Computational phenotyping is essential for biomedical research but often requires significant time and resources, especially since traditional methods typically involve extensive manual data review. While machine learning and natural language processing advancements have helped, further improvements are needed. Few studies have explored using Large Language Models (LLMs) for these tasks despite known advantages of LLMs for text-based tasks. T o facilitate further research in this area, we developed an evaluation framework, Evaluation of PHEnotyping for Observational Health Data (PHEONA), that outlines context-specific considerations. W e applied and demonstrated PHEONA on concept classification, a specific task within a broader phenotyping process for Acute Respiratory Failure (ARF) respiratory support therapies. From the sample concepts tested, we achieved high classification accuracy, suggesting the potential for LLM-based methods to improve computational phenotyping processes.

Ontologies are increasingly used for machine reasoning over the last few years. They can provide explanations of concepts or be used for concept classification if there exists a mapping from the desired labels to the relevant ontology. Another advantage of using ontologies is that they do not need a learning process, meaning that we do not need the train data or time before using them. This paper presents a practical use of an ontology for a classification problem from the financial domain. It first transforms a given ontology to a graph and proceeds with generalization with the aim to find common semantic descriptions of the input sets of financial concepts. We present a solution to the shared task on Learning Semantic Similarities for the Financial Domain (FinSim-2 task). The task is to design a system that can automatically classify concepts from the Financial domain into the most relevant hypernym concept in an external ontology - the Financial Industry Business Ontology. We propose a method that maps given concepts to the mentioned ontology and performs a graph search for the most relevant hypernyms. We also employ a word vectorization method and a machine learning classifier to supplement the method with a ranked list of labels for each concept.