WEB INFORMATION SYSTEM FOR THE STUDY OF ORAL HEALTH

José Melo, Joel P. Arrais, Pedro Lopes, Nuno Rosa, Maria José Correia, Marlene Barros, José Luis Oliveira

2012

Abstract

The human oral cavity is a complex ecosystem where multiple interactions occur and whose comprehension is critical to understand several disease mechanisms. In order to comprehend the composition of the oral cavity at a molecular level, it is needed to compile and integrate the biological information resulting from specific techniques, especially from proteomic studies of saliva. The objective for this work was to compile and curate a specific group of proteins related to the oral cavity, providing a tool to conduct further studies over the salivary proteome. Despite previous efforts to identify the protein components of saliva in healthy individuals and in several oral and systemic disorders, a resource compiling and reviewing all of these proteins is still lacking. In this paper we present a platform that integrates in a single endpoint all available information for proteins associated with the oral cavity. The proposed tool allows researchers in the biomedical sciences to explore organisms, proteins and diseases, constituting a unique tool to analyse meaningful interactions for oral health.

References

  1. Bairoch, A., Apweiler, R., Wu, C. H., Barker, W. C., Boeckmann, B., Ferro, S., Gasteiger, E., Huang, H., Lopez, R. & Magrane, M. 2005. The universal protein resource (UniProt). Nucleic acids research, 33, D154.
  2. Barbosa, A. C. P., Porto, F. a. M. & Melo, R. N. 2002. Configurable data integration middleware system. Journal of the Brazilian Computer Society, 8, 12-19.
  3. Chen, T., Yu, W. H., Izard, J., Baranova, O. V., Lakshmanan, A. & Dewhirst, F. E. 2010. The Human Oral Microbiome Database: a web accessible resource for investigating oral microbe taxonomic and genomic information. Database: the journal of biological databases and curation, 2010.
  4. Cherry, J. M., Adler, C., Ball, C., Chervitz, S. A., Dwight, S. S., Hester, E. T., Jia, Y., Juvik, G., Roe, T. Y. & Schroeder, M. 1998. SGD: Saccharomyces genome database. Nucleic acids research, 26, 73.
  5. D O'connor, B., Day, A., Cain, S., Arnaiz, O., Sperling, L. & Stein, L. D. 2008. GMODWeb: a web framework for the Generic Model Organism Database. Genome Biology, 9, R102.
  6. De Almeida, P. V., Gregio, A., Machado, M., De Lima, A. & Azevedo, L. R. 2008. Saliva composition and functions: a comprehensive review. J Contemp Dent Pract, 9, 72-80.
  7. Fokkema, I. F. a. C., Den Dunnen, J. T. & Taschner, P. E. M. 2005. LOVD: Easy creation of a locus specific sequence variation database using an “LSDB in a box” approach. Human mutation, 26, 63-68.
  8. Giusti, L., Bazzichi, L., Baldini, C., Ciregia, F., Mascia, G., Giannaccini, G., Del Rosso, M., Bombardieri, S. & Lucacchini, A. 2007. Specific proteins identified in whole saliva from patients with diffuse systemic sclerosis. The Journal of Rheumatology, 34, 2063.
  9. Gonçalves, L. D. R., Soares, M. R., Nogueira, F., Garcia, C., Camisasca, D. R., Domont, G., Feitosa, A. C. R., Pereira, D. A., Zingali, R. B. & Alves, G. 2010. Comparative proteomic analysis of whole saliva from chronic periodontitis patients. Journal of proteomics, 73, 1334-1341.
  10. Greabu, M., Battino, M., Mohora, M., Totan, A., Didilescu, A., Spinu, T., Totan, C., Miricescu, D. & Radulescu, R. 2009. Saliva-a diagnostic window to the body, both in health and in disease. J Med Life, 2, 124-132.
  11. Helmerhorst, E. & Oppenheim, F. 2007. Saliva: a dynamic proteome. Journal of dental research, 86, 680.
  12. Hu, S., Wang, J., Meijer, J., Ieong, S., Xie, Y., Yu, T., Zhou, H., Henry, S., Vissink, A. & Pijpe, J. 2007. Salivary proteomic and genomic biomarkers for primary Sjögren's syndrome. Arthritis & Rheumatism, 56, 3588-3600.
  13. Humbertclaude, V., Tuffery-Giraud, S., Ben Yaou, R., Hamroun, D., Khau Van Kien, P., Leturcq, F., Chelly, J., Claustres, M. & Béroud, C. 2007. G.P.9.10 Clinical development of the French UMD-DMD database. Neuromuscular Disorders, 17, 817-818.
  14. Lamster, I. B., Lalla, E., Borgnakke, W. S. & Taylor, G. W. 2008. The relationship between oral health and diabetes mellitus. The Journal of the American Dental Association, 139, 19S.
  15. Livnat, G., Bentur, L., Kuzmisnsky, E. & Nagler, R. 2010. Salivary profile and oxidative stress in children and adolescents with cystic fibrosis. Journal of Oral Pathology & Medicine, 39, 16-21.
  16. Lopes, P., Dalgleish, R. & Oliveira, J. L. 2011. WAVe: web analysis of the variome. Human mutation.
  17. Maglott, D., Ostell, J., Pruitt, K. D. & Tatusova, T. 2005. Entrez Gene: gene-centered information at NCBI. Nucleic acids research, 33, D54.
  18. Mering, C., Huynen, M., Jaeggi, D., Schmidt, S., Bork, P. & Snel, B. 2003. STRING: a database of predicted functional associations between proteins. Nucleic acids research, 31, 258.
  19. Nagler, R. M. 2009. Saliva as a tool for oral cancer diagnosis and prognosis. Oral oncology, 45, 1006- 1010.
  20. Nelson, K. E., Weinstock, G. M., Highlander, S. K., Worley, K. C., Creasy, H. H. H., Wortman, J. R. R., Rusch, D. B., Mitreva, M., Sodergren, E. & Chinwalla, A. T. 2010. A catalog of reference genomes from the human microbiome. Science (New York, NY), 328, 994-999.
  21. Rao, P. V., Reddy, A. P., Lu, X., Dasari, S., Krishnaprasad, A., Biggs, E., Roberts Jr, C. T. & Nagalla, S. R. 2009. Proteomic identification of salivary biomarkers of type-2 diabetes. Journal of Proteome Research, 8, 239-245.
  22. Rudney, J., Staikov, R. & Johnson, J. 2009. Potential biomarkers of human salivary function: a modified proteomic approach. Archives of oral biology, 54, 91- 100.
  23. Santos, R. J. & Bernardino, J. 2008. Real-time data warehouse loading methodology. Proceedings of the 2008 international symposium on Database engineering \&\#38; applications. Coimbra, Portugal: ACM.
  24. Seymour, G. J., Cullinan, M. P. & Heng, N. C. 2010. Oral Biology: Molecular Techniques and Applications (Methods in Molecular Biology), Humana Press.
  25. Shpitzer, T., Hamzany, Y., Bahar, G., Feinmesser, R., Savulescu, D., Borovoi, I., Gavish, M. & Nagler, R. 2009. Salivary analysis of oral cancer biomarkers. British journal of cancer, 101, 1194-1198.
  26. Streckfus, C. F., Mayorga-Wark, O., Arreola, D., Edwards, C., Bigler, L. & Dubinsky, W. P. 2008. Breast cancer related proteins are present in saliva and are modulated secondary to ductal carcinoma in situ of the breast. Cancer investigation, 26, 159-167.
  27. Swertz, M., Dijkstra, M., Adamusiak, T., Van Der Velde, J., Kanterakis, A., Roos, E., Lops, J., Thorisson, G., Arends, D. & Byelas, G. 2010. The MOLGENIS toolkit: rapid prototyping of biosoftware at the push of a button. BMC Bioinformatics, 11, S12.
  28. Wong, D. T. 2006. Salivary diagnostics powered by nanotechnologies, proteomics and genomics. The Journal of the American Dental Association, 137, 313.
  29. Xie, H., Onsongo, G., Popko, J., De Jong, E. P., Cao, J., Carlis, J. V., Griffin, R. J., Rhodus, N. L. & Griffin, T. J. 2008. Proteomics analysis of cells in whole saliva from oral cancer patients via value-added threedimensional peptide fractionation and tandem mass spectrometry. Molecular & Cellular Proteomics, 7, 486.
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Paper Citation


