Selected Publications

Microarrays

1. Afshari, C.A., E.F. Nuwaysir, et al. (1999). "Application of complementary DNA microarray technology to carcinogen identification, toxicology, and drug safety evaluation." Cancer Res 59(19): 4759-60.
2. Nuwaysir, E.F., M. Bittner, et al. (1999). "Microarrays and toxicology: the advent of toxicogenomics." Mol Carcinog 24(3): 153-9.
3. Bushel, P.R., H. Hamadeh, et al. (2001). "MAPS: a microarray project system for gene expression experiment information and data validation." Bioinformatics 17(6): 564-5.
4. Wolfinger, R.D., G. Gibson, et al. (2001). "Assessing gene significance from cDNA microarray expression data via mixed models." J Comput Biol 8(6): 625-37.
5. Dasgupta, A., R.P. Darst, et al. (2002). "Mot1 activates and represses transcription by direct, ATPase-dependent mechanisms." Proc Natl Acad Sci U S A 99(5): 2666-71.
6. Hamadeh, H.K., P.R. Bushel, et al. (2002). "Gene expression analysis reveals chemical-specific profiles." Toxicol Sci 67(2): 219-31.
7. Hamadeh, H.K., P.R. Bushel, et al. (2002). "Prediction of compound signature using high density gene expression profiling." Toxicol Sci 67(2): 232-40.
8. Lobenhofer, E.K., L. Bennett, et al. (2002). "Regulation of DNA replication fork genes by 17beta-estradiol." Mol Endocrinol 16(6): 1215-29.
9. Ueda, A., H.K. Hamadeh, et al. (2002). "Diverse roles of the nuclear orphan receptor CAR in regulating hepatic genes in response to phenobarbital." Mol Pharmacol 61(1): 1-6.
10. Bottone, F.G., Jr., J.M. Martinez, et al. (2003). "Gene modulation by the cyclooxygenase inhibitor, sulindac sulfide, in human colorectal carcinoma cells: possible link to apoptosis." J Biol Chem 278(28): 25790-801.
11. Harding, H.P., Y. Zhang, et al. (2003). "An integrated stress response regulates amino acid metabolism and resistance to oxidative stress." Mol Cell 11(3): 619-33.
12. Hewitt, S.C., B.J. Deroo, et al. (2003). "Estrogen receptor-dependent genomic responses in the uterus mirror the biphasic physiological response to estrogen." Mol Endocrinol 17(10): 2070-83.
13. Hodges, L.C., J.D. Cook, et al. (2003). "Tamoxifen functions as a molecular agonist inducing cell cycle-associated genes in breast cancer cells." Mol Cancer Res 1(4): 300-11.
14. Peddada, S.D., E.K. Lobenhofer, et al. (2003). "Gene selection and clustering for time-course and dose-response microarray experiments using order-restricted inference." Bioinformatics 19(7): 834-41.
15. Haugen, A.C., R. Kelley, et al. (2004). "Integrating phenotypic and expression profiles to map arsenic-response networks." Genome Biol 5(12): R95.
16. Heinloth, A.N., R.D. Irwin, et al. (2004). "Gene expression profiling of rat livers reveals indicators of potential adverse effects." Toxicol Sci 80(1): 193-202.
17. Qin, L.X. and K.F. Kerr (2004). "Empirical evaluation of data transformations and ranking statistics for microarray analysis." Nucleic Acids Res 32(18): 5471-9.
18. Bammler, T., R.P. Beyer, et al. (2005). "Standardizing global gene expression analysis between laboratories and across platforms." Nat Methods 2(5): 351-6.
19. Thompson, K.L., B.A. Rosenzweig, et al. (2005). "Use of a mixed tissue RNA design for performance assessments on multiple microarray formats." Nucleic Acids Res 33(22): e187.
20. Hewitt, S.C., J. Collins, et al. (2006). "Estren behaves as a weak estrogen rather than a nongenomic selective activator in the mouse uterus." Endocrinology 147(5): 2203-14.
21. Innes, C.L., A.N. Heinloth, et al. (2006). "ATM Requirement in Gene Expression Responses to Ionizing Radiation in Human Lymphoblasts and Fibroblasts." Mol Cancer Res 4(3): 197-207.
22. Jaradat, M., C. Stapleton, et al. (2006). "Modulatory Role for Retinoid-related Orphan Receptor {alpha} (ROR{alpha}) in Allergen-induced Lung Inflammation." Am J Respir Crit Care Med.
23. Lai, W.S., J.S. Parker, et al. (2006). "Novel mRNA targets for tristetraprolin (TTP) identified by global analysis of stabilized transcripts in TTP-deficient fibroblasts." Mol Cell Biol.

 Back to top