2025/07/02 by Nguyen, Tan, Cong, Guojing
#Artificial Intelligence (cs.AI) #FOS: Biological sciences #FOS: Computer and information sciences #Machine Learning (cs.LG) #Quantitative Methods (q-bio.QM)
paper · doi:10.48550/arxiv.2507.03024
We explore applying a tensor completion approach to complete the DrugMatrix toxicogenomics dataset. Our hypothesis is that by preserving the 3-dimensional structure of the data, which comprises tissue, treatment, and transcriptomic measurements, and by leveraging a machine learning formulation, our approach will improve upon prior state-of-the-art results. Our results demonstrate that the new tensor-based method more accurately reflects the original data distribution and effectively captures organ-specific variability. The proposed tensor-based methodology achieved lower mean squared errors and mean absolute errors compared to both conventional Canonical Polyadic decomposition and 2-dimensional matrix factorization methods. In addition, our non-negative tensor completion implementation reveals relationships among tissues. Our findings not only complete the world's largest in-vivo toxicogenomics database with improved accuracy but also offer a promising methodology for future studies of drugs that may cross species barriers, for example, from rats to humans.