Use GPT-J Prompt Generation with RoBERTa for NER Models on Diagnosis Extraction of Periodontal Diagnosis from Electronic Dental Records

This study explored the usability of prompt generation on named entity recognition (NER) tasks and the performance in different settings of the prompt. The prompt generation by GPT-J models was utilized to directly test the gold standard as well as to generate the seed and further fed to the RoBERTa model with the spaCy package. In the direct test, a lower ratio of negative examples with higher numbers of examples in prompt achieved the best results with a F1 score of 0.72. The performance revealed consistency, 0.92-0.97 in the F1 score, in all settings after training with the RoBERTa model. The study highlighted the importance of seed quality rather than quantity in feeding NER models. This research reports on an efficient and accurate way to mine clinical notes for periodontal diagnoses, allowing researchers to easily and quickly build a NER model with the prompt generation approach.

Extracting periodontitis diagnosis in clinical notes with RoBERTa and regular expression

This study aimed to utilize text processing and natural language processing (NLP) models to mine clinical notes for the diagnosis of periodontitis and to evaluate the performance of a named entity recognition (NER) model on different regular expression (RE) methods. Two complexity levels of RE methods were used to extract and generate the training data. The SpaCy package and RoBERTa transformer models were used to build the NER model and evaluate its performance with the manual-labeled gold standards. The comparison of the RE methods with the gold standard showed that as the complexity increased in the RE algorithms, the F1 score increased from 0.3-0.4 to around 0.9. The NER models demonstrated excellent predictions, with the simple RE method showing 0.84-0.92 in the evaluation metrics, and the advanced and combined RE method demonstrating 0.95-0.99 in the evaluation. This study provided an example of the benefit of combining NER methods and NLP models in extracting target information from free-text to structured data and fulfilling the need for missing diagnoses from unstructured notes.

Use of the Deep Learning Approach to Measure Alveolar Bone Level

Abstract: Aim: The goal was to use a Deep Convolutional Neural Network to measure the radiographic alveolar bone level to aid periodontal diagnosis. Material and methods: A Deep Learning (DL) model was developed by integrating three segmentation networks (bone area, tooth, cementoenamel junction) and image analysis to measure the radiographic bone level and assign radiographic bone loss (RBL) stages. The percentage of RBL was calculated to determine the stage of RBL for each tooth. A provisional periodontal diagnosis was assigned using the 2018 periodontitis classification. RBL percentage, staging, and presumptive diagnosis were compared to the measurements and diagnoses made by the independent examiners. Results: The average Dice Similarity Coefficient (DSC) for segmentation was over 0.91. There was no significant difference in RBL percentage measurements determined by DL and examiners (p=0.65). The Area Under the Receiver Operating Characteristics Curve of RBL stage assignment for stage I, II and III was 0.89, 0.90 and 0.90, respectively. The accuracy of the case diagnosis was 0.85. Conclusion: The proposed DL model provides reliable RBL measurements and image-based periodontal diagnosis using periapical radiographic images. However, this model has to be further optimized and validated by a larger number of images to facilitate its application.