The Ye Lab has been conducting fundamental research in machine learning and data mining, developing computational methods for biomedical data analysis, and building informatics software. We have developed novel machine learning algorithms for feature extraction from high-dimensional data, sparse learning, multi-task learning, transfer learning, active learning, multi-label classification, and matrix completion. We have developed the SLEP (Sparse Learning with Efficient Projections) package, which includes implementations of large-scale sparse learning models, and the MALSAR (Multi-tAsk Learning via StructurAl Regularization) package, which includes implementations of state-of-the-art multi-task learning models. SLEP achieves state-of-the-art performance for many sparse learning models, and it has become one of the most popular sparse learning software packages. With close collaboration with researchers at the biomedical field, we have successfully applied these methods for analyzing biomedical data, including clinical image data and genotype data.