MKAN-MMI: empowering traditional medicine-microbe interaction prediction with masked graph autoencoders and KANs
The growing microbial resistance to traditional medicines necessitates in-depth analysis of medicine-microbe interactions (MMIs) to develop new therapeutic strategies. Widely used artificial intelligence models are limited by sparse observational data and prevalent noise, leading to over-reliance on...
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| Vydáno v: | Frontiers in pharmacology Ročník 15; s. 1484639 |
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| Hlavní autoři: | , , , , , , |
| Médium: | Journal Article |
| Jazyk: | angličtina |
| Vydáno: |
Switzerland
Frontiers Media S.A
22.10.2024
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| Témata: | |
| ISSN: | 1663-9812, 1663-9812 |
| On-line přístup: | Získat plný text |
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| Shrnutí: | The growing microbial resistance to traditional medicines necessitates in-depth analysis of medicine-microbe interactions (MMIs) to develop new therapeutic strategies. Widely used artificial intelligence models are limited by sparse observational data and prevalent noise, leading to over-reliance on specific data for feature extraction and reduced generalization ability. To address these limitations, we integrate Kolmogorov-Arnold Networks (KANs), independent subspaces, and collaborative decoding techniques into the masked graph autoencoder (Mask GAE) framework, creating an innovative MMI prediction model with enhanced accuracy, generalization, and interpretability. First, we apply Bernoulli distribution to randomly mask parts of the medicine-microbe graph, advancing self-supervised training and reducing noise impact. Additionally, the independent subspace technique enables graph neural networks (GNNs) to learn weights independently across different feature subspaces, enhancing feature expression. Fusing the multi-layer outputs of GNNs effectively reduces information loss caused by masking. Moreover, using KANs for advanced nonlinear mapping enhances the learnability and interpretability of weights, deepening the understanding of complex MMIs. These measures significantly enhanced the accuracy, generalization, and interpretability of our model in MMI prediction tasks. We validated our model on three public datasets with results showing that our model outperformed existing leading models. The relevant data and code are publicly accessible at:
https://github.com/zhuoninnin1992/MKAN-MMI
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| Bibliografie: | ObjectType-Article-1 SourceType-Scholarly Journals-1 ObjectType-Feature-2 content type line 23 Reviewed by: Wenyan Wang, Anhui University of Technology, China These authors have contributed equally to this work Wei Liu, Xiangtan University, China Edited by: Junlin Xu, Hunan University, China |
| ISSN: | 1663-9812 1663-9812 |
| DOI: | 10.3389/fphar.2024.1484639 |