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Updated: Dec 30, 2025

Oncogenic Gene Fusion Detection Using Anchored Multiplex Polymerase Chain Reaction Followed by Next Generation Sequencing
Published on: July 5, 2019
The Evolving Diagnostic and Treatment Landscape of NTRK-Fusion-Driven Pediatric Cancers
David S Shulman1, Steven G DuBois2
1Pediatric Oncology, Dana-Farber/Boston Children's Cancer and Blood Disorders Center, Harvard Medical School, 450 Brookline Avenue, Boston, MA, 02215, USA.
Abstract:
The neurotrophin receptor tyrosine kinase (NTRK1-3) genes have been identified as key fusion partners in a range of pediatric cancers. In childhood cancers, ETV6-NTRK3 fusions are found in the majority of infantile fibrosarcomas and congenital mesoblastic nephromas. NTRK fusions are also found in mammary analog secretory carcinomas (MASC), secretory breast carcinomas, and with modest frequency in high-grade gliomas in very young children. While there are a range of multi-receptor tyrosine kinase inhibitors that show efficacy against TRK kinases, there are now multiple highly selective TRK inhibitors in clinical evaluation. Entrectinib and larotrectinib have been evaluated in early-phase clinical trials for children and demonstrated high response rates with good durability of response. Both agents are now approved in the United States in an age and histology agnostic manner for children (age > 12 years for entrectinib; all ages for larotrectinib) for the treatment of solid tumors harboring NTRK fusions without an option for complete surgical resection, with relapsed disease, or without a viable alternative systemic option. More recently, two second-generation TRK inhibitors, selitrectinib and repotrectinib, have been developed and are currently being evaluated in pediatric early phase trials. The Children's Oncology Group has also launched a phase II trial of larotrectinib as a neoadjuvant agent for patients with newly diagnosed infantile fibrosarcoma. While the clinical use of these agents has developed rapidly, many questions remain in terms of duration of therapy, treatment of CNS disease, and long-term toxicities. Further development of this class of agents will continue to require multi-center trials for these rare tumors. Tumor sequencing and potentially sequencing of circulating tumor DNA will improve our understanding of patterns of resistance and the most effective treatment strategies for these patients.
Insights
Neurotrophin receptor tyrosine kinase (NTRK) gene fusions drive various pediatric cancers. Selective TRK inhibitors like larotrectinib show high response rates and are approved for NTRK-fusion-positive tumors in children, with new agents in development.
Area of Science:
- Pediatric Oncology
- Molecular Oncology
- Cancer Therapeutics
Background:
- Neurotrophin receptor tyrosine kinase (NTRK1-3) genes are crucial fusion partners in pediatric cancers.
- ETV6-NTRK3 fusions are prevalent in infantile fibrosarcomas and congenital mesoblastic nephromas.
- NTRK fusions also occur in mammary analog secretory carcinomas, secretory breast carcinomas, and pediatric high-grade gliomas.
Purpose of the Study:
- To review the clinical efficacy and development of TRK inhibitors in pediatric cancers.
- To highlight approved and investigational TRK-targeted therapies for NTRK-fusion-positive pediatric solid tumors.
- To identify ongoing research and future directions in TRK inhibitor therapy for children.
Main Methods:
- Review of clinical trials and therapeutic approvals for TRK inhibitors in pediatric oncology.
- Summary of current knowledge on NTRK gene fusions in various childhood cancers.
- Discussion of emerging TRK inhibitors and ongoing clinical investigations.
Main Results:
- Entrectinib and larotrectinib demonstrate high response rates and durable responses in pediatric patients with NTRK-fusion-positive tumors.
- Larotrectinib and entrectinib are approved for specific pediatric populations with NTRK-fusion-positive solid tumors.
- Second-generation TRK inhibitors (selitrectinib, repotrectinib) are under investigation in pediatric trials.
Conclusions:
- Selective TRK inhibitors represent a significant advancement in treating NTRK-fusion-driven pediatric cancers.
- Further research is needed to address optimal duration of therapy, CNS disease management, and long-term toxicities.
- Multi-center trials and molecular profiling, including ctDNA sequencing, are essential for understanding resistance and refining treatment strategies.
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