HTPP Bioactivity High-throughput phenotypic profiling (HTPP) with the Cell Painting assay (Nyffeler et al. 2020, PMID: 31899216 ) uses high content imaging of cells labeled with organelle-targeting fluoroprobes to profile chemical effects on cell morphology. The information displayed in this tab are results from global, category-level, and feature-level modeling of HTPP data as described in Nyffeler et al. 2021 (PMID: 32862757). Endpoints were subject to concentration-response modeling using the tcplfit2 package described in Sheffield et al. 2021 (PMID: 34791027).
Category Level Summary Points are plotted according to the potency (i.e. BMD, x-axis) and efficacy (i.e. Top/Cutoff, y-axis) determined from concentration-response modeling of global or category-level endpoints based on Mahalanobis distance modeling approaches described in Nyffeler et al. 2021. If the global endpoint was affected, the BMD is displayed as a vertical dotted line. In addition, if category-level endpoint(s) were affected, the BMD of the most-sensitive category is also displayed as a vertical dotted line. An example of a category-level endpoint is Mito_Texture_Cytoplasm, a latent variable measuring the texture of mitochondrial labeling in the cytoplasm compartment of the cells. Up to 49 category-level endpoints and 1 global endpoint may be displayed on this plot if active (i.e. a hit).
Feature Level Summary Points are plotted according to the potency (i.e. BMD, x-axis) and efficacy (i.e. Top/Cutoff, y-axis) determined from concentration-response modeling of normalized and z-scaled feature-level data. If present on the graph, vertical dashed and dotted lines represent the minimum category-level BMD and/or global BMD described. Up to 1300 feature-level endpoints may be displayed on this plot if active.

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