Figure 5
From: Analysis of the TCR Repertoire in HIV-Exposed but Uninfected Infants
Antigen specificity of the top 200 clonotypes of HEU (n = 19) and HU (n = 9) cord blood samples. Antigen specificity was determined using the VDJdb database and the following search parameters: (1) full matching of CDR3, T cell receptor beta variable and joining genes (TRBV, TRBJ) sequences, (2) VDJdb confidence score of at least 1, and (3) the following number of allowable substitutions (s = 2), indels (id = 1), and total number of mutations (t = 2). Median frequency of clones per group per antigen species are given as box plots. Dot plots are superimposed with the respective individual clonal frequencies. Each dot represents an individual clone. Expanded clonotypes were defined as clonotypes with a minimum frequency of 0.01 within samples showing a Shannon diversity score of 5.0 or less.
