Fig. 3. Trajectories of S-reactive clonotypes defined by AIM-scTCRɑβ-seq differentiate CD4⁺ and CD8⁺ T cells.

(a) Unsupervised hierarchical clustering of S-reactive clonotypes identified by CD69⁺CD137⁺ CD69⁺CD137⁺ AIM-scTCRɑβ-seq based on cosine similarity of their E00, E01, E02, E03, E05 log productive frequency showing five major trajectory types: minimal proliferation (Group 1), proliferation at E02 followed by contraction (Group 2), proliferation at E03 (Group 3), proliferation at E02 without contraction (Group 4) or proliferation at E02 and E03 (Group 5). Mean trajectory with each group is shown as a dashed line. (b) The percentage of clonotypes per participant by trajectory group for CD4⁺ and CD8⁺ T_S cells in the 11 participants with CD69⁺CD137⁺ AIM-scTCRɑβ-seq phenotyping and PBMC sampling at all 5 visits (E00-E05).