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VICO: Ontology-based representation and integrative analysis of Vaccination Informed Consent forms.

Lin Y, Zheng J, He Y - J Biomed Semantics (2016)

Bottom Line: Third, VICO helps manage the complexity of the domain knowledge using logically defined ontological hierarchies and axioms.Fourth, VICO supports efficient query and comparison, e.g., through the Description Language (DL)-Query and SPARQL.Fifth, VICO helps discover new knowledge.

View Article: PubMed Central - PubMed

Affiliation: Unit for Laboratory Animal Medicine, University of Michigan Medical School, Ann Arbor, MI 48109 USA ; Department of Microbiology and Immunology, University of Michigan Medical School, Ann Arbor, MI 48109 USA ; Center for Computational Medicine and Bioinformatics, University of Michigan Medical School, Ann Arbor, MI 48109 USA ; Comprehensive Cancer Center, University of Michigan Medical School, 1301 MSRB III, 1150 W. Medical Dr., Ann Arbor, MI 48109 USA.

ABSTRACT

Background: Although signing a vaccination (or immunization) informed consent form is not a federal requirement in the US and Canada, such a practice is required by many states and pharmacies. The content and structures of these informed consent forms vary, which makes it hard to compare and analyze without standardization. To facilitate vaccination informed consent data standardization and integration, it is important to examine various vaccination informed consent forms, patient answers, and consent results. In this study, we report a Vaccination Informed Consent Ontology (VICO) that extends the Informed Consent Ontology and integrates related OBO foundry ontologies, such as the Vaccine Ontology, with a focus on vaccination screening questionnaire in the vaccination informed consent domain.

Results: Current VICO contains 993 terms, including 248 VICO specific terms and 709 terms imported from 17 OBO Foundry ontologies. VICO ontologically represents and integrates 12 vaccination informed consent forms from the Walgreens, Costco pharmacies, Rite AID, University of Maryland College Park, and the government of Manitoba, Canada. VICO extends Informed Consent Ontology (ICO) with vaccination screening questionnaires and questions. Our use cases and examples demonstrate five usages of VICO. First, VICO provides standard, robust and consistent representation and organization of the knowledge in different vaccination informed consent forms, questionnaires, and questions. Second, VICO integrates prior knowledge, e.g., the knowledge of vaccine contraindications imported from the Vaccine Ontology (VO). Third, VICO helps manage the complexity of the domain knowledge using logically defined ontological hierarchies and axioms. VICO glues multiple schemas that represent complex vaccination informed consent contents defined in different organizations. Fourth, VICO supports efficient query and comparison, e.g., through the Description Language (DL)-Query and SPARQL. Fifth, VICO helps discover new knowledge. For instance, by integrating the prior knowledge imported from the VO with a user's answer to informed consent questions (e.g., allergic reaction question) for a specific vaccination, we can infer whether or not the patient can be vaccinated with the vaccine.

Conclusions: The Vaccination Informed Consent Ontology (VICO) represents entities related to vaccination informed consents with a special focus on vaccination informed consent forms, and questionnaires and questions in the forms. Our use cases and examples demonstrated how VICO could support a platform for vaccination informed consent data standardization, data integration, and data queries.

No MeSH data available.


Related in: MedlinePlus

Top level terms and hierarchical structure of VICO. VICO imports many top level terms from VO and ICO and includes VICO-specific terms as exampled with two VICO terms (bold)
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Fig1: Top level terms and hierarchical structure of VICO. VICO imports many top level terms from VO and ICO and includes VICO-specific terms as exampled with two VICO terms (bold)

Mentions: VICO is a community-driven ontology that crosses both informed consent domain and vaccine domain. In VICO, we extended Informed Consent Ontology (ICO) and Vaccine Ontology (VO) by adding VICO specific terms representing vaccination informed consent forms (Fig. 1). For example, specific VICO terms were generated to represent the vaccination/immunization informed consent forms from different vaccination providers or governments, such as ‘Costco vaccination informed consent form’ (Fig. 1). Another example is ‘vaccination screening questionnaire’, defined as ‘A questionnaire that contains different questions of a vaccination patient’s health history, allergy history, and current condition, in order to assess the contraindication and precaution for administering a vaccine’ in VICO. This term was generated for representing questionnaire embedded in a vaccination informed consent form. The questions for vaccination patients can be answered by the patients themselves, or their legal representatives, prior to a vaccination procedure. VICO defines these questions in a structured logical manner (Fig. 1).Fig. 1


VICO: Ontology-based representation and integrative analysis of Vaccination Informed Consent forms.

