Evidence map›Paper›PMID 40832256›Full record

ArticlebioRxiv : the preprint server for biology2025

VO: The Vaccine Ontology.

Jie Zheng, Asiyah Yu Lin, Anthony Huffman, Anna Maria Masci, Rebecca Racz, Guanming Wu, Kallan Roan, Edison Ong, Sirarat Sarntivijai, Joy Hu and 49 more

Abstract readPreprint
PubMed Full text at PMC Publisher
In one paragraph

Article in bioRxiv : the preprint server for biology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

0numbers the graph read from it
0cells of the map it votes in
0citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

0 citing papers in PubMed.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

59 authors.

Jie ZhengUniversity of Michigan, Ann Arbor, MI, USA.ORCID 0000-0002-2999-0103
Asiyah Yu LinUniversity of Michigan, Ann Arbor, MI, USA.
Anthony HuffmanUniversity of Michigan, Ann Arbor, MI, USA.
Anna Maria MasciUniversity of Texas MD Anderson Cancer Center, Houston, TX, USA.
Rebecca RaczUniversity of Michigan, Ann Arbor, MI, USA.ORCID 0000-0002-5487-5692
Guanming WuDivision of Oncological Sciences, Oregon Health & Science University, Portland, OR, United States.
Kallan RoanUniversity of Michigan, Ann Arbor, MI, USA.
Edison OngUniversity of Michigan, Ann Arbor, MI, USA.
Sirarat SarntivijaiIT Research, Development and Medicine, Boehringer Ingelheim GmbH, 88397 Biberach an der Riß, Germany.ORCID 0000-0002-2548-641X
Joy HuUniversity of Michigan, Ann Arbor, MI, USA.
Eliyas AsfawUniversity of Michigan, Ann Arbor, MI, USA.
Hayleigh KahnUniversity of Michigan, Ann Arbor, MI, USA.
Xingxian LiUniversity of Michigan, Ann Arbor, MI, USA.
Xumeng ZhangUniversity of Michigan, Ann Arbor, MI, USA.
Nilufer KosarUniversity of Maryland, College Park, MD, USA.
Jianfu LiMayo Clinic, Jacksonville, FL, USA.ORCID 0000-0002-9949-7007
Warren ManuelUniversity of Texas Health Science Center at Houston, Houston, TX, USA.
Rashmie AbeysingheUniversity of Texas Health Science Center at Houston, Houston, TX, USA.
Hasin RehanaUniversity of North Dakota, Grand Forks, ND, USA.ORCID 0000-0003-2992-6547
Benu BansalUniversity of North Dakota, Grand Forks, ND, USA.
Yuanyi PanUniversity of Michigan, Ann Arbor, MI, USA.
Jinjing GuoUniversity of Michigan, Ann Arbor, MI, USA.ORCID 0000-0003-1590-8014
Virginia HeBrown University, Providence, RI, USA.
Justin SongUniversity of Michigan, Ann Arbor, MI, USA.
Andrey I SeleznevUniversity of Pittsburgh, Pittsburgh, PA, USA.
Katelyn HurRed River High School, Grand Forks, ND, USA.
Anna HeHuron High School, Ann Arbor, MI, USA.
Alexander DavydovThesaurus Health, New York City, NY, USA.
Qi YangIQVIA, Inc., Durham, NC, USA.
Randi VitaLa Jolla Institute for Allergy and Immunology, La Jolla, CA, USA.
Bjoern PetersLa Jolla Institute for Allergy and Immunology, La Jolla, CA, USA.ORCID 0000-0002-8457-6693
Alan RuttenbergUniversity at Buffalo, Buffalo, NY, USA.
Alexander D DiehlUniversity at Buffalo, Buffalo, NY, USA.ORCID 0000-0001-9990-8331
Charles Tapley HoytInstitute of Inorganic Chemistry, RWTH Aachen University, 52074 Aachen, Germany.ORCID 0000-0003-4423-4370
Paola RoncagliaSciBite from Elsevier, BioData Innovation Centre, Wellcome Genome Campus, Hinxton, Cambridge, UK.ORCID 0000-0002-2825-0621
Rachael P HuntleySciBite from Elsevier, BioData Innovation Centre, Wellcome Genome Campus, Hinxton, Cambridge, UK.ORCID 0000-0001-6718-3559
Richard H ScheuermannDivision of Intramural Research, National Library of Medicine, National Institutes of Health, Bethesda, MD, USA.
Melanie CourtotOntario Institute for Cancer Research and University of Toronto, ON, Canada.
Thomas ToddUniversity of Houston, Houston, TX, USA.
Samantha SayersUniversity of Michigan, Ann Arbor, MI, USA.
Fang ChenUniversity of Michigan, Ann Arbor, MI, USA.
Xinna LiUniversity of Michigan, Ann Arbor, MI, USA.ORCID 0000-0002-7461-5628
Feng-Yu YehUniversity of Michigan, Ann Arbor, MI, USA.ORCID 0000-0003-2294-3571
Zuoshuang XiangUniversity of Michigan, Ann Arbor, MI, USA.
Arzucan OzgurUniversity of Michigan, Ann Arbor, MI, USA.
Patricia L WhetzelUniversity of North Carolina at Chapel Hill, Chapel Hill, NC, USA.ORCID 0000-0002-3458-4839
Mark A MusenStanford University, Stanford, CA, USA.
Christopher J MungallLawrence Berkeley National Laboratory, Berkeley, CA, USA.
Wolfgang W LeitnerNational Institute of Allergy and Infectious Diseases (NIAID), National Institutes of Health, Bethesda, MD, USA.ORCID 0000-0003-3125-5922
Licong CuiUniversity of Texas Health Science Center at Houston, Houston, TX, USA.ORCID 0000-0001-5549-8780
Lesley A ColbyUniversity of Michigan, Ann Arbor, MI, USA.
Harry L T MobleyUniversity of Michigan, Ann Arbor, MI, USA.
Brian D AtheyUniversity of Michigan, Ann Arbor, MI, USA.
Gilbert S OmennUniversity of Michigan, Ann Arbor, MI, USA.ORCID 0000-0002-8976-6074
Lindsay G CowellUT Southwestern Medical Center, Dallas, Texas, USA.ORCID 0000-0003-1617-8244
Cui TaoMayo Clinic, Jacksonville, FL, USA.ORCID 0000-0002-4267-1924
Junguk HurUniversity of North Dakota, Grand Forks, ND, USA.ORCID 0000-0002-0736-2149
Barry SmithUniversity at Buffalo, Buffalo, NY, USA.
Yongqun HeUniversity of Michigan, Ann Arbor, MI, USA.ORCID 0000-0001-9189-9661

