Joe Gray

faculty photo

Curriculum Vitae

Gordon Moore Endowed Chair, Department of Biomedical Engineering
Director, OHSU Center for Spatial Systems Biomedicine
Associate Director for Biophysical Oncology, Knight Cancer Institute
 
Office
Collaborative Life Sciences Building
Mail Code: CL3G
2730 SW Moody Ave., Room #3N026
Portland, OR 97201-5042

Dr. Joe W. Gray, a physicist and an engineer by training, holds positions as Professor and Gordon Moore Endowed Chair, Biomedical Engineering Department; Director, Center for Spatial Systems Biomedicine; and Associate Director for Biophysical Oncology, Knight Cancer Institute at the Oregon Health & Science University. He is also Emeritus Professor, University of California San Francisco; and Senior Scientist, Lawrence Berkeley National Laboratory. He was a Staff Scientist in the Biomedical Sciences Division of the Lawrence Livermore National Laboratory (1972-1991), Professor of Laboratory Medicine at the University of California, San Francisco (1991-2011), and Associate Laboratory Director for Biosciences and Life Sciences Division Director at the Lawrence Berkeley National Laboratory (2003-2011). He is Principal Investigator of the National Cancer Institute /Integrative Cancer Biology Program (ICBP) Center for Cancer Systems Biology (CCSB) aimed at understanding and modeling of RTK signaling, PI of a project to contribute to further development of the NIH Library of Integrated Network-based cellular signatures (LINCS) by developing a dataset and computational strategy to elucidate how microenvironmental signals affect cell intrinsic intracellular transcriptional- and protein-defined molecular networks to generate experimentally durable therapies for patients, PI of a Brenden Colson Center for Pancreatic Health that provides support for a broad-based, team approach to finding causes, early detection and improvement of clinical care for pancreatic diseases including pancreatitis and pancreatic cancer, and PI of a Susan G. Komen project to identify the mechanisms by which ERBB2+ breast cancer cells escape inhibition by ERRB2-targeted therapies.

Dr. Gray's work is described in over 400 publications and in 73 US patents. He is a Fellow of the American Association for the Advancement of Science and the American Institute for Medical and Biological Engineering, an elected a member of the Institute of Medicine of the National Academy of Sciences, a member of the National Institutes of Health, Frederick Advisory Committee to the Director of the National Cancer Institute, a Fellow of the American Association of Cancer Research Academy, and US Councilor on the Board of the Radiation Effects Research Foundation (RERF), Hiroshima, Japan.

Professional Associations
Dr. Gray is involved in several projects and collaborations with organizations outside of Oregon Health & Science University. View list

Hu, Z., Mao, J.H., Curtis, C., Huang, G., Gu, S., Heiser, L., Lenburg, M.E., Korkola, J.E., Bayani, N., Samarajiwa, S., Seoane, JA, Dane M.A., Esch, A., Feiler, H.S., Wang, N.J., Hardwicke, M.A., Laquerre, S., Jackson, J., Wood, K.W., Weber, B., Spellman, P.T., Aparicio, S., Wooster, R., Caldas, C., Gray, J.W. (2016) Genome co-amplification upregulates a mitotic gene network activity that predicts outcome and response to mitotic protein inhibitors in breast cancer Breast Cancer Res. 18(1):70. PMC4930593

Guest, S.T., Kratche, Z.R., Irish, J.C., Wilson, R.C., Haddad, R., Gray, J.W., Garrett-Mayer, E., Ethier, S.P. (2016) Functional oncogene signatures guide rationally designed combination therapies to synergistically induce breast cancer cell death. Oncotarget. 7(24):36138-36153. PMID: 27153554

Ngamcherdtrakul, W.,Castro, D.J., Gu, S., Morry, J., Reda, M., Gray, J.W., Yantasee, W. (2016)Current development of targeted oligonucleotide-based cancer therapies:Perspective on HER2 positive breast cancer treatment. Cancer Treat Rev.45:19-29. PMC4826844

Hill, S.M., Heiser, L.M., Cokelaer, T., Unger, M., Nesser, N.K., Carlin, D.E., Zhang, Y., Sokolov, A., Paull, E.O., Wong, C.K., Graim, K., Bivol, A., Wang, H., Zhu, F., Afsari, B., Danilova, L.V., Favorov, A.V., Lee, W.S., Taylor, D., Hu, C.W., Long, B.L., Noren, D.P., Bisberg, A.J.; HPN-DREAM Consortium, Mills, G.B., Gray, J.W., Kellen, M., Norman, T., Friend, S., Qutub, A.A., Fertig, E.J., Guan, Y., Song, M., Stuart, J.M., Spellman, P.T., Koeppl, H., Stolovitzky, G., Saez-Rodriguez, J., Mukherjee, S. (2016) Inferring causal molecular networks: empirical assessment through a community-based effort. Nat. Methods. (4):310-8. PMC4854847

