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Chemical and Biological Process Development

Deanna Auberry

Deanna Auberry

Pacific Northwest National Laboratory
PO Box 999
Richland, WA 99352

Biography

Ms. Auberry has been with PNNL since 2000. Her work in the Fungal Biotechnology Group makes use of her prior experience in microbial systems to enable studies of both fungi and algae using mass spectrometry based proteomics. Other past projects have also included the design and implementation of a laboratory information management system (LIMS) to track and report data for the Genomes to Life (GtL) project.

In addition to her extensive experience in preparing biological samples for ESI-LC-MS/MS, she also has expertise in the analysis of proteomics data, and is able to utilize her skills with relational databases, statistical software, and data visualization methods to bring new insights into fungal systems.

Research Interests

  • Fungal and algal proteomics

Education and Credentials

  • MS in Chemistry from Purdue University
  • BA in Chemistry from University of Tennessee at Chattanooga

PNNL Publications

2009

  • 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

2008

  • Gilmore J.M., D.L. Auberry, J.L. Sharp, A.M. White, K.K. Anderson, and D.S. Daly. 2008. "A Bayesian Estimator of Protein-Protein Association Probabilities." Bioinformatics 24, no. 13:1554-1555. PNNL-SA-57281. doi:10.1093/bioinformatics/btn238
  • Pelletier D.A., G.B. Hurst, L.J. Foote, P.K. Lankford, C.K. McKeown, T.S. Lu, and D.D. Schmoyer, et al. 2008. "A general system for studying protein-protein interactions in gram-negative bacteria." Journal of Proteome Research 7, no. 8:3319-3328. PNNL-SA-58778. doi:10.1021/pr8001832

2007

  • Sharp J.L., K.K. Anderson, D.S. Daly, D.L. Auberry, J.J. Borkowski, and W.R. Cannon. 2007. "Inferring Protein Associations Using Protein Pulldown Assays." In 2006 Joint Statistical Meetings: Statistics for an Uncertain World: Meeting Global Challenges, August 6-10, Seattle, WA, 5 pages. Alexandria, Virginia:American Statistical Association. PNNL-SA-49349.
  • Sharp J.L., K.K. Anderson, G.B. Hurst, D.S. Daly, D.A. Pelletier, W.R. Cannon, and D.L. Auberry, et al. 2007. "Statistically Inferring Protein-Protein Asociations with Affinity Isolation LC-MS/MS Assays." Journal of Proteome Research 6, no. 9:3788-3795. PNNL-SA-57329. doi:10.1021/pr0701106
  • 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

2006

  • Lin C.T., P.A. Moore, D.L. Auberry, E.V. Landorf, T. Peppler, K.D. Victry, and F.r. Collart, et al. 2006. "Automated Purification of Recombinant Proteins: Combining High-throughput with High Yield." Protein Expression and Purification 47, no. 1:16-24. PNNL-SA-45902.

2005

  • Ahram M., J.N. Adkins, D.L. Auberry, D.S. Wunschel, and D.L. Springer. 2005. "A Proteomic Approach to Characterize Protein Shedding." Proteomics 5, no. 1:123-131. PNNL-SA-39942. doi:10.1002/pmic.200400912
  • Markillie L.M., C.T. Lin, J.N. Adkins, D.L. Auberry, E.A. Hill, B.S. Hooker, and P.A. Moore, et al. 2005. "Simple Protein Complex Purification and Identification Method Suitable for High- throughput Mapping of Protein Interaction Networks." Journal of Proteome Research 4, no. 2:268-274. PNNL-SA-42494. doi:10.1021/pr049847a

2003

  • 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.
  • Springer D.L., D.L. Auberry, M. Ahram, J.N. Adkins, J.M. Feldhaus, J.H. Wahl, and D.M. Wunsch, et al. 2003. "Characterization of Plasma Membrane Proteins from Ovarian Cancer Cells Using Mass Spectrometry." Disease Markers 19, no. 4-5:219-228. PNNL-SA-40681.

2002

  • Lipton M.S., L. Pasa-Tolic, G.A. Anderson, D.J. Anderson, D.L. Auberry, J.R. Battista, and M.J. Daly, et al. 2002. "Global Analysis of Deinococcus Radiodurans Proteome by Csing Accurate Mass Tags." Proceedings of the National Academy of Sciences of the United States of America 99, no. 17:11049-11054. PNNL-SA-35211.

Chemical and Biological Process Development

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