Funding

Strategic Vision & Impact on Environmental HealthP30ES017885 · NIEHS · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI Dana Dolinoy · 2011 to 2026
$21.3M
HIPC Data Coordinating CenterU01AI167892 · NIAID · LA JOLLA INSTITUTE FOR IMMUNOLOGY · PI Steven H. Kleinstein, Bjoern Peters · 2022 to 2026
$18.7M
Reactome: An Open Knowledgebase of Human Pathways.U24HG012198 · NHGRI · ONTARIO INSTITUTE FOR CANCER RESEARCH · PI Marc E Gillespie, LINCOLN D. STEIN · 2022 to 2026
$7.0M
Michigan Center for Translational Cancer Proteogenomics-Diversity SupplementU24CA271037 · NCI · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI Saravana Mohan Dhanasekaran, Alexey I Nesvizhskii · 2022 to 2026
$4.4M
VIOLIN 2.0: Vaccine Information and Ontology LInked kNowledgebaseU24AI171008 · NIAID · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI Yongqun He, Junguk Hur · 2022 to 2026
$4.2M
i-AKC: Integrated AIRR Knowledge CommonsU24AI177622 · NIAID · UT SOUTHWESTERN MEDICAL CENTER · PI LINDSAY G. COWELL · 2023 to 2026
$4.0M
An informatics framework for SUDEP Risk Marker Identification and Risk AssessmentR01NS116287 · NINDS · UNIVERSITY OF TEXAS HLTH SCI CTR HOUSTON · PI CUI, LICONG · 2020 to 2024
$1.7M
Ontology-based Information Network to Support Vaccine ResearchR01AI081062 · NIAID · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI HE, YONGQUN · 2009 to 2012
$1.1M
Biomedical Terminology Quality Assurance for Enhancing Clinical Queries over Electronic Health RecordsR01LM013335 · NLM · UNIVERSITY OF TEXAS HLTH SCI CTR HOUSTON · PI CUI, LICONG · 2020 to 2021
$663k
Ontology-supported Integrative Analysis and Visualization of Vaccine-induced Pathways and NetworksUH2AI132931 · NIAID · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI HE, YONGQUN, WU, GUANMING · 2019 to 2020
$437k
NCI NIH HHS U24 CA271037NHGRI NIH HHS U24 HG012198NIAID NIH HHS N01 AI040076NIAID NIH HHS R01 AI081062NIAID NIH HHS U01 AI167892NIAID NIH HHS U24 AI171008NIAID NIH HHS U24 AI177622NIAID NIH HHS UH2 AI132931NIEHS NIH HHS P30 ES017885NINDS NIH HHS R01 NS116287NLM NIH HHS R01 LM013335
6 · The paper itself

Abstract

With the widespread use of vaccines in research and clinical settings, there is an urgent need to standardize vaccine representation, integrate information across diverse vaccine types, and support computer-assisted reasoning. Accordingly, we have since 2007 developed the community-based Vaccine Ontology (VO), which aligns with the Basic Formal Ontology and adheres to OBO Foundry principles. VO models ontologically vaccines, vaccine components, vaccine immune responses, vaccine investigation studies and other vaccine-related topics. VO represents more than 10,000 vaccines targeting 289 infectious pathogens and cancers in humans and over 30 nonhuman animal species. VO provides mappings to external resources such as RxNorm, CVX, FDA, and USDA. Various VO use cases exist. VO facilitates vaccine standardization in resources such as the VIOLIN vaccine database, ImmPort, and the Vaccine Adjuvant Compendium (VAC). Semantic queries can be made to query VO. VO has been shown to enhance experimental and clinical vaccine data analysis and vaccine literature mining. Overall, VO standardizes vaccine modeling and representation and greatly supports vaccine AI research in the Semantic Web era.

Indexed as

FAIRontologySemantic WebvaccinationvaccineVaccine OntologyVO

Identifiers

PMID40832256
PMCPMC12363946

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.