Gu S, Hu Z, Ngamcherdtrakul W, Castro DJ, Morry J, Reda MM, Gray JW, Yantasee W. (2016) Therapeutic siRNA for drug-resistant HER2-positive breast cancer. Oncotarget. 7(12):14727-41. PMC4924747

Shain, A.H., Garrido, M., Botton, T., Talevich, E., Yeh, I., Sanborn, J.Z., Chung, J.,Wang, N.J., Kakavand, H., Mann, G.J., Thompson, J.F., Wiesner, T., Roy, R., Olshen, A.B., Gagnon, A., Gray, J.W., Huh, N., Hur, J.S., Busam, K.J., Scolyer, R.A., Cho, R.J., Murali, R., Bastian, B.C. (2015) Exome sequencing of desmoplastic melanoma identifies recurrent NFKBIE promoter mutations and diverse activating mutations in the MAPK pathway. Nat Genet., 47(10):1194-9. PMC4589486

Gray, J.W., and Mills, G.B. (2015) Large-scale drug screens support precision medicine. Cancer Discov. 5(11):1130-2. PMC4633700

Butler, T.M., Johnson-Camacho, K., Peto, M., Wang, N.J., Macey, T.A., Korkola, J.E., Koppie, T.M., Corless, C.L., Gray, J.W., Spellman, P.T. (2015) Exome sequencing of cell-free DNA from metastatic cancer patients identifies clinically actionable mutations distinct from primary disease.  PLoS One, 10(8):e0136407. PMC4552879

Sanborn, J.Z., Chung, J., Purdom, E., Wang, N.J., Kakavand, H., Wilmott, J.S., Butler, T., Thompson, J.F., Mann, G.J., Haydu, L.E., Saw, R.P., Busam, K.J., Lo, R.S., Collisson, E.A., Hur, J.S., Spellman, P.T., Cleaver, J.E., Gray, J.W., Huh, N., Murali, R., Scolyer, R.A., Bastian, B.C., Cho, R.J. (2015) Phylogenetic analyses of melanoma reveal complex patterns of metastatic dissemination. Proc. Natl. Acad. Sci. USA, 112(35):10995-1000. PMC4568214

Goodspeed, A., Heiser, L.M., Gray, J.W., Costello, J.C. (2016) Tumor-derived cell lines as molecular models of cancer pharmacogenomics. Mol. Cancer Res., 14(1):3-13. PMC4828339

Korkola, J.E., Collisson, E.A., Heiser, L., Oates, C., Bayani, N., Itani, S., Esch, A., Thompson, W., Griffith, O.L., Wang, N.J., Kuo, W.L., Cooper, B., Billig, J., Ziyad, S., Hung, J.L., Jakkula, L., Feiler, H., Lu, Y., Mills, G.B., Spellman, P.T., Tomlin, C., Mukherjee, S., Gray, J.W. (2015) Decoupling of the P13K pathway via mutation necessitates combinatorial treatment in HER2+ breast cancer. PLoS One, 10(7):e0133219. PMC4504492

Ngamcherdtrakul, W., Morry, J., Gu, S., Castro, D.J., Goodyear, S.M., Sangvanich, T., Reda, M.M., Lee, R., Mihelic, S.A., Beckman, B.L., Hu, Z., Gray, J.W., Yantasee, W. (2015) Cationic polymer modified mesoporous silica nanoparticles for targeted siRNA delivery to HER2+ breast cancer. Adv. Funct. Mater., 25(18):2646-2659. PMC4469082

Nan, X., Tamgüney, T.M., Collisson, E.A., Lin, L.J., Pitt, C., Galeas, J., Lewis, S., Gray, J.W., McCormick, F., Chu, S. (2015) Ras-GTP dimers activate the Mitogen-Activated Protein Kinase (MAPK) pathway. Proc. Natl. Acad. Sci. USA, 112(26):7996-8001. PMC4491781

