Extended Data Fig. 6: BAL T-Cell Receptor Repertoires.

CDR3 alignments were computed and clonotypes and Shannon diversity of TCRα alignments are shown for each of the BAL clusters. n = 127, 74, 45, and 32 for Clusters 1-4, respectively. TRA clonotypes and shannon diversity varied by cluster (Kruskal-Wallis p = 1.32 × 10-7 and 3.27 × 10-8, respectively). For all box-whisker plots: boxes indicate the median and interquartile range and whiskers extend to the largest value above the 75th percentile (or smallest value below the 25th percentile) that is within 1.5 times the IQR.