Title: Identification and Chronological Analysis of Genomic Signatures in Influenza A Viruses
Authors: Hu, Yuh-Jyh
Tu, Po-Chin
Lin, Chun-Sheng
Guo, Szu-Ting
分子醫學與生物工程研究所
資訊工程學系
Institute of Molecular Medicine and Bioengineering
Department of Computer Science
Issue Date: 8-Jan-2014
Abstract: An increase in the availability of data on the influenza A viruses (IAV) has enabled the identification of the potential determinants of IAV host specificity using computational approaches. In this study, we proposed an alternative approach, based on the adjusted Rand index (ARI), for the evaluation of genomic signatures of IAVs and their ability to distinguish hosts they infected. Our experiments showed that the host-specific signatures identified using the ARI were more characteristic of their hosts than those identified using previous measures. Our results provided updates on the host-specific genomic signatures in the internal proteins of the IAV based on the sequence data as of February 2013 in the National Center for Biotechnology Information (NCBI). Unlike other approaches for signature recognition, our approach considered not only the ability of signatures to distinguish hosts (according to the ARI), but also the chronological relationships among proteins. We identified novel signatures that could be mapped to known functional domains, and introduced a chronological analysis to investigate the changes in host-specific genomic signatures over time. Our chronological analytical approach provided results on the adaptive variability of signatures, which correlated with previous studies' findings, and indicated prospective adaptation trends that warrant further investigation.
URI: http://dx.doi.org/10.1371/journal.pone.0084638
http://hdl.handle.net/11536/23598
ISSN: 1932-6203
DOI: 10.1371/journal.pone.0084638
Journal: PLOS ONE
Volume: 9
Issue: 1
End Page: 
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