Articles in journals

• Shajahan, A., Wang, A., Decker, M., Minshall, R.D., Liu, M.C. & Clarke, R.. "Caveolin-1 tyrosine phosphorylation (Y14) enhances paclitaxel-mediated cytotoxicity." J Biol Chem (2007).
• Bouker, K.B., Skaar, T.C., Harburger, D.S., Riggins, R.B., Fernandez, D.R., Zwart, A. & Clarke, R.. "The A4396G polymorphism in interferon regulatory factor-1 is frequently expressed in breast cancer." Cancer Genet Cytogenet (2007).
• Trock, B.J., Hilakivi-Clarke, L.A. & Clarke, R. "Meta-analysis of soy intake and breast cancer risk." J Natl Cancer Inst 98 (2006): 459-471.
• Wang, Z., Wang, Y., Xuan, J., Dong, Y., Bakay, M., Khan, J., Clarke, R. & Hoffman, E.P. "Optimized multilayer perceptrons for molecular classification and diagnosis using genomic data." Bioinformatics 22 (2006): 755-761.
• Zhu, Y., Singh, B., Hewitt, S., Liu, A., Gomez, B., Wang, A. & Clarke, R. "Expression patterns among proteins associated with endocrine responsiveness in breast cancer: IRF1, XBP1, NFkB, nucleophosmin, ER and PR." Int J Oncol 28 (2006): 67-76.
• Wong, L.-J.C., Dai, P., Lu, J.-F., Lou, M.A., Clarke, R. & Nazarov, N. "AIB1 gene amplification and the instability of polyQ encoding sequence in breast cancer cell lines." BMC Cancer 6 (2006): 111-132.
• Wang, L.H., Yang, X.Y., Zhang, X., An, P., Kim, H.-J., Huang, J., Clarke, R., Osborne, C.K., Inman, J.K., Appella, E. & Farrar, W.L.. "Disruption of estrogen receptor DNA-binding domain and related intramolecular communication restores tamoxifen sensitivity in resistant breast cancer." Cancer Cell 10 (2006): 487-499.
• Zhu, Y., Wang, A., Liu, M.C., Zwart, A., Lee, R.Y., Gallagher, A., Wang, Y., Miller, W.R., Dixon, J.M. & Clarke, R.. "Estrogen receptor alpha (ER) positive breast tumors and breast cancer cell lines share similarities in their transcriptome data structures." Int J Oncol 29 (2006): 1581-1589.
• Riggins, R.B., Thomas, K.S., Ta, H.Q., Donelan, S.S., Owen, K.A., Gibson, M.A., Shupnik, M.A., Silva, C.M., Parsons, S.J., Clarke, R. & Bouton A.H.. "Physical and functional interactions between Cas and c-Src induce tamoxifen resistance of breast cancer cells through pathways involving EGFR and STAT5b." Cancer Res 66 (2006): 7007-7015.
• Kuske, B., Naughton, C., Moore, K., MacLeod, K.G., Miller, W.R., Clarke, R. Langdon, S.P. & Cameron, D.A.. "Endocrine therapy resistance can be associated with high estrogen receptor alpha (ER?) expression and reduced ER? phosphorylation in breast cancer models." Endocr Related Cancer 13 (2006): 1121-1133.
• Kishimoto, H., Wang, Z., Bhat-Nakshatri, P., Chang, D., Clarke, R. & Nakshatri, H.. "The p160 family of coactivators regulate breast cancer cell proliferation and invasion through autocrine/paracrine activity of SDF-1?/CXCL12." Carcinogenesis 26 (2005): 1706-1715.
• Bouker, K.B., Skaar, T.C., Hamburger, D.S., Riggins, R.B., Fernandez, D.R., Zwart, A., Wang, A. & Clarke, R.. "Tumor suppressor activities of interferon regulatory factor-1 in human breast cancer associated with caspase activation and induction of apoptosis." Carcinogenesis 26 (2005): 1527-1535.
