Versatile nanocomposites in phosphoproteomics: A review

Analytica Chimica Acta

Volumn 747, Issue , 2012, Pages 7-18

  Najam ul Haq, Muhammad ^a,c   Jabeen, Fahmida ^a   Hussain, Dilshad ^a   Saeed, Adeela ^a   Musharraf, Syed Ghulam ^b   Huck, Christian W ^c   Bonn, Günther K ^c  

^a BAHAUDDIN ZAKARIYA UNIVERSITY   (Pakistan)

^b UNIVERSITY OF KARACHI   (Pakistan)

^c UNIVERSITY OF INNSBRUCK   (Austria)

Author keywords

Biomarkers; Metal oxide affinity chromatography; Microspheres; Nanocomposites; Phosphopeptide enrichment; Phosphorylation

Indexed keywords

BASE MATERIAL; BLOOD SERUM; CAPTURE EFFICIENCY; CARBON-BASED; HUMAN SERUM; LOADING CAPACITIES; METAL OXIDES; PHOSPHOPEPTIDE ENRICHMENT; PHOSPHOPROTEOMICS; PHOSPHORYLATED PEPTIDES; PHOSPHORYLATION SITES; POST-TRANSLATIONAL MODIFICATIONS; PROTEIN PHOSPHORYLATION; REGULATORY MECHANISM;

AFFINITY CHROMATOGRAPHY; BIOMARKERS; BODY FLUIDS; COATED MATERIALS; EFFICIENCY; LOADING; METALLIC COMPOUNDS; MICROSPHERES; PEPTIDES; PHOSPHORYLATION;

NANOCOMPOSITES;

ALPHA CASEIN; BETA CASEIN; BOVINE SERUM ALBUMIN; CARBON; CARBON NANOTUBE; CERIUM OXIDE; CYTOCHROME C; IRON OXIDE; METAL OXIDE; MICROSPHERE; MULTI WALLED NANOTUBE; MYOGLOBIN; NANOCOMPOSITE; NANOMATERIAL; NANOPARTICLE; OVALBUMIN; PHOSPHOPEPTIDE; POLYMER; SILICON DIOXIDE; TITANIUM DIOXIDE; ZIRCONIUM OXIDE;

CHEMICAL MODIFICATION; ELECTROSPRAY MASS SPECTROMETRY; IMMOBILIZED METAL AFFINITY CHROMATOGRAPHY; IMMUNOPRECIPITATION; LIQUID CHROMATOGRAPHY; MATRIX ASSISTED LASER DESORPTION IONIZATION TIME OF FLIGHT MASS SPECTROMETRY; NANOFABRICATION; PRIORITY JOURNAL; PROTEIN PHOSPHORYLATION; PROTEOMICS; REVIEW;

ALUMINUM OXIDE; BIOLOGICAL MARKERS; CHROMATOGRAPHY, AFFINITY; HUMANS; MAGNETITE NANOPARTICLES; MICROSPHERES; NANOCOMPOSITES; PHOSPHOPEPTIDES; PHOSPHORYLATION; PROTEIN PROCESSING, POST-TRANSLATIONAL; PROTEOMICS; SPECTROMETRY, MASS, MATRIX-ASSISTED LASER DESORPTION-IONIZATION; TITANIUM;

EID: 84866329792     PISSN: 00032670     EISSN: 18734324     Source Type: Journal    
DOI: 10.1016/j.aca.2012.08.004     Document Type: Review

References (98)

