Use of the Ontocancer Ontology to Validate the Involvement of Genes with Cancer Progression Barrier
Abstract
An important question involving the study of the human genome refers to research into the expression of genes involved in cancer formation. The Ontocancro 2.0 was developed to assist with this task and provide data integration related to pathways of genome maintenance mechanisms (GMM). Allied to it is an algorithm for statistical analysis of the values of diversity and relative activity. The purpose of this article is to demonstrate how Ontocancro can demonstrate quantitatively the results obtained by studies that describe a barrier to progress of cancer in precancerous lesions.References
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Castro, M. A. A., Mombach, J. C. M., De Almeida, R. M. C. and Moreira, J. C. F. (2007). Impaired expression of NER gene network in sporadic solid tumors. Nucleic acids research, v. 35, n. 6, p. 1859–67.
Galamb, O., Spisák, S., Sipos, F., et al. (2010). Reversal of gene expression changes in the colorectal normal-adenoma pathway by NS398 selective COX2 inhibitor. British journal of cancer, v. 102, n. 4, p. 765–73.
GEO (2013). Gene Expression Omnibus. Disponível em [link]
Giordano, T. J., Au, A. Y. M., Kuick, R., et al. (2006). Delineation, functional validation, and bioinformatic evaluation of gene expression in thyroid follicular carcinomas with the PAX8-PPARG translocation. Clinical cancer research, v. 12, n. 7 Pt 1, p. 1983–93.
Giordano, T. J., Kuick, R., Else, T., et al. (2009). Molecular classification and prognostication of adrenocortical tumors by transcriptome profiling. Clinical cancer research, v. 15, n. 2, p. 668–76.
Gohlmann, H. and Talloen, W. (2009). Gene Expression Studies Using Affymetrix Microarrays. New York: Chapman and Hall/CRC. p. 359
Gruber, T. R. (1993). Toward principles for the design of ontologies used for knowledge sharing. [N. Guarino & R. Poli, Eds.]In Formal ontology in conceptual analysis and knowledge representation.. Kluwer Academic.
Halazonetis, T. D., Gorgoulis, V. G. and Bartek, J. (2008). An oncogene-induced DNA damage model for cancer development. Science (New York, N.Y.), v. 319, n. 5868, p. 1352–55.
Hiraoka, N., Yamazaki-Itoh, R., Ino, Y., et al. (2011). CXCL17 and ICAM2 are associated with a potential anti-tumor immune response in early intraepithelial stages of human pancreatic carcinogenesis. Gastroenterology, v. 140, n. 1, p. 310–21.
Hood, L.; Heath, J. R.; Phelps, M. E.; Lin, B. Systems Biology and New Technologies Enable Predictive and Preventative Medicine, Science, v.306, p. 640-43, 2004 Librelotto, G. R., Mombach, J. C., Sinigaglia, M., et al. (2009). An Ontology to Integrate Transcriptomics and Interatomics Data Involved in Gene Pathways of Genome Stability. Springer Berlin Heidelberg. v. 5676p. 164–167
Loeb, L. A. (2001). A mutator phenotype in cancer. Cancer research, v. 61, n. 8, p. 3230–9.
Pereira, R. T. (2011). Desenvolvimento de uma Ferramenta para a Análise de Vias de Estabilidade Genômica.
Pereira, R. T. (2012). Utilizando a Ontocancro para traçar o perfil das vias de manutenção da estabilidade genômica. WIM 2012. Disponível em [link]
Simão, É. M., Cabral, H. B., Castro, M. A. A., et al. (2010). Modeling the Human Genome Maintenance network. Physica A: Statistical Mechanics and its Applications, v. 389, n. 19, p. 4188–4194.
Simão, É. M. (2012). Dinâmica da Transição Pré-Câncer para Câncer: Estudo da Expressão de Vias de Manutenção do Genoma. Universidade Federal de Santa Maria.
Watson, J. D. (1990). The human genome project: past, present, and future. Science (New York, N.Y.), v. 248, n. 4951, p. 44–9.
Published
2014-07-28
How to Cite
FALCADE, Laís; SOARES, Karlise; SOUZA, Karine de; SIMÃO, Eder; MOMBACH, José Carlos Marino; LIBRELOTTO, Giovani Rubert.
Use of the Ontocancer Ontology to Validate the Involvement of Genes with Cancer Progression Barrier. In: BRAZILIAN SYMPOSIUM ON COMPUTING APPLIED TO HEALTH (SBCAS), 14. , 2014, Brasília/DF.
Anais [...].
Porto Alegre: Sociedade Brasileira de Computação,
2014
.
p. 1748-1753.
ISSN 2763-8952.
