ArticleNature protocols2018
Unbiased quantification of immunoglobulin diversity at the DNA level with VDJ-seq.
Article in Nature protocols, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
What it found
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The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
23 citing papers in PubMed.
- Recovering CDR3 sequences from RNA-seq data: a critical assessment of computational and experimental strategies.Genomics & informatics · 2026Review
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- A progeria syndrome links DNA hypermethylation to age-related pathology.Nature genetics · 2026Article
- Synthetic rewriting of the IGH locus.Cell genomics · 2026Article
- Innovative Single-Cell Sequencing Techniques for B cell Analysis and Their Implications for Rational HIV-1 Vaccine Design.Current HIV research · 2026Review
- HTGTS-TCR-Seq for Profiling of Mouse and Human T-Cell Receptor α and β Gene Rearrangements and Diversity.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- VH-replacement shapes the antibody repertoire by removing the genes of non-functional heavy-chains.The EMBO journal · 2025Article
- An expandable synthetic library of human paired antibody sequences.PLoS computational biology · 2025Article
- Single-cell sequencing reveals the mechanisms of multiple myeloma progression: clarity or confusion?Annals of hematology · 2025Review
- Genetic Mouse Models of Lymphomas.Methods in molecular biology (Clifton, N.J.) · 2025Article
- A unified model-based framework for doublet or multiplet detection in single-cell multiomics data.Nature communications · 2024Article
- Minimal residual disease detection in lymphoma: methods, procedures and clinical significance.Frontiers in immunology · 2024Review
- Enhancers of the PAIR4 regulatory module promote distal VThe EMBO journal · 2023Article
- Single-cell gene and isoform expression analysis reveals signatures of ageing in haematopoietic stem and progenitor cells.Communications biology · 2023Article
- Igh and Igk loci use different folding principles for V gene recombination due to distinct chromosomal architectures of pro-B and pre-B cells.Nature communications · 2023Article
- Single-cell RNA sequencing to identify cellular heterogeneity and targets in cardiovascular diseases: from bench to bedside.Basic research in cardiology · 2023Review
- Single-cell RNA-seq reveals clonal diversity and prognostic genes of relapsed multiple myeloma.Clinical and translational medicine · 2022Article
- Integrated single-cell analysis revealed immune dynamics during Ad5-nCoV immunization.Cell discovery · 2021Article
- IL-7R signaling activates widespread VCell reports · 2021Article
- Exploiting Single-Cell Tools in Gene and Cell Therapy.Frontiers in immunology · 2021Review
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
7 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
For high-throughput sequencing and quantification of immunoglobulin repertoires, most methodologies use RNA. However, output varies enormously between recombined genes due to different promoter strengths and differential activation of lymphocyte subsets, precluding quantitation of recombinants on a per-cell basis. To date, DNA-based approaches have used V gene primer cocktails, with substantial inherent biases. Here, we describe VDJ sequencing (VDJ-seq), which accurately quantitates immunoglobulin diversity at the DNA level in an unbiased manner. This is accomplished with a single primer-extension step using biotinylated J gene primers. By addition of unique molecular identifiers (UMIs) before primer extension, we reliably remove duplicate sequences and correct for sequencing and PCR errors. Furthermore, VDJ-seq captures productive and nonproductive VDJ and DJ recombination events on a per-cell basis. Library preparation takes 3 d, with 2 d of sequencing and 1 d of data processing and analysis.
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Registered trials
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.