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Vaccine and drug ontology in the study of mechanism and effect (VDOSME)

Edited by: Prof Darrell Abernethy, Dr Gully Burns, Dr Yongqun He, Dr Cui Tao, Dr Luca Toldo

Collection published: 20 December 2012

vdosme2012Vaccines and drugs have been critical to prevent and treat human and animal diseases. Vaccines and drugs are closely related in various aspects such as preclinical research and development, manufacturing, clinical trials, government approval and regulation, and post-licensure usage surveillance and monitoring. In a broader scope, vaccine is a special type of drug. Over the last decade, there have been efforts in biomedical ontology that represent various areas associated with vaccines and drugs, which join existing health and clinical terminology systems (e.g., SNOMED, RxNorm, NDF-RT, and MedDRA) in their applications to research and clinical data.

This thematic series aims to provide a platform for discussing problems and solutions in the development and applications of biomedical ontologies to representing and analyzing vaccines/drugs, vaccine/drug administrations, vaccine/drug-induced immune responses, adverse events, and similar topics. Different computational methods, including literature mining of vaccine/drug-gene interaction networks, meta-analysis of host immune responses, time event analysis of adverse events, and Semantic Web applications, have been applied.


Research   Open Access

Identification of fever and vaccine-associated gene interaction networks using ontology-based literature mining

Junguk Hur, Arzucan Özgür, Zuoshuang Xiang, Yongqun He Journal of Biomedical Semantics 2012, 3:18 (20 December 2012)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central

Research   Open Access

Ontology representation and analysis of vaccine formulation and administration and their effects on vaccine immune responses

Yu Lin, Yongqun He Journal of Biomedical Semantics 2012, 3:17 (20 December 2012)

Abstract | Full text | PDF | ePUB | PubMed | Cited on BioMed Central

Research   Open Access

Profiling structured product labeling with NDF-RT and RxNorm

Qian Zhu, Guoqian Jiang, Christopher G Chute Journal of Biomedical Semantics 2012, 3:16 (20 December 2012)

Abstract | Full text | PDF | PubMed

Research   Open Access

Extraction of potential adverse drug events from medical case reports

Harsha Gurulingappa, Abdul Mateen‐Rajput, Luca Toldo Journal of Biomedical Semantics 2012, 3:15 (20 December 2012)

Abstract | Full text | PDF | ePUB | PubMed

Research   Open Access

GalenOWL: Ontology-based drug recommendations discovery

Charalampos Doulaverakis, George Nikolaidis, Athanasios Kleontas, Ioannis Kompatsiaris Journal of Biomedical Semantics 2012, 3:14 (20 December 2012)

Abstract | Full text | PDF | PubMed

Research   Open Access

Ontology-based time information representation of vaccine adverse events in VAERS for temporal analysis

Cui Tao, Yongqun He, Hannah Yang, Gregory A Poland, Christopher G Chute Journal of Biomedical Semantics 2012, 3:13 (20 December 2012)

Abstract | Full text | PDF | PubMed |  Editor’s summary

An ontology-based representation of the Vaccine Adverse Event Reporting System (VAERS) allows the analysis of both structured and narrative data, culminating in improved vaccine safety studies.

Editorial   Open Access

A 2012 Workshop: Vaccine and Drug Ontology in the Study of Mechanism and Effect (VDOSME 2012)

Yongqun He, Luca Toldo, Gully Burns, Cui Tao, Darrell R Abernethy Journal of Biomedical Semantics 2012, 3:12 (18 December 2012)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central


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