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Vidjil add-on for MRD quantification of samples processed using the EuroClonality-NGS protocol
Guilherme Navarro Nilo Giusti1,2, Antonio Vítor Ribeiro3, Patrícia Yoshioka Jotta1
1Centro de Pesquisa Boldrini Centro Infantil Boldrini Campinas São Paulo Brazil.
A new Vidjil add-on enables analysis of EuroClonality-NGS libraries for minimal residual disease assessment in acute lymphoblastic leukemia. This open-source solution provides highly concordant results with existing closed-source software.
Area of Science:
- Immunology
- Bioinformatics
- Oncology
Background:
- Accurate assessment of minimal residual disease (MRD) in acute lymphoblastic leukemia (ALL) is crucial for treatment stratification.
- Next-generation sequencing (NGS) of immune repertoires, specifically CDR3 sequences, is a powerful tool for MRD detection.
- The EuroClonality-NGS protocol offers a comprehensive method for preparing MRD assessment libraries, but existing open-source tools like Vidjil cannot process them.
Purpose of the Study:
- To develop an open-source solution compatible with the EuroClonality-NGS protocol for MRD assessment in ALL.
- To enhance the capabilities of the Vidjil software to process libraries prepared using the EuroClonality-NGS method.
- To validate the performance of the Vidjil add-on against established closed-source software.
Main Methods:
- Development of a Vidjil add-on module.
- Processing of EuroClonality-NGS prepared samples using both the new Vidjil add-on and the ARResT/Interrogate software.
- Comparative analysis of results obtained from both software platforms.
Main Results:
- The Vidjil add-on successfully processed libraries prepared using the EuroClonality-NGS protocol.
- Analysis of EuroClonality-NGS samples showed high concordance between Vidjil and ARResT/Interrogate (r = 0.998).
- The Vidjil add-on demonstrated low error rates (RMSE = 0.112), indicating reliable performance.
Conclusions:
- The developed Vidjil add-on provides a viable open-source alternative for analyzing EuroClonality-NGS libraries for MRD assessment in ALL.
- This advancement enhances accessibility to advanced MRD detection methods for researchers and clinicians.
- The high concordance and low error confirm the reliability of the Vidjil add-on for this application.
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