Figure 2. Transcriptional profiling of bronchoalveolar lavage (BAL) fluid T cell populations.

(A) MA plot comparing the gene expression profile of Teff-mem and Treg cells. Genes of interest are annotated. (B) Hierarchical clustering of 1,320 genes with an absolute log₂(fold-change) ≥ 2. Log₂-transformed counts per million are scaled as Z scores across rows. Genes of interest are annotated. FC, fold-change. (C) Gene set enrichment plots testing for enrichment of the gene sets GSE22045_TREG_VS_TCONV_DN and GSE22045_TREG_VS_TCONV_UP, with genes ordered by log₂ difference in average expression comparing Teff-mem versus Treg cells. Normalized enrichment scores (NES) and false discovery rate (FDR) q values are shown. Data represent average values of 3 replicates for each cell type obtained from 3 individual participants.