Improving Drug-Drug Interaction Extraction with Gaussian Noise

SubGE-DDI: A new prediction model for drug-drug interaction established through biomedical texts and drug-pairs knowledge subgraph enhancement

Biomedical texts provide important data for investigating drug-drug interactions (DDIs) in the field of pharmacovigilance. Although researchers have attempted to investigate DDIs from biomedical texts and predict unknown DDIs, the lack of accurate manual annotations significantly hinders the performance of machine learning algorithms. In this study, a new DDI prediction framework, Subgraph Enhance model, was developed for DDI (SubGE-DDI) to improve the performance of machine learning algorithms. This model uses drug pairs knowledge subgraph information to achieve large-scale plain text prediction without many annotations. This model treats DDI prediction as a multi-class classification problem and predicts the specific DDI type for each drug pair (e.g. Mechanism, Effect, Advise, Interact and Negative). The drug pairs knowledge subgraph was derived from a huge drug knowledge graph containing various public datasets, such as DrugBank, TwoSIDES, OffSIDES, DrugCentral, EntrezeGene, SMPDB (The Small Molecule Pathway Database), CTD (The Comparative Toxicogenomics Database) and SIDER. The SubGE-DDI was evaluated from the public dataset (SemEval-2013 Task 9 dataset) and then compared with other state-of-the-art baselines. SubGE-DDI achieves 83.91% micro F1 score and 84.75% macro F1 score in the test dataset, outperforming the other state-of-the-art baselines. These findings show that the proposed drug pairs knowledge subgraph-assisted model can effectively improve the prediction performance of DDIs from biomedical texts.

Optimizing classification of diseases through language model analysis of symptoms

This paper investigated the use of language models and deep learning techniques for automating disease prediction from symptoms. Specifically, we explored the use of two Medical Concept Normalization-Bidirectional Encoder Representations from Transformers (MCN-BERT) models and a Bidirectional Long Short-Term Memory (BiLSTM) model, each optimized with a different hyperparameter optimization method, to predict diseases from symptom descriptions. In this paper, we utilized two distinct dataset called Dataset-1, and Dataset-2. Dataset-1 consists of 1,200 data points, with each point representing a unique combination of disease labels and symptom descriptions. While, Dataset-2 is designed to identify Adverse Drug Reactions (ADRs) from Twitter data, comprising 23,516 rows categorized as ADR (1) or Non-ADR (0) tweets. The results indicate that the MCN-BERT model optimized with AdamP achieved 99.58% accuracy for Dataset-1 and 96.15% accuracy for Dataset-2. The MCN-BERT model optimized with AdamW performed well with 98.33% accuracy for Dataset-1 and 95.15% for Dataset-2, while the BiLSTM model optimized with Hyperopt achieved 97.08% accuracy for Dataset-1 and 94.15% for Dataset-2. Our findings suggest that language models and deep learning techniques have promise for supporting earlier detection and more prompt treatment of diseases, as well as expanding remote diagnostic capabilities. The MCN-BERT and BiLSTM models demonstrated robust performance in accurately predicting diseases from symptoms, indicating the potential for further related research.