1. Lu J., Wang M., Li Y., Deng C. Nanoscale 2012, 4:1577-1580.
2. Gleiter H. Acta Mater. 2000, 48:1-29.
3. Guo M.-Q., Huang B.X. Curr. Anal. Chem. 2012, 8:3-21.
4. Mithoe S.C., Boersema P.J., Berke L., Snel B., Heck A.J.R., Menke F.L.H. J. Proteome Res. 2012, 11:438-448.
5. Li Y., Xu X., Qi D., Deng C., Yang P., Zhang X. J. Proteome Res. 2008, 7:2526-2538.
6. Yu L.-R., Issaq H.J., Veenstra T.D. Proteomics 2007, 1:1042-1057.
7. Zebisch A., Czernilofsky A.P., Keri G., Smigelskaite J., Sill H., Troppmair J. Curr. Med. Chem. 2007, 14:601-623.
8. Matsuura K., Nohno Y., Hijiya N., Uchida T., Tsukamoto Y., Moriyama M. Pathol. Int. 2006, 56:368-374.
9. Rowland J.G., Simon J.W., Slabas A.R., Robson C.N., Leung H.Y. Br. J. Cancer 2004, 91:S38.
10. Zhao P., Guo X., Wang H., Qi C., Xia H., Zhang H. Anal. Bioanal. Chem. 2012, 402:1041-1056.
11. Penela P., Murga C., Ribas C., Lafarga V., Mayor F. Br. J. Pharmacol. 2010, 160:821-832.
12. Knowlton M.L., Selfors L.M., Wrobel C.N., Gu T.L., Ballif B.A., Gygi S.P., Polakiewicz R., Brugge J.S. PLoS ONE 2010, 5:e13587.
13. Yu Z., Weinberger P.M., Sasaki C., Egleston B.L., Speier W.F., Haffty B., Kowalski D., Camp R., Rimm D., Vairaktaris E., Burtness B., Psyrri A. Cancer Epidemiol. Biomarkers Prev. 2007, 3:553-558.
14. Lee H.J., Na K., Kwon M.S., Kim H., Kim K.S., Paik Y.K. Proteomics 2009, 9:3395-3408.
15. Yu G., Xiao C., Lu C., Jia H., Ge F., Wang W., Yin X., Jia H., He J., He Q. Mol. BioSyst. 2011, 7:472-479.
16. Salzer U., Maul-Pavicic A., Cunningham-Rundles C., Ursche L.S., Belohradsky B.H., Litzman J., Holm A., Franco J.L., Plebani A., Hammarstrom L., Skrabl A., Schwinger W., Grimbacher B. Clin. Immunol. 2004, 113:234-240.
17. van Zelm M.C., Smet J., Adams B., Mascart F., Schandené L., Janssen F., Ferster A., Kuo C.C., Levy S., van Dongen J.J., van der Burg M. J. Clin. Invest. 2010, 120:1265-1274.
18. Kuijpers T.W., Bende R.J., Baars P.A., Grummels A., Derks I.A., Dolman K.M., Beaumont T., Tedder T.F., van Noesel C.J., Eldering E., van Lier R.A. J. Clin. Invest. 2010, 120:214-222.
19. Bacchelli C., Buckridge S., Thrasher A.J., Gaspar H.B. Clin. Exp. Immunol. 2007, 149:401-409.
20. Huang C., Wang Y., Tsai C., Chen Y., Lee J., Chiou S. Mol. Vis. 2011, 17:186-198.
21. Chen C.-T., Wang L.-Y., Ho Y.-P. Anal. Bioanal. Chem. 2011, 399:2795-2806.
22. Batalha I.L., Lowe C.R., Roque A.C.A. Trends Biotechnol. 2012, 30:100-110.
23. Patolsky F., Zheng G., Lieber C.M. Nanomedicine 2006, 1:51-65.
24. Mathur N., Littlewood P. Nat. Mater. 2004, 3:207-209.
25. Leitner A., Sturm M., Lindner W. Anal. Chim. Acta 2011, 703:19-30.
26. Kjellstrom S., Jensen O.N. Anal. Chem. 2004, 76:5109-5117.
27. Kim J., Camp D.G., Smith R.D.J. Mass Spectrom. 2004, 39:208-215.
28. Nelson C.A., Szczech J.R., Dooley C.J., Xu Q., Lawrence M.J., Zhu H., Jin S., Ge Y. Anal. Chem. 2010, 82:7193-7201.
29. Wu H.-T., Hsu C.-C., Tsai C.-F., Lin P.-C., Lin C.-C., Chen Y.-J. Proteomics 2011, 11:2639-2653.
30. Andersson L., Porath J. Anal. Biochem. 1986, 154:250-254.
31. Li S.H., Dass C. Anal. Biochem. 1999, 270:9-14.
32. Posewitz M.C., Tempst P. Anal. Chem. 1999, 71:2883-2892.
