Targeted protein quantification using sparse reference labeling

Nature Methods

Volumn 11, Issue 3, 2014, Pages 301-304

  Chang, Ching Yun ^a   Sabidó, Eduard ^b   Aebersold, Ruedi ^b,c   Vitek, Olga ^a,d  

^a PURDUE UNIVERSITY   (United States)

^b ETH ZURICH   (Switzerland)

^c UNIVERSITY OF ZURICH   (Switzerland)

^d Purdue University   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ICOSANOID; PEPTIDES AND PROTEINS; STABLE ISOTOPE; SYNTHETIC PEPTIDE;

ANIMAL TISSUE; ARTICLE; CELL LABELING; CELL LINE; CHEMICAL LABELING; DATA ANALYSIS SOFTWARE; ISOTOPE LABELING; LABEL SPARSE QUANTIFICATION; LIQUID CHROMATOGRAPHY; LIVER; MASS SPECTROMETRY; MOUSE; NONHUMAN; OVARY CANCER; PRIORITY JOURNAL; PROBABILITY; PROTEIN ANALYSIS; PROTEIN INTERACTION; PROTEOMICS; SENSITIVITY AND SPECIFICITY; STATISTICAL ANALYSIS;

ANIMALS; CELL LINE, TUMOR; CHEMISTRY TECHNIQUES, ANALYTICAL; HUMANS; ISOTOPE LABELING; LIVER; MICE; PROTEINS; PROTEOMICS; REFERENCE STANDARDS; TIME FACTORS;

EID: 84895514044     PISSN: 15487091     EISSN: 15487105     Source Type: Journal    
DOI: 10.1038/nmeth.2806     Document Type: Article

References (25)

1. Picotti, P., Bodenmiller, B., Mueller, L.N., Domon, B. & Aebersold, R. Cell 138, 795-806 (2009).
2. Picotti, P. et al. Nat. Methods 7, 43-46 (2010).
3. Cima, I. et al. Proc. Natl. Acad. Sci. USA 108, 3342-3347 (2011).
4. Sabidó, E. et al. Mol. Cell. Proteomics 11, M111.014746 (2012).
5. Ferguson, R.E. et al. Proteomics 5, 566-571 (2005).
6. Greer, S., Honeywell, R., Geletu, M., Arulanandam, R. & Raptis, L. J. Immunol. Methods 355, 76-79 (2010).
7. Picotti, P. & Aebersold, R. Nat. Methods 9, 555-566 (2012).
8. Ong, S.-E. & Mann, M. Nat. Protoc. 1, 2650-2660 (2006).
9. Zhang, H. et al. Mol. Cell. Proteomics 10, M110.006593 (2011).
10. Sabidó, E. et al. Mol. Syst. Biol. 9, 681 (2013).
11. Geiger, T., Cox, J., Ostasiewicz, P., Wisniewski, J.R. & Mann, M. Nat. Methods 7, 383-385 (2010).
12. Gillet, L.C. et al. Mol. Cell. Proteomics 11, O111.016717 (2012).
13. Peterson, A.C., Russell, J.D., Bailey, D.J., Westphall, M.S. & Coon, J.J. Mol. Cell. Proteomics 11, O112.020131 (2012).
14. Chang, C.-Y. et al. Mol. Cell. Proteomics 11, M111.014662 (2012).
15. McCulloch, C.E. & Searle, S.R. Generalized, Linear, and Mixed Models (Wiley, 2001).
16. Montgomery, D. Design and Analysis of Experiments (Wiley, 2005).
17. Paulovich, A.G., Whiteaker, J.R., Hoofnagle, A.N. & Wang, P. Proteomics Clin. Appl. 2, 1386-1402 (2008).
18. Kim, J.-S. et al. Mol. Cell. Proteomics 10, M110.007302 (2011).
19. Addona, T.A. et al. Nat. Biotechnol. 27, 633-641 (2009).
20. Kersten, S. EMBO Rep. 2, 282-286 (2001).
21. Farrah, T. et al. Proteomics 12, 1170-1175 (2012).
22. Shannon, P. et al. Genome Res. 13, 2498-2504 (2003).
23. Szklarczyk, D. et al. Nucleic Acids Res. 39, D561-D568 (2011).
24. Kanehisa, M., Goto, S., Kawashima, S., Okuno, Y. & Hattori, M. Nucleic Acids Res. 32, D277-D280 (2004).
25. Huang, D.W., Sherman, B.T. & Lempicki, R.A. Nat. Protoc. 4, 44-57 (2009).