List of experimental protocols for repertoire sequencing


#1

Following up on a call of the Tools & Resources group, I am starting this Wiki page to collect protocol papers for various repertoire sequencing applications. If possible, preference is given to actual step-by-step protocols.

  1. Turchaninova MA, et al. High-quality full-length immunoglobulin profiling with unique molecular barcoding. Nat Protoc 11:1599 (2016)
    [PubMed] [DOI]
    • Loci: IGH, IGK, IGL
    • Species: Homo sapiens, Mus musculus
    • Template: mRNA
    • UMI
  • McDaniel JR, et al. Ultra-high-throughput sequencing of the immune receptor repertoire from millions of lymphocytes. Nat Protoc 11:429 (2016)
    [PubMed] [DOI]
    • Loci: IGH, IGK, IGL
    • Species: Homo sapiens
    • chain linkage (physical)
  • Smith K, et al. Rapid generation of fully human monoclonal antibodies specific to a vaccinating antigen. Nat Protoc 4:372 (2009)
    [PubMed] [PMC] [DOI]
    • Loci: IGH, IGK, IGL
    • Species: Homo sapiens
    • Template: mRNA
    • single cell
    • cloning & expression
  • Busse CE, et al. Single-cell based high-throughput sequencing of full-length immunoglobulin heavy and light chain genes. Eur J Immunol 44:597 (2014)
    [PubMed] [DOI]
    • Loci: IGH, IGK, IGL
    • Species: Mus musculus
    • Template: mRNA
    • single cell
  • Dash P, et al. Single-cell analysis of T-cell receptor αβ repertoire. Methods Mol Biol 1343:181 (2015)
    [PubMed] [DOI]
    • Loci: TRA, TRB
    • Species: Homo sapiens
    • single cell
  • Wu YC, et al. Assessment of B Cell Repertoire in Humans. Methods Mol Biol 1343:199 (2015)
    [PubMed] [DOI]
    • Loci: IGH, IGK, IGL
    • Species: Homo sapiens
    • Template: mRNA
    • designed for Roche/454
  • Wang C, et al. Laboratory and Data Analysis Methods for Characterization of Human B Cell Repertoires by High-Throughput DNA Sequencing. Methods Mol Biol 1343:219 (2015)
    [PubMed] [DOI]
    • Loci: IGH
    • Species: Homo sapiens
    • Template: gDNA, mRNA
    • designed for Roche/454
  • Mamedov IZ, et al. Preparing unbiased T-cell receptor and antibody cDNA libraries for the deep next generation sequencing profiling. Front Immunol 4:456 (2013)
    [PubMed] [PMC] [DOI]
    • Loci: TRA, TRB, IGH (only for H. sapiens)
    • Species: Homo sapiens, Mus musculus
    • UMI (optional)
  • Tan YC, et al. Barcode-enabled sequencing of plasmablast antibody repertoires in rheumatoid arthritis. Arthritis Rheumatol 66:2706 (2014)
    [PubMed] [PMC] [DOI]
    • Loci: IGH, IGK, IGL
    • Species: Homo sapiens
    • single cell
    • potential IP: WO2012US00221
  • Bolland DJ, et al. Two mutually exclusive local chromatin states drive efficient V(D)J recombination. Cell Rep 15:2475 (2016)
    [PubMed] [PMC] [DOI]
    • Loci: IGH
    • Species: Mus musculus
    • Template: gDNA
    • primer extension & adaptor ligation, sequence-based enrichment
    • potential IP: WO2013GB50516

B-T.CR Wiki Home
Is there any paper about sequence full-length TCR, not just CDR3