VIOLIN: Vaccine Investigation and Online Information Network

Community Efforts

Vaccine Ontology: A community-based effort to develop the Vaccine Ontology (VO) for vaccine data standardization and automated reasoning.

To support vaccine safety and registry, the Ontology of Vaccine Adverse Events (OVAE) and Vaccination Informed Consent Ontology (VICO) are also developed.

VIOLIN News >>

1/12/2024: Our CanVaxKB cancer vaccine knowledgebase was published in NAR Cancer (PMID: 38204924, PMCID: PMC10776203).
12/1/2023: We published a Vaxign-DL BioRxiv paper introducing our Vaxign-DL deep learning program.
11/11/2023: Oliver He presented VIOLIN vaccine knowledgebase in the Knowledge Representation and Semantics Working Group Pre-Symposium (KRS-WG-2023) at AMIA 2023, New Orleans.
10/20-22/2023: Yuanyi "Penny" Pan and Oliver He attended 2023 OHDSI Symposium, East Brunswick, New Jersey, and presented a poster titled "Harmonization of OMOP vaccine-related vocabularies through the Vaccine Ontology".
08/29/2023: Cui, Junguk, and Oliver co-organized the International Workshop on Vaccine and Drug Ontology Studies (VDOS-2023), associated with the ICBO-ONTOBRAS, Brasilia, Brazil, at 08/28-09/01/2023. Our VIOLIN team also presented many papers/studies in VDOS-2023 and the main ICBO-ONTOBRAS conference.
02/28/2023: Asiyah presented the OHDSI Vaccine Vocabulary WG Objectives and Key Results (OKR) in the OHDSI community call on Feb 28, 2023.

Latest Vaccine Publications >>

Wan L, Xie B, Shuda M, Delgoffe G, Chang Y, Moore PS. Engineered protein destabilization reverses intrinsic immune evasion for candidate vaccine pan-strain KSHV and SARS-CoV-2 antigens bioRxiv : the preprint server for biology 2024 [PMID: 39484438]
Ashique S, Biswas A, Mohanto S, Srivastava S, Hussain MS, Ahmed MG, Subramaniyan V. Anthrax: A narrative review New microbes and new infections 62:101501 2024 [PMID: 39497912]

Vaccine News >>

After Trump win, RFK Jr. says he won't 'take away anybody's vaccines'
NBC News 2024-11-06 18:17:09
An Idaho Health Department Is Barred From Offering Covid Shots
The New York Times 2024-11-05 21:49:30
Here’s What An RFK Jr. Health Role In A Trump Administration Could Look Like: Vaccine Skepticism, Fluoride Ban
Forbes 2024-11-06 17:45:07
Novavax, UK terminate vaccine supply agreement
Reuters 2024-11-05 22:22:59
Whooping cough vaccine vigilance is slipping in WA | Op-Ed
The Seattle Times 2024-11-05 22:55:04

Statistics: The VIOLIN vaccine database contains 4708 vaccines or vaccine candidates for 219 pathogens by manual curation from 4982 peer-reviewed papers. It also contains 24,345 vaccine-related abstracts and 10,317 full text documents.

Please cite this publication for VIOLIN:

He Y, Racz R, Sayers S, Lin Y, Todd T, Hur J, Li X, Patel M, Zhao B, Chung M, Ostrow J, Sylora A, Dungarani P, Ulysse G, Kochhar K, Vidri B, Strait K, Jourdian GW, Xiang Z. Updates on the web-based VIOLIN vaccine database and analysis system. Nucleic Acids Research. 2014. 42 (D1): D1124-D1132. doi: 10.1093/nar/gkt1133. First published online: November 19, 2013. [NAR] [PubMed PMID: 24259431] [PDF] [PMCID: PMC3964998]

Or the previous VIOLIN manuscript:

Zuoshuang Xiang, Thomas Todd, Kim P. Ku, Bethany L. Kovacic, Charles B. Larson, Fang Chen, Andrew P. Hodges, Yuying Tian, Elizabeth A. Olenzek, Boyang Zhao, Lesley A. Colby, Howard G. Rush, Janet R. Gilsdorf, George W. Jourdian, Yongqun He. VIOLIN: Vaccine Investigation and Online Information Network. Nucleic Acids Res. 2008 Jan;36(Database issue):D923-8. [NAR] [PubMed PMID: 18025042] [PMCID: PMC2238972] [PDF].

More publications for citing specific VIOLIN programs