EAPCR: A Universal Feature Extractor for Scientific Data without Explicit Feature Relation Patterns

Conventional methods, including Decision Tree (DT)-based methods, have been effective in scientific tasks, such as non-image medical diagnostics, system anomaly detection, and inorganic catalysis efficiency prediction. However, most deep-learning techniques have struggled to surpass or even match this level of success as traditional machine-learning methods. The primary reason is that these applications involve multi-source, heterogeneous data where features lack explicit relationships. This contrasts with image data, where pixels exhibit spatial relationships; textual data, where words have sequential dependencies; and graph data, where nodes are connected through established associations. The absence of explicit Feature Relation Patterns (FRPs) presents a significant challenge for deep learning techniques in scientific applications that are not image, text, and graph-based. In this paper, we introduce EAPCR, a universal feature extractor designed for data without explicit FRPs. Tested across various scientific tasks, EAPCR consistently outperforms traditional methods and bridges the gap where deep learning models fall short. To further demonstrate its robustness, we synthesize a dataset without explicit FRPs. While Kolmogorov-Arnold Network (KAN) and feature extractors like Convolutional Neural Networks (CNNs), Graph Convolutional Networks (GCNs), and Transformers struggle, EAPCR excels, demonstrating its robustness and superior performance in scientific tasks without FRPs.

Accurate Virus Identification with Interpretable Raman Signatures by Machine Learning

Rapid identification of newly emerging or circulating viruses is an important first step toward managing the public health response to potential outbreaks. A portable virus capture device coupled with label-free Raman Spectroscopy holds the promise of fast detection by rapidly obtaining the Raman signature of a virus followed by a machine learning approach applied to recognize the virus based on its Raman spectrum, which is used as a fingerprint. We present such a machine learning approach for analyzing Raman spectra of human and avian viruses. A Convolutional Neural Network (CNN) classifier specifically designed for spectral data achieves very high accuracy for a variety of virus type or subtype identification tasks. In particular, it achieves 99% accuracy for classifying influenza virus type A vs. type B, 96% accuracy for classifying four subtypes of influenza A, 95% accuracy for differentiating enveloped and non-enveloped viruses, and 99% accuracy for differentiating avian coronavirus (infectious bronchitis virus, IBV) from other avian viruses. Furthermore, interpretation of neural net responses in the trained CNN model using a full-gradient algorithm highlights Raman spectral ranges that are most important to virus identification. By correlating ML-selected salient Raman ranges with the signature ranges of known biomolecules and chemical functional groups (for example, amide, amino acid, carboxylic acid), we verify that our ML model effectively recognizes the Raman signatures of proteins, lipids and other vital functional groups present in different viruses and uses a weighted combination of these signatures to identify viruses.