Mathematical Biology & Bioinformatics | Volume 14 Issue 2 Year 2019

Chaley M.B.¹, Tyulko Zh.S.², Kutyrkin V.A.³

Flavivirus Species Recognition Based On the Polyprotein Coding Sequences

Mathematical Biology & Bioinformatics. 2019;14(2):533-542.

doi: 10.17537/2019.14.533.

References

Fernández-Pinero J., Davidson I., Elizalde M., Perk S., Khinich Y., Jiménez-Clavero M.A. Bagaza virus and Israel turkey meningoencephalomyelitis virus are a single virus species. Journal of General Virology. 2014;95:883–887. doi: 10.1099/vir.0.061465-0
Zhang W., Chen S., Mahalingam S., Wang M., Cheng A. An updated review of avian-origin Tembusu virus: a newly emerging avian Flavivirus. Journal of General Virology. 2017;98:2413–2420. doi: 10.1099/jgv.0.000908
Benzarti E., Linden A., Desmecht D., Garigliany M. Mosquito-borne epornitic flaviviruses: an update and review. Journal of General Virology. 2019;100:119–132. doi: 10.1099/jgv.0.001203
Diaz A., Coffey L.L., Burkett-Cadena N., Day J.F. Reemergence of St. Louis encephalitis virus in the Americas. Emerging Infectious Diseases. 2018;24:2150–2157. doi: 10.3201/eid2412.180372
Clé M., Beck C., Salinas S., Lecollinet S., Gutierrez S., Van de Perre P., Baldet T., Foulongne V., Simonin Y. Usutu virus: A new threat? Epidemiology and Infection. 2019;147. Article No. e232. doi: 10.1017/S0950268819001213
Ruzek D., Avšič Županc T., Borde J., Chrdle A., Eyer L., Karganova G., Kholodilov I., Knap N., Kozlovskaya L., Matveev A., Miller A.D., Osolodkin D.I., Överby A.K., Tikunova N., Tkachev S., Zajkowska J. Tick-borne encephalitis in Europe and Russia: Review of pathogenesis, clinical features, therapy, and vaccines. Antiviral Research. 2019;164:23–51. doi: 10.1016/j.antiviral.2019.01.014
Khetarpal N., Khanna I. Dengue Fever: Causes, Complications, and Vaccine Strategies. Journal of Immunology Research. 2016. Article ID 6803098. doi: 10.1155/2016/6803098
Kleinert R.D.V., Montoya-Diaz E., Khera T., Welsch K., Tegtmeyer B., Hoehl S., Ciesek S., Brown R.J.P. Yellow fever: Integrating current knowledge with technological innovations to identify strategies for controlling a re-emerging virus. Viruses. 2019;11. Article No. 960. doi: 10.3390/v11100960
Petersen L.R., Brault A.C., Nasci R.S. West Nile virus: review of the literature. JAMA. 2013. V. 310. P. 308–315. doi: 10.1001/jama.2013.8042
Putintseva E.V., Smelyansky V.P., Borodai N.V., Alekseichik I.O., Shakhov L.O., Tkachenko G.A., Shpak I.M., Kazorina E.V., Viktorov D.V., Toporkov A.V. West Nile Fever Worldwide and in the Territory of the Russian Federation in 2016, and Forecast of Epidemic Situation Development in 2017. Problems of Particularly Dangerous Infections. 2017(1):29–36 (in Russ.). doi: 10.21055/0370-1069-2017-1-29-36
Biulleten' normativnykh i metodicheskikh dokumentov gossanepidnadzora (Bulletin of normative-methodological documentation of the State Committee for Epidemiological Surveillance). 2016;3(65):25–38 (in Russ.).
Benson D.A., Cavanaugh M., Clark K., Karsch-Mizrachi I., Lipman D.J., Ostell J., Sayers E.W. GenBank. Nucleic Acids Res. 2013;41(Database issue):D36–D42. doi: 10.1093/nar/gks1195
Jenkins G., Pagel M., Gould E., de A. Zanotto P.M., Holmes E.C. Evolution of base composition and codon usage bias in the genus Flavivirus. Journal of Molecular Evolution. 2001;52:383–390. doi: 10.1007/s002390010168
Belalov I.S., Lukashev A.N. Causes and implications of codon usage bias in RNA viruses. PLoS One. 2013;8(2). Article No. e56642. doi: 10.1371/journal.pone.0056642
Di Giallonardo F., Schlub T.E., Shi M., Holmes E.C. Dinucleotide composition in animal RNA viruses is shaped more by virus family than by host species. Journal of Virology. 2017;91. Article No. e02381-16. doi: 10.1128/JVI.02381-16
Rukovodstvo po virusologii: Virusy i virusnye infektsii cheloveka i zhivotnykh (Manual on virology: Viruses and viral infections of humans and animals). Ed. L'vov D.K. Moscow; 2013 (in Russ.).
Tyulko Zh.S., Kutyrkin V.A., Chaley M.B. Structural-Statistical Properties of the Flavivirus Genomes. Mathematical Biology and Bioinformatics. 2017;12(2):343–353. doi: 10.17537/2017.12.343
Chaley M., Kutyrkin V. Stochastic model of homogeneous coding and latent periodicity in DNA sequences. Journal of Theoretical Biology. 2016;390:106–116. doi: 10.1016/j.jtbi.2015.11.014
Chaley M., Kutyrkin V. Spectral-statistical approach for revealing latent regular structures in DNA sequences. In: Data Mining Techniques for the Life Sciences. Eds. Carugo O., Eisenhaber F. New York: Springer Science+Business Media, 2016. P. 315–340. doi: 10.1007/978-1-4939-3572-7