Reference-based comparison of adaptive immune receptor repertoires
Cell Reports Methods, vol. 2, pp. 100269
Abstract
B and T cell receptor (immune) repertoires can represent an individual's immune history. While current repertoire analysis methods aim to discriminate between health and disease states, they are typically based on only a limited number of parameters. Here, we introduce immuneREF: a quantitative multidimensional measure of adaptive immune repertoire (and transcriptome) similarity that allows interpretation of immune repertoire variation by relying on both repertoire features and cross-referencing of simulated and experimental datasets. To quantify immune repertoire similarity landscapes across health and disease, we applied immuneREF to >2,400 datasets from individuals with varying immune states (healthy, [autoimmune] disease, and infection). We discovered, in contrast to the current paradigm, that blood-derived immune repertoires of healthy and diseased individuals are highly similar for certain immune states, suggesting that repertoire changes to immune perturbations are less pronounced than previously thought. In conclusion, immuneREF enables the population-wide study of adaptive immune response similarity across immune states.
Authors 15
-
Affiliation as printed
Department of Biosystems Science and Engineering, ETH Zürich, Basel, Switzerland
-
Centro de Investigacion Principe Felipe
Affiliation as printed
Laboratory of Neurobiology, Centro Investigación Príncipe Felipe, Valencia, Spain
-
BGI Group (China) · University of Chinese Academy of Sciences
Affiliation as printed
BGI-Education Center, University of Chinese Academy of Sciences, Shenzhen, China
BGI-Shenzhen, Shenzhen, China
-
BGI Group (China) · City University of Hong Kong
Affiliation as printed
BGI-Shenzhen, Shenzhen, China
Department of Computer Science, City University of Hong Kong, Hong Kong, China
-
Oslo University Hospital · University of Oslo
Affiliation as printed
Department of Immunology and Oslo University Hospital, University of Oslo, Oslo, Norway
-
Oslo University Hospital · University of Oslo
Affiliation as printed
Department of Immunology and Oslo University Hospital, University of Oslo, Oslo, Norway
-
Oslo University Hospital · University of Oslo
Affiliation as printed
Department of Immunology and Oslo University Hospital, University of Oslo, Oslo, Norway
-
Affiliation as printed
BGI-Shenzhen, Shenzhen, China
-
Marieke L. Kuijjer Aachen Department of Pathology, Leiden University Medical Center Leiden Center for Computational Oncology
University of Oslo · Leiden University Medical Center
Affiliation as printed
Centre for Molecular Medicine Norway, University of Oslo, Oslo, Norway
Department of Pathology, Leiden University Medical Center, Leiden, the Netherlands
Leiden Center for Computational Oncology, Leiden University Medical Center, Leiden, the Netherlands
-
Universitat Politècnica de València
Affiliation as printed
Departamento de Estadística e Investigación Operativa Aplicadas y Calidad, Universitat Politècnica de València, Valencia, Spain
-
Consejo Superior de Investigaciones Científicas · Institute for Integrative Systems Biology
Affiliation as printed
Institute for Integrative Systems Biology, Spanish National Research Council, Valencia, Spain
-
Affiliation as printed
Department of Informatics, University of Oslo, Oslo, Norway
-
BGI Group (China) · Tsinghua Shenzhen International Graduate School · Tsinghua University
Affiliation as printed
BGI-Shenzhen, Shenzhen, China
Shenzhen International Graduate School, Tsinghua University, Shenzhen, China
-
Affiliation as printed
Department of Biosystems Science and Engineering, ETH Zürich, Basel, Switzerland
-
Victor Greiff corresponding
Oslo University Hospital · University of Oslo
Affiliation as printed
Department of Immunology and Oslo University Hospital, University of Oslo, Oslo, Norway
Cited by 22 stored of 24
No patents citing this paper on Lens.org (checked 2026-10-11).