33. Pandey A., Podtelejnikov A.V., Blagoev B., Bustelo X.R., Mann M., Lodish H.F. Proc. Natl. Acad. Sci. U. S. A. 2000, 97:179-184.
34. Pinkse M.W.H., Uitto P.M., Hilhorst M.J., Ooms B., Heck A.J.R. Anal. Chem. 2004, 76:3935-3943.
35. Larsen M.R., Thingholm T.E., Jensen O.N., Roepstorff P., Jorgensen T.J.D. Mol. Cell. Proteom. 2005, 4:873-886.
36. Kweon H.K., Hakansson K. Anal. Chem. 2006, 78:1743-1749.
37. Wolschin F., Wienkoop S., Weckwerth W. Proteomics 2005, 5:4389-4397.
38. Zhou H.J., Xu S.Y., Ye M.L., Feng S., Pan C., Jiang X.G., Li X., Han G.H., Fu Y., Zou H. J. Proteome Res. 2006, 5:2431-2437.
39. Gupta A.K., Gupta M. Biomaterials 2005, 26:3995-4021.
40. Chen C.T., Chen Y.C. Anal. Chem. 2005, 77:5912-5919.
41. Huang Y., Shi Q., Tsung C.K., Gunawardena H.P., Xie L., Yu Y., Liang H., Yang P., Stucky G.D., Chen X. Anal. Biochem. 2011, 408:19-31.
42. Zhang W., Zhao C., Wang S., Fang C., Xu Y., Lu H., Yang P. Proteomics 2011, 11:3482-3490.
43. Ikeguchi Y., Nakamura H. Anal. Sci. 2000, 16:541-543.
44. Kosmulski M. Adv. Colloid Interface Sci. 2002, 99:255-264.
45. Thingholm T.E., Jorgensen T.J.D., Jensen O.N., Larsen M.R. Nat. Protoc. 2006, 1:1929-1935.
46. Jensen S.S., Larsen M.R. Rapid Commun. Mass Spectrom. 2007, 21:3635-3645.
47. Sugiyama N., Masuda T., Shinoda K., Nakamura A., Tomita M., Ishihama Y. Mol. Cell. Proteom. 2007, 6:1103-1109.
48. Liang S., Makamba H., Huang S., Chen S. J. Chromatogr. A 2006, 1116:38-45.
49. Yu Z., Han G., Sun S., Jiang X., Chen R., Wang F., Wu R., Ye M., Zou H. Anal. Chim. Acta 2009, 636:34-41.
50. Imami K., Sugiyama N., Kyono Y., Tomita M., Ishihama Y. Anal. Sci. 2008, 24:161-166.
51. Mallak M., Bockmeyer M., Löbmann P. Thin Solid Films 2007, 515:8072-8077.
52. Blackwell J.A., Carr P.W. J. Chromatogr. A 1991, 549:59-75.
53. Vassileva E., Proinova I., Hadjiivanov K. Analyst 1996, 121:607-612.
54. Renger C., Kuschel P., Kristoffersson A., Clauss B., Oppermann W., Sigmund W. J. Ceram. Process Res. 2006, 7:106-112.
55. Zhao S., Somayajula K.V., Sharkey A.G., Hercules D.M., Hillenkamp F., Karas M., Ingendoh A. Anal. Chem. 1991, 63:450-453.
56. Rappsilber J., Moniatte M., Nielsen M.L., Podtelejnikov A.V., Mann M. Int. J. Mass Spectrom. 2003, 226:223-237.
57. Wu J.H., Xiao K., Zhao Y., Zhang W., Guo L., Feng Y. J. Sep. Sci. 2010, 33:2361-2368.
58. Tan F., Zhang Y., Wang J., Wei J., Cai Y., Qian X. J. Mass Spectrom. 2008, 43:628-632.
59. Feng Y.Q., Fu H.J., Zhang Q.H., Da S.L., Zhang Y.J. Chromatography 2000, 52:165-168.
60. Berger S.J., Lee S.-W., Anderson G.A., Paša-Tolić L., Tolić N., Shen Y., Zhao R., Smith R.D. Anal. Chem. 2002, 74:4994-5000.
61. Raska C.S., Parker C.E., Dominski Z., Marzluff W.F., Glish G.L., Pope R.M., Borchers C.H. Anal. Chem. 2002, 74:3429-3433.
62. Bodnar W.M., Blackburn R.K., Krise J.M., Moseley M.A. J. Am. Soc. Mass Spectrom. 2003, 14:971-979.
63. Chen C.T., Chen W.Y., Tsai P.J., Chien K.Y., Yu J.S., Chen Y.C. J. Proteome Res. 2007, 6:316-325.
64. Ficarro S.B., Parikh J.R., Blank N.C., Marto J.A. Anal. Chem. 2008, 80:4606-4613.
65. Zeng Y.Y., Chen H.-J., Shiau K.J., Hung S.-U., Wang Y.-S., Wu C.-C. Proteomics 2012, 12:380-390.
