In-life toxicogenomics

Key manuscripts referenced by Mel Andersen in his October 8 webinar (View the webinar on-demand here)

Chemical-specific case studies


  • Thomas, R. S. et al. (2007) A method to integrate benchmark dose estimates with genomic data to assess the functional effects of chemical exposure. Toxicol Sci 98, 240-248, DOI: 10.1093/toxsci/kfp233
  • Andersen, M. E., Clewell, H. J., 3rd, Bermudez, E., Willson, G. A. & Thomas, R. S. (2008) Genomic signatures and dose-dependent transitions in nasal epithelial responses to inhaled formaldehyde in the rat. Toxicol Sci 105, 368-383, DOI: 10.1093/toxsci/kfn097
  • Andersen, M. E. et al. (2010) Formaldehyde: integrating dosimetry, cytotoxicity, and genomics to understand dose-dependent transitions for an endogenous compound. Toxicol Sci 118, 716-731, DOI: 10.1093/toxsci/kfq303


  • Thomas, R. S. et al. (2013) Cross-Species Transcriptomic Analysis of Mouse and Rat Lung Exposed to Chloroprene. Toxicological Sciences 131, 629-640, DOI: 10.1093/toxsci/kfs314

Vanadium Pentoxide

  • Black, M. B., et al. Using gene expression profiling to evaluate cellular responses in mouse lungs exposed to V2O5 and a group of other mouse lung tumorigens and non-tumorigens. Regul. Toxicol. Pharmacol. 73: 339 (2015), DOI: 10.1016/j.yrtph.2015.07.017
  • Thomas, R. S. et al. (2009) Use of short-term transcriptional profiles to assess the long-term cancer-related safety of environmental and industrial chemicals. Toxicol Sci 112, 311-321,, DOI: 10.1093/toxsci/kfp233

Methylene chloride

  • Andersen, M. E., et al. Combining transcriptomics and PBPK modeling indicates a primary role of hypoxia and altered circadian signaling in dichloromethane carcinogenicity in mouse lung and liver. Toxicol. Appl. Pharmacol. 2017, 332, 149-158, DOI: 10.1016/j.taap.2017.04.002
  • See also public comments in EPA-HQ-OPPT-2019-0437 by Mel Andersen


  • Andersen, M. E., et al. Assessing molecular initiating events (MIEs), key events (KEs) and modes-of-action (MOAs) for styrene responses in mouse lungs using whole genome gene expression profiling following 1-day and multi-week exposures. Toxicol. Appl. Pharmacol. 2017, 335, 28-40, DOI: 10.1016/j.taap.2017.09.015
  • Andersen, M. E., et al. Strain-related Differences in Mouse Lung Gene Expression Over a Two-year Period of Inhalation Exposure to Styrene:  Relevance to Human Risk Assessment. Regulatory Toxicology and Pharmacology. 2018, 96: 153-166, DOI: 10.1016/j.yrtph.2018.05.011


  • Nault, R. et al. A toxicogenomic approach for the risk assessment of the food contaminant acetamide. Toxicol. Appl. Pharmacol. 2020, 388: 114872, DOI: 10.1016/j.taap.2019.114872

Perspectives on the use of transcriptomics to inform mode of action

  • Andersen, M. E., et al. Application of Transcriptomic Data, Visualization Tools and Bioinformatics Resources for Informing Mode of Action.  Current Opinion in Toxicology.  2018, 9: 21-27, DOI: 10.1016/j.cotox.2018.05.003