SparkRA: A Retrieval-Augmented Knowledge Service System Based on Spark Large Language Model

Large language models (LLMs) have shown remarkable achievements across various language tasks.To enhance the performance of LLMs in scientific literature services, we developed the scientific literature LLM (SciLit-LLM) through pre-training and supervised fine-tuning on scientific literature, building upon the iFLYTEK Spark LLM. Furthermore, we present a knowledge service system Spark Research Assistant (SparkRA) based on our SciLit-LLM. SparkRA is accessible online and provides three primary functions: literature investigation, paper reading, and academic writing. As of July 30, 2024, SparkRA has garnered over 50,000 registered users, with a total usage count exceeding 1.3 million.

Partial Annotation Learning for Biomedical Entity Recognition

Motivation: Named Entity Recognition (NER) is a key task to support biomedical research. In Biomedical Named Entity Recognition (BioNER), obtaining high-quality expert annotated data is laborious and expensive, leading to the development of automatic approaches such as distant supervision. However, manually and automatically generated data often suffer from the unlabeled entity problem, whereby many entity annotations are missing, degrading the performance of full annotation NER models. Results: To address this problem, we systematically study the effectiveness of partial annotation learning methods for biomedical entity recognition over different simulated scenarios of missing entity annotations. Furthermore, we propose a TS-PubMedBERT-Partial-CRF partial annotation learning model. We harmonize 15 biomedical NER corpora encompassing five entity types to serve as a gold standard and compare against two commonly used partial annotation learning models, BiLSTM-Partial-CRF and EER-PubMedBERT, and the state-of-the-art full annotation learning BioNER model PubMedBERT tagger. Results show that partial annotation learning-based methods can effectively learn from biomedical corpora with missing entity annotations. Our proposed model outperforms alternatives and, specifically, the PubMedBERT tagger by 38% in F1-score under high missing entity rates. The recall of entity mentions in our model is also competitive with the upper bound on the fully annotated dataset.