TabKANet: Tabular Data Modeling with Kolmogorov-Arnold Network and TransformerWeihao Gao, Zheng Gong, Zhuo Deng et al.
Tabular data is the most common type of data in real-life scenarios. In this study, we propose the TabKANet model for tabular data modeling, which targets the bottlenecks in learning from numerical content. We constructed a Kolmogorov-Arnold Network (KAN) based Numerical Embedding Module and unified numerical and categorical features encoding within a Transformer architecture. TabKANet has demonstrated stable and significantly superior performance compared to Neural Networks (NNs) across multiple public datasets in binary classification, multi-class classification, and regression tasks. Its performance is comparable to or surpasses that of Gradient Boosted Decision Tree models (GBDTs). Our code is publicly available on GitHub: https://github.com/AI-thpremed/TabKANet.
A New Deep-learning-Based Approach For mRNA Optimization: High Fidelity, Computation Efficiency, and Multiple Optimization FactorsZheng Gong, Ziyi Jiang, Weihao Gao et al.
The mRNA optimization is critical for therapeutic and biotechnological applications, since sequence features directly govern protein expression levels and efficacy. However, current methods face significant challenges in simultaneously achieving three key objectives: (1) fidelity (preventing unintended amino acid changes), (2) computational efficiency (speed and scalability), and (3) the scope of optimization variables considered (multi-objective capability). Furthermore, existing methods often fall short of comprehensively incorporating the factors related to the mRNA lifecycle and translation process, including intrinsic mRNA sequence properties, secondary structure, translation elongation kinetics, and tRNA availability. To address these limitations, we introduce \textbf{RNop}, a novel deep learning-based method for mRNA optimization. We collect a large-scale dataset containing over 3 million sequences and design four specialized loss functions, the GPLoss, CAILoss, tAILoss, and MFELoss, which simultaneously enable explicit control over sequence fidelity while optimizing species-specific codon adaptation, tRNA availability, and desirable mRNA secondary structure features. Then, we demonstrate RNop's effectiveness through extensive in silico and in vivo experiments. RNop ensures high sequence fidelity, achieves significant computational throughput up to 47.32 sequences/s, and yields optimized mRNA sequences resulting in a significant increase in protein expression for functional proteins compared to controls. RNop surpasses current methodologies in both quantitative metrics and experimental validation, enlightening a new dawn for efficient and effective mRNA design. Code and models will be available at https://github.com/HudenJear/RPLoss.