Michael Van Supranes


2026

The rapid expansion of biomedical literature makes manual identification of novel drug-disease relationships increasingly difficult. Existing approaches have leveraged LLMs to mine abstracts or construct knowledge graphs for drug repurposing. There are two key limitations: finite context windows for capturing macro-level research trends, and single-pass black-box pipelines make it difficult to verify outputs. This paper proposes a pipeline for discovering new drug targets by combining disease and drug research trends using Large Language Models (LLMs). Our method extracts PICO components from PubMed abstracts, normalizing the Population and Intervention Component to ICD and ATC codes, respectively. A temporal frequency delta matrix is constructed to capture publication count shifts across 2013 to 2022, then used to discover novel drug areas. Compared with the abstract-based baseline, our approach showed qualitative signs of generating combinations that were more closely aligned with observed research trends and, in some cases, more clinically plausible. These findings suggest the potential usefulness of structured trend information for LLM-based exploration, although the differences between the two methods were limited and the results remain preliminary. Future work will focus on validating the consistency and reliability of these candidates.

2025

Counterfactual data augmentation (CDA) is a promising strategy for improving hate speech classification, but automating counterfactual text generation remains a challenge. Strong attribute control can distort meaning, while prioritizing semantic preservation may weaken attribute alignment. We propose **Gradient-assisted Energy-based Sampling (GENES)** for counterfactual text generation, which restricts accepted samples to text meeting a minimum BERTScore threshold and applies gradient-assisted proposal generation to improve attribute alignment. Compared to other methods that solely rely on either prompting, gradient-based steering, or energy-based sampling, GENES is more likely to jointly satisfy attribute alignment and semantic preservation under the same base model. When applied to data augmentation, GENES achieved the best macro F1-score in two of three test sets, and it improved robustness in detecting targeted abusive language. In some cases, GENES exceeded the performance of prompt-based methods using a GPT-4o-mini, despite relying on a smaller model (Flan-T5-Large). Based on our cross-dataset evaluation, the average performance of models aided by GENES is the best among those methods that rely on a smaller model (Flan-T5-L). These results position GENES as a possible lightweight and open-source alternative.