Phenotype Prediction
Phenotype prediction aims to forecast observable traits from underlying data, such as genotypes or multi-modal health records, addressing the challenge of complex interactions within high-dimensional datasets. Current research emphasizes the use of advanced machine learning techniques, including deep learning architectures like LSTMs and autoencoders, Bayesian models, and ensemble methods, often incorporating knowledge-driven feature selection to improve accuracy and interpretability. These advancements hold significant promise for improving disease diagnosis, optimizing agricultural yields, and furthering our understanding of complex biological systems by enabling more accurate and efficient prediction of phenotypes from diverse data sources.
Papers
PheME: A deep ensemble framework for improving phenotype prediction from multi-modal data
Shenghan Zhang, Haoxuan Li, Ruixiang Tang, Sirui Ding, Laila Rasmy, Degui Zhi, Na Zou, Xia Hu
Studying Limits of Explainability by Integrated Gradients for Gene Expression Models
Myriam Bontonou, Anaïs Haget, Maria Boulougouri, Jean-Michel Arbona, Benjamin Audit, Pierre Borgnat