Extended Data Fig. 8: Antigen processing and presentation machinery is upregulated in tumor microenvironment in responders.
From: Autologous T cell therapy for PRAME+ advanced solid tumors in HLA-A*02+ patients: a phase 1 trial
Gene expression analysis for the antigen processing and presentation machinery gene set was performed via RNAseq obtained from matching pre-treatment (Pre) and post-treatment day 42 (D42) tissue biopsies from five responder and three non-responder patients. Gene expression was provided as log2(transcript per million [TPM]) and a gene specific pseudocount. Gene products upregulated more than twofold difference were marked with green while the ones downregulated more than twofold marked with red. The antigen processing and presentation machinery gene set contains the following genes: ABCB9, ACE, AZGP1, B2M, CALR, CLEC4A, ERAP1, ERAP2, FCER1G, FCGR1A, HFE, HLA-A, IDE, IFI30, IKBKB, LNPEP, MFSD6, MR1, PDIA3, SAR1B, TAP1, TAP2, TAPBP, and TAPBPL. NR: non-responder; P: patient; R: responder.
