Supplementary Figure 6: Insert figure title here by deleting or overwriting this text; keep title to a single sentence.
From: Predicting HLA class II antigen presentation through integrated deep learning
(a) Comparisons of interacting residues in HLA-DRB1*01:01 and HLA-DRB1*04:04 alleles. Two alleles differ in 7 out of 19 amino acid positions which potentially interact with peptide ligands. (b) Surface HLA-DR, HLA-I, and Immunoglobulin M (IgM) densities of K562 cell lines after lentiviral transductions. Transduced K562 cell lines are HLA-DR positive and HLA-I negative. K562 cell HLA-DR densities are substantially lower than B-cell lines (JeKo-1 and HBL-1). (c) HLA-DR densities after sorting and antibiotic selection. Transduced K562 cell lines were sorted for the top 1% expression for HLA-DR densities and grown in selective media (2ug/ml puromycin). The sorted mono-allelic K562 cells for DRB1*01:01 and DRB1*04:04 have higher HLA-DR densities (~10 fold increase compared to the unsorted populations). Two flow cytometry profiling experiments were conducted for each K562 cell line in (b) and (c). (d) Overlaps of K562 DRB1*01:01 and DRB1*04:04 peptide ligand sequences. Ligands from these two alleles overlap 15% when counting identical peptide sequences only and 31% when including peptides which are substrings of each other (Fig. 3a).
