High-throughput transcriptomics and high-throughput phenotypic profiling
Researchers at EPA are using two high-throughput profiling assays, high-throughput transcriptomics (HTTr) with the human whole transcriptome TempO-Seq assay and high-throughput phenotypic profiling (HTPP) with the Cell Painting assay to characterize the biological activity of chemicals across a variety of human-derived cell types. Computational workflows have been established for determining biological pathway-altering concentrations and phenotype-altering concentrations from these two assay types (Harrill et al. 2021; Nyffeler et al. 2023). The high-dimensionality data have been organized for display and distribution to the public through the CompTox Chemicals Dashboard, under the “Bioactivity, HTTr: Summary” and “Bioactivity, HTPP:Summary” views. HTTr and HTPP results for hundreds of chemicals in a variety of cell types (MCF-7 breast adenocarcinoma, U-2 OS osteosarcoma and the 2-D differentiated HepaRG liver cell model) became available on the Dashboard in 2022 and will be updated in future releases.