1. The Advent of Precision Immunology: Immunogenetics at the Center of Immune Cell Analysis in Health and Disease
Anton W. Langerak
2. Next-Generation Sequencing-Based Clonality Detection of Immunoglobulin Gene Rearrangements in B-Cell Lymphoma
Diede A.G. van Bladel, Jessica L.M. van der Last-Kempkes, Blanca Scheijen, Patricia J.T.A. Groenen on behalf of the EuroClonality Consortium
3. One-Step Next Generation Sequencing of Immunoglobulin and T-Cell Receptor Gene Recombinations for MRD Marker Identification in Acute Lymphoblastic Leukemia
Patrick Villarese, Chrystelle Abdo, Matthieu Bertrand, Florian Thonier, Mathieu Giraud, Mikaël Salson, and Elizabeth Macintyre
4. Immunoglobulin/T-Cell Receptor Gene Rearrangement Analysis Using RNA-Seq
Vincent H.J. van der Velden, Lorenz Bastian, Monika Brüggemann, Alina Hartmann, and Nikos Darzentas
5. Minimal Residual Disease Analysis by Monitoring Immunoglobulin and T-Cell Receptor Gene Rearrangements by Quantitative PCR and Droplet Digital PCR
Irene Della Starza, Cornelia Eckert, Daniela Drandi, and Giovanni Cazzaniga on behalf of the EuroMRD Consortium
6. Quality Control for IG/TR Marker Identification and MRD Analysis
Eva Fronkova, Michael Svaton, and Jan Trka
7. cfDNA-Based NGS IG Analysis in Lymphoma
Christiane Pott, Michaela Kotrova, Nikos Darzentas, Monika Brüggemann, and Mouhamad Khouja on behalf of the EuroClonality-NGS Working Group
8. Targeted Locus Amplification as Marker Screening Approach to Detect Immunoglobulin (IG) Translocations in B-Cell Non-Hodgkin Lymphomas
Elisa Genuardi, Beatrice Alessandria, Aurora Maria Civita, and Simone Ferrero
9. Immunoglobulin/T-Cell Receptor Capture Strategy for Comprehensive Immunogenetics
James Peter Stewart, Jana Gazdova, Shambhavi Srivastava, Julia Revolta, Louise Harewood, Manisha Maurya, Nikos Darzentas, and David Gonzalez
10. Immunoglobulin Gene Mutational Status Assessment by Next Generation Sequencing in Chronic Lymphocytic Leukemia
Anne Langlois de Septenville, Myriam Boudjoghra, Clotilde Bravetti, Marine Armand, Mikaël Salson, Mathieu Giraud, and Frederic Davi
11. NGS-Based B-Cell Receptor Repertoire Analysis in the Context of Inborn Errors of Immunity
Pauline A. van Schouwenburg, Mirjam van der Burg, and Hanna IJspeert
12. Generic Multiplex Digital PCR for Accurate Quantification of T-Cells in Copy Number Stable and Unstable DNA Samples
Rogier J. Nell, Willem H. Zoutman, Mieke Versluis, and Pieter A. van der Velden
13. Gene Engineering T-Cells with T-Cell Receptor for Adoptive Therapy
Dian Kortleve, Mandy van Brakel, Rebecca Wijers, Reno Debets, and Dora Hammerl
14. Combined Analysis of Transcriptome and T-Cell Receptor Alpha Beta (TRA/TRB) Repertoire in Paucicellular Samples at the Single Cell Level
Nicolle H.R. Litjens, Anton W. Langerak, Zakia Azmani, Xander den Dekker, Michiel G.H. Betjes, Rutger W.W. Brouwer, and Wilfred F.J. van IJcken
15. AIRR Community Guide to Planning and Performing AIRR-Seq Experiments
Anne Eugster, Magnolia L. Bostick, Nidhi Gupta, Encarnita Mariotti-Ferrandiz, Gloria Kraus, Wenzhao Meng, Cinque Soto, Johannes Trück, Ulrik Stervbo, Eline T. Luning Prak on behalf of the AIRR Community
16. Adaptive Immune Receptor Repertoires (AIRR) Community Guide to TR and IG Gene Annotation
Lmar Babrak, Susanna Marquez, Christian E. Busse, William D. Lees, Enkelejda Miho, Mats Ohlin, Aaron M. Rosenfeld, Ulrik Stervbo, Corey T. Watson, and Chaim A. Schramm on behalf of the AIRR Community
17. Adaptive Immune Receptor Repertoires (AIRR) Community Guide to Repertoire Analysis
Susanna Marquez, Lmar Babrak, Victor Greiff, Kenneth B. Hoehn, William D. Lees, Eline T. Luning Prak, Enkelejda Miho, Aaron M. Rosenfeld, Chaim A. Schramm, and Ulrik Stervbo on behalf of the AIRR Community
18. Bulk gDNA Sequencing of Antibody Heavy Chain Gene Rearrangements for Detection and Analysis of B-Cell Clone Distribution: A Method by the AIRR Community
Aaron M. Rosenfeld, Wenzhao Meng, Kalisse I. Horne, Elaine C. Chen, Davide Bagnara, Ulrik Stervbo, and Eline T. Luning Prak on behalf of the AIRR Community
19. Bulk Sequencing from mRNA with UMI for Evaluation of B-Cell Isotype and Clonal Evolution: A Method by the AIRR Community
Nidhi Gupta, Susanna Marquez, Cinque Soto, Elaine C. Chen, Magnolia L. Bostick, Ulrik Stervbo, and Andrew Farmer
20. Single Cell Analysis and Tracking of Antigen-Specific T-Cells: Integrating Paired-Chain AIRR-Seq and Transcriptome Sequencing: A Method by the AIRR Community
Nidhi Gupta, Ida Lindeman, Susanne Reinhard, Encarnita Mariotti-Ferrandiz, Kevin Mujangi-Ebeka, Kristen Martins-Taylor, and Anne Eugster
21. Quality Control: Chain Pairing Precision and Monitoring of Cross-Sample Contamination: A Method by the AIRR Community
Cheng-Yu Chung, Matias Gutiérrez-González, Sheila N. López Acevedo, Ahmed S. Fahad, and Brandon J. DeKosky on behalf of the AIRR Community
22. Immune Repertoire Analysis on High-Performance Computing Using VDJServer V1: A Method by the AIRR Community
Scott Christley, Ulrik Stervbo, and Lindsay G. Cowell on behalf of the AIRR Community
23. Data Sharing and Re-Use: A Method by the AIRR Community
Brian D. Corrie, Scott Christley, Christian E. Busse, Lindsay G. Cowell, Kira C.M. Neller, Florian Rubelt, and Nicholas Schwab on behalf of the AIRR Community
24. IMGT® Immunoinformatics Tools for Standardized V-DOMAIN Analysis
Véronique Giudicelli, Patrice Duroux, Maël Rollin, Safa Aouinti, Géraldine Folch, Joumana Jabado Michaloud, Marie-Paule Lefranc, and Sofia Kossida
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