• Clarke, R., Leonessa, F. & Trock, B. . "MDR/P-glycoprotein and breast cancer: Review and meta-analysis." Semin Oncol 32 (2005): 9-15.
• Hilakivi-Clarke, L.A., Olivo, S.E., Shajahan, A., Khan, G., Zhu, Y., Zwart, A., Cho, E. & Clarke, R.. "Mechanisms mediating the effects of prepubertal (n-3) polyunsaturated fatty acid diets on breast cancer risk in rats." J Nutr 135 (2005): 2946-2952.
• Riggins, R.B., Nehra, R., Zwart, A., Agarwal, P. & Clarke, R. . "The NFkB inhibitor parthenolide restores ICI 182,780 (Faslodex; Fulvestrant)-induced apoptosis in antiestrogen resistant breast cancer cells." Mol Cancer Ther 4 (2005): 323-412.
• Rae, J.M., Ramus, S.J., Waltham, M., Armes, J.E., Campbell, I.G., Clarke, R., Brandt, R., Johnson, M.D. & Thompson, E.W.. "Common origins of MDA-MB-435 cells from various sources with those shown to have melanoma propertie." Clin Exptl Metastasis 231 (2004): 543-552.
• Bouker, K.B., Skaar, T.C., Fernandez, D.R., O’Brien, K.A., & Clarke, R. "Interferon regulatory factor-1 mediates the proapoptotic but not cell cycle arrest effects of the steroidal antiestrogen ICI 182,780 (Faslodex, Fulvestrant)." Cancer Res (2004).
• Espinoza, L.A., Li, P., Lee, R., Wang, Y., Clarke, R. & Smulson, M.E. "Evaluation of gene expression profiles of keratinocytes in response to JP-8 jet fuel." Toxicol Appl Pharmacol (2004).
• Wang, Z., Wang Y., Lu, J., Kung, S.-Y., Zhang, J., Lee, R., Xuan, J., Khan, J. & Clarke R. "Discriminatory mining of gene expression microarray data." J VLSI Signal Process Sys 35 (2003): 255-272.
• Pratt, M.A.C., Bishop, T.E., White, D., Yasvinski, G., Ménard, M., Niu, M.Y. & Clarke, R. "Estrogen withdrawal-induced NF-kB and Bcl-3 expression in breast cancer cells: roles in growth and hormone independence." Mol Cell Biol 23 (2003): 6887-6900.
• Johnson, M., Kenney, N., Hilakivi-Clarke, L., Singh, S., Chepko, G., Newbold, R., Clarke, R., Sholler, P.F., Lirio, A.A., Foss, C., Trock, B., Paik, S., Stoica, A. & Martin, M.B. "Cadmium mimics the effects of estrogen in vivo in the uterus and mammary gland." Nature Medicine 9 (2003): 1081-1084.
• Clarke, R., Liu, M.C., Bouker, K.B., Gu, Z., Lee, R.Y., Zhu, Y., Skaar, T.C., Gomez, B., O’Brien, K., Wang, Y., Hilakivi_Clarke, L.A. "Antiestrogen resistance in breast cancer and the role of estrogen receptor signaling." Oncogene 22 (2003): 7316-7339.
• Hilakivi-Clarke, L.A., Cho, E., Cabanes, A., DeAssis, S., Olivo, S., Helferich, W., Lippman, M.E. & Clarke, R. "Modulation of pregnancy estrogen levels by maternal dietary exposure to genistein or n-3 polyunsaturated fatty acids and breast cancer risk among female offspring." Clin Cancer Res 8 (2002): 3601-3610.
• Wang, Y., Lu, J., Lee, R. & Clarke, R.. "Iterative normalization of cDNA microarray data." IEEE Trans Inf Techol Biomed 6 (2002): 29-37.
• Liu, A., Zhang, Y., Gehan, E. & Clarke, R.. "Block principal components analysis with application to gene microarray data classification." Stat Med 21 (2002): 3465-3474.
