protocol for craniopharyngioma subtypes and their tumor microenvironments. The method distinguishes adamantinomatous from papillary craniopharyngiomas by analyzing cellular composition and molecular signatures.
Area of Science:
- Oncology
- Molecular Biology
- Immunology
Background:
- Craniopharyngiomas are rare tumors with distinct subtypes.
- Understanding the tumor microenvironment is crucial for therapeutic development.
- Current methods lack single-cell resolution for detailed subtype analysis.
Purpose of the Study:
- To present a comprehensive protocol for single-cell analysis of craniopharyngioma subtypes.
- To characterize the tumor microenvironment at single-cell resolution.
- To identify molecular and cellular differences between adamantinomatous and papillary craniopharyngiomas.
Main Methods:
- Detailed protocol for tumor tissue dissociation and single-cell isolation.
- RNA sequencing library preparation and bioinformatics analysis.
- Immunohistochemistry for validation of single-cell findings.
Main Results:
- Enables detailed characterization of tumor cellular composition.
- Provides insights into immune cell networks within the tumor microenvironment.
- Identifies distinct molecular signatures differentiating craniopharyngioma subtypes.
Conclusions:
- The presented protocol facilitates high-resolution analysis of craniopharyngioma subtypes.
- This approach aids in understanding the distinct tumor microenvironments.
- It supports the differentiation of adamantinomatous and papillary craniopharyngiomas based on molecular profiles.
