Scoring Amino Acid Mutations to Predict Avian-to-Human Transmission of Avian Influenza Viruses
Avian influenza virus (AIV) can directly cross species barriers and infect humans with high fatality. Using machine learning methods, the present paper scores the amino acid mutations and predicts interspecies transmission. Initially, 183 signature positions in 11 viral proteins were screened by the...
| Main Authors: | , , , |
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| Format: | Article |
| Language: | English |
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MDPI AG
2018-06-01
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| Series: | Molecules |
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| Online Access: | http://www.mdpi.com/1420-3049/23/7/1584 |
| _version_ | 1819266639422554112 |
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| author | Xiaoli Qiang Zheng Kou Gang Fang Yanfeng Wang |
| author_facet | Xiaoli Qiang Zheng Kou Gang Fang Yanfeng Wang |
| author_sort | Xiaoli Qiang |
| collection | DOAJ |
| description | Avian influenza virus (AIV) can directly cross species barriers and infect humans with high fatality. Using machine learning methods, the present paper scores the amino acid mutations and predicts interspecies transmission. Initially, 183 signature positions in 11 viral proteins were screened by the scores of five amino acid factors and their random forest rankings. The most important amino acid factor (Factor 3) and the minimal range of signature positions (50 amino acid residues) were explored by a supporting vector machine (the highest-performing classifier among four tested classifiers). Based on these results, the avian-to-human transmission of AIVs was analyzed and a prediction model was constructed for virology applications. The distributions of human-origin AIVs suggested that three molecular patterns of interspecies transmission emerge in nature. The novel findings of this paper provide important clues for future epidemic surveillance. |
| first_indexed | 2024-12-23T21:04:28Z |
| format | Article |
| id | doaj.art-03d32ad14f2a4ac6aa7f91db918484b1 |
| institution | Directory Open Access Journal |
| issn | 1420-3049 |
| language | English |
| last_indexed | 2024-12-23T21:04:28Z |
| publishDate | 2018-06-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Molecules |
| spelling | doaj.art-03d32ad14f2a4ac6aa7f91db918484b12022-12-21T17:31:15ZengMDPI AGMolecules1420-30492018-06-01237158410.3390/molecules23071584molecules23071584Scoring Amino Acid Mutations to Predict Avian-to-Human Transmission of Avian Influenza VirusesXiaoli Qiang0Zheng Kou1Gang Fang2Yanfeng Wang3Institute of Computing Science and Technology, Guangzhou University, Guangzhou 510006, ChinaInstitute of Computing Science and Technology, Guangzhou University, Guangzhou 510006, ChinaInstitute of Computing Science and Technology, Guangzhou University, Guangzhou 510006, ChinaHenan Key Lab of Information-Based Electrical Appliances, College of Electrical and Electronic Engineering, Zhengzhou University of Light Industry, Zhengzhou 450002, ChinaAvian influenza virus (AIV) can directly cross species barriers and infect humans with high fatality. Using machine learning methods, the present paper scores the amino acid mutations and predicts interspecies transmission. Initially, 183 signature positions in 11 viral proteins were screened by the scores of five amino acid factors and their random forest rankings. The most important amino acid factor (Factor 3) and the minimal range of signature positions (50 amino acid residues) were explored by a supporting vector machine (the highest-performing classifier among four tested classifiers). Based on these results, the avian-to-human transmission of AIVs was analyzed and a prediction model was constructed for virology applications. The distributions of human-origin AIVs suggested that three molecular patterns of interspecies transmission emerge in nature. The novel findings of this paper provide important clues for future epidemic surveillance.http://www.mdpi.com/1420-3049/23/7/1584avian influenza virusinterspecies transmissionamino acid mutationmachine learning |
| spellingShingle | Xiaoli Qiang Zheng Kou Gang Fang Yanfeng Wang Scoring Amino Acid Mutations to Predict Avian-to-Human Transmission of Avian Influenza Viruses Molecules avian influenza virus interspecies transmission amino acid mutation machine learning |
| title | Scoring Amino Acid Mutations to Predict Avian-to-Human Transmission of Avian Influenza Viruses |
| title_full | Scoring Amino Acid Mutations to Predict Avian-to-Human Transmission of Avian Influenza Viruses |
| title_fullStr | Scoring Amino Acid Mutations to Predict Avian-to-Human Transmission of Avian Influenza Viruses |
| title_full_unstemmed | Scoring Amino Acid Mutations to Predict Avian-to-Human Transmission of Avian Influenza Viruses |
| title_short | Scoring Amino Acid Mutations to Predict Avian-to-Human Transmission of Avian Influenza Viruses |
| title_sort | scoring amino acid mutations to predict avian to human transmission of avian influenza viruses |
| topic | avian influenza virus interspecies transmission amino acid mutation machine learning |
| url | http://www.mdpi.com/1420-3049/23/7/1584 |
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