Affiliations: General Dentistry, The Nippon Dental University
Hospital at Tokyo, Tokyo, Japan | Biomedical Clinical Omics Educational Program, Tokyo
Medical and Dental University, Tokyo, Japan | Department of Bioinformatics, School of Biomedical
Science, Tokyo Medical and Dental University, Tokyo, Japan | Department of Periodontology, The Nippon Dental
University School of Life Dentistry at Tokyo, Tokyo, Japan
Note: [] Corresponding author: Takako Takai-Igarashi, Department of
Bioinformatics, School of Biomedical Science, Tokyo Medical and Dental
University, 1-5-45 Yushima, Bunkyo-Ku, Tokyo, 113-8510 Japan. E-mail:
bio-omix-perio@bioinfo.tmd.ac.jp
Abstract: It is getting familiar that pathway information greatly contributes
to elucidate the molecular basis of human disease with large-scale biological
data. We developed a pathway database for molecular pathology in periodontitis
named 'Pathogenic Pathway Database for Periodontitis'. Periodontitis is an
inflammation disease in periodontal tissue and associated with an increased
health risk of angina, myocardial infarction, and fetal cardiovascular events.
Despite accumulation of biomedical research on periodontitis pathology at the
molecular level, there has been no systematization for biological pathways in
periodontitis. We checked 185 reference papers and extracted causal
relationships among molecules as well as pathways representing molecular
etiology. We also built an ontology that systematizes conceptual terms
associated with the pathways. Besides pathways, our ontology provides cellular
and tissue specific contextual information that is required to represent
pathology at the cellular and tissue specific levels. We implemented in our
database an integrated viewer for the association between pathways and
ontology. Pathogenic Pathway Database for Periodontitis is freely available at
http://bio-omix.tmd.ac.jp/disease/perio/.
Keywords: Pathway database, ontology, pathogenic pathway, periodontitis, alveolar bone resorption
