Predicting Influenza A Viral Host Using PSSM and Word Embeddings

• URL: http://arxiv.org/abs/2201.01140v4
• Date: Sat, 18 Nov 2023 17:20:23 GMT
• Title: Predicting Influenza A Viral Host Using PSSM and Word Embeddings
• Authors: Yanhua Xu, Dominik Wojtczak
• Abstract summary: We use various machine learning models with features derived from the position-specific scoring matrix (PSSM) to infer the origin host of viruses. The results show that the performance of the PSSM-based model reaches the MCC around 95%, and the F1 around 96%.
• Score: 5.067354030054702
• License: http://arxiv.org/licenses/nonexclusive-distrib/1.0/
• Abstract: The rapid mutation of the influenza virus threatens public health. Reassortment among viruses with different hosts can lead to a fatal pandemic. However, it is difficult to detect the original host of the virus during or after an outbreak as influenza viruses can circulate between different species. Therefore, early and rapid detection of the viral host would help reduce the further spread of the virus. We use various machine learning models with features derived from the position-specific scoring matrix (PSSM) and features learned from word embedding and word encoding to infer the origin host of viruses. The results show that the performance of the PSSM-based model reaches the MCC around 95%, and the F1 around 96%. The MCC obtained using the model with word embedding is around 96%, and the F1 is around 97%.

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