g-FLUA2H: A Web-based Application to Study The Dynamics of Animal-to-Human Mutation Transmission for Influenza Viruses

g-FLUA2H: A Web-based Application to Study The Dynamics of Animal-to-Human Mutation Transmission for Influenza Viruses

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g-FLUA2H is a web-based application to study the dynamics of influenza A virus animal-to-human (A2H) mutation transmissions. The basic requirement of the application is the viral protein sequences of the animal and human viruses as an input. The comparative analyses between the co-aligned sequences of the animal and human host populations is based on a sliding window approach of size nine for statistical significance and data application to the major histocompatibility complex (MHC) and T-cell receptor (TCR) immune response mechanisms. The sequences at each of the aligned overlapping nonamer positions of the respective hosts are classified as four patterns of characteristic diversity motifs, as a basis for quantitative analysis: (i) "index", the most prevalent sequence; (ii) "major" variant, the second most common sequence and the single most prevalent variant of the index, with at least one amino acid mutation; (iii) "minor" variants, multiple different sequences, each with an incidence (percent occurrence) less than that of the major variant; and (iv) "unique" variants, each observed only once. The diversity motifs and their incidences at each of the nonamer positions allow evaluation of the mutation transmission dynamics and selectivity of the sequences in relation to the animal or the human hosts. g-FLUA2H greatly benefits from the grid back-end for analysis of massively large influenza sequence datasets. This application can be used for a detailed proteome-wide characterization of the composition and incidence of mutations present in the animal and human host populations for a better understanding of host tropism.


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Authors:


Muhammad Farhan SJAUGI1 , Swan TAN1, Hadia Syahirah RAMAN1, Wan Ching LIM1, Nik Elena MOHAMED1, J Thomas AUGUST3, Asif M. KHAN1,2,3,*
1 Centre for Bioinformatics and 2 Graduate School of Medicine, Perdana University, Jalan MAEPS Perdana, 43400 Serdang, Selangor Darul Ehsan, Malaysia
3 Department of Pharmacology and Molecular Sciences, The Johns Hopkins University School of Medicine, 725 North Wolfe Street, Baltimore, MD 21205, United States of America

*Corresponding author.
Phone: +60 3 89418646
Fax: +60 3 89417661
E-mail address: asif@perdanauniversity.edu.my


References:

  1. Hu, Y., Tan, P. T., Tan, T. W., August, J. T., & Khan, A. M. (2013) Dissecting the dynamics of HIV-1 protein sequence diversity. PloS one, 8(4).
  2. Á. Balasko, F., Z., and Kacsuk, P. (2013) Building Science Gateway by Utilizing the Generic WS-PGRADE/gUSE Workflow System. Computer Science, vol. 14, p. 307.
  3. P. Kacsuk, F., Z., Kozlovszky, M., Hermann, G., Balasko, Á., Karóczkai, K., and Márton, I. (2012) WS-PGRADE/gUSE Generic DCI Gateway Framework for a Large Variety of User Communities, Journal of Grid Computing. vol. 10, pp. 601 - 630.
  4. Kacsuk, P. (2011) P-GRADE portal family for grid infrastructures, Concurrency and Computation: Practice and Experience. vol. 23, pp. 235 - 245.
  5. J. Kovács, K., P., and Lomaka, A. (2011) Using a private desktop grid system for accelerating drug discovery, Future Generation Computer Systems. vol. 27, pp. 657 - 666.
  6. P. Kacsuk, F., Z., and Hermann, G. (2007) Workflow-Level Parameter Study Support for Production Grids. Springer Berlin Heidelberg, vol. 4707, pp. 872 - 885.


Version: 2.0.0