Staff information

Kenneth Auberry

Data Scientist
Pacific Northwest National Laboratory
PO Box 999
MSIN: K8-91
Richland, WA 99352
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Lin T., G.A. Anderson, R.V. Norheim, S.A. Prost, B.L. Lamarche, F.E. Leach, and K.J. Auberry, et al. 2015. "An Adaptable Multiple Power Source for Mass Spectrometry and other Scientific Instruments." Review of Scientific Instruments 86, no. 9:Article No. 094102. PNNL-SA-110063. doi:10.1063/1.4930967

Auberry K.J., G.R. Kiebel, M.E. Monroe, J.N. Adkins, G.A. Anderson, and R.D. Smith. 2010. "Omics.pnl.gov: A Portal for the Distribution and Sharing of Multi-Disciplinary Pan-Omics Information." Journal of Proteomics and Bioinformatics 3, no. 1:1-4. PNNL-SA-75729.

Chowdhury S.M., L. Shi, H. Yoon, C. Ansong, L.M. Rommereim, A.D. Norbeck, and K.J. Auberry, et al. 2009. "A method for investigating protein-protein interactions related to Salmonella typhimurium pathogenesis." Journal of Proteome Research 8, no. 3:1504-1514. PNNL-SA-58873.
Taylor R.C., M. Singhal, D.S. Daly, J.M. Gilmore, W.R. Cannon, K.O. Domico, and A.M. White, et al. 2009. "An analysis pipeline for the inference of protein-protein interaction networks." International Journal of Data Mining and Bioinformatics 3, no. 4) (Sp. Iss. SI:409-430. PNNL-SA-59756. doi:10.1504/IJDMB.2009.029204

Callister S.J., L.A. McCue, J.E. Turse, M.E. Monroe, K.J. Auberry, R.D. Smith, and J.N. Adkins, et al. 2008. "Comparative Bacterial Proteomics: Analysis of the Core Genome Concept." PLoS One 3, no. 2:e1542. PNNL-SA-58389. doi:10.1371/journal.pone.0001542
Mayampurath A.M., N. Jaitly, S.O. Purvine, M.E. Monroe, K.J. Auberry, J.N. Adkins, and R.D. Smith. 2008. "DeconMSn: A Software Tool for accurate parent ion monoisotopic mass determination for tandem mass spectra." Bioinformatics 24, no. 7:1021-1023. PNNL-SA-56275. doi:10.1093/bioinformatics/btn063
Pertz O.C., Y. Wang, F. Yang, W. Wang, l.J. gay, M.A. Gritsenko, and T.R. Clauss, et al. 2008. "“Spatial Mapping of the Neurite and Soma Proteomes Reveals a Functional Cdc42/Rac Regulatory Network”." Proceedings of the National Academy of Sciences of the United States of America 105, no. 6:1931-1936. PNNL-SA-58516. doi:10.1073/pnas.0706545105

Taylor R.C., M. Singhal, D.S. Daly, K.O. Domico, A.M. White, D.L. Auberry, and K.J. Auberry, et al. 2007. "SEBINI-CABIN: An Analysis Pipeline for Biological Network Inference, with a Case Study in Protein-Protein Interaction Network Reconstruction." In Sixth International Conference on Machine Learning and Applications, (ICMLA 2007), 587-593. Washington Dc:IEEE Computer Society. PNNL-SA-55941. doi:10.1109/ICMLA.2007.63

Kiebel G.R., K.J. Auberry, N. Jaitly, D. Clark, M.E. Monroe, E.S. Peterson, and N. Tolic, et al. 2006. "PRISM: A Data Management System for High-Throughput Proteomics." Proteomics 6, no. 6:1783-1790. PNNL-SA-45753. doi:10.1002/pmic.200500500

