hodgkin lymphoma scRNAseq analysis

Citation of the publication: Coming soon.

We performed single-cell RNA sequencing of CD3+ and CD3- peripheral blood mononuclear cells (PBMCs) from 20 patients with relapsed/refractory (R/R) cHL who were treated with single-agent PD-1 blockade (nivolumab) at baseline (cycle 1 day 1 [C1D1]) and on therapy (cycle 4 day 1 [C4D1]). These samples were annotated for the patients’ best overall response to PD-1 blockade: complete response (CR), 9 pts; partial response (PR), 5 pts; and progressive disease (PD), 6 pts. PBMCs from 11 patients with newly diagnosed (ND), previously untreated cHL and 13 control healthy donors (HD) were similarly sequenced.

The scripts used to generate the figures are in the scripts folder.

The src folder contains some helper functions.

The data folder contains the BCR called from TRUST4 and TCR data from 10x vdj experiment.