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Scientist Profiles

David O. Nelson, Ph.D.
Principal Biostatistician, Northern California Cancer Center

Associate Member, Division of Epidemiology, Dept. of Health Research & Policy, Stanford University School of Medicine

2201 Walnut Ave, Suite 300
Fremont, California 94538-2334
E-mail: 
dnelson@cpic.org
Phone: 510-608-5000
Fax: 510-666-0693

Research Interests:
Dr. Nelson's current research interests involve reliable model selection in an environment where the ratio of the number of potential variables p to the sample size n is larger than what has been traditionally encountered. Such "small n, large p" situations have become especially prevalent in modern "-omics" data. However, the problem arises as well in many other fields, as well as in most epidemiologic studies. His major focus has been on adapting ensemble methods from the machine learning community, such as random forests and boosting, to non-traditional problems, such as building effective models for predicting disease outcomes from environmental exposure data, developing mass spectrometry signatures as prognostic indicators for health outcomes of interest, and other complex problems involving the interplay of genomic data, measurement processes, and epidemiology.

Dr. Nelson became Principal Biostatistician for the Northern California Cancer Center in October 2006. Prior to that time, he was a Group Leader for Biostatistics and Bioinformatics within the Computations Department at Lawrence Livermore National Laboratory (LLNL), where he had been a computer scientist, statistician, and software engineer for over 25 years.

He was a senior member of the team that founded the Department of Energy's Joint Genome Institute (JGI) in Walnut Creek. He has been the director or co-director for two successful P01 statistics and data management cores, as well as founding member and statistical lead for the Livermore Microarray Center at LLNL. He has been providing statistical and informatics consulting expertise to scientists at the NCCC, LLNL, the JGI, and in the private industry for over two decades.

Dr. Nelson brings to NCCC an extensive background in statistics, mathematics, computer science, and software engineering, especially as they relate to applying modern statistical techniques to complex problems involving the interplay of genomic data, measurement processes, and epidemiology.

He is involved in several large-scale ongoing studies at NCCC, where he is adapting and extending current research in machine learning to the unique needs and problems of NCCC investigators.

Selected Research Publications:
Jones IM, Burkhart-Schultx K, Strout CL, Nelson DO. Studies of thioguanine-resistant lymphocytes induced by in vivo irradiation of mice.  Environ Mol Mutagen. 2008;49:5;343-50.

Bogen K, Keating G, Chan J, Paine L, Simms E, Nelson D, Holly E. Highly elevated PSA and dietary PhIP intake in a prospective clinic-based study among African Americans. Prostate Cancer Prostatic Dis. 2007;10(3):261-9.

Jones IM, Thomas CB, Xi T, Mohrenweiser HW, Nelson DO. Exploration of methods to identify polymorphisms associated with variation in DNA repair capacity phenotypes. Mutat Res. 2007;616:213-220.

Berman ESF, Kulp KS, Knize MG, Wu L, Nelson EJ, Nelson DO, Wu KJ. Distinguishing monosaccaride stereo- and structural isomers with ToF-SIMS and multivariate statistical analysis. Analytical Chemistry. 2006;78(18):6497-6503.

Kulp KS, Montgomery JL, Nelson DO, McLimans B, Latham ER, Shattuck DL, Klotz DM, Bennett LM. Essiac and Flor-Essence herbal tonics stimulate the in vitro growth of human breast cancer cells. Breast Cancer Research and Treatment. 2006;98(3):249-259.

Malfatti MA, Dingley KH, Nowell-Kadlubar S, Ubick EA, Mulakken N, Nelson D, Lang NP, Felton JS, Turteltaub KW. The urinary metabolite profile of the dietary carcinogen 2-amino-1-methyl-6-phenylimidazo[4,5-b]pyridine is predictive of colon DNA adducts after a low-dose exposure in humans. Cancer Res. 2006;66(21):10541-7.

Coleman MA, Yin E, Peterson LE, Nelson D, Sorenson K, Tucker JD, Wyrobek AJ. Low-dose irradiation alters the transcript profiles of human lymphoblastoid cells including genes associated with cytogenic radioadaptive response. Radiation Research. 2005;163. 

All publications (42)

Education:

INSTITUTION AND LOCATION DEGREE, YEAR FIELD OF STUDY
University of California, Berkeley  Ph.D., 1995 Statistics
University of California, Berkeley M.A., 1977 Mathematics
University of California, Santa Barbara B.A., 1974 Mathematics

  
Professional Memberships, Professional Activities, and Awards:

1990-present  Member, Institute of Mathematical Statistics
1990-present  Member, American Statistical Association
2004-present  Member, International  Genetic Epidemiology Society

Editorial reviewer for:

  • Bioinformatics
  • Biometrics
  • Journal of Computational Biology
  • Journal of Multivariate Analysis
  • Journal of Theoretical Biology

Peer-review panel member for:

  • University of California Discovery Grant Program, Section on IT for Life Sciences
  • University of California Biotechniology STAR (Strategic Targets for Alliances in Research) Project
  • Department of Energy SBIR (Small Business Innovative Research) Program
  • Lawrence Livermore National Laboratory Lab-wide LDRD (Laboratory-Directed Research and Development) Program
  • Lawrence Livermore National Laboratory Biosciences Exploratory Research LDRD Program



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