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Analysis and Comparison of Genomes of HIV-1 and HIV-2 Using Apriori Algorithm, Decision Tree, and Support Vector Machine

  • Yihyun RohEmail author
  • Seokhyun Yoon
  • Min Young Lee
  • Seongpil Jang
  • Taeseon Yoon
Conference paper
Part of the Lecture Notes in Computer Science book series (LNCS, volume 9771)

Abstract

AIDS is caused by HIV, which can be divided into two strains: HIV-1 and HIV-2. Whereas HIV-1 is distributed around the world and is the major cause of global infections, HIV-2 is less infectious and transmissible and is therefore generally confined to West Africa. Thus this research aims to account for their difference by analyzing genome sequences of HIV-1 and HIV-2 using some methods: Apriori algorithm, Decision tree, and Support Vector Machine. Apriori demonstrates that HIV-1 has lysine, arginine, and serine as its typical amino acids, while HIV-2 has glycine, lysine, leucine, and arginine. Decision tree determines the significant positions of amino acids that can distinguish the two viruses: pos5 in 9 window, pos13 in 13 window, and pos16 in 19 window. SVM indicates that two viruses are seemingly similar but indeed different. The collective results provide a biologically verifiable background for making effective vaccines for HIV, especially for HIV-2.

Keywords

HIV-1 HIV-2 Amino acids Bioinformatics Data mining Apriori algorithm Decision tree Support vector machine (SVM) 

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Copyright information

© Springer International Publishing Switzerland 2016

Authors and Affiliations

  • Yihyun Roh
    • 1
    Email author
  • Seokhyun Yoon
    • 1
  • Min Young Lee
    • 1
  • Seongpil Jang
    • 2
  • Taeseon Yoon
    • 2
  1. 1.Hankuk Academy of Foreign StudiesYonginRepublic of Korea
  2. 2.Department of ScienceHankuk Academy of Foreign StudiesYonginRepublic of Korea

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