The invention discloses a
drug IC50 prediction method and
system based on molecular structure and
gene expression, and the method comprises the steps: carrying out the comprehensive characterization of the molecular structure of a
drug, extracting the
chemical structure and characteristic information of the
drug through the
modes of molecular fingerprints, molecular maps and the like, carrying out the fusion with a
gene expression matrix of cells, building a unified characteristic expression
system, and carrying out the prediction of the drug IC50. And inferring a
gene regulatory network reflecting a potential regulatory relationship between genes based on a variational auto-
encoder (VAE). On the basis, a multi-layer
feature extraction mechanism combining global and local information is constructed, the
global information learns an overall regulation structure among genes in the whole regulation network through a graph neural network, and the local information captures a local action relationship between drugs and key regulation factors by dividing and analyzing sub-graphs. According to the method, the influence mechanism of the drug on the
cell system can be described more accurately, the prediction precision of the IC50 value and the
interpretability of the model are remarkably improved, and the method has good adaptability and wide application prospects.