A chemogenomic library is a collection of well-defined pharmacological agents. A hit from such set in a phenotypic screen suggests that the annotated target or targets of the probe molecules are involved in the phenotypic perturbation.

Chemogenomic screening has the potential to expedite the conversion of phenotypic screening projects into target-based drug discovery approaches.

Target identification from phenotypic screening can benefit from the integration of small-molecule chemogenomics with genetic approaches, such as RNA-mediated interference and CRISPR–Cas9.