The DOI matches its Crossref record; 26 of the 26 references it cites were found in a registry or an index.
An Automated and Multiplexed Method for High Throughput Peptide Immunoaffinity Enrichment and Multiple Reaction Monitoring Mass Spectrometry-based Quantification of Protein Biomarkers
Open accessAbstract
There is an urgent need for quantitative assays in verifying and validating the large numbers of protein biomarker candidates produced in modern "-omics" experiments. Stable isotope standards with capture by anti-peptide antibodies (SISCAPA) has shown tremendous potential to meet this need by combining peptide immunoaffinity enrichment with quantitative mass spectrometry. In this study, we describe three significant advances to the SISCAPA technique. First, we develop a method for an automated magnetic bead-based platform capable of high throughput processing. Second, we implement the automated method in a multiplexed SISCAPA assay (nine targets in one assay) and assess the performance characteristics of the multiplexed assay. Using the automated, multiplexed platform, we demonstrate detection limits in the physiologically relevant ng/ml range (from 10 microl of plasma) with sufficient precision (median coefficient of variation, 12.6%) for quantifying biomarkers. Third, we demonstrate that enrichment of peptides from larger volumes of plasma (1 ml) can extend the limits of detection to the low pg/ml range of protein concentration. The method is generally applicable to any protein or biological specimen of interest and holds great promise for analyzing large numbers of biomarker candidates.
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Cites
Protein biomarker discovery and validation: the long and uncertain path to clinical utility
Rifai, N., Gillette, M. A., & Carr, S. A. (2006) · Nature Biotechnology · doi:10.1038/nbt1235 · Cited by 1,867
Quantitative mass spectrometric multiple reaction monitoring assays for major plasma proteins
Anderson, L., & Hunter, C. L. (2006) · Molecular & Cellular Proteomics · doi:10.1074/mcp.m500331-mcp200 · Cited by 1,230
Self-citationAnderson, N. L., Anderson, N. G., Haines, L. R., Hardie, D. B., Olafson, R. W., & Pearson, T. W. (2004) · Journal of Proteome Research · doi:10.1021/pr034086h · Cited by 804
The fundamental flaws of immunoassays and potential solutions using tandem mass spectrometry
Hoofnagle, A. N., & Wener, M. H. (2009) · Journal of Immunological Methods · doi:10.1016/j.jim.2009.06.003 · Cited by 561
Insights from genomic profiling of transcription factors
Farnham, P. J. (2009) · Nature Reviews Genetics · doi:10.1038/nrg2636 · Cited by 519
Kuzyk, M. A., Smith, D., Yang, J., Cross, T. J., Jackson, A. M., Hardie, D. B., Anderson, N. L., & Borchers, C. H. (2009) · Molecular & Cellular Proteomics · doi:10.1074/mcp.m800540-mcp200 · Cited by 515
Peng, J., Kim, M. J., Cheng, D., Duong, D. M., Gygi, S. P., & Sheng, M. (2004) · Journal of Biological Chemistry · doi:10.1074/jbc.m400103200 · Cited by 473
Yin, H., Killeen, K., Brennen, R., Sobek, D., Werlich, M., & van de Goor, T. (2005) · Analytical Chemistry · doi:10.1021/ac049068d · Cited by 362
High Sensitivity Detection of Plasma Proteins by Multiple Reaction Monitoring of N-Glycosites
Stahl-Zeng, J., Lange, V., Ossola, R., Eckhardt, K., Krek, W., Aebersold, R., & Domon, B. (2007) · Molecular & Cellular Proteomics · doi:10.1074/mcp.m700132-mcp200 · Cited by 361
Hoofnagle, A. N., Becker, J. O., Wener, M. H., & Heinecke, J. W. (2008) · Clinical Chemistry · doi:10.1373/clinchem.2008.109652 · Cited by 314 · cited 1×
“To date, individual SISCAPA assays have been successfully configured to a number of analytes (4–9), and up to three peptides have been enriched simultaneously (7, 8).”
Cited by
Selected reaction monitoring–based proteomics: workflows, potential, pitfalls and future directions
Picotti, P., & Aebersold, R. (2012) · Nature Methods · doi:10.1038/nmeth.2015 · Cited by 1,302
Mass spectrometry in high-throughput proteomics: ready for the big time
Nilsson, T., Mann, M., Aebersold, R., Yates, J. R., Bairoch, A., & Bergeron, J. J. M. (2010) · Nature Methods · doi:10.1038/nmeth0910-681 · Cited by 470
Mass spectrometry-based proteomics: existing capabilities and future directions
Angel, T. E., Aryal, U. K., Hengel, S. M., Baker, E. S., Kelly, R. T., Robinson, E. W., & Smith, R. D. (2012) · Chemical Society Reviews · doi:10.1039/c2cs15331a · Cited by 441
Abbatiello, S. E., Schilling, B., Mani, D. R., Zimmerman, L. J., Hall, S. C., MacLean, B., Albertolle, M., Allen, S., Burgess, M., Cusack, M. P., et al. (2015) · Molecular & Cellular Proteomics · doi:10.1074/mcp.m114.047050 · Cited by 215
Self-citationQuantitative measurements of N‐linked glycoproteins in human plasma by SWATH‐MS
Liu, Y., Hüttenhain, R., Surinova, S., Gillet, L. C., Mouritsen, J., Brunner, R., Navarro, P., & Aebersold, R. (2013) · PROTEOMICS · doi:10.1002/pmic.201200417 · Cited by 204
Metadata
- Authors
- Whiteaker, J. R., Zhao, L., Anderson, L., & Paulovich, A. G.
- Venue
- Molecular & Cellular Proteomics
- Publisher
- Elsevier BV
- Published
- 2010-01
- Volume
- 9
- Issue
- 1
- Pages
- 184-196
- ISSN
- 1535-9476 (ISSN-L)
- OpenAlex
- W2047322941
- Cited by
- 323
- References
- 26
- FWCI
- 13.39
- Type
- journal article
- Language
- en
- Open access
- hybrid
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- Whiteaker, J. R., Zhao, L., Anderson, L., & Paulovich, A. G. (2010). An Automated and Multiplexed Method for High Throughput Peptide Immunoaffinity Enrichment and Multiple Reaction Monitoring Mass Spectrometry-based Quantification of Protein Biomarkers. Molecular & Cellular Proteomics. https://doi.org/10.1074/mcp.m900254-mcp200
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