Spreadsheet: 77280b9c-58da-412c-836c-7b07b255d3ef
Sheet: Sheet1

Designation | Id assigned to peptide sequence
Sequence | Sequence of the peptide
IFNg ELISPOT (+tests/total) | Number of subjects in which peptide-induced IFNg spot forming units were increased 2-fold over unstimulated cells, over the total number of subjects tested for that peptide.
# Specific Spots Range | Presented range of specific spot numbers was calculated from positive IFNg ELISPOT responses only
HLA-A2 Binding Motif? | Yes if the peptide sequence matches [NAME] 9-mer sequence motif: XXXXXXXX[A,I,L,T,V,M]
HLA-A2 Binding Affinity (IC50) | Experimentally derived disassociation constant value for the peptide w/ [NAME] supertype (smaller value indicates higher binding affinity, [NAME]. [7])  followed by the number of alleles of the A2 supertype bound in parenthesis.
Predicted HLA-A2 Binding Free Energy Score | Structure-based, computationally derived free energy score for the peptide w/ HLA-A2 MHC (9-mers only, smaller value indicates tighter conformation) [3].
# Occurrences in TSC CL Brener Raw Sequence Reads (3 Frames) | The number of occurrences of the peptide in the 1,131,562 raw sequence reads in the TSC CL Brener strain T cruzi genome. The occurrences were determined by using TBLASTN of the peptides (amino acid sequence) against the reads (DNA sequences) and counting the exact matches in any reading frame.
# Occurrences in TSC CL Brener Annotated trans-sialidase Genes | The number of occurrences of the peptide in the 735 annotated trans-sialidase genes (no pseudogenes) in the TSC CL Brener strain T cruzi genome. The occurrences were determined by using BLASTP of the peptides (amino acid sequence) against the genes (amino acid sequence) and counting the exact matches.
# Occurrences in TSC CL Brener trans-sialidase Pseudogenes (3 Frames) | The number of occurrences of the peptide in the 695 annotated trans-sialidase pseudogenes in the TSC CL Brener strain T cruzi genome. The occurrences were determined by using TBLASTN of the peptides (amino acid sequence) against the pseudogenes (DNA sequences) and counting the exact matches.
# CL Brener trans-sialidase Genes w/ Predicted GPI Anchor | The number of trans-sialidase genes in the TSC CL Brener strain T cruzi genome containing the peptide that are predicted to contain a GPI anchor (using DGPI [4]).
# CL Brener trans-sialidase Genes w/ Predicted Signal Peptide | The number of trans-sialidase genes in the TSC CL Brener strain T cruzi genome containing the peptide that are predicted to contain a signal peptide (using SignalP 2.0 [5] hidden [NAME] model).
# Occurrences in TSC CL Brener Whole Proteome | The number of genes in the TSC CL Brener strain T cruzi genome containing the peptide that were identified in the T cruzi proteome (Atwood et al. [6])
# Occurrences in TSC CL Brener Amastigote Proteome | The number of genes in the TSC CL Brener strain T cruzi genome containing the peptide that were identified with high-confidence in the amastigote life-cycle stage in the T cruzi proteome.
# Occurrences in TSC CL Brener Trypomastigote Proteome | The number of genes in the TSC CL Brener strain T cruzi genome containing the peptide that were identified with high-confidence in the trypomastigote life-cycle stage in the T cruzi proteome.
# Occurrences in TSC CL Brener Metacyclic Proteome | The number of genes in the TSC CL Brener strain T cruzi genome containing the peptide that were identified with high-confidence in the metacyclic life-cycle stage in the T cruzi proteome.
# Occurrences in TSC CL Brener Epimastigote Proteome | The number of genes in the TSC CL Brener strain T cruzi genome containing the peptide that were identified with high-confidence in the epimastigote life-cycle stage in the T cruzi proteome.
REFERENCES
3. Altuvia, [NAME] and [NAME]. 2004. A structure-based approach for prediction of MHC-binding peptides. Methods 34:454-9.
4. [NAME], J. and D. Buloz, (1999), "Detection/prediction of GPI cleavage site (GPI-anchor) in a protein (DGPI)", Retrieved [retrieve date] from http://129.194.185.165/dgpi/
5. [NAME], H., and [NAME].  Prediction of signal peptides and signal anchors by a hidden [NAME] model.1998.  In Proceedings of the Sixth International Conference on Intelligent Systems for Molecular Biology (ISMB 6 ), AAAI Press, Menlo Park, California, pp. 122—130.
6.  [NAME], J. A., 3rd, [NAME], [NAME], [NAME], [NAME], [NAME] | Opperdoes, [NAME], and [NAME]. 2005. The Trypanosoma cruzi proteome. Science 309:473.
7.  Sidney, J., S. Southwood, [NAME], [NAME]. [NAME], [NAME].  2001 Majority of peptides binding HLA-A*0201 with high affinity | crossreact with other A2-supertype molecules.  Hum Immunol 62:1200-1216.