Adkins J.N., M.E. Monroe, K.J. Auberry, Y. Shen, J.M. Jacobs, D.G. Camp, and F. Vitzthum, et al. 2005. "A Proteomic Study of the HUPO Plasma Proteome Project's Pilot Samples using an Accurate Mass and Time Tag Strategy." Proteomics 5, no. 13:3454-3466. PNWD-SA-6982. doi:10.1002/pmic.200401333
Cannon W.R., K.H. Jarman, B.M. Webb-Robertson, D.J. Baxter, C.S. Oehmen, K.D. Jarman, and A. Heredia-Langner, et al. 2005. "A Comparison of Probability and Likelihood Models for Peptide Identification from Tandem Mass Spectrometry Data." Journal of Proteome Research 4, no. 5:1687-1698. PNNL-SA-45622.
Kolker E., A.F. Picone, M.Y. Galperin, M.F. Romine, R. Higdon, K.S. Makarova, and N. Kolker, et al. 2005. "Global Profiling of Shewanella oneidensis MR-1: Expression of Hypothetical Genes and Improved functional annotations." Proceedings of the National Academy of Sciences of the United States of America 102, no. 6:2099-2104. PNNL-SA-43139.

Havre S.L., M. Singhal, B. Gopalan, D.A. Payne, K.R. Klicker, G.R. Kiebel, and K.J. Auberry, et al. 2004. "Integrating Evolving Tools for Proteomics Research." In Proceedings of The 2004 International Conference on Mathematics and Engineering Techniques in Medicine and Biological Sciences, edited by Valafar, Faramarz and Homayoun Valafar, 2004, 307-313. Las Vegas, Nevada:CSREA Press. PNNL-SA-40933.
Jacobs J.M., H.M. Mottaz, L. Yu, D.J. Anderson, R.J. Moore, W.U. Chen, and K.J. Auberry, et al. 2004. "Multidimensional Proteome Analysis of Human Mammary Epithelial Cells." Journal of Proteome Research 3, no. 1:68-75. PNWD-SA-6087.
Romine M.F., D.A. Elias, M.E. Monroe, K.J. Auberry, R. Fang, J.K. Fredrickson, and G.A. Anderson, et al. 2004. "Validation of Shewanella oneidensis MR-1 Small Proteins by AMT Tag-based Proteome Analysis." OMICS. A Journal of Integrative Biology 8, no. 3:239-254. PNNL-SA-42691.
Varnum S.M., D.N. Streblow, M.E. Monroe, P. Smith, K.J. Auberry, L. Pasa-Tolic, and D. Wang, et al. 2004. "Identification of Proteins in Human Cytomegalovirus (HCMV) Particles: the HCMV Proteome." Journal of Virology 78, no. 20:10960-10966. PNNL-SA-43398.

Petritis K., L.J. Kangas, P.L. Ferguson, G.A. Anderson, L. Pasa-Tolic, M.S. Lipton, and K.J. Auberry, et al. 2003. "Use of artificial neural networks for the accurate prediction of peptide liquid chromatography elution times in proteome analyses." Analytical Chemistry 75, no. 5:1039-1048. PNNL-SA-37767.
Shen Y., R.J. Moore, R. Zhao, J. Blonder, D.L. Auberry, C.D. Masselon, and L. Pasa-Tolic, et al. 2003. "High-Efficiency On-Line Solid-Phase Extraction Coupling to 15-150 um I.D. Column Liquid Chromatography for Proteomic Analysis." Analytical Chemistry 75, no. 14:3596-3605. PNNL-SA-38207.

Adkins J.N., S.M. Varnum, K.J. Auberry, R.J. Moore, N. Angell, R.D. Smith, and D.L. Springer, et al. 2002. "Toward a Human Blood Serum Proteome: Analysis by Multidimensional Separation Coupled with Mass Spectrometry." Molecular & Cellular Proteomics. MCP 1, no. 12:947-955. PNWD-SA-5845.

Belov M.E., E.N. Nikolaev, G.A. Anderson, K.J. Auberry, R. Harkewicz, and R.D. Smith. 2001. "Electrospray Ionization - Fourier Transform Ion Cyclotron Mass Spectrometry Using Ion Preselection and External Accumulation for Ultrahigh Sensitivity." Journal of the American Society for Mass Spectrometry 12, no. 1:38-48. PNNL-SA-33645.