Papers by Xiaodan Fan
RBPtool: A Deep Language Model Framework for Multi-Resolution RBP-RNA Binding Prediction and RNA Molecule Design (2025.emnlp-main)
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Jiyue Jiang, Yitao Xu, Zikang Wang, Yihan Ye, Yanruisheng Shao, Yuheng Shan, Jiuming Wang, Xiaodan Fan, Jiao Yuan, Yu Li
| Challenge: | RNA-binding proteins play key roles in post-transcriptional gene regulation . existing methods focus on shallow sequence features or coarse structural representations . large language models allow for precise modeling and biologically informed de novo RNA design . |
| Approach: | They extend RPI15223 into a multi-resolution, structure-level RBP-RNA dataset and introduce RBPtool, a framework that fuses sequence and structural information. |
| Outcome: | The proposed framework achieves state-of-the-art performance on public benchmarks and the RPI15223 dataset while supporting fine-grained level predictions. |
ORMind: A Cognitive-Inspired End-to-End Reasoning Framework for Operations Research (2025.acl-industry)
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| Challenge: | Large Language Models (LLMs) have shown promising results in various domains, but their practical application in industry-relevant operations research presents significant challenges and opportunities. |
| Approach: | They propose a cognitive-inspired framework that enhances optimization through counterfactual reasoning . they use a workflow that transforms requirements into mathematical models and executable solver code . |
| Outcome: | Experiments show that ORMind outperforms existing methods in the NL4Opt dataset and ComplexOR dataset. |