in Harvard Style

Melo J., P. Arrais J., Lopes P., Rosa N., Correia M., Barros M. and Oliveira J. (2012). WEB INFORMATION SYSTEM FOR THE STUDY OF ORAL HEALTH . In Proceedings of the International Conference on Health Informatics - Volume 1: HEALTHINF, (BIOSTEC 2012) ISBN 978-989-8425-88-1, pages 97-105. DOI: 10.5220/0003785300970105


in Bibtex Style

@conference{healthinf12,
author={José Melo and Joel P. Arrais and Pedro Lopes and Nuno Rosa and Maria José Correia and Marlene Barros and José Luis Oliveira},
title={WEB INFORMATION SYSTEM FOR THE STUDY OF ORAL HEALTH},
booktitle={Proceedings of the International Conference on Health Informatics - Volume 1: HEALTHINF, (BIOSTEC 2012)},
year={2012},
pages={97-105},
publisher={SciTePress},
organization={INSTICC},
doi={10.5220/0003785300970105},
isbn={978-989-8425-88-1},
}


in EndNote Style

TY - CONF
JO - Proceedings of the International Conference on Health Informatics - Volume 1: HEALTHINF, (BIOSTEC 2012)
TI - WEB INFORMATION SYSTEM FOR THE STUDY OF ORAL HEALTH
SN - 978-989-8425-88-1
AU - Melo J.
AU - P. Arrais J.
AU - Lopes P.
AU - Rosa N.
AU - Correia M.
AU - Barros M.
AU - Oliveira J.
PY - 2012
SP - 97
EP - 105
DO - 10.5220/0003785300970105