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Your Environment. Your Health.

Selected Publications

Molecular Toxicology and Informatics Group

  1. Teng CT, Beams B, Alex Merrick B, Martin N, Romeo C, Jetten AM. Development of a stable cell line with an intact PGC-1α/ERRα axis for screening environmental chemicals. Biochemical and biophysical research communications 2014 444(2):177-181.[Abstract]
  2. Madenspacher JH, Azzam KM, Gowdy KM, Malcolm KC, Nick JA, Dixon D, Aloor JJ, Draper DW, Guardiola JJ, Shatz M, Menendez D, Lowe J, Lu J, Bushel P, Li L, Merrick BA, Resnick MA, Fessler MB. p53 Integrates host defense and cell fate during bacterial pneumonia.  Journal of Experimental Medicine 2013 210(5):891-904.[Abstract]
  3. Dhungana S, Merrick BA, Tomer KB, Fessler MB. Quantitative proteomics analysis of macrophage rafts reveals compartmentalized activation of the proteasome and of proteasome-mediated ERK activation in response to lipopolysaccharide. Molecular & Cellular Proteomics: MCP 2013, 8(1):201-213.[Abstract]
  4. 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]
  5. Teng CT, Goodwin B, Shockley K, Xia M, Huang R, Norris J, Merrick BA, Jetten AM, Austin CP, Tice RR. Bisphenol A affects androgen receptor function via multiple mechanisms. Chemico-biological interactions 2013; 203(3): 556-564.[Abstract]
  6. Li Y, Luh CJ, Burn KA, Arao Y, Jiang Z, Teng CT, Tice EE, Korach KS. Endocrine-disrupting chemicals (EDCs): in vitro mechanism of estrogenic activation and differential effects on ER target genes. Environ Health Perspect 2013; 121(4): 459-466.[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. 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]
  9. Wetmore BA, Wambaugh JF, Ferguson SS, Li L, Clewell HJ 3rd, Judson RS, Freeman K, Bao W, Sochaski MA, Chu TM, Black MB, Healy E, Allen B, Andersen ME, Wolfinger RD, Thomas RS. Relative impact of incorporating pharmacokinetics on predicting in vivo hazard and mode of action from high-throughput in vitro toxicity assays. Toxicol Sci 2013. 132(2):327-46.[Abstract]
  10. Merrick BA, Auerbach SS, Stockton PS, Foley JF, Malarkey DE, Sills RC, Irwin RD, Tice RR. Testing an aflatoxin B1 gene signature in rat archival tissues. Chemical research in toxicology. 2012 25(5):1132-44.[Abstract]
  11. Smith CM, Nolan CK, Edwards MA, Hatfield JB, Stewart TW, Ferguson SS, Lecluyse EL, Sahi J. J. 2012. A comprehensive evaluation of metabolic activity and intrinsic clearance in suspensions and monolayer cultures of cryopreserved primary human hepatocytes. Pharm Sci. 101(10):3989-4002.[Abstract]
  12. Zhang SY, Surapureddi S, Coulter S, Ferguson SS, Goldstein JA. 2012. Human CYP2C8 is post-transcriptionally regulated by microRNAs 103 and 107 in human liver. Mol Pharmacol. 2012 Jun 20 82(3):529-40.[Abstract]
  13. Wise A, Parham F, Axelrad DA, Guyton KZ, Portier C, Zeise L, Zoeller RT, Woodruff TJ. Upstream adverse effects in risk assessment: A model of polychlorinated biphenyls, thyroid hormone disruption and neurological outcomes in humans. Environmental Research 2012; 117:90-99.[Abstract]
  14. Parham F, Wise A, Axelrad DA, Guyton KZ, Portier C, Zeise L, Zoeller RT, Woodruff TJ. Adverse effects in risk assessment: Modeling polychlorinated biphenyls and thyroid hormone disruption outcomes in animals and humans. Environmental Research 2012; 116:74-84.[Abstract]
  15. Hao Tang, Xiang S. Wang, Jui-Hua Hsieh, Alexander Tropsha. In press. Do crystal structures obviate the need for theoretical models of GPCRs for structure based virtual screening? Proteins 2012. 80(6):1503-21[Abstract]
  16. Hsieh JH, Yin S, Wang XS, Liu S, Dokholyan NV, Tropsha A. Cheminformatics meets molecular mechanics: a combined application of knowledge-based pose scoring and physical force field-based hit scoring functions improves the accuracy of structure-based virtual screening. J Chem Inf Model 2012. 52(1):16-28.[Abstract]
  17. Merrick BA, Dhungana S, Williams JG, Aloor JJ, Peddada S, Tomer KB and Fessler MB. Proteomic profiling of S-acylated macrophage proteins identifies a role for palmitoylation in mitochondrial targeting of phospholipid scramblase 3. Mol Cell Proteomics. 2011 Oct;10(10):M110.006007[Abstract]  
  18. Teng CT, Li Y, Stockton P, Foley J. Fasting induces the expression of PGC-1a and ERR isoforms in the outer stripe of the outer medulla (OSOM) of the mouse kidney. PloS one 2011 6(11):e26961-. [Abstract]
  19. Hsieh JH, Yin S, Liu S, Sedykh A, Dokholyan NV, Tropsha A. Combined application of cheminformatics- and physical force field-based scoring functions improves binding affinity prediction for CSAR data sets. J Chem Inf Model 2011. 26;51(9):2027-35.[Abstract]
  20. Smoak KA, Aloor JJ, Madenspacher J, Merrick BA, Collins JB, Zhu X, Cavigiolio G, Oda MN, Parks JS and Fessler MB. Myeloid differentiation primary response protein 88 couples reverse cholesterol transport to inflammation. Cell Metabol. 2010, 11:493-502.[Abstract]  
  21. 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]
  22. Merrick BA and Witzmann FA. The role of toxicoproteomics in assessing organ specific toxicity. EXS. 2009, 99:367-400.[Abstract]  
  23. Dhungana S, Merrick BA, Tomer KB and Fessler MB. Quantitative proteomic analysis of macrophage rafts reveals compartmentalized activation of the proteasome and of proteasome-mediated ERK activation in response to lipopolysaccharide. Mol Cell Proteomics. 2009, 8:201-213.[Abstract]  
  24. Parham F, Austin C, Southall N, Huang R, Tice R, Portier C. Dose-response modeling of high-throughput screening data. Journal of Biomolecular Screening 2009; 14:1216-1227.[Abstract]

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