Abstract: Disclosed are systems and methods for utilizing electronic health record data (EHR) to group patients with diagnoses of a common disease of interested (e.g. Parkinson's disease) into phenotype clusters that share common clusters of other diagnosis codes (in addition to the Parkinson's diagnosis, for example). The phenotype clusters can be processed with genetic data to identify convergent genetic mutations within each phenotype cluster and output phenotypic-genomic clusters. Then, stem cells from the patients (e.g. iPSCs) may be differentiated into a desired cell type within each phenotypic-genomic cluster, and these differentiated cells may be assayed to identify defects in the various tissues types or organoids. Additionally, the differentiated cells can then be tested with candidate agents to determine whether the agents reverse the defective phenotypes identified in the differentiated tissues or organoids.