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Accurate and Sensitive Peptide Identification with Mascot Percolator
Open accessAbstract
Sound scoring methods for sequence database search algorithms such as Mascot and Sequest are essential for sensitive and accurate peptide and protein identifications from proteomic tandem mass spectrometry data. In this paper, we present a software package that interfaces Mascot with Percolator, a well performing machine learning method for rescoring database search results, and demonstrate it to be amenable for both low and high accuracy mass spectrometry data, outperforming all available Mascot scoring schemes as well as providing reliable significance measures. Mascot Percolator can be readily used as a stand alone tool or integrated into existing data analysis pipelines.
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Self-citation
Cited by
Zhang, J., Xin, L., Shan, B., Chen, W., Xie, M., Yuen, D., Zhang, W., Zhang, Z., Lajoie, G. A., & Ma, B. (2012) · Molecular & Cellular Proteomics · doi:10.1074/mcp.m111.010587 · Cited by 1,081
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“For the one hour experiments, between three and eight dubious ORFs were identified per dataset (Table I), confirming these data are indeed well below the 1% FDR threshold.”
MethodInfluentialKelmer Sacramento, E., Kirkpatrick, J. M., Mazzetto, M., Baumgart, M., Bartolome, A., Di Sanzo, S., Caterino, C., Sanguanini, M., Papaevgeniou, N., Lefaki, M., et al. (2020) · Molecular Systems Biology · doi:10.15252/msb.20209596 · Cited by 236
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Self-citationSchüler, S. C., Kirkpatrick, J. M., Schmidt, M., Santinha, D., Koch, P., Di Sanzo, S., Cirri, E., Hemberg, M., Ori, A., & von Maltzahn, J. (2021) · Cell Reports · doi:10.1016/j.celrep.2021.109223 · Cited by 106
Metadata
- Authors
- Brosch, M., Yu, L., Hubbard, T., & Choudhary, J.
- Venue
- Journal of Proteome Research
- Publisher
- American Chemical Society (ACS)
- Published
- 2009-05-08
- Volume
- 8
- Issue
- 6
- Pages
- 3176-3181
- ISSN
- 1535-3893 (ISSN-L)
- 1535-3907
- OpenAlex
- W1996701734
- Cited by
- 428
- References
- 27
- FWCI
- 4.73
- Type
- journal article
- Language
- en
- Open access
- hybrid
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