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Vaxign Query
Dynamic Analysis
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Welcome to Vaxign: Vaccine Design!

     Vaxign (Vaccine Design) is a vaccine target prediction and analysis system based on the principle of reverse vaccinology. Two programs exist in Vaxign: (1) Vaxign Query: provide precomputed Vaxign results for users to explore, and (2) Dynamic Vaxign Analysis: allow sequence input and dynamic Vaxign execution and result visualization. NOTE: Vaxign is freely available for the public to use, including commercial usage. For commercial users, you may want to check all licenses for those third-party programs used in Vaxign.

1. Vaxign Query:

     This program allows users to search precomputed Vaxign results for > 100 genomes. A user can either select a genome(s) for all possible vaccine targets based on desired parameters, or query a protein sequence(s) from a genome to find possible vaccine vaccine target(s):

Select a Genome(s), Query a Protein (Optional), and Set up Parameters (Optional)
Select a Genome (Required)
Keywords
Sort by
Filter Options:
1. Select Subcellular Localization
2. Maximum Number of Transmembrane Helices (Note: check box to include)
3. Minimum Adhesin Probability (0-1.0)
4. Have Orthologs in
of the above selected genomes
5.Exclude Proteins having Orthologs in Any of Selected Genome(s)
6. No Similarity to Human Proteins
7. No Similarity to Mouse Proteins
8. MHC Class I & II Epitope Prediction by Vaxitope:
  • P Value Cutoff
  • MHC Host Species
  • MHC Allele
  • Epitope Length
help

     Tips:
To select (or unslect) individual genomes, press Ctrl key and then select; For genome selection in continuous order, you can also use Shift key.

2. Dynamic Vaxign Analysis:

     This program allows users to input a protein sequence(s) and set up parameters. The Vaxign web server will dynamically calculate the possibilities of using the protein(s) as vaccine target(s) using the automatic Vaxign pipeline. It is noted that lengthy computational time may be expected.

Input a Protein Sequence(s), Set up Parameters, and Submit a Job
Protein Sequence(s) (FASTA format, NCBI proten GI or RefSeq Accession Number)
(Examples: Gram- B. abortus SodC, Gram+ Bacillus anthracis PA, 62317454, or YP_016495.2)
(Note: Up to 300 sequences)
Sequence Format
File Upload
Bacterium Gram -/+ (NOT for Virus)
Include Analyses [Select all] [Unselect all]
  • Subcellular Localization
  • Transmembrane Helices
  • Adhesion Probability
  • MHC Class I Binding
  • MHC Class II Binding
  • Similarity to Human Proteins
  • Similarity to Mouse Proteins

Link To: Please see the Vaxign Documentation . Please contact us if you would like to have your favorite genome(s) included in our precomputed Vaxign database. Your suggestions and comments are welcome. Thank you.