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. 2022;2453:571–584. doi: 10.1007/978-1-0716-2115-8_26

ARResT/Interrogate Immunoprofiling Platform: Concepts, Workflows, and Insights.

Nikos Darzentas
PMCID: PMC9761554  PMID: 35622342

Abstract

ARResT/Interrogate was built within the EuroClonality-NGS working group to meet the challenge of developing and applying assays for the high-throughput sequence-based profiling of immunoglobulin (IG) and T-cell receptor (TR) repertoires. We herein present basic concepts, outline the main workflow, delve into EuroClonality-NGS-specific aspects, and share insights from our experiences with the platform.


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References

  1. Langerak AW, Brüggemann M, Davi F, Darzentas N, van Dongen JJM, Gonzalez D et al (2017) High-throughput Immunogenetics for clinical and research applications in immunohematology: potential and challenges. J Immunol 198:3765–3774 doi: 10.4049/jimmunol.1602050. [DOI] [PubMed]
  2. Darzentas N, Hadzidimitriou A, Murray F, Hatzi K, Josefsson P, Laoutaris N et al (2010) A different ontogenesis for chronic lymphocytic leukemia cases carrying stereotyped antigen receptors: molecular and computational evidence. Leukemia 24:125–132 doi: 10.1038/leu.2009.186. [DOI] [PubMed]
  3. Bystry V, Agathangelidis A, Bikos V, Sutton LA, Baliakas P, Hadzidimitriou A et al (2015) ARResT/AssignSubsets: a novel application for robust subclassification of chronic lymphocytic leukemia based on B cell receptor IG stereotypy. Bioinformatics 31:3844–3846 doi: 10.1093/bioinformatics/btv456. [DOI] [PubMed]
  4. Bystry V, Reigl T, Krejci A, Demko M, Hanakova B, Grioni A et al (2017) ARResT/interrogate: an interactive immunoprofiler for IG/TR NGS data. Bioinformatics 33:435–437 doi: 10.1093/bioinformatics/btw634. [DOI] [PubMed]
  5. Knecht H, Reigl T, Kotrová M, Appelt F, Stewart P, Bystry V et al (2019) Quality control and quantification in IG/TR next-generation sequencing marker identification: protocols and bioinformatic functionalities by EuroClonality-NGS. Leukemia 33:2254–2265 doi: 10.1038/s41375-019-0499-4. [DOI] [PMC free article] [PubMed]
  6. Brüggemann M, Kotrová M, Knecht H, Bartram J, Boudjogrha M, Bystry V et al (2019) Standardized next-generation sequencing of immunoglobulin and T-cell receptor gene recombinations for MRD marker identification in acute lymphoblastic leukaemia; a EuroClonality-NGS validation study. Leukemia 33:2241–2253 doi: 10.1038/s41375-019-0496-7. [DOI] [PMC free article] [PubMed]
  7. Scheijen B, RWJ M, Rijntjes J, van der Klift MY, Möbs M, Steinhilber J et al (2019) Next-generation sequencing of immunoglobulin gene rearrangements for clonality assessment: a technical feasibility study by EuroClonality-NGS. Leukemia 33:2227–2240 doi: 10.1038/s41375-019-0508-7. [DOI] [PMC free article] [PubMed]

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