Updates on the web-based VIOLIN vaccine database and analysis system

Yongqun He, Rebecca Racz, Samantha Sayers, Yu Lin, Thomas Todd, Junguk Hur, Xinna Li, Mukti Patel, Boyang Zhao, Monica Chung, Joseph Ostrow, Andrew Sylora, Priya Dungarani, Guerlain Ulysse, Kanika Kochhar, Boris Vidri, Kelsey Strait, George W. Jourdian, Zuoshuang Xiang

Research output: Contribution to journalArticle

32 Scopus citations

Abstract

The integrative Vaccine Investigation and Online Information Network (VIOLIN) vaccine research database and analysis system (http://www.violinet.org) curates, stores, analyses and integrates various vaccine-associated research data. Since its first publication in NAR in 2008, significant updates have been made. Starting from 211 vaccines annotated at the end of 2007, VIOLIN now includes over 3240 vaccines for 192 infectious diseases and eight noninfectious diseases (e.g. cancers and allergies). Under the umbrella of VIOLIN, >10 relatively independent programs are developed. For example, Protegen stores over 800 protective antigens experimentally proven valid for vaccine development. VirmugenDB annotated over 200 'virmugens', a term coined by us to represent those virulence factor genes that can be mutated to generate successful live attenuated vaccines. Specific patterns were identified from the genes collected in Protegen and VirmugenDB. VIOLIN also includes Vaxign, the first web-based vaccine candidate prediction program based on reverse vaccinology. VIOLIN collects and analyzes different vaccine components including vaccine adjuvants (Vaxjo) and DNA vaccine plasmids (DNAVaxDB). VIOLIN includes licensed human vaccines (Huvax) and veterinary vaccines (Vevax). The Vaccine Ontology is applied to standardize and integrate various data in VIOLIN. VIOLIN also hosts the Ontology of Vaccine Adverse Events (OVAE) that logically represents adverse events associated with licensed human vaccines.

Original languageEnglish (US)
Pages (from-to)D1124-D1132
JournalNucleic acids research
Volume42
Issue numberD1
DOIs
Publication statusPublished - Jan 1 2014

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ASJC Scopus subject areas

  • Genetics

Cite this

He, Y., Racz, R., Sayers, S., Lin, Y., Todd, T., Hur, J., ... Xiang, Z. (2014). Updates on the web-based VIOLIN vaccine database and analysis system. Nucleic acids research, 42(D1), D1124-D1132. https://doi.org/10.1093/nar/gkt1133