Development of an Ultra-High Throughput and Highly Sensitive Proteomics Instrumental Platform
EMSL Project ID
32707
Abstract
This project will develop and initially demonstrate a powerful new "next generation" instrumental platform for ultra-high throughput proteomics that will enable a range of new measurement capabilities in support of EMSL users.
The new instrument platform builds upon EMSL strengths and IP in ion mobility separations (IMS), mass spectrometry (MS), electrospray ionization (ESI) sources, and ion funnel technologies, as well as existing proteomics capabilities in the EMSL and FCSD. The instrument platform will incorporate a novel high efficiency multi-emitter array ESI source, ultra-high speed gas phase IMS, and high speed time-of-flight (TOF) MS to achieve a 10- to 100-fold increase in throughput and ~50-fold gain in the sensitivity of proteomics measurements.
Support under the EMSL partner program will be specifically used to assemble and develop key components of the ESI-IMS-TOF MS platform. A significant fraction of the overall effort will involve the EMSL machine shop and IDL for mechanical and electronic hardware fabrication and assembly. The new proteomics platform will be evaluated in the context of a challenging application(s) (e.g., related to environmental biomarker discovery, microbial and systems biology research, bioenergy and bioproducts technology development) that benefits from the greatly improved measurement capabilities and is relevant to programmatic growth. The tentatively planned initial application(s) used for evaluation of the platform in year 2 will be subject to revision to target applications of greatest relevance to EMSL users.
Project Details
Project type
Scientific Partner
Start Date
2008-12-22
End Date
2011-04-15
Status
Closed
Released Data Link
Team
Principal Investigator
Team Members
Related Publications
Ahn HK, BC Kim, SH Jun, MS Chang, D Lopez-Ferrer, RD Smith, MB Gu, SW Lee, BS Kim, and J Kim. 2010. "Robust Trypsin Coating on Electrospun Polymer Nanofibers in Rigorous Conditions and Its Uses for Protein Digestion." Biotechnology and Bioengineering 107(6):917-923.
Baker ES, EA Livesay, DJ Orton, RJ Moore, WF Danielson, DC Prior, YM Ibrahim, BL Lamarche, AM Mayampurath, AA Schepmoes, DF Hopkins, K Tang, RD Smith, and ME Belov. 2010. "An LC-IMS-MS Platform Providing Increased Dynamic Range for High-Throughput Proteomic Studies." Journal of Proteome Research 9(2):997-1006. doi:10.1021/pr900888b
Baker ES, T Liu, VA Petyuk, KE Burnum-Johnson, YM Ibrahim, GA Anderson, and RD Smith. 2012. "Mass Spectrometry for Translational Proteomics: Progress and Clinical Implications." Genome Medicine 4:Article No. 63. doi:10.1186/gm364
brahim YM, ES Baker, WF Danielson Iii, RV Norheim, DC Prior, GA Anderson, ME Belov, and RD Smith. "Development of a new ion mobility (quadrupole) time-of-flight mass spectrometer." International Journal of Mass Spectrometry. doi:10.1016/j.ijms.2014.07.034
Buchko GW, G Niemann, ES Baker, ME Belov, RD Smith, F Heffron, JN Adkins, and JE McDermott. 2010. "A multi-pronged search for a common structural motif in the secretion signal of Salmonella enterica serovar Typhimurium type III effector proteins." Molecular Biosystems 6(12):2448-2458. doi:10.1039/c0mb00097c
Ibrahim YM, DC Prior, ES Baker, RD Smith, and ME Belov. 2010. "Characterization of an Ion Mobility-Multiplexed Collision Induced Dissociation- Tandem Time-of-Flight Mass Spectrometry Approach." International Journal of Mass Spectrometry 293(1-3):34-44.
Jun SH, MS Chang, BC Kim, HJ An, D Lopez-Ferrer, R Zhao, RD Smith, SW Lee, and J Kim. 2010. "Trypsin coatings on electrospun and alcohol-dispersed polymer nanofibers for trypsin digestion column." Analytical Chemistry 82(18):7828 - 7834. doi:10.1021/ac101633e
Lopez-Ferrer D, K Petritis, EW Robinson, KK Hixson, Z Tian, JH Lee, SW Lee, N Tolic, KK Weitz, ME Belov, RD Smith, and L Pasa-Tolic. 2011. "Pressurized Pepsin Digestion in Proteomics: An Automatable Alternative to Trypsin for Integrated Top-down Bottom-up Proteomics." Molecular & Cellular Proteomics. MCP 10(2):, doi:10.1074/mcp.M110.001479
Poster presentation at the 57th conference of the American Society for Mass Spectrometry held at Philadelphia PA
Prost SA, KL Crowell, ES Baker, YM Ibrahim, BH Clowers, ME Monroe, GA Anderson, RD Smith, and SH Payne. 2014. "Detecting and Removing Data Artifacts in Hadamard Transform Ion Mobility-Mass Spectrometry Measurements." Journal of the American Society for Mass Spectrometry Epub Ahead of print:, doi:10.1007/s13361-014-0895-y
Shah AR, K Agarwal, ES Baker, M Singhal, AM Mayampurath, YM Ibrahim, LJ Kangas, ME Monroe, R Zhao, ME Belov, GA Anderson, and RD Smith. 2010. "Machine learning based prediction for peptide drift times in ion mobility spectrometry ." Bioinformatics 26(13):1601-1607. doi:10.1093/bioinformatics/btq245