TGen Research - Investigators and Advisors

Research Faculty


	Profile


	Selected Publications

Hostetter G, Kim S, Savage S, Gooden G, Alla L, Barrett M, Zhang J, Watanabe A, Einspahr J, Alberts D, Prasad A, Nickoloff B, Carpten J, Trent J, Bittner M. Random DNA fragmentation allows detection of single-copy, single-exon alterations of copy number by oligonucleotide array CGH in clinical FFPE samples. Nucleic Acids Res, In Press. 2010.

Dougherty ER, Brun M, Trent JM, Bittner ML. Conditioning-based modeling of contextual genomic regulation. IEEE/ACM Trans Comput Biol Bioinform, 6(2):310-20. 2009.

Amundson SA, Do KT, Vinikoor LC, Lee RA, Koch-Paiz CA, Ahn J, Reimers M, Chen Y, Scudiero DA, Weinstein JN, Trent JM, Bittner ML, Meltzer PS, Fornace AJ Jr. Integrating global gene expression and radiation survival parameters across the 60 cell lines of the National Cancer Institute Anticancer Drug Screen. Cancer Res, 68(2):415-24. 2008.

Martins, D. C., U. M. Braga-Neto, R. F. Hashimoto, M. L. Bittner and E. R. Dougherty. Intrinsically Multivariate Predictive Genes. IEEE Journal of Signal Processing, 2(3): 424-439. 2008.

Carpten JD, Faber AL, Horn C, Donoho GP, Briggs SL, Robbins CM, Hostetter G, Boguslawski S, Moses TY, Savage S, Uhlik M, Lin A, Du J, Qian YW, Zeckner DJ, Tucker-Kellogg G, Touchman J, Patel K, Mousses S, Bittner M, Schevitz R, Lai MH, Blanchard KL, Thomas JE.. A transforming mutation in the pleckstrin homology domain of AKT1 in cancer. Nature, Jul 26; 448(7152):439-44. 2007.

Salvatore, G., T. C. Nappi, P. Salerno, Y. Jiang, C. Garbi, C. Ugolini, P. Miccoli, F. Basolo, M. D. Castellone, A. M. Cirafici, R. M. Melillo, A. Fusco, M. L. Bittner and M. Santoro. A cell proliferation and chromosomal instability signature in anaplastic thyroid carcinoma. Cance Res, 67(21): 10148-58. 2007.

Kim, S., I. Sen and M. Bittner. Mining molecular contexts of cancer via in-silico conditioning. Comput Syst Bioinformatics Conf, 6: 169-79. 2007.

Pal, R., Datta, A., Bittner, M. L., and E. R. Dougherty. Intervention in Context-Sensitive Probabilistic Boolean Networks. Bioinformatics, 24(28): p. 4572-9. 2005.

Pal, R., A. Datta, A.J. Fornace, Jr., M.L. Bittner, and E.R. Dougherty. Boolean relationships among genes responsive to ionizing radiation in the NCI 60 ACDS. Bioinformatics, 21(8): p. 1542-9. 2005.

Amundson, S.A., K.T. Do, L. Vinikoor, C.A. Koch-Paiz, M.L. Bittner, J.M. Trent, P. Meltzer, and A.J. Fornace, Jr.. Stress-specific signatures: expression profiling of p53 wild-type and -null human cells. Oncogene, 24(28): p. 4572-9. 2005.

R. F. Hashimoto, S. Kim, I. Shmulevich, W. Zhang, M. L. Bittner, E. R. Dougherty.. A Directed-Graph Algorithm to Grow Genetic Regulatory Subnetworks from Seed Genes Based on Strength of Connection. Bioinformatics, 20 (8): 1241-1247. 2004.

Zhou, X., Wang, X., Pal, R., Ivanov, I., Bittner, M. L., and E. R. Dougherty. A Bayesian Connectivity-Based Approach to Constructing Probabilistic Gene Regulatory Networks. Bioinformatics, Vol. 20. No. 17. 2004.

Hashimoto Ronaldo F., Dougherty Edward R., Brun Marcel, Zhou Z., Bittner Michael L., Trent Jeffrey M.. Efficient Selection of Feature Sets Possessing High Coefficients of Determination Based on Incremental Determinations. Signal Processing, Vol. 83 (4), pp. 695-712. 2003.

Amundson, S.A., R.A. Lee, C.A. Koch-Paiz, M.L. Bittner, P. Meltzer, J.M. Trent, and A.J. Fornace, Jr.. Differential Responses of Stress Genes to Low Dose-Rate gamma Irradiation. Mol Cancer Res., 1(6): p. 445-52. 2003.

Weeraratna, A., Jiang, Y., Hostetter, G., Rosenblatt, K., Duray, P., Bittner, M., Trent, J.M.. Wnt5a signaling directly affects cell motility and invasion of metastatic melanoma. Cancer Cell, 1(3), 279-288. 2002.

Chen, Y., Kamat, V., Dougherty, E. R., Bittner, M.L., Meltzer, P.S., Trent, J.M.. Ratio statistics of gene expression levels and applications to microarray data analysis. Bioinformatics, 18(9), 1207-1215. 2002.

Loftus, S. K., D. M. Larson, L. L. Baxter, A. Antonellis, Y. Chen, X. Wu, Y. Jiang, M. Bittner, J. A. Hammer, 3rd and W. J. Pavan. Mutation of melanosome protein RAB38 in chocolate mice. Proc Natl Acad Sci U S A, 99(7): 4471-6. 2002.

Bittner, M., Meltzer, P., Chen, Y., Jiang, Y., Seftor, M., Hendrix, M., Radmacher, R., Simon, R., Yakhini, Z., Ben-Dor, A., Sampas, N., Dougherty, E. R., Wang, E., Marincola, F., Gooden, G., Lueders, J., Glatfelter, A., Pollock, P., Carpten, J., Gillanders, E., Leja, D., Dietrich, K., Beaudry, C., Berens, M., Alberts, D., Sondak, V., Hayward, N., Trent, J. M.. Molecular classification of cutaneous malignant melanoma by gene expression profiling. Nature, 406, 536-540. 2000.

Kim, S., Dougherty, E.R., Chen, Y., Sivakumar, K., Meltzer, P., Trent, J.M., Bittner, M.L.. Multivariate measurement of gene expression relationships. Genomics, 67(2), 201-9. 2000.

Duggan, D., Bittner, M., Chen, Y., Meltzer, P., and Trent, J.M.. Expression profiling using cDNA microarrays. Nature Genetics, 21, 10-14. 1999.

Chen, Y., Dougherty, E.R., Bittner, M.L.. Ratio-based decisions and the quantitative analysis of cDNA microarray images. J. Biomedical Optics, 2, 364-374. 1997.