Giuliano, M., Hu, H., Wang, Y.C., Fu, X., Nardone, A., Herrera, S., Mao, S., Contreras, A., Gutierrez, C., Tao, W., Hilsenbeck, S.G., De Angelis, C., Wang, N.J., Heiser, L., Gray, J.W., Lopez-Tarruella, S., Pavlick, A., Trivedi, M.V., Chamness, G.C., Chang, J.C., Osborne, C.K., Rimawi, M.F., Schiff, R. (2015) Upregulation of ER signaling as an adaptive mechanism of cell survival in HER2-positive breast tumors treated with anti-HER2 therapy. Clin. Cancer Res., 21(17):3995-4003. PMC4558260

Daemen, A., Griffith, O.L., Heiser, L.M., Wang, N.J., Enache, O.M., Sanborn, Z., Pepin, F., Durinck, S., Korkola, J.E., Griffith, M., Hur, J.S., Huh, N., Chung, J., Cope, L., Fackler, M.J., Umbricht, C., Sukumar, S., Seth, P., Sukhatme, V.P., Jakkula, L.R., Lu, Y., Mills, G.B., Cho, R.J., Collisson, E.A., van 't Veer, L.J., Spellman, P.T., Gray, J.W. (2015) Erratum to: Modeling precision treatment of breast cancer. Genome Biol., 16(1):95. PMC4426644

