Combined Analysis of Transcriptome and T-Cell Receptor Alpha and 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, Wilfred F J van IJcken

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Article in Methods in molecular biology (Clifton, N.J.), 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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7 authors.

Nicolle H R LitjensErasmus MC Transplant Institute, Division of Nephrology and Transplantation, Department of Internal Medicine, Erasmus MC University Medical Center, Rotterdam, The Netherlands.

Anton W LangerakDepartment of Immunology, Laboratory Medical Immunology, Erasmus MC University Medical Center, Rotterdam, The Netherlands.

Zakia AzmaniCenter for Biomics, Erasmus MC University Medical Center, Rotterdam, The Netherlands.

Xander den DekkerCenter for Biomics, Erasmus MC University Medical Center, Rotterdam, The Netherlands.

Michiel G H BetjesErasmus MC Transplant Institute, Division of Nephrology and Transplantation, Department of Internal Medicine, Erasmus MC University Medical Center, Rotterdam, The Netherlands.

Rutger W W BrouwerCenter for Biomics, Erasmus MC University Medical Center, Rotterdam, The Netherlands.

Wilfred F J van IJckenCenter for Biomics, Erasmus MC University Medical Center, Rotterdam, The Netherlands. w.vanijcken@erasmusmc.nl.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

With the advent of next-generation sequencing (NGS) methodologies, the total repertoires of B and T cells can be disclosed in much more detail than ever before. Even though many of these strategies do provide in-depth and high-resolution information of the immunoglobulin (IG) and/or T-cell receptor (TR) repertoire, one clear disadvantage is that the IG/TR profiles cannot be connected to individual cells. Single-cell technologies do allow to study the IG/TR repertoire at the individual cell level. This is especially relevant in cell samples in which much heterogeneity of the cell population is expected. By combining the IG/TR repertoire with transcriptome data, the reactivity of the B or T cell can be associated with activation or maturation stages. An additional advantage of such single-cell technologies is that the combination of both IG and both TR chains can be studied on a per cell basis, which better reflects the antigen receptor reactivity of cells. Here we present the ICELL8 single-cell method for the parallel analysis of the TR repertoire and transcriptome, which is especially useful in samples that contain relatively few cells.

Indexed as

Receptors, Antigen, T-Cell, alpha-betaTranscriptomeHigh-Throughput Nucleotide SequencingImmunoglobulinsReceptors, Antigen, T-CellImmunoglobulinsReceptors, Antigen, T-CellReceptors, Antigen, T-Cell, alpha-betaNext-generation sequencingRepertoireSingle cellT-cell receptor alphaT-cell receptor betaTranscriptome

Identifiers

PMID35622330

DOI10.1007/978-1-0716-2115-8_14

PMCPMC9761537

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.