• Ellis, M., Davis, N., Coop, A., Liu, M., Lee, R.Y., Russell, C., Singh, B., Miller, W.R., Stearns, V., Pennanen, M., Tsangaris, T., Liu, A., Zwart, A., Hayes, D.F., Lippman, M.E., Wang, Y. & Clarke, R. "Development and validation of a method using breast core needle biopsies for gene expression microarray analyses." Clin Cancer Res 8 (2002): 1155-1166.
• Gu, Z., Lee, R.Y., Skaar, T.C., Bouker, K.B., Welch, J.N., Lu, J., Liu, A., Davis, N., Leonessa, F., Brünner, N., Wang, Y. & Clarke, R. "Association of interferon regulatory factor-1, nucleophosmin, nuclear factor-?B and cAMP response element binding with acquired resistance to Faslodex (ICI 182,780)." Cancer Res 62 (2002): 3601-3610.
• James, M.R., Skaar, T.C., Lee, R.Y., MacPherson, A., Zwiebel, J.A., Ampy, F. & Clarke, R.. "Expression of the steroid sulfatase supports MCF-7 breast cancer cell growth in vitro and in vivo." Endocrinology 142 (2001): 1497-1505.
• Clarke, R., Leonessa, F., Welch, J.N., & Skaar, T.C. "Cellular and molecular pharmacology of antiestrogen action and resistance." Pharmacol Rev 53 (2001): 25-72.
• Lu, J., Wang, Y., Xuan, J., Kung, S.Y., Gu, Z. & Clarke, R. "Discriminative mining of gene microarray data." Proc IEEE Neural Net Signal Process 11 (2001): 218-227.
• Lu, L., Leonessa, F., Clarke, R. & Wainer, I.W. "Competitive and allosteric interactions in ligand binding to P-glycoprotein as observed on an immobilized P-glycoprotein liquid chromatographic stationary phase." Mol Pharmacol 59 (2001): 62-68.
• Hilakivi-Clarke, L.A., Cho, E., Onojafe, I. & Clarke, R.. "Maternal exposure to tamoxifen during pregnancy increases mammary tumorigenesis among female offspring." Clin Cancer Res 6 (2000): 305-308.
• Poola, I., Chatra, S., Koduri, S. & Clarke, R.. "Identification of twenty alternatively spliced ER-alpha mRNAs in breast cancer cell lines and tumors using splice targeted primer approach." J Steroid Biochem Mol Biol 72 (2000): 249-258.
• Arteaga, C.L., Koli, K.M., Dugger, T.C. & Clarke, R.. "Reversal of tamoxifen resistance in human breast carcinoma cells in vivo with neutralizing antitransforming growth factor (TGF)-beta antibodies." J Natl Cancer Inst 91 (1999): 46-53.
• Brankin, B., Skaar, T.C., Trock, B., Berris, M. & Clarke, R.. "Autoantibodies to the nucleolar phosphoprotein nucleophosmin in breast cancer patients." Cancer Epidemiol Biomark Prev 7 (1998): 1109-11165.
• Brünner, N., Boysen, B., Jirus, S., Skaar, T.C., Holst-Hansen, C., Lippman, J., Frandsen, T., Spang-Thomsen, M., Fuqua, S.A.W. & Clarke, R.. "MCF7/LCC9:antiestrogen resistant MCF-7 variant where acquired resistance to ICI 182,780 confers early crossresistance to Tamoxifen." Cancer Res 57 (1997): 3486-3493.
• Hilakivi-Clarke, L.A., Clarke, R., Onojafe, I., Raygada, M., Cho, E. & Lippman, M.E. "A maternal diet high in n-6 polyunsaturated fats alters mammary gland development, puberty onset, and breast cancer risk among female rat offspring." Proc Natl Acad Sci USA 94 (1997): 9372-9377.
• Trock, B., Leonessa, F. & Clarke, R. "Multidrug resistance in breast cancer: a meta-analysis of MDR1/gp170 expression and its possible functional significance." J Natl Cancer Inst 89 (1997): 917-931.
