This track shows data from Braun et al, 2020,
"Presence of SARS-CoV-2 reactive T cells in COVID-19 patients and healthy donors".
The authors stimulated PBMCs with two sets (M1 and M2) of overlapping SARS-CoV peptide pools.
Importantly, these are SARS-CoV peptides that have experimental support as putative MHC-II
epitopes for SARS-CoV, but note they do not all 100% match SARS-Cov-2 sequence.
Using these peptide sets, the authors "demonstrate the presence of S-reactive CD4+ 52
T cells in 83% of COVID-19 patients, 53 as well as in 34% of SARS-CoV-2 seronegative
healthy donors (HD), albeit at lower frequencies."
Display Conventions and Configuration
Two tracks are available:
- M1_peptides: The more N-terminal peptide library
- M2 peptides: The more C-terminal peptide library
The annotated interval represents the alignment of the peptide to the viral
genome. The sequence displayed in the name is the SARS-CoV peptide sequence (the actual
sequence that was used in the paper, not necessarily
identical to the SARS-CoV-2 peptide).
Table S1 contains the peptide sequences (SARS-CoV sequence) used. This table was
downloaded and tblastn was used to align the identified SARS-CoV peptides to the SARS-CoV-2 genome.
A small number of peptides were not found or reported erroneous hits, in which the coordinates
were identified by manually blat-ing the SARS-CoV-2 sequence from the alignments reported in Fig S1.
Braun et al, 2020.
"Presence of SARS-CoV-2 reactive T cells in COVID-19 patients and healthy donors"