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Ontology-Based Vaccine Adverse Event Representation and Analysis.
Xie J, He Y. Xie J, et al. Adv Exp Med Biol. 2017;1028:89-103. doi: 10.1007/978-981-10-6041-0_6. Adv Exp Med Biol. 2017. PMID: 29058218 Review.
To represent and analyze vaccine adverse events (VAEs), our research group has initiated and led the development of a community-based ontology: the Ontology of Adverse Events (OAE) (He et al., J Biomed Semant 5:29, 2014). The OAE has been found to have advant …
To represent and analyze vaccine adverse events (VAEs), our research group has initiated and led the development of a community-based …
Vaccine and Drug Ontology Studies (VDOS 2014).
Tao C, He Y, Arabandi S. Tao C, et al. J Biomed Semantics. 2016 Feb 25;7:6. doi: 10.1186/s13326-015-0039-8. eCollection 2016. J Biomed Semantics. 2016. PMID: 26918107 Free PMC article.
The "Vaccine and Drug Ontology Studies" (VDOS) international workshop series focuses on vaccine- and drug-related ontology modeling and applications. ...The five full-length papers included in this 2014 thematic issue focus on two main themes: (i) Gene …
The "Vaccine and Drug Ontology Studies" (VDOS) international workshop series focuses on vaccine- and drug-related on
Ontology-supported research on vaccine efficacy, safety and integrative biological networks.
He Y. He Y. Expert Rev Vaccines. 2014 Jul;13(7):825-41. doi: 10.1586/14760584.2014.923762. Epub 2014 Jun 7. Expert Rev Vaccines. 2014. PMID: 24909153 Free PMC article. Review.
Several community-based ontologies (including Vaccine Ontology, Ontology of Adverse Events and Ontology of Vaccine Adverse Events) have been developed to support vaccine and adverse event representation, classification, data integration, …
Several community-based ontologies (including Vaccine Ontology, Ontology of Adverse Events and Ontology of Va
VIO: ontology classification and study of vaccine responses given various experimental and analytical conditions.
Ong E, Sun P, Berke K, Zheng J, Wu G, He Y. Ong E, et al. BMC Bioinformatics. 2019 Dec 23;20(Suppl 21):704. doi: 10.1186/s12859-019-3194-6. BMC Bioinformatics. 2019. PMID: 31865910 Free PMC article.
Different experimental and analysis conditions were likely contributed to the observed differences. To investigate this issue, we developed a Vaccine Investigation Ontology (VIO), and applied VIO to classify the different variables and relations among these variable …
Different experimental and analysis conditions were likely contributed to the observed differences. To investigate this issue, we developed …
Ontology-based Precision Vaccinology for Deep Mechanism Understanding and Precision Vaccine Development.
Xie J, Zi W, Li Z, He Y. Xie J, et al. Curr Pharm Des. 2021;27(7):900-910. doi: 10.2174/1381612826666201125112131. Curr Pharm Des. 2021. PMID: 33238868 Review.
The Vaccine Ontology (VO) and Ontology of Vaccine Adverse Events (OVAE) have been developed to support the standard representation of vaccines, vaccine components, vaccinations, host responses, and vaccine adverse events. Many other biome …
The Vaccine Ontology (VO) and Ontology of Vaccine Adverse Events (OVAE) have been developed to support the stand …
Ontology-based literature mining of E. coli vaccine-associated gene interaction networks.
Hur J, Özgür A, He Y. Hur J, et al. J Biomed Semantics. 2017 Mar 14;8(1):12. doi: 10.1186/s13326-017-0122-4. J Biomed Semantics. 2017. PMID: 28288685 Free PMC article.
METHODS: In this study, we first extended the Vaccine Ontology (VO) to semantically represent various E. coli vaccines and genes used in the vaccine development. ...Using VO, INO, and normalized E. coli gene names, we applied an ontology-based SciMiner …
METHODS: In this study, we first extended the Vaccine Ontology (VO) to semantically represent various E. coli vaccines and gen …
Emerging vaccine informatics.
He Y, Rappuoli R, De Groot AS, Chen RT. He Y, et al. J Biomed Biotechnol. 2010;2010:218590. doi: 10.1155/2010/218590. Epub 2011 Jun 15. J Biomed Biotechnol. 2010. PMID: 21772787 Free PMC article. Review.
Vaccine informatics is an emerging research area that focuses on development and applications of bioinformatics methods that can be used to facilitate every aspect of the preclinical, clinical, and postlicensure vaccine enterprises. ...Computational literature minin
Vaccine informatics is an emerging research area that focuses on development and applications of bioinformatics methods that can be u
Mining of vaccine-associated IFN-gamma gene interaction networks using the Vaccine Ontology.
Ozgür A, Xiang Z, Radev DR, He Y. Ozgür A, et al. J Biomed Semantics. 2011 May 17;2 Suppl 2(Suppl 2):S8. doi: 10.1186/2041-1480-2-S2-S8. J Biomed Semantics. 2011. PMID: 21624163 Free PMC article.
Our recent study demonstrated the power of a literature-based discovery method in extraction and comparison of the IFN-gamma and vaccine-mediated gene interaction networks. The Vaccine Ontology (VO) contains a hierarchy of vaccine names. It is hypothes …
Our recent study demonstrated the power of a literature-based discovery method in extraction and comparison of the IFN-gamma and vaccine
Ontology representation and analysis of vaccine formulation and administration and their effects on vaccine immune responses.
Lin Y, He Y. Lin Y, et al. J Biomed Semantics. 2012 Dec 20;3(1):17. doi: 10.1186/2041-1480-3-17. J Biomed Semantics. 2012. PMID: 23256535 Free PMC article.
RESULTS: In this report, the detailed classification and definitions of vaccine components and vaccine administration processes are represented using OWL within the framework of the Vaccine Ontology (VO). Different use cases demonstrate how different …
RESULTS: In this report, the detailed classification and definitions of vaccine components and vaccine administration processe …
Ontology-based Brucella vaccine literature indexing and systematic analysis of gene-vaccine association network.
Hur J, Xiang Z, Feldman EL, He Y. Hur J, et al. BMC Immunol. 2011 Aug 26;12:49. doi: 10.1186/1471-2172-12-49. BMC Immunol. 2011. PMID: 21871085 Free PMC article.
BACKGROUND: Vaccine literature indexing is poorly performed in PubMed due to limited hierarchy of Medical Subject Headings (MeSH) annotation in the vaccine field. Vaccine Ontology (VO) is a community-based biomedical ontology that represents var …
BACKGROUND: Vaccine literature indexing is poorly performed in PubMed due to limited hierarchy of Medical Subject Headings (MeSH) ann …
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