• Leonessa, F., Green, D., Licht, T., Wright, A., Wingate-Legette, K., Lippman, J., Gottesman, M.M. & Clarke, R. "MDA435/LCC6 and MDA435/LCC6MDR1: ascites models of human breast cancer." Br J Cancer 73 (1996): 154-161.
• Hilakivi-Clarke, L.A., Raygada, M., Cho, E., Clarke, R. & Lippman, M. E. "Breast cancer risk in rats fed a diet high in n-6 polyunsaturated fatty acids during pregnancy." J Natl Cancer Inst 88 (1996): 121-127.
• Bei, M., Lavigne, M.C., Foegh, M.L., Ramwell, P. & Clarke, R. "Specific binding of oestradiol to rat coronary artery heart smooth muscle cells." J Steroid Biochem Mol Biol 58 (1996): 83-88.
• Ruiz-Cabello, J., Berghmans, K., Kaplan, O., Lippman, M.E., Clarke, R. & Cohen, J.S. . "Hormone dependence of breast cancer cells and the effects of tamoxifen and estrogen: 31P NMR studies." Breast Cancer Res Treat 33 (1995): 209-217.
• Kristensen, C.A., Kristjansen,P.E.G., Brünner, N., Clarke, R., Spang-Thomsen, M. and Quistorff, B. "Effect of estrogen withdrawal and prediction of estrogen dependence monitored by in vivo 31P magnetic resonance spectroscopy of four human breast cancer xenografts." Cancer Res 55 (1995): 1664-1669.
• Zyad, A., Bernard, J., Clarke, R., Tursz, T., Brockhaus, M. & Chouaib, S. "Human breast cancer cross-resistance to TNF and adriamycin: relationship to MDR1, MnSOD and TNF gene expression." Cancer Res 54 (1994).
• Leonessa, F., Jacobson, M., Boyle, B., Lippman, J., McGarvey, M. & Clarke, R. . "Effect of tamoxifen on the MDR phenotype in breast cancer: isobologram, drug accumulation and gp-170 binding studies." Cancer Res 54 (1994): 441-447.
• Brünner, N., Boulay, V., Fojo, A., Freter, C., Lippman, M.E. & Clarke, R.. "Hormone-independence is accompanied by increased expression of estrogen regulated genes but not DNA amplification." Cancer Res 53 (1993): 283-290.
• Brünner, N., Frandsen, T.O., Holst-Hansen, C., Bei, M., Thompson, E.W., Wakeling, A.E., Lippman, M.E. & Clarke, R.. "MCF7/LCC2: A 4-hydroxytamoxifen resistant human breast cancer variant which retains sensitivity to the steroidal antiestrogen ICI 182,780." Cancer Res 53 (1993): 3229-3232.
• Clarke R., Currier, S., Kaplan, O., Boulay, V., Gottesman, M. & Dickson, R.B.. "Tamoxifen and 17beta-estradiol reduce the membrane fluidity of human breast cancer cells." J Natl Cancer Inst 84 (1992): 1506-1512.
• Clarke, R., van den Berg, H.W. & Murphy, R.F.. "Tamoxifen and 17beta-estradiol reduce the membrane fluidity of human breast cancer cells." . J Natl Cancer Inst 82 (1990): 1702-1705.
• Clarke, R., Brünner, N., Katzenellenbogen, B.S., Thompson E.W., Norman, M.J., Koppi, C., Paik, S., Lippman, M.E. & Dickson, R.B. . "Progression from hormone dependent to hormone independent growth in MCF-7 human breast cancer cells." Proc Natl Acad Sci USA 86 (1989): 3649-3653.
• Clarke, R., Brünner, N., Katz, D., Glanz, P., Dickson, R.B., Lippman, M.E. & Kern, F. . "Effects of constitutive TGF-alpha expression on the growth of MCF-7 breast cancer cells in vitro and in vivo." Mol Endocrinol 3 (1989): 372-380.