Lin Y, Zheng J, He Y - J Biomed Semantics (2016)

Top level terms and hierarchical structure of VICO. VICO imports many top level terms from VO and ICO and includes VICO-specific terms as exampled with two VICO terms (bold)
© Copyright Policy - OpenAccess
Related In: Results  -  Collection

License 1 - License 2
Show All Figures
getmorefigures.php?uid=PMC4837519&req=5

Fig1: Top level terms and hierarchical structure of VICO. VICO imports many top level terms from VO and ICO and includes VICO-specific terms as exampled with two VICO terms (bold)
Mentions: VICO is a community-driven ontology that crosses both informed consent domain and vaccine domain. In VICO, we extended Informed Consent Ontology (ICO) and Vaccine Ontology (VO) by adding VICO specific terms representing vaccination informed consent forms (Fig. 1). For example, specific VICO terms were generated to represent the vaccination/immunization informed consent forms from different vaccination providers or governments, such as ‘Costco vaccination informed consent form’ (Fig. 1). Another example is ‘vaccination screening questionnaire’, defined as ‘A questionnaire that contains different questions of a vaccination patient’s health history, allergy history, and current condition, in order to assess the contraindication and precaution for administering a vaccine’ in VICO. This term was generated for representing questionnaire embedded in a vaccination informed consent form. The questions for vaccination patients can be answered by the patients themselves, or their legal representatives, prior to a vaccination procedure. VICO defines these questions in a structured logical manner (Fig. 1).Fig. 1

Bottom Line: Third, VICO helps manage the complexity of the domain knowledge using logically defined ontological hierarchies and axioms.Fourth, VICO supports efficient query and comparison, e.g., through the Description Language (DL)-Query and SPARQL.Fifth, VICO helps discover new knowledge.

View Article: PubMed Central - PubMed

Affiliation: Unit for Laboratory Animal Medicine, University of Michigan Medical School, Ann Arbor, MI 48109 USA ; Department of Microbiology and Immunology, University of Michigan Medical School, Ann Arbor, MI 48109 USA ; Center for Computational Medicine and Bioinformatics, University of Michigan Medical School, Ann Arbor, MI 48109 USA ; Comprehensive Cancer Center, University of Michigan Medical School, 1301 MSRB III, 1150 W. Medical Dr., Ann Arbor, MI 48109 USA.

ABSTRACT

Background: Although signing a vaccination (or immunization) informed consent form is not a federal requirement in the US and Canada, such a practice is required by many states and pharmacies. The content and structures of these informed consent forms vary, which makes it hard to compare and analyze without standardization. To facilitate vaccination informed consent data standardization and integration, it is important to examine various vaccination informed consent forms, patient answers, and consent results. In this study, we report a Vaccination Informed Consent Ontology (VICO) that extends the Informed Consent Ontology and integrates related OBO foundry ontologies, such as the Vaccine Ontology, with a focus on vaccination screening questionnaire in the vaccination informed consent domain.

Results: Current VICO contains 993 terms, including 248 VICO specific terms and 709 terms imported from 17 OBO Foundry ontologies. VICO ontologically represents and integrates 12 vaccination informed consent forms from the Walgreens, Costco pharmacies, Rite AID, University of Maryland College Park, and the government of Manitoba, Canada. VICO extends Informed Consent Ontology (ICO) with vaccination screening questionnaires and questions. Our use cases and examples demonstrate five usages of VICO. First, VICO provides standard, robust and consistent representation and organization of the knowledge in different vaccination informed consent forms, questionnaires, and questions. Second, VICO integrates prior knowledge, e.g., the knowledge of vaccine contraindications imported from the Vaccine Ontology (VO). Third, VICO helps manage the complexity of the domain knowledge using logically defined ontological hierarchies and axioms. VICO glues multiple schemas that represent complex vaccination informed consent contents defined in different organizations. Fourth, VICO supports efficient query and comparison, e.g., through the Description Language (DL)-Query and SPARQL. Fifth, VICO helps discover new knowledge. For instance, by integrating the prior knowledge imported from the VO with a user's answer to informed consent questions (e.g., allergic reaction question) for a specific vaccination, we can infer whether or not the patient can be vaccinated with the vaccine.

Conclusions: The Vaccination Informed Consent Ontology (VICO) represents entities related to vaccination informed consents with a special focus on vaccination informed consent forms, and questionnaires and questions in the forms. Our use cases and examples demonstrated how VICO could support a platform for vaccination informed consent data standardization, data integration, and data queries.

No MeSH data available.


Related in: MedlinePlus