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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 RC, M Singhal, DS Daly, JM Gilmore, WR Cannon, KO Domico, AM White, DL Auberry, KJ Auberry, BS Hooker, GB Hurst, JE McDermott, WH McDonald, DA Pelletier, DA Schmoyer, and HS Wiley. 2009. "An analysis pipeline for the inference of protein-protein interaction networks." International Journal of Data Mining and Bioinformatics 3(4) (Sp. Iss. SI):409-430. 

2008

  • Gilmore JM, DL Auberry, JL Sharp, AM White, KK Anderson, and DS Daly. 2008. "A Bayesian Estimator of Protein-Protein Association Probabilities ." Bioinformatics 24(13):1554-1555.  doi:10.1093/bioinformatics/btn238
  • Pelletier DA, GB Hurst, LJ Foote, PK Lankford, CK McKeown, TYS Lu, DD Schmoyer, MB Shah, WJ Hervey IV, WH McDonald, BS Hooker, WR Cannon, DS Daly, JM Gilmore, HS Wiley, DL Auberry, Y Wang, F Larimer, SJ Kennel, MJ Doktycz, J Morrell-Falvey, ET Owens, and MV Buchanan. 2008. "A general system for studying protein-protein interactions in gram-negative bacteria." Journal of Proteome Research 7(8):3319-3328.  doi:10.1021/pr8001832

2007

  • Sharp JL, KK Anderson, DS Daly, DL Auberry, JJ Borkowski, and WR 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, p. 5 pages.  American Statistical Association, Alexandria, VA. 
  • Sharp JL, KK Anderson, GB Hurst, DS Daly, DA Pelletier, WR Cannon, DL Auberry, DD Schmoyer, WH McDonald, AM White, BS Hooker, KD Victry, MV Buchanan, V Kery, and HS Wiley. 2007. "Statistically Inferring Protein-Protein Asociations with Affinity Isolation LC-MS/MS Assays." Journal of Proteome Research 6(9):3788-3795.  doi:10.1021/pr0701106
  • Taylor RC, M Singhal, DS Daly, KO Domico, AM White, DL Auberry, KJ Auberry, BS Hooker, GB Hurst, JE McDermott, WH McDonald, DA Pelletier, DD Schmoyer, and WR Cannon. 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) , pp. 587-593.  IEEE Computer Society, Washington DC.  doi:10.1109/ICMLA.2007.63

2006

  • Lin CT, PA Moore, DL Auberry, EV Landorf , T Peppler , KD Victry, FR Collart, and V Kery. 2006. "Automated Purification of Recombinant Proteins: Combining High-throughput with High Yield." Protein expression and purification 47(1):16-24. 

2005

  • Ahram M, JN Adkins, DL Auberry, DS Wunschel, and DL Springer. 2005. "A Proteomic Approach to Characterize Protein Shedding." Proteomics 5(1):123-131.  doi:10.1002/pmic.200400912
  • Markillie LM, CT Lin, JN Adkins, DL Auberry, EA Hill, BS Hooker, PA Moore, RJ Moore, L Shi, HS Wiley, and V Kery. 2005. "Simple Protein Complex Purification and Identification Method Suitable for High- throughput Mapping of Protein Interaction Networks." Journal of Proteome Research 4(2):268-274.  doi:10.1021/pr049847a

2003

  • Shen Y, RJ Moore, R Zhao, J Blonder, DL Auberry, CD Masselon, L Pasa-Tolic, KK Hixson, KJ Auberry, and RD Smith. 2003. "High-Efficiency On-Line Solid-Phase Extraction Coupling to 15-150 um I.D. Column Liquid Chromatography for Proteomic Analysis." Analytical Chemistry 75(14):3596-3605. 
  • Springer DL, DL Auberry, M Ahram, JN Adkins, JM Feldhaus, JH Wahl, DM Wunsch, and KD Rodland. 2003. "Characterization of Plasma Membrane Proteins from Ovarian Cancer Cells Using Mass Spectrometry ." Disease Markers 19(4-5):219-228. 

2002

  • Lipton MS, L Pasa-Tolic, GA Anderson, DJ Anderson, DL Auberry, JR Battista, MJ Daly, JK Fredrickson, KK Hixson, HM Kostandarithes, CD Masselon, LM Markillie, RJ Moore, MF Romine, Y Shen, EF Strittmatter, N Tolic, HR Udseth, A Venkateswaran, KK Wong, R Zhao, and RD Smith. 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(17):11049-11054. 

Chemical and Biological Process Development

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