About

Introduction

Statistics

VIOLIN News

Your VIOLIN

Register or Login

Submission

Tutorial

Vaccine & Components

Vaxquery

Vaxgen

VBLAST

Vaxjo

Vaxvec

Vaccine Mechanisms

Vaxism

Vaxmod

Vaccine Literature

Litesearch

Vaxpresso

Vaxmesh

Vaxlert

Vaccine Design

Vaxign

Community Efforts

Vaccine Ontology

Advisory Committee

Vaccine Society

Vaxperts

VaxPub

VaxCom

VaxLaw

VaxMedia

VaxMeet

VaxFund

VaxCareer

VIOLIN Wiki

Data Exchange

V-Utilities

VIOLINML

Help & Documents

Documents

FAQs

Links

Acknowledgements

Contact Us

Welcome to Vaxign (beta)!

     Welcome to Vaxign, the vaccine target prediction and analysis program. Vaxign has two programs, one is the Vaxign Query system providing precomputed Vaxign resutls for users to explore, the other is the Dynamic Vaxign Analysis system allowing sequenceinput and dynamic Vaxign calculation and data visualization.

1. Vaxign Query:

     This program allows users to search precomputed results based on the computational Vaxign pipeline. A user can either select a genome and search all positive vaccine targets based on desired parameters, or select a protein sequence(s) from a specific genome and find the possibility of using it (or them) as a vaccine target(s). Please contact us if you would like to have your favorite genome(s) included in the Vaxign genome list.

First select a genome, query a protein (optional), and set up parameters
Select a genome	Brucella abortus 2308 Brucella abortus biovar 1 str. 9-941 Brucella abortus S19 Brucella melitensis 16M Brucella suis 1330 Escherichia coli 536 Escherichia coli CFT073 Escherichia coli F11 Escherichia coli O157:H7 EDL933 Escherichia coli O157:H7 str. Sakai Escherichia coli str. K-12 substr. MG1655 Escherichia coli UTI89 Human immunodeficiency virus 1 Human immunodeficiency virus 2 Measles virus Mycobacterium tuberculosis CDC1551 Mycobacterium tuberculosis H37Rv Neisseria meningitidis MC58 Vaccinia virus Variola virus Yellow fever virus (Required)
Locus Tag	(e.g., BruAb1_0034)
Locus Name	(e.g., SodC)
NCBI GeneID	(e.g., 3340039)
NCBI Protein RefSeq	(e.g., YP_222726.1)
NCBI Protein GI	(e.g., 17988373)
Description	(e.g., superoxide dismutase)
Include Analyses [Select all] [Unselect all] Subcellular localization Transmembrane helices Adhesion probability MHC class I binding MHC class II binding Autoimmunity to human proteins Autoimmunity to mouse proteins
Sort by	NCBI Protein RefSeq NCBI Protein GI Gene Symbol Loalization Loalization Probability Adhesin Probability Protein Note Ascending Descending

2. Dynamic Vaxign Analysis:

     This program allows users to input a protein sequence(s), and the Vaxign web server will dynamically calculate the possibilities of using the protein(s) as vaccine target(s) based on the computational 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 (FASTA format) (e.g., B. abortus sodC for Gram-, Bacillus anthracis PA for Gram+) (Limited to 300 sequences.)

File upload

Bacterium Gram -/+ negative positive

Include Analyses [Select all] [Unselect all] Subcellular localization Transmembrane helices Adhesion probability MHC class I binding MHC class II binding Autoimmunity to human proteins Autoimmunity to mouse proteins

For more information about Vaxign, please check out the Vaxign Documentation.