Figure Legends and Tables for Our Biomedical Text Mining Research

25 Apr 2025

Table of Links

Abstract and 1. Introduction

2. Community Challenges Overview and 2.1 CCKS

2.2 CHIP and 2.3 CCIR, CSMI, CCL and DCIC

3. Evaluation Tasks Overview and 3.1 Information Extraction

3.2 Text Classification and Text Similarity

3.3 Knowledge Graph and Question Answering

3.4 Text Generation and Knowledge Reasoning and 3.5 Large Language Model Evaluation

4. Translational Informatics in Biomedical Text Mining

5. Discussion and Perspective

5.1. Contributions of Community Challenges

5.2. Limitations of Current Community Challenges

5.3. Future Perspectives in the Era of Large Language Models, and References

Figure Legends and Tables

Figure 2. The distribution of data sources, organizations, and artificial intelligence tasks in Chinese biomedical text mining community challenges.

Figure 3. The perspective of translational informatics for biomedical text mining community challenges, which plays a crucial role in health information processing that collected from diverse biomedical resources by leveraging various natural language processing technologies, and has numerous applications in clinical translational research.

Figure 4. The contributions of community challenges of biomedical text mining.

Figure 5. The six future perspectives of community challenges of biomedical text mining in the era of large language models.

Table 1. Summary of evaluation tasks in China Conference on Knowledge Graph and Semantic Computing (CCKS).

Table 2. Summary of evaluation tasks in China Health Information Processing Conference (CHIP).

Table 3. Summary of evaluation tasks in Chinese Conference on Information Retrieval (CCIR), Chinese Society of Medical Information (CSMI), China National Conference on Computational Linguistics (CCL), and Digital China Innovation Contest (DCIC).

This paper is available on arxiv under CC BY-NC-ND 4.0 DEED license.

Authors:

(1) Hui Zong, Joint Laboratory of Artificial Intelligence for Critical Care Medicine, Department of Critical Care Medicine and Institutes for Systems Genetics, Frontiers Science Center for Disease related Molecular Network, West China Hospital, Sichuan University, Chengdu, 610041, China and the author contributed equally;

(2) Rongrong Wu, Joint Laboratory of Artificial Intelligence for Critical Care Medicine, Department of Critical Care Medicine and Institutes for Systems Genetics, Frontiers Science Center for Disease related Molecular Network, West China Hospital, Sichuan University, Chengdu, 610041, China and the author contributed equally;

(3) Jiaxue Cha, Shanghai Key Laboratory of Signaling and Disease Research, Laboratory of Receptor-Based Bio-Medicine, Collaborative Innovation Center for Brain Science, School of Life Sciences and Technology, Tongji University, Shanghai, 200092, China;

(4) Erman Wu, Joint Laboratory of Artificial Intelligence for Critical Care Medicine, Department of Critical Care Medicine and Institutes for Systems Genetics, Frontiers Science Center for Disease related Molecular Network, West China Hospital, Sichuan University, Chengdu, 610041, China;

(5) Jiakun Li, Joint Laboratory of Artificial Intelligence for Critical Care Medicine, Department of Critical Care Medicine and Institutes for Systems Genetics, Frontiers Science Center for Disease related Molecular Network, West China Hospital, Sichuan University, Chengdu, 610041, China and Department of Urology, West China Hospital, Sichuan University, Chengdu, 610041, China;

(6) Liang Tao, Faculty of Business Information, Shanghai Business School, Shanghai, 201400, China;

(7) Zuofeng Li, Takeda Co. Ltd., Shanghai, 200040, China;

(8) Buzhou Tang, Department of Computer Science, Harbin Institute of Technology, Shenzhen, 518055, China;

(9) Bairong Shen, Joint Laboratory of Artificial Intelligence for Critical Care Medicine, Department of Critical Care Medicine and Institutes for Systems Genetics, Frontiers Science Center for Disease related Molecular Network, West China Hospital, Sichuan University, Chengdu, 610041, China and a Corresponding author.

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