Vidjil add‐on for MRD quantification of samples processed using the EuroClonality‐NGS protocol-Reference-Cited by-同舟云学术

Vidjil add‐on for MRD quantification of samples processed using the EuroClonality‐NGS protocol

Published:2023-07-10 Issue:3 Volume:4 Page:770-774
ISSN:2688-6146
Container-title:eJHaem
language:en
Short-container-title:eJHaem

Author:

Giusti Guilherme Navarro Nilo¹²^ORCID,Ribeiro Antonio Vítor³,Jotta Patrícia Yoshioka¹,Thonier Florian⁴,Yunes José Andrés¹⁵^ORCID,Meidanis João⁶^ORCID

Affiliation:

1. Centro de Pesquisa Boldrini Centro Infantil Boldrini Campinas São Paulo Brazil

2. Instituto de Biologia Universidade Estadual de Campinas Campinas São Paulo Brazil

3. Instituto de Matemática Estatística e Computação Científica Universidade Estadual de Campinas Campinas São Paulo Brazil

4. Centre Inria Université de Rennes Rennes France

5. Faculdade de Ciências Médicas Universidade Estadual de Campinas Campinas São Paulo Brazil

6. Instituto de Computação Universidade Estadual de Campinas Campinas São Paulo Brazil

Abstract

AbstractAssessment of minimal residual disease in acute lymphoblastic leukemia by immune repertoire NGS requires spiking CDR3 sequences at known quantities into the patient's sample. Recently, the EuroClonality‐NGS group released one of the most comprehensive protocols for this purpose. ARResT/Interrogate is a closed‐source software for processing these NGS libraries, developed by this same group. Vidjil, an open‐source alternative, currently cannot handle libraries prepared using this protocol. Here, we present a Vidjil add‐on to solve this issue. EuroClonality‐NGS prepared samples analyzed with Vidjil and ARResT/Interrogate were highly concordant (r = 0.998) and presented low error (root‐mean‐square error, RMSE = 0.112).

Funder

Universidade Estadual de Campinas

Conselho Nacional de Desenvolvimento Científico e Tecnológico

Ministério da Saúde

Publisher

Wiley

Subject

General Earth and Planetary Sciences

Link

https://onlinelibrary.wiley.com/doi/pdf/10.1002/jha2.749

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