The code that accompanies these data is available on GitHub. Data The two rds-format (R Data Serialization) files contain Seurat objects used for analyses. intergrated_Tcells_harmony_bydonor.rds contains all T cells. intergrated_Tfh_harmony_bydonor.rds is a subset of the previous file containing the TFH and Treg lineages. Set2_10x_clones.tsv is paired TCR information for cells from the 10X experiment for all cells in intergrated_Tcells_harmony_bydonor. TwoYear_LN_Bcell_freq_time.csv contains the B cell subset frequencies in the lymph node by time point. Ali_paired_sc_clones_JCC283.tsv contains paired TCR sequences of cTFH and LN TFH cells obtained by single-cell sorting and target PCR. Ali_bulk_allDonor_clones.tsv contains bulk TCR alpha and beta chains of sorted cTFH and LN TFH generated using a 5'-RACE protocol.

bioRxiv 2023.08.29.555186; doi: https://doi.org/10.1101/2023.08.29.555186