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Caprion Proteomics Inc. (Caprion)
Biodefense Proteomics Research Center at Albert Einstein College of Medicine (Einstein)
The Harvard Institute of Proteomics (HIP)
Myriad Genetics, Inc. (Myriad)
Pacific Northwest National Laboratory (PNNL)
About the Pacific Northwest National Laboratory
Dr. Richard Smith, PI
"Identifying Targets for Therapeutic Interventions Using Proteomics Technology"
A key attribute of the Pacific Northwest National Laboratory/Oregon Health & Science University (PNNL/OHSU) Biodefense Proteomics Research Center is the solid technical foundation in advanced proteomics technologies already established in the Environmental Molecular Sciences Laboratory (EMSL) at PNNL. PNNL/OHSU research efforts benefit from a large suite of cutting-edge instrumentation and data processing capabilities, as well as an established cross-disciplinary team of scientists. Additional benefits include the existing collaborative infrastructures at OHSU and PNNL that provide extensive support for major instrumentation and baseline operational costs.
For more information regarding work taking place at PNNL, see our November 2005 newsletter. See the Biodefense Proteomics Catalog for PNNL's publicly available proteomic data.
[ click on a link above for further information or here to see page in full ]
Goals and Objectives
- Develop mass and time tag databases for Salmonella typhimurium and Salmonella typhi organisms
- Perform mass and time tag for vaccinia virus and monkeypox
- Confirm virus handling and preparation function for orthopox viruses
- Continue designing orthopox experiments based on testable hypotheses
- Characterize S. typhimurium (strains LT2 and 14028) and S. typhi (strain TY2) proteomes
- AMT tag analysis of regulatory mutants
- Methods development for growth in host cells
- Use results to design further experiments
Presentations
- Utilization of High-Throughput MS-based Proteomics in Conjunction with Ordered Experimental Design to 'Validate' Putative Drug Targets
Richard D. Smith [6/10/08 - 32 pages/3MB]
- Evolving Capabilities and Asking Tougher Questions
Dick Smith [5/30/07 - 14 pages/12.08MB]
- Orthopoxvirus Proteomics
Scott Wong [5/30/07 - 24 slides/2.38MB]
- Regulation of Virulence in Salmonella and How This Can Be Used to Identify Therapeutic Targets
Fred Heffron [5/30/07 - 25 slides/3MB]
- Towards a Proteomics Data Resources with Emphasis on Therapeutic Targets [3/6/07, PDF, 17 pages/1.95MB]
Publications
- A computational strategy to analyze label-free temporal bottom-up proteomics data | Abstract
Du X, Callister SI, Mauer NP, Adkins JN, Alexandridis RA, Zen Y, Roh JH, Smith WE, Donohue TJ, Kaplan S, Smith RD, Lipton, MS.
J Proteomie Res 2008 Jul 3;7(7):2595-604 - PMID: 18442284
- DAnTE: A statistical tool for quantitative analysis of -omics data | Abstract
Polpitiya AD, Qian WZJ, Jaitly N, Petyuk VA, Adkins JN, Camp DC II, Anderson GA, Smith RD.
Bioinformatics 2008 Jul 1;24(13):1556-8 - PMID: 18453552
- MASIC: A software program for fast quantitation and flexible visualization of chromatographic profiles from detected LC-MS(/MS) features | Abstract
Monroe ME, Shaw JL, Daly DS, Adkins JN, Smith RD.
Comput Biol Chem 2008 Jun 3;32(3):215-7 - PMID: 18440872
- DeconMSn: A software tool for accurate parent ion monoisotopic mass determination for tandem mass spectra | Abstract
Mayampurath AM, Jaitly N, Purvine SO, Monroe ME, Auberry KJ, Adkins JN, Smith RD.
Bioinformatics 2008 Apr 1;24(7):1021-3 - PMID: 18304935
- Proteome-wide identification of proteins in their modifications with decreased ambiguities and improved false discovery rates using unique sequence tags | Abstract
Shen Y, Tolic N, Hixson KK, Purvine SO, Pasa-Tolic L, Qian WJ, Adkins JN, Moore RJ, Smith RD.
Anal Chem. 2008 Mar 15;80(6):1871-82 - PMID: 18271604
Key Players |
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| Richard D. Smith, Ph.D. (Principal Investigator) Pacific Northwest National Laboratory Joshua Adkins, Ph.D. (IWG member) Kenneth Auberry, Ph.D. (IWG member) |
Fred Heffron, Ph.D. Program in Molecular and Cellular Biosciences Scott Wong, Ph.D. |
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