SARS-CoV-2 vaccination induces immunological T cell memory able to cross-recognize variants from Alpha to Omicron- Tarke et al.,
Description
Table S4. Related to Figure 4. List of IEDB SARS-CoV-2 T cell epitopes used for the bioinformatic analyses.
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To determine the impact of the selected variants on T cell epitopes, CD4 and CD8 T cell epitopes were extracted from the IEDB database (www.IEDB.org)(Vita et al., 2019) on July 8th 2021 using the following query: Organism: SARS-CoV2 (ID:2697049, SARS2), Include positive assays only, No B cells, No MHC assays, Host: Homo sapiens (human) and either MHC restriction type: Class I for CD8 epitopes or Class II for CD4 epitopes. Additional manual filtering was performed on the extracted datasets allowing only epitopes of 9-14 residues in size for class I and 13-25 residues for class II. This resulted in a total of 446 and 1092 epitopes for CD4 and CD8, respectively.