Abstract
Complex systems, such as proteins, are inherently difficult to describe, analyse and interpret. A multimodal methodology which utilizes various diverse representations is needed to further our understanding of such intrinsically multifaceted systems. This paper presents a multimodal system designed to describe and interpret the content of the Protein Data Bank, a repository which contains tens of thousands of known proteins. We describe how complimentary modalities based on the amino acid sequence, the protein’s backbone (or topology) and the envelope (the outer shape), are used when furthering our understanding of proteins’ functionalities, behaviours and interactions. We illustrate our methodology against the human haemoglobin and show that the interplay between modalities allows our system to find unexpected, complimentary results with different domains of validity.
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References
Tucker, S., Whittaker, S.: Accessing Multimodal Meeting Data: Systems, Problems and Possibilities. In: Bengio, S., Bourlard, H. (eds.) MLMI 2004. LNCS, vol. 3361, pp. 1–11. Springer, Heidelberg (2005)
Camurri, A., et al.: Communicating Expressiveness and Affect in Multimodal Interactive Systems. IEEE Multi Media 12(1), 43–53 (2005)
Jha, M.N., Levy, J., Gao, Y.: Advances in Remote Sensing for Oil Spill Disaster Management: State-of-the-Art Sensors Technology for Oil Spill Surveillance. Sensors 8, 236–255 (2008)
Zaki, M.J., Bystroff, C.: Protein Structure Prediction. Humana Press, Totowa (2007)
Berman, H.M., et al.: The Protein Data Bank. Nucleic Acids Research, 235–242 (2000)
Humphrey, W., et al.: VMD - Visual Molecular Dynamics. J. Molec. Graphics 14, 33–38 (1996)
Karlin, S., Altschul, S.F.: Applications and statistics for multiple high-scoring segments in molecular sequences. Proc. Natl. Acad. Sci. USA 90, 5873–5877 (1993)
Paquet, E., Viktor, H.L.: Addressing the Docking Problem: Finding Similar 3-D Protein Envelopes for Computer-aided Drug Design, Advances in Computational Biology. In: Advances in Experimental Medicine and Biology. Springer, Heidelberg (2010)
Paquet, E., Viktor, H.L.: CAPRI/MR: Exploring Protein Databases from a Structural and Physicochemical Point of View. In: 34th International Conference on Very Large Data Bases – VLDB, Auckland, New Zealand, August 24-30, pp. 1504–1507 (2008)
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© 2011 Springer-Verlag Berlin Heidelberg
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Paquet, E., Viktor, H.L. (2011). Multimodal Representations, Indexing, Unexpectedness and Proteins. In: Mehrotra, K.G., Mohan, C.K., Oh, J.C., Varshney, P.K., Ali, M. (eds) Modern Approaches in Applied Intelligence. IEA/AIE 2011. Lecture Notes in Computer Science(), vol 6703. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-642-21822-4_10
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DOI: https://doi.org/10.1007/978-3-642-21822-4_10
Publisher Name: Springer, Berlin, Heidelberg
Print ISBN: 978-3-642-21821-7
Online ISBN: 978-3-642-21822-4
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