Deep profiling of antibody and T cell-receptor repertoires by means of high-throughput sequencing has become an attractive approach for adaptive immunity studies, but its power is substantially compromised by the accumulation of PCR and sequencing errors. Here we report MIGEC (molecular identifier groups-based error correction), a strategy for high-throughput sequencing data analysis. MIGEC allows for nearly absolute error correction while fully preserving the natural diversity of complex immune repertoires.

] Shemiakin Ovchinnikov Institute of Bioorganic Chemistry Russian Academy of Science Moscow Russia [2]

] Shemiakin Ovchinnikov Institute of Bioorganic Chemistry Russian Academy of Science Moscow Russia [2] Central European Institute of Technology Masaryk University Brno Czech Republic

] Shemiakin Ovchinnikov Institute of Bioorganic Chemistry Russian Academy of Science Moscow Russia [2] Pirogov Russian National Research Medical University Moscow Russia

] Shemiakin Ovchinnikov Institute of Bioorganic Chemistry Russian Academy of Science Moscow Russia [2] Pirogov Russian National Research Medical University Moscow Russia [3]

] Shemiakin Ovchinnikov Institute of Bioorganic Chemistry Russian Academy of Science Moscow Russia [2] Pirogov Russian National Research Medical University Moscow Russia [3] Central European Institute of Technology Masaryk University Brno Czech Republic

Central European Institute of Technology Masaryk University Brno Czech Republic

Division of Immunology The Netherlands Cancer Institute Amsterdam The Netherlands

Shemiakin Ovchinnikov Institute of Bioorganic Chemistry Russian Academy of Science Moscow Russia

Komentář v

Nat Methods. 2014 Jun;11(6):595. doi: 10.1038/nmeth.2975. PubMed

Zobrazit více v PubMed

Nat Methods. 2011 Nov 20;9(1):72-4 PubMed

J Immunol. 2014 Mar 15;192(6):2689-98 PubMed

Blood. 2009 Nov 5;114(19):4099-107 PubMed

Proc Natl Acad Sci U S A. 2011 Jun 7;108(23):9530-5 PubMed

EMBO Mol Med. 2011 Apr;3(4):201-7 PubMed

Nat Methods. 2013 Sep;10(9):813-4 PubMed

Proc Natl Acad Sci U S A. 2009 Dec 1;106(48):20216-21 PubMed

Genome Res. 2011 May;21(5):790-7 PubMed

Nucleic Acids Res. 2013 Jul;41(Web Server issue):W34-40 PubMed

BMC Genomics. 2011 Feb 11;12:106 PubMed

Proc Natl Acad Sci U S A. 2011 Dec 27;108(52):21194-9 PubMed

Genome Res. 2013 Nov;23(11):1874-84 PubMed

J Immunol. 2014 Jan 15;192(2):603-11 PubMed

J Immunol. 2011 Apr 1;186(7):4285-94 PubMed

Proc Natl Acad Sci U S A. 2008 Sep 2;105(35):13081-6 PubMed

Nucleic Acids Res. 2008 Jul 1;36(Web Server issue):W503-8 PubMed

Nat Rev Genet. 2013 Sep;14(9):618-30 PubMed

Eur J Immunol. 2012 Nov;42(11):3073-83 PubMed

Bone Marrow Transplant. 2012 Nov;47(11):1479-81 PubMed

J Immunol. 2002 Mar 15;168(6):3099-104 PubMed

PLoS Pathog. 2012 Sep;8(9):e1002889 PubMed

Front Immunol. 2013 Dec 25;4:463 PubMed

PLoS One. 2013 Jul 23;8(7):e70388 PubMed

Ultrasensitive allele inference from immune repertoire sequencing data with MiXCR

Aberrant adaptive immune response underlies genetic susceptibility to tuberculosis

Convergence, plasticity, and tissue residence of regulatory T cell response via TCR repertoire prism

Clonal structure and the specificity of vaccine-induced T cell response to SARS-CoV-2 Spike protein

Targeted depletion of TRBV9+ T cells as immunotherapy in a patient with ankylosing spondylitis

A novel unconventional T cell population enriched in Crohn's disease

Phenotypic and Clonal Stability of Antigen-Inexperienced Memory-like T Cells across the Genetic Background, Hygienic Status, and Aging

The energy sensor AMPK orchestrates metabolic and translational adaptation in expanding T helper cells

Benchmarking of T cell receptor repertoire profiling methods reveals large systematic biases

Distinct organization of adaptive immunity in the long-lived rodent Spalax galili

Longitudinal high-throughput TCR repertoire profiling reveals the dynamics of T-cell memory formation after mild COVID-19 infection

Functionally specialized human CD4+ T-cell subsets express physicochemically distinct TCRs

Two subsets of stem-like CD8+ memory T cell progenitors with distinct fate commitments in humans

Identification of Disease-associated Traits and Clonotypes in the T Cell Receptor Repertoire of Monozygotic Twins Affected by Inflammatory Bowel Diseases

Primary and secondary anti-viral response captured by the dynamics and phenotype of individual T cell clones

CD4+ T Follicular Helper Cells in Human Tonsils and Blood Are Clonally Convergent but Divergent from Non-Tfh CD4+ Cells

CXCR3 Identifies Human Naive CD8+ T Cells with Enhanced Effector Differentiation Potential

PiggyBac transposon tools for recessive screening identify B-cell lymphoma drivers in mice

Memory CD4+ T cells are generated in the human fetal intestine

Precise tracking of vaccine-responding T cell clones reveals convergent and personalized response in identical twins