Zhijian Chen

Zhijian Chen, Zhonghua Li, Jianxin Yang et al.

Hierarchical text classification (HTC) is a special sub-task of multi-label classification (MLC) whose taxonomy is constructed as a tree and each sample is assigned with at least one path in the tree. Latest HTC models contain three modules: a text encoder, a structure encoder and a multi-label classification head. Specially, the structure encoder is designed to encode the hierarchy of taxonomy. However, the structure encoder has scale problem. As the taxonomy size increases, the learnable parameters of recent HTC works grow rapidly. Recursive regularization is another widely-used method to introduce hierarchical information but it has collapse problem and generally relaxed by assigning with a small weight (ie. 1e-6). In this paper, we propose a Hierarchy-aware Light Global model with Hierarchical local conTrastive learning (HiLight), a lightweight and efficient global model only consisting of a text encoder and a multi-label classification head. We propose a new learning task to introduce the hierarchical information, called Hierarchical Local Contrastive Learning (HiLCL). Extensive experiments are conducted on two benchmark datasets to demonstrate the effectiveness of our model.

Zhijian Chen, Chuan Hu, Min Wu et al.

Emerging topics in biomedical research are continuously expanding, providing a wealth of information about genes and their function. This rapid proliferation of knowledge presents unprecedented opportunities for scientific discovery and formidable challenges for researchers striving to keep abreast of the latest advancements. One significant challenge is navigating the vast corpus of literature to extract vital gene-related information, a time-consuming and cumbersome task. To enhance the efficiency of this process, it is crucial to address several key challenges: (1) the overwhelming volume of literature, (2) the complexity of gene functions, and (3) the automated integration and generation. In response, we propose GeneSUM, a two-stage automated gene summary extractor utilizing a large language model (LLM). Our approach retrieves and eliminates redundancy of target gene literature and then fine-tunes the LLM to refine and streamline the summarization process. We conducted extensive experiments to validate the efficacy of our proposed framework. The results demonstrate that LLM significantly enhances the integration of gene-specific information, allowing more efficient decision-making in ongoing research.