Large-Scale Filter-Aided Sample Preparation Method for the Analysis of the Ubiquitinome

Analytical Chemistry

Volumn 89, Issue 7, 2017, Pages 3840-3846

  Casanovas, Albert ^a   Pinto Llorente, Roberto ^a   Carrascal, Montserrat ^a   Abian, Joaquin ^a,b  

^a INST D INVESTIGACIONS B   (Spain)

^b UNIVERSITAT AUTÒNOMA DE BARCELONA   (Spain)

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACIDS; ANTIBODIES; ANTIGEN-ANTIBODY REACTIONS; BANDPASS FILTERS; EFFICIENCY; MASS SPECTROMETRY; SIGNAL TRANSDUCTION;

CELLULAR FUNCTION; CLEAVAGE EFFICIENCY; IN-SOLUTION DIGESTIONS; PROTEIN DIGESTION; SAMPLE PREPARATION; SAMPLE PREPARATION METHODS; TRYPTIC DIGESTION; UBIQUITINATED PROTEINS;

PROTEINS;

EID: 85019653988     PISSN: 00032700     EISSN: 15206882     Source Type: Journal    
DOI: 10.1021/acs.analchem.6b04804     Document Type: Article

References (28)

1. Chen, Z. J.; Sun, L. J. Mol. Cell 2009, 33, 275-286 10.1016/j.molcel.2009.01.014
2. Grabbe, C.; Husnjak, K.; Dikic, I. Nat. Rev. Mol. Cell Biol. 2011, 12, 295-307 10.1038/nrm3099
3. Kim, W.; Bennett, E. J.; Huttlin, E. L.; Guo, A.; Li, J.; Possemato, A.; Sowa, M. E.; Rad, R.; Rush, J.; Comb, M. J.; Harper, J. W.; Gygi, S. P. Mol. Cell 2011, 44, 325-340 10.1016/j.molcel.2011.08.025
4. Xu, G.; Paige, J. S.; Jaffrey, S. R. Nat. Biotechnol. 2010, 28, 868-873 10.1038/nbt.1654
5. Seyfried, N. T.; Xu, P.; Duong, D. M.; Cheng, D.; Hanfelt, J.; Peng, J. Anal. Chem. 2008, 80, 4161-4169 10.1021/ac702516a
6. Shi, Y.; Xu, P.; Qin, J. Mol. Cell. Proteomics 2011, 10, R110.006882 10.1074/mcp.R110.006882
7. Fiskin, E.; Bionda, T.; Dikic, I.; Behrends, C. Mol. Cell 2016, 62, 967-981 10.1016/j.molcel.2016.04.015
8. Bengsch, F.; Tu, Z.; Tang, H. Y.; Zhu, H.; Speicher, D. W.; Zhang, R. Cell Cycle 2015, 14, 1540-1547 10.1080/15384101.2015.1026492
9. Quadroni, M.; Potts, A.; Waridel, P. J. Proteomics 2015, 120, 215-229 10.1016/j.jprot.2015.02.020
10. Udeshi, N. D.; Svinkina, T.; Mertins, P.; Kuhn, E.; Mani, D. R.; Qiao, J. W.; Carr, S. A. Mol. Cell. Proteomics 2013, 12, 825-831 10.1074/mcp.O112.027094
11. Wagner, S. A.; Beli, P.; Weinert, B. T.; Nielsen, M. L.; Cox, J.; Mann, M.; Choudhary, C. Mol. Cell. Proteomics 2011, 10, M111.013284 10.1074/mcp.M111.013284
12. Wagner, S. A.; Beli, P.; Weinert, B. T.; Scholz, C.; Kelstrup, C. D.; Young, C.; Nielsen, M. L.; Olsen, J. V.; Brakebusch, C.; Choudhary, C. Mol. Cell. Proteomics 2012, 11, 1578-1585 10.1074/mcp.M112.017905
13. Manza, L. L.; Stamer, S. L.; Ham, A. J.; Codreanu, S. G.; Liebler, D. C. Proteomics 2005, 5, 1742-1745 10.1002/pmic.200401063
14. Wisniewski, J. R.; Zougman, A.; Nagaraj, N.; Mann, M. Nat. Methods 2009, 6, 359-362 10.1038/nmeth.1322
15. Geiger, T.; Wehner, A.; Schaab, C.; Cox, J.; Mann, M. Mol. Cell. Proteomics 2012, 11, M111.014050 10.1074/mcp.M111.014050
16. Ostasiewicz, P.; Zielinska, D. F.; Mann, M.; Wisniewski, J. R. J. Proteome Res. 2010, 9, 3688-3700 10.1021/pr100234w
17. Soufi, B.; Kelstrup, C. D.; Stoehr, G.; Frohlich, F.; Walther, T. C.; Olsen, J. V. Mol. BioSyst. 2009, 5, 1337-1346 10.1039/b902256b
18. Erde, J.; Loo, R. R.; Loo, J. A. J. Proteome Res. 2014, 13, 1885-1895 10.1021/pr4010019
19. Nel, A. J.; Garnett, S.; Blackburn, J. M.; Soares, N. C. J. Proteome Res. 2015, 14, 1637-1642 10.1021/pr501266c
20. Chiva, C.; Ortega, M.; Sabido, E. J. Proteome Res. 2014, 13, 3979-3986 10.1021/pr500294d
21. Wisniewski, J. R. Anal. Chem. 2016, 88, 5438-5443 10.1021/acs.analchem.6b00859
22. Udeshi, N. D.; Mertins, P.; Svinkina, T.; Carr, S. A. Nat. Protoc. 2013, 8, 1950-1960 10.1038/nprot.2013.120
23. Vizcaino, J. A.; Csordas, A.; del-Toro, N.; Dianes, J. A.; Griss, J.; Lavidas, I.; Mayer, G.; Perez-Riverol, Y.; Reisinger, F.; Ternent, T.; Xu, Q. W.; Wang, R.; Hermjakob, H. Nucleic Acids Res. 2016, 44, D447-456 10.1093/nar/gkv1145
24. Kall, L.; Canterbury, J. D.; Weston, J.; Noble, W. S.; MacCoss, M. J. Nat. Methods 2007, 4, 923-925 10.1038/nmeth1113
25. Spivak, M.; Weston, J.; Bottou, L.; Kall, L.; Noble, W. S. J. Proteome Res. 2009, 8, 3737-3745 10.1021/pr801109k
26. Taus, T.; Kocher, T.; Pichler, P.; Paschke, C.; Schmidt, A.; Henrich, C.; Mechtler, K. J. Proteome Res. 2011, 10, 5354-5362 10.1021/pr200611n
27. Glatter, T.; Ludwig, C.; Ahrne, E.; Aebersold, R.; Heck, A. J.; Schmidt, A. J. Proteome Res. 2012, 11, 5145-5156 10.1021/pr300273g
28. Vandermarliere, E.; Mueller, M.; Martens, L. Mass Spectrom. Rev. 2013, 32, 453-465 10.1002/mas.21376