Epigraph

Design

Antigen Coverage Evaluation

Coverage Distribution of Natural Sequences

Exclude rare epitopes

Characterize Potential T-cell Epitopes

Design: Tailored Therapeutic Vaccine

Evaluation: Tailored Therapeutic Vaccine

Input

Protein sequences [Sample Input]

Options

Algorithm	Unaligned sequence algorithm (Gaps will be removed before calculation if seqs are aligned) Aligned sequence algorithm (Seqs must be the same length. If not, automatically "padded")
Epitope length	8 9 10 11 12
# of seqs in vaccine pool	1 2 3 4 5 6 7 8 9 10
Email results

 Advanced options

# of trials
Random seed
Iterative refinement step	0    10
Vaccine seq names (comma-separated)
Exclude rare epitopes	Exclude rare epitopes, that appear in equal to or fewer than sequences
Tolerance, aka off-by-X	exact match only off-by-1 off-by-2
Exact match bonus
Fixed initial vaccine sequences
Suggested initial vaccine sequences
Evaluate antigen coverage
See coverage distribution of proteins sequences
Compute coverage a range of frequencies of the rarest eitope	(Experiment on trade-off between coverage and minimum frequency of the rarest epitope)
Characterize Potential T-cell Epitopes

Details

• Epigraph Explanation explains the tool, its options and how to interpret your results.

Reference:

• James Theiler, Hyejin Yoon, Karina Yusima, Louis J. Picker, Klaus Frueh, and Bette Korber. Epigraph: A Vaccine Design Tool Applied to an HIV Therapeutic Vaccine and a Pan-Filovirus Vaccine. Sci Rep. 2016 Oct 5;6:33987. doi: 10.1038/srep33987. Pubmed: 27703185.

Related links:

• Mosaic vaccine tool suite