Issued United States Patents

Finding leaks in a tandem Van de Graff accelerator

  • Gray, J.W., Hartnell, G.W., and Legg, J.C. Method of locating defects in a high-voltage insulating tube. U.S. Patent #3,76l,720 (1974)
Flow cytometry and sorting
  • Gray, J.W., Alger, T.W., and Lord, D. Fluidic assembly for an ultra-high-speed chromosome flow sorter. U.S. Patent #4,361,400 (1982)
  • Gray, J.W., Hirschfeld, T.B., and Norgren, R.M. Method and apparatus for fringe-scanning chromosome analysis. U.S. Patent #4,596,036 (1986)
BrdUrd/DNA analysis
  • Dolbeare, F. and Gray, J.W. Flow cytometric measurement of total DNA and incorporated halodeoxyuridine. U.S. Patents #4,585,736 (1986); #4,780,406 (1988); #4,812,394 (1989)
Fluorescence in situ hybridization (FISH)
  • Gray, J.W. and Pinkel, D. Methods of preparing and applying single stranded DNA probes to double stranded target DNAs in situ. U.S. Patent #5,028,525 (1991)
  • Gray, J.W. and Pinkel, D. Methods for chromosome-specific staining. U.S. Patents #5,447,841 (1995); #6,596,479 (1995); #6,607,877 (2003); #6,872,817 (2005)
  • Gray, J.W., Pinkel, D., and Tkachuk, D. Method of detecting genetic translocations identified with chromosomal abnormalities (BCR/ABL translocation). U.S. Patent #6,280,929 (2001)
  • Gray, J.W. and Pinkel, D. Methods of biological dosimetry employing chromosome-specific staining. U.S. Patent #6,132,961 (2000)
  • Gray, J.W., Pinkel, D., Kallioniemi, O.-P., Kallioniemi, A., and Sakamoto, M. Methods of staining target chromosomal DNA employing high complexity nucleic acid probes. U.S. Patent #7,115,709 (2006)
  • Pinkel, D., Kallioniemi, O.-P., Kallioniemi, A., Waldman, F., Gray, J.W., and Sakamoto, M. Genomic probing. U.S. Patent #5,856,097 (1995)
  • Weier, H.-U. and Gray, J.W. Repeat sequence chromosome specific nucleic acid probes and methods of preparing and using. U.S. Patent #5,427,932 (1995)
  • Gray, J.W., Stokke, T., and Pinkel, D. Detection of amplified or deleted chromosomal regions. U.S. Patents #5,472,842 (1995); #5,633,365 (1997).
  • Gray, J.W. and Weier, H.-U. Y-Chromosome specific nucleic acid probe and method for determining the y-chromosome in situ. U.S. Patents #5,840,482 (1998); #5,888,730 (1999); #6,300,066 (2001)
  • Gray, J. and Weier, H.-U. Quantitative DNA fiber mapping. U.S. Patent #5,851,769 (1998)
Comparative genomic hybridization (CGH)
  • Pinkel, D., Gray, J.W., Kallioniemi, A., Kallioniemi, O.-P., and Waldman, F. Comparative genomic hybridization (CGH). U.S. Patent #5,665,549 (1997); #5,721,098 (1998); #5,965,362 (1999); #5,976,790 (1999); #6,159,685 (2000); #6,335,167 (2002); #7,238,484 (2007), #7,537,895 (2009)
  • Pinkel, D., Albertson, D., and Gray, J.W. Comparative fluorescence hybridization to nucleic acid arrays. U.S. Patents #5,830,645 (1998); #6,562,565 (2003)
  • Pinkel, D. and Gray, J.W. High density array fabrication and readout method for a fiber optic biosensor. U.S. Patents #5,690,894 (1997); #6,146,593 (2000); #6,417,506 (2002)
  • Pinkel, D., Albertson, D.G., and Gray, J.W. Array-based detection of genetic alterations associated with disease. U.S. Patents #6,210,878 (2001); #7,267,947 (2007)
  • Gray, J.W., Pinkel, D., Albertson, D., Collins, C.C., and Baldocchi, R. Comparative fluorescence hybridization to oligonucleotide microarrays. U.S. Patent #6,465,182 (2002)
  • Pinkel, D., Albertson, D.G., Gray, J.W., Hamilton, G., Brown, N.W., and Clark, S.M. High-efficiency microarray printing device. U.S. Patent #6,855,538 (2005)
  • Albertson, D., Pinkel, D., Fridyland, J., Huey, B., Snijders, A., Gray, J.W., Kallioniemi, A., Kallioniemi, O., Waldman, F. Detection of nucleic acid differences by comparative genomic hybridization. U.S. Patent #7,534,567 (2009)
Diagnostic markers
  • Christman, M.F., Gray, J.W., Levin, N.A., Brzoska, P., and Nakamura, H. Genetic alterations that correlate with lung carcinomas. U.S. Patent #5,670,314 (1997)
  • Gray, J.W., Pinkel, D. Collins, C., Kallioniemi, O.-P., and Tanner, M. Amplification of chromosomal region 20q13 as prognostic indicator in breast cancer. U.S. Patents #5,801,021 (1998); #6,268,184 (2001)
  • Gray, J., Collins, C., Godfrey, T., Kowbel, D., Hwang, S., and Rommens, J. Genes from the 20Q13 amplicon and their uses. U.S. Patents #5,892,010 (1999); # 6,808,878 (2005); # 7,049,424 (2006); # 7,413,899 (2008)
  • Shayesteh, L. and Gray, J.W. Genetic aberrations associated with cancer (PIK3CA). U.S. Patents #6,110,673 (2000); #6,277,563 (2001); #6,475,732 (2002); #6,537,761 (2003); # 7,670,767 (2010)
  • Gray, J.W., Pinkel, D., Kallioniemi, O.-P., Kallioniemi, A., and Sakamoto, M. Chromosome-specific staining to detect genetic rearrangements associated with chromosome 3 and/or chromosome 17. U.S. Patents #6,475,720 (2002); #6,344,315 (2002); #RE40,929 (2009)
  • Gray, J.W., Pinkel, D., Tkachuk, D., and Westbrook, C. Chromosome specific staining to detect genetic rearrangements. U.S. Patent Application #09/765,291 (2001, amendment filed 2007)
  • Gray, J.W. and Pinkel, D. Methods and compositions for chromosome 21-specific staining. U.S. Patent #6,500,612 (2002)
  • Albertson, D.G., Pinkel, D., Collins, C., and Gray, J.W. Amplicon in the 20q13 region of human chromosome 20 and uses thereof. U.S. Patent #6,664,057 (2003)
  • Giacomini, K.M., Gray, J.W., Lapuk, A.V., and Zhang, S. Use of organic cation transporters for cancer diagnosis and therapy. U.S. Provisional Patent Application #60/793,803 (2006)
  • Albertson, D., Pinkel, D., Collins, C., Gray, J.W., Ystra, B. Detecting CYP24 expression level as a marker for predisposition to cancer. U.S. Patent #7,648,826 (2010)
End sequence profiling (ESP)
  • Collins, C., Volik, S., and Gray, J.W. End sequence profiling. U.S. Patent #6,785,614 (2004)
Mass spectrometric imaging of mass tag labeled specimens
  • Felton, James S., Wu, Kuang Jen J., Knize, Mark G., Kulp, Kristen S., Gray, Joe W. Imaging mass spectrometer with mass tags. US Patent #7,728,287 (2010)
Others
  • Ginzinger, D., Godfrey, T., Jensen, R., and Gray, J.W. Quantitative PCR method to enumerate DNA copy number. U.S. Patent #6,180,349 (2001)
  • Fulwyler, M.J. and Gray, J.W. Capillary array and related methods. US Patents #6,610,499 (2003); #6,818,184 (2005); #6,898,237 (2006); #7,741,104 (2010)