Fig. 3: Vβ-Jβ rearrangements detected in Lenti-HPV-07-immunized mice. | npj Vaccines

Fig. 3: Vβ-Jβ rearrangements detected in Lenti-HPV-07-immunized mice.

From: T-cell immunity induced and reshaped by an anti-HPV immuno-oncotherapeutic lentiviral vector

Fig. 3

Samples are those detailed in Fig. 2a. a Jβ- and Vβ-gene segment usage in all clonotypes from each sample. For each clonotype, the frequency of Jβ and Vβ usage was determined as detailed in Supplementary Figs. 2 and 3. Jβ and Vβ segment repertoire usage was compared among all mice at all timepoints according to a Jensen-Shannon Divergence model as detailed in Supplementary Figs. 2 and 3 and treated by Multidimensional Scaling (MDS) to represent repertoire usage gene proximity on a 2-dimension plot. b Chord diagrams representing the Jβ and Vβ association of in the top 100 most abundant clonotypes, as defined post boost. Chords are colored according to the Jβ-gene segment. c Heatmap repertoire overlap, showing Jβ and Vβ segment usage in association to CDR3 amino acid sequence of each clonotype, using Morisita’s overlap index. Ctrl Lenti (squares) and Lenti-HPV-07 (circles) groups, pre prime (pink), post prime (blue) and post boost (green) timepoints, and mouse numbers are indicated inside the symbols. Cluster dendrograms indicate the unweighted hierarchical proximities between samples. d Frequencies of the 15 clonotypes shared by all samples at each time point. e Frequencies of clonotypes which exclusively emerged in the Lenti-HPV-07ind/nj-injected mice at each time point and their 3-to-6 sharing levels. Numbers of clonotypes per category are indicated on the right. Median of each violin box is indicated in red.

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