Retrieval-Based Evaluation of Cell Painting Feature Spaces Reveals Differences in the Preservation of Biologically Meaningful Phenotypic Similarity.

Abstract excerpt

Cell Painting enables high-dimensional phenotypic profiling of cellular states, but retrieval-based interpretation depends on whether the chosen feature space preserves task-relevant biological relationships. With pretrained Cell Painting feature extractors increasingly available, feature spaces should be qualified before downstream biological retrieval. Here, we developed a task-aware workflow for evaluating...

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