Spreadsheet: 98c55143-6096-4e2c-a829-4db6316abade
Sheet: Sheet1

Designation | Id assigned to peptide sequence
Sequence | Sequence of the peptide
IFNg ELISPOT (+tests/total) | Number of mice in which peptide-induced IFNg spot forming units were increased 2-fold over unstimulated cells, over the total number of mice tested for that peptide, n.d. = not done.
In vivo CTL | In vivo killing of peptide loaded target cells.  (lo) if less than 50% of the peptide loaded target cells are killed in mice (-) if they are not, n.d. = not done.
RMA-S MHC-binding assay | Relative MHC I binding based on peptide-induced stabilization of H-2kb on RMA-S cells.  (++) if the median fluorescence intensity (MFI) of anti-H-2Kb staining following peptide incubation is within 75% of the TSKB20 (the strongest binder)-induced stabilization.  (+) if the MFI of anti-H-2Kb staining is 25-75% of TSKB20-induced stabilization but more than 2-fold higher than non-peptide loaded RMA-S cells.  (-) if the MFI of the anti-H-2Kb staining is less than twice the level of non-peptide-pulsed cells, n.d. = not done.
[NAME]? | Yes if the peptide sequence matches the H-2Kb 8-mer sequence motif: XXXX[F,Y]XX[A,I,L,T,V,M] or H-2Kb 9-mer sequence motif: XXXXXXXX[A,I,L,T,V,M]
Predicted Kb Binding Affinity (PIC50) | Sequence-based, computationally derived disassociation constant value for the peptide w/ H-2Kb MHC (smaller value indicates higher binding affinity, maximum of 500nM [2].
Predicted Kb Binding Free Energy Score | Structure-based, computationally derived free energy score for the peptide w/ H-2Kb MHC (8-mers or 9-mers only, smaller value indicates tighter conformation, prediction by PREDEP [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 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.
# CL Brener 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 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 [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
2.  Gulukota, K., [NAME], [NAME], and [NAME]. 1997. Two complementary methods for predicting peptides binding major histocompatibility complex
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]