Journal
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
Volume 115, Issue 50, Pages 12704-12709Publisher
NATL ACAD SCIENCES
DOI: 10.1073/pnas.1809642115
Keywords
vaccination; high-throughput sequencing; twins; T cell receptor; RepSeq
Categories
Funding
- Russian Science Foundation [15-15-00178]
- Skoltech Systems biology fellowships
- European Research Council [724208]
- Russian Science Foundation [18-15-16013] Funding Source: Russian Science Foundation
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T cell receptor (TCR) repertoire data contain information about infections that could be used in disease diagnostics and vaccine development, but extracting that information remains a major challenge. Here we developed a statistical framework to detect TCR clone proliferation and contraction from longitudinal repertoire data. We applied this framework to data from three pairs of identical twins immunized with the yellow fever vaccine. We identified 600 to 1,700 responding TCRs in each donor and validated them using three independent assays. While the responding TCRs were mostly private, albeit with higher overlap between twins, they could be well-predicted using a classifier based on sequence similarity. Our method can also be applied to samples obtained postinfection, making it suitable for systematic discovery of new infection-specific TCRs in the clinic.
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