Abstract
The epidermal growth factor receptor (EGFR) is a membrane spanning receptor tyrosine kinase that regulates cell proliferation, survival, and migration. Over expression and mutations in the kinase domain of EGFR are implicated in the development and progression of a variety of cancers. We present an evolutionary general purpose Geographic Information System, in which geographic information is replaced by biological data representing the main mutation regions within the kinase domain of EGFR. Our system can be used for generating hypotheses about relations between EGFR mutations and cancer; defining statistical, molecular, and pharmacological relationships; disclosing biological identification techniques, etc. Moreover this is an important example of how GIS capabilities can be used not only for geographic items, but for any kind of data, as a general purpose system.
This is a preview of subscription content, log in via an institution to check access.
Access this chapter
Tax calculation will be finalised at checkout
Purchases are for personal use only
Preview
Unable to display preview. Download preview PDF.
References
Berman, H.M., et al.: The Protein Data Bank. Nucleic Acids Research 28, 235–242 (2000)
Chiang, J., Yu, H., Hsu, H.: GIS: a biomedical text-mining system for gene information discovery. Bioinformatics 20(1), 120–121 (2004)
De Lano, W.: PyMol: An Open-Source Molecular Graphics Tool. CCP4 Newsletter on Protein Crystallography, (40) (March 2002)
Del Percio, M., Iaccarino, G., Malandrino, D., Scarano, V.: Efficient edge-services for colorblind users. In: Proceedings of the 15th International conference on World Wide Web, pp. 919–920. ACM Press, New York (2006)
Dolan, M.E., Constance, C., Holden, M., Beard, K., Bult., C.J.: Genome as geography: using GIS technology to build interactive genome feature maps. BMC Bioinformatics 7, 416 (2006)
Erra, U., Iaccarino, G., Malandrino, D., Scarano, V.: Personalizable edge services for web accessibility. Universal Access in the Information Society 6(3) (2007)
Ferrer-Costa, C., Gelp, J.L., Zamakola, L., Parraga, I., de la Cruz, X., Orozco, M.: PMUT: a web-based tool for the annotation of pathological mutations on proteins. Bioinformatics 21(14), 3176–3178 (2005)
Furlanello, C., Marler, S., Menegon, S., Mancuso, S., Bertiato, G.: New WEBGIS technologies for geo-location of epidemiological data: an application for the surveillance of the risk of Lyme borreliosis disease. In: Proceedings of the 15th Int. Congress The new Frontiers of Arrhythmias, vol. 5(1), pp. 241–245 (March 2002)
Greulich, H., Chen, T.H., Feng, W., Jnne, P.A., Alvarez, J.V., Zappaterra, M., Bulmer, S.E., Frank, D.A., Hahn, W.C., Sellers, W.R., Meyerson, M.: Oncogenic transformation by inhibitor-sensitive and resistant EGFR mutants. PLoS Med. 2(11), 313 (2005)
Hynes, N.E., Lane, H.A.: ERBB receptors and cancer: the complexity of targeted inhibitors. Nat. Rev. Cancer 5(5), 341–354 (2005)
Lu, X.: A Web-GIS Based Urgent Medical Rescue CSCW System for SARS Disease Prevention. In: Li, M., Sun, X.-H., Deng, Q.-n., Ni, J. (eds.) GCC 2003. LNCS, vol. 3032, pp. 91–98. Springer, Heidelberg (2004)
von Mering, C., Jensen, L.J., Kuhn, M., Chaffron, S., Doerks, T., Krger, B., Snel, B., Bork, P.: STRING 7 - recent developments in the integration and prediction of protein interactions. Nucleic Acids Res. 35, D358–D362 (2007)
Mitchel, T.: Web mapping illustrated using open source GIS toolkits. O’Relly, pp. 120–127 (2005)
Parthiban, V., Gromiha, M.M., Schomburg, D.: CUPSAT: prediction of protein stability upon point mutations. Nucleic Acids Res. 34(Web Server issue), W239–242 (2006)
Shanzen, Y., Lizhu, Z., Chunxiao, X., Qilun, L., Yong, Z.: Semantic and Interoperable WebGis. In: International Conference on Web Information Systems Engineering (WISE 2001), Kyoto, Japan, December 3-6, vol. 2, pp. 42–48 (2001)
Sharma, S.V., Bell, D.W., Settleman, J., Haber, D.A.: Epidermal growth factor receptor mutations in lung cancer. Nature 7, 169–181 (2007)
Steitz, T.A.: Structural Biology: a mechanism for all polymerases. Nature 391, 231–232 (1998)
Yun, C., Titus, J., Boggon, L.Y., Woo, M., Greulich, H., Meyerson, M., Eck, M.J.: Structures of Lung Cancer-Derived EGFR Mutants and Inhibitor Complexes: Mechanism of Activation and Insights into Differential Inhibitor Sensitivity. Cancer Cell 11, 217–227 (2007)
Author information
Authors and Affiliations
Editor information
Rights and permissions
Copyright information
© 2008 Springer-Verlag Berlin Heidelberg
About this paper
Cite this paper
Aliotta, D., Buffa, P., Iaccarino, G. (2008). An Evolutionary General Purpose WebGIS to Disclose EGFR Mutations in Lung Cancer. In: Sebillo, M., Vitiello, G., Schaefer, G. (eds) Visual Information Systems. Web-Based Visual Information Search and Management. VISUAL 2008. Lecture Notes in Computer Science, vol 5188. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-540-85891-1_28
Download citation
DOI: https://doi.org/10.1007/978-3-540-85891-1_28
Publisher Name: Springer, Berlin, Heidelberg
Print ISBN: 978-3-540-85890-4
Online ISBN: 978-3-540-85891-1
eBook Packages: Computer ScienceComputer Science (R0)