Title:
METHOD AND SYSTEM FOR MICROORGANISM IDENTIFICATION BY MASS SPECTROMETRY-BASED PROTEOME DATABASE SEARCHING
Document Type and Number:
WIPO Patent Application WO2001079523
Kind Code:
A3
Abstract:
A simple statistical model that predicts the distribution of false matches between peaks in matrix-assisted laser desorption/ionization mass spectrometry data and proteins in proteome databases is derived and validated. Given the cluttered and incomplete nature of the data, it is likely that neither simple ranking, nor simple hypothesis testing will be sufficient for truly robust microorganism identification over a large number of candidate microorganisms. In an effort to increase robust microorganism identification, the proteome databases are restricted to include data related to a given set of proteins, and not all proteins. By removing data from the proteome databases, the model is made more robust, i.e., there is a decrease in the number of false matches.
Inventors:
PINEDA FERNANDO J (US)
LIN JEFFREY S (US)
LIN JEFFREY S (US)
Application Number:
PCT/US2001/011649
Publication Date:
March 21, 2002
Filing Date:
April 11, 2001
Export Citation:
Assignee:
UNIV JOHNS HOPKINS (US)
PINEDA FERNANDO J (US)
LIN JEFFREY S (US)
PINEDA FERNANDO J (US)
LIN JEFFREY S (US)
International Classes:
G01N27/62; C12Q1/00; C12Q1/04; G01N33/48; G06F17/18; G06F19/00; G16B50/30; C12Q; (IPC1-7): G06F17/18
Domestic Patent References:
| WO1998035609A1 | 1998-08-20 |
Foreign References:
| US5910655A | 1999-06-08 |
Other References:
HAYEK C S ET AL: "Computer-assisted interpretation of mass spectra", JOHNS HOPKINS APL TECHNICAL DIGEST, JULY-SEPT. 1999, JOHNS HOPKINS UNIV. APPL. PHYS. LAB, USA, vol. 20, no. 3, pages 363 - 371, XP001039877, ISSN: 0270-5214
BIN ZHENG ET AL: "Application of a Bayesian belief network in a computer-assisted diagnosis scheme for mass detection", MEDICAL IMAGING 1999: IMAGE PROCESSING, SAN DIEGO, CA, USA, 22-25 FEB. 1999, vol. 3661, pt.1-2, Proceedings of the SPIE - The International Society for Optical Engineering, 1999, SPIE-Int. Soc. Opt. Eng, USA, pages 1553 - 1561, XP001039884, ISSN: 0277-786X
DEMIREV P A ET AL: "MICROORGANISM IDENTIFICATION BY MASS SPECTROMETRY AND PROTEIN DATABASE SEARCHES", ANALYTICAL CHEMISTRY, AMERICAN CHEMICAL SOCIETY. COLUMBUS, US, vol. 71, no. 14, 15 July 1999 (1999-07-15), pages 2732 - 2738, XP001031956, ISSN: 0003-2700
BIN ZHENG ET AL: "Application of a Bayesian belief network in a computer-assisted diagnosis scheme for mass detection", MEDICAL IMAGING 1999: IMAGE PROCESSING, SAN DIEGO, CA, USA, 22-25 FEB. 1999, vol. 3661, pt.1-2, Proceedings of the SPIE - The International Society for Optical Engineering, 1999, SPIE-Int. Soc. Opt. Eng, USA, pages 1553 - 1561, XP001039884, ISSN: 0277-786X
DEMIREV P A ET AL: "MICROORGANISM IDENTIFICATION BY MASS SPECTROMETRY AND PROTEIN DATABASE SEARCHES", ANALYTICAL CHEMISTRY, AMERICAN CHEMICAL SOCIETY. COLUMBUS, US, vol. 71, no. 14, 15 July 1999 (1999-07-15), pages 2732 - 2738, XP001031956, ISSN: 0003-2700
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