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Scott S. Auerbach, Ph.D.

Toxicoinformatics Group

Scott S. Auerbach, Ph.D.
Scott S. Auerbach, Ph.D.
Molecular Toxicologist, Group Leader
Tel 919-541-4505
Fax 919-541-3647
P.O. Box 12233
Mail Drop K2-17
Durham, N.C. 27709
Liver Point7 Network

Scott S. Auerbach, Ph.D., is a Molecular Toxicologist in the Toxicoinformatics Group within the Biomolecular Screening Branch of the National Toxicology Program (NTP) Division. His primary role is the analysis and interpretation of multivariate data sets (i.e., microarray, RNA-seq, High-throughput screening). 

His specific responsibilities include:

  • Oversight of the NTP Drug Matrix Database and ToxFx toxicogenomics analysis tools
  • Multivariate data analysis and modeling with purpose of prioritizing chemicals for targeted toxicological assessment
  • Use of machine learning approaches to develop multivariate data models that diagnosis and predict toxicological pathology and disease
  • Application of short-term in vivo transcriptomic studies to allow for the identification of genomic benchmark dose values and mechanistic characterization
  • Pathway and network level characterization of toxicity related omics results with the goal of understanding mechanisms of toxicity
  • Use of literature mining and data driven bioinformatics approaches to understand the relationship between chemogenomic perturbations and disease
  • High dimensional data analysis and visualization via network topology
  • Auerbach also helped lead the NTP team's toxicology efforts related to the West Virginia chemical spill that occurred in 2014

Scott S. Auerbach, Ph.D., leads the Toxicoinformatics Group within the Biomolecular Screening Branch of the National Toxicology Program (NTP) Division.

Auerbach received a B.S. in biochemistry and molecular biology from The Pennsylvania State University, State College, Pennsylvania and a Ph.D. in pharmacology from the University of Washington, Seattle, Washington.


