Fig. 1: A time-resolved model of CD8+ T cell responses tracks expanding and contracting clones in the tumor.
From: A pan-immunotherapy signature to predict intratumoral CD8+ T cell expansions
a Depiction of a multi-site tumor mouse model: Lewis lung carcinoma tumors are implanted simultaneously into the left flank, right flank and left hip of mice. Cells from the tumors are analyzed by bulk TCR-sequencing to identify cells belonging to the same clone. b Scatter plots displaying the frequency of clones (normalized read count of each clone) in the left and right flank tumors of 3 mice excised at the same time (Left) with representative bounds defining expanding and contracting clones overlayed (Right). c Bilateral tumors were excised independently on sequential days in the same mice to track the temporal dynamics of clones in the tumor. d Scatter plots displaying the frequency of clones in tumors on days 14 and 21 from 7 mice (Left) with representative bounds defining expanding and contracting clones overlayed (Right). Clones colored by their expansion dynamics as defined using a beta-binomial model from Rytlewski et al.18. e, f The top 25 largest clones obtained from each mouse on day 14 (e) and 21 (f) with the frequency of each clone on day 14 (empty boxes) and 21 (boxes colored by the clone’s expansion dynamics). Dots represent clones (b, d). Illustrations created with cartoons from BioRender (Ueha, S. (2025) https://BioRender.com/yx373li) and Irasutoya.com (a, c). Source data are provided as a Source Data file.
