The DOI matches its Crossref record; 10 of the 10 references it cites were found in a registry or an index.
PEAKS: powerful software for peptide de novo sequencing by tandem mass spectrometry
Abstract
A number of different approaches have been described to identify proteins from tandem mass spectrometry (MS/MS) data. The most common approaches rely on the available databases to match experimental MS/MS data. These methods suffer from several drawbacks and cannot be used for the identification of proteins from unknown genomes. In this communication, we describe a new de novo sequencing software package, PEAKS, to extract amino acid sequence information without the use of databases. PEAKS uses a new model and a new algorithm to efficiently compute the best peptide sequences whose fragment ions can best interpret the peaks in the MS/MS spectrum. The output of the software gives amino acid sequences with confidence scores for the entire sequences, as well as an additional novel positional scoring scheme for portions of the sequences. The performance of PEAKS is compared with Lutefisk, a well‐known de novo sequencing software, using quadrupole‐time‐of‐flight (Q‐TOF) data obtained for several tryptic peptides from standard proteins. Copyright © 2003 John Wiley & Sons, Ltd.
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Error-Tolerant Identification of Peptides in Sequence Databases by Peptide Sequence Tags
Mann, M., & Wilm, M. (1994) · Analytical Chemistry · doi:10.1021/ac00096a002 · Cited by 1,468
De Novo Peptide Sequencing via Tandem Mass Spectrometry
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Sequence database searches viade novo peptide sequencing by tandem mass spectrometry
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Implementation and Uses of Automated de Novo Peptide Sequencing by Tandem Mass Spectrometry
Taylor, J. A., & Johnson, R. S. (2001) · Analytical Chemistry · doi:10.1021/ac001196o · Cited by 293
Münchbach, M., Quadroni, M., Miotto, G., & James, P. (2000) · Analytical Chemistry · doi:10.1021/ac000265w · Cited by 280
A Dynamic Programming Approach to De Novo Peptide Sequencing via Tandem Mass Spectrometry
Chen, T., Kao, M.-Y., Tepel, M., Rush, J., & Church, G. M. (2001) · Journal of Computational Biology · doi:10.1089/10665270152530872 · Cited by 248
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Automated de novo sequencing of proteins using the differential scanning technique
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Metadata
- Authors
- Ma, B., Zhang, K., Hendrie, C., Liang, C., Li, M., Doherty‐Kirby, A., & Lajoie, G.
- Venue
- Rapid Communications in Mass Spectrometry
- Publisher
- Wiley
- Published
- 2003-09-19
- Volume
- 17
- Issue
- 20
- Pages
- 2337-2342
- ISSN
- 0951-4198 (ISSN-L)
- 1097-0231
- OpenAlex
- W1971887998
- Cited by
- 1,379
- References
- 10
- FWCI
- 12.11
- Type
- journal article
- Language
- en
- Open access
- closed
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- Ma, B., Zhang, K., Hendrie, C., Liang, C., Li, M., Doherty‐Kirby, A., & Lajoie, G. (2003). PEAKS: powerful software for peptide de novo sequencing by tandem mass spectrometry. Rapid Communications in Mass Spectrometry. https://doi.org/10.1002/rcm.1196
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