Selected Publications

  1. Dennis KK, Auerbach SS, Balshaw DM, Cui Y, Fallin MD, Smith MT, Spira A, Sumner SJ, Miller GW. The Importance of the Biological Impact of Exposure to the Concept of the Exposome. Environmental health perspectives 2016 124(10):1504-1510. [Abstract]
  2. Chen S, Hsieh JH, Huang R, Sakamuru S , Hsin LY, Xia M, Shockley KR, Auerbach S, Kanaya N, Lu H, Svoboda D, Witt KL, Merrick BA, Teng CT, Tice RR. Cell-Based High-Throughput Screening for Aromatase Inhibitors in the Tox21 10K Library. Toxicological sciences: an official journal of the Society of Toxicology 2015 147(2):446-457. [Abstract]
  3. SEQC/MAQC-III Consortium. A comprehensive assessment of RNA-seq accuracy, reproducibility and information content by the Sequencing Quality Control Consortium. Nature Biotechnology 2014 32(9):903-914. [Abstract]
  4. Wang C, Gong B, Bushel PR, Thierry-Mieg J, Thierry-Mieg D, Xu J, Fang H, Hong H, Shen J, Su Z, Meehan J, Li X, Yang L, Li H, Łabaj PP, Kreil DP, Megherbi D, Gaj S, Caiment F, van Delft J, Kleinjans J, Scherer A, Devanarayan V, Wang J, Yang Y, Qian HR, Lancashire LJ, Bessarabova M, Nikolsky Y, Furlanello C, Chierici M, Albanese D, Jurman G, Riccadonna S, Filosi M, Visintainer R, Zhang KK, Li J, Hsieh JH, Svoboda DL, Fuscoe JC, Deng Y, Shi L, Paules RS, Auerbach SS, Tong W5. The concordance between RNA-seq and microarray data depends on chemical treatment and transcript abundance. Nature Biotechnology 2014 32(9):926-932. [Abstract]
  5. Kleensang, A., Maertens, A., Rosenberg, M., Fitzpatrick, S., Lamb, J., Auerbach, S., Brennan, R., Crofton, K.M., Gordon, B., Fornace Jr, A.J., et al. (2013). t4 Workshop Report: Pathways of Toxicity. Altex. 31(1):53-61 [Abstract]
  6. Thomas RS, Philbert MA, Auerbach SS, Wetmore BA, Devito MJ, Cote I, Rowlands JC, Whelan MP, Hays SM, Andersen ME, Meek ME, Reiter LW, Lambert JC, Clewell HJ 3rd, Stephens ML, Zhao QJ, Wesselkamper SC, Flowers L, Carney EW, Pastoor TP, Petersen DD, Yauk CL, Nong A. Incorporating New Technologies Into Toxicity Testing and Risk Assessment: Moving From 21st Century Vision to a Data-Driven Framework. Toxicol Sci 2013. Sep 19. [Epub ahead of print]. [Abstract]
  7. Thomas R, Thomas RS, Auerbach SS, Portier CJ. Biological networks for predicting chemical hepatocarcinogenicity using gene expression data from treated mice and relevance across human and rat species. PLoS One 2013. 30;8(5):e63308. [Abstract]
  8. Merrick BA, Phadke DP, Auerbach SS, Mav D, Stiegelmeyer SM, Shah RR, Tice RR. RNA-Seq profiling reveals novel hepatic gene expression pattern in aflatoxin B1 treated rats. PLOS ONE 2013 8(4):e61768-. [Abstract]
  9. Merrick BA, Auerbach SS, Stockton PS, Foley JF, Malarkey DE, Sills RC, Irwin RD, Tice RR. (2012) Testing an aflatoxin B1 gene signature in rat archival tissues. Chemical research in toxicology.  25(5):1132-44. [Abstract]
  10. Fielden, M. R., Adai, A., Dunn, R. T., 2nd, Olaharski, A., Searfoss, G., Sina, J., Aubrecht, J., Boitier, E., Nioi, P., Auerbach, S., Jacobson-Kram, D., Raghavan, N., Yang, Y., Kincaid, A., Sherlock, J., Chen, S. J. and Car, B. (2011). Development and Evaluation of a Genomic Signature for the Prediction and Mechanistic Assessment of Nongenotoxic Hepatocarcinogens in the Rat. Toxicol Sci. [Abstract]  
  11. Hoenerhoff, M. J., Pandiri, A. R., Lahousse, S. A., Hong, H. H., Ton, T. V., Masinde, T., Auerbach, S. S., Gerrish, K., Bushel, P. R., Shockley, K. R., Peddada, S. D. and Sills, R. C. (2011). Global gene profiling of spontaneous hepatocellular carcinoma in B6C3F1 mice: similarities in the molecular landscape with human liver cancer. Toxicologic pathology 39, 678-699. [Abstract]  
  12. Seibold, M. A., Wise, A. L., Speer, M. C., Steele, M. P., Brown, K. K., Loyd, J. E., Fingerlin, T. E., Zhang, W., Gudmundsson, G., Groshong, S. D., Evans, C. M., Garantziotis, S., Adler, K. B., Dickey, B. F., du Bois, R. M., Yang, I. V., Herron, A., Kervitsky, D., Talbert, J. L., Markin, C., Park, J., Crews, A. L., Slifer, S. H., Auerbach, S., Roy, M. G., Lin, J., Hennessy, C. E., Schwarz, M. I. and Schwartz, D. A. (2011). A common MUC5B promoter polymorphism and pulmonary fibrosis. N Engl J Med 364, 1503-12. [Abstract]  
  13. Auerbach, S. S., Thomas, R., Shah, R., Xu, H., Vallant, M. K., Nyska, A. and Dunnick, J. K. (2010). Comparative phenotypic assessment of cardiac pathology, physiology, and gene expression in C3H/HeJ, C57BL/6J, and B6C3F1/J mice. Toxicol Pathol 38, 923-42. [Abstract]  
  14. Auerbach, S. S., Shah, R. R., Mav, D., Smith, C. S., Walker, N. J., Vallant, M. K., Boorman, G. A. and Irwin, R. D. (2010). Predicting the hepatocarcinogenic potential of alkenylbenzene flavoring agents using toxicogenomics and machine learning. Toxicol Appl Pharmacol 243, 300-14. [Abstract]  
  15. Auerbach, S. S., Bristol, D. W., Peckham, J. C., Travlos, G. S., Hebert, C. D. and Chhabra, R. S. (2010). Toxicity and carcinogenicity studies of methylene blue trihydrate in F344N rats and B6C3F1 mice. Food Chem Toxicol 48, 169-77. [Abstract]  
  16. DeKeyser, J. G., Stagliano, M. C., Auerbach, S. S., Prabhu, K. S., Jones, A. D. and Omiecinski, C. J. (2009). Di(2-ethylhexyl) phthalate is a highly potent agonist for the human constitutive androstane receptor splice variant CAR2. Mol Pharmacol 75, 1005-13. [Abstract]  
  17. Auerbach, S. S., Mahler, J., Travlos, G. S. and Irwin, R. D. (2008). A comparative 90-day toxicity study of allyl acetate, allyl alcohol and acrolein. Toxicology 253, 79-88. [Abstract]  
  18. Auerbach, S. S., Dekeyser, J. G., Stoner, M. A. and Omiecinski, C. J. (2007). CAR2 displays unique ligand binding and RXRalpha heterodimerization characteristics. Drug Metab Dispos 35, 428-39. [Abstract]  
  19. Stoner, M. A., Auerbach, S. S., Zamule, S. M., Strom, S. C. and Omiecinski, C. J. (2007). Transactivation of a DR-1 PPRE by a human constitutive androstane receptor variant expressed from internal protein translation start sites. Nucleic Acids Res 35, 2177-90 Auerbach, S. S., Stoner, M. A., Su, S. and Omiecinski, C. J. (2005). Retinoid X receptor-alpha-dependent transactivation by a naturally occurring structural variant of human constitutive androstane receptor (NR1I3). Mol Pharmacol 68, 1239-53. [Abstract]  
  20. Auerbach, S. S., Ramsden, R., Stoner, M. A., Verlinde, C., Hassett, C. and Omiecinski, C. J. (2003). Alternatively spliced isoforms of the human constitutive androstane receptor. Nucleic Acids Res 31, 3194-207. [Abstract]