66. Lo C.Y., Chen W.Y., Chen C.T., Chen Y.C. J. Proteome Res. 2007, 6:887-893.
67. Xu X., Deng C., Gao M., Yu W., Zhang X. Adv. Mater. 2006, 18:3289-3293.
68. Li Y., Leng T., Lin H., Deng C., Xu X., Yao N., Yang P., Zhang X. J. Proteome Res. 2007, 6:4498-4510.
69. Li Y., Liu Y., Tang J., Lin H., Yao N., Shen X., Denga C., Yang P., Zhang X. J. Chromatogr. A 2007, 1172:57-71.
70. Qi D., Lu J., Deng C., Zhang X. J. Chromatogr. A 2009, 1216:5533-5539.
71. Qi D., Lu J., Deng C., Zhang X. J. Phys. Chem. C 2009, 113:15854-15861.
72. Leitner A., Sturm M., Smatt J.H., Jarn M., Linden M., Mechtler K., Lindner W. Anal. Chim. Acta 2009, 638:51-57.
73. Kumara A., Gaurava A.K., Malika D.K., Tewary B., Singh Anal. Chim. Acta 2008, 610:1-14.
74. Nagayama H., Honda H., Kawahara H. J. Electrochem. Soc. 1988, 135:2013-2016.
75. Li T., Xu J., Wu J.H., Feng Y.Q. J. Chromatogr. A 2009, 1216:2335-2345.
76. Wua J.H., Li X.S., Zhaob Y., Zhangb W., Guoa L., Fenga Y.Q. J. Chromatogr. A 2011, 1218:2944-2953.
77. Haydon C.E., Eyers P.A., Aveline-Wolf L.D., Resing K.A., Maller J.L., Ahn N.G. Mol. Cell. Proteom. 2003, 2:1055-1067.
78. Feuerstein I., Morandell S., Stecher G., Huck C.W., Stasyk T., Huang H.-L., Teis D., Huber L.A., Bonn G.K. Proteomics 2005, 5:46-54.
79. Trojer L., Stecher G., Feuerstein I., Lubbad S., Bonn G.K. J. Chromatogr. A 2005, 1079:197-207.
80. Aprilita N.H., Huck C.W., Bakry R., Feuerstein I., Stecher G., Morandell S., Huang H.-L., Stasyk T., Huber L.A., Bonn G.K. J. Proteome Res. 2005, 4:2312-2319.
81. Rainer M., Sonderegger H., Bakry R., Huck C.W., Morandell S., Huber L.A., Gjerde D.T., Bonn G.K. Proteomics 2008, 8:4593-4602.
82. Krenkova J., Lacher N.A., Svec F. Anal. Chem. 2010, 82:8335-8341.
83. Bakry R., Gjerde D., Bonn G.K. J. Proteome Res. 2006, 5:1321-1331.
84. Dunn J.D., Igrisan E.A., Palumbo A.M., Reid G.E., Bruening M.L. Anal. Chem. 2008, 80:5727-5735.
85. Wang W.H., Palumbo A.M., Tan Y.J., Reid G.E., Tepe J.J., Bruening M.L. J. Proteome Res. 2010, 9:3005-3015.
86. Vallant R.M., Szabo Z., Bachmann S., Bakry R., Najam-ul-Haq M., Rainer M., Heigl N., Petter C., Huck C.W., Bonn G.K. Anal. Chem. 2007, 79:8144-8153.
87. Lu A.H., Salabas E.L., Schueth F. Angew. Chem., Int. Ed. 2007, 46:1222-1244.
88. Pollak E., Genish I., Salitra G., Soffer A., Klein L., Aurbach D. J. Phys. Chem. B. 2006, 110:7443-7448.
89. Zhu Y., Kockrick E., Ikoma T., Hanagata N., Kaskel S. Chem. Mater. 2009, 21:2547-2553.
90. Lu Z., Duan J., He L., Hu Y., Yin Y. Anal. Chem. 2010, 82:7249-7258.
91. Yu M.K., Jeong Y.Y., Park J., Park S., Kim J.W., Min J.J., Kim K., Jon S. Angew. Chem., Int. Ed. 2008, 47:5362-5365.
92. Fuertes A.B., Valdes-Solis T., Tartaj M.S.P. J. Phys. Chem. C 2008, 112:3648-3654.
93. Jeong U., Teng X., Wang Y., Yang H., Xia Y. Adv. Mater. 2007, 19:33-60.
94. Liu Y., Ren Z., Wei Y., Jiang B., Feng S., Zhang L., Zhang W., Fu H. J. Mater. Chem. 2010, 20:4802-4808.
95. Feng S., Ren Z., Wei Y., Jiang B., Liu Y., Zhang L., Zhangb W., Fu H. Chem. Commun. 2010, 46:6276-6278.
96. Xu H.F., Wang J., Zhang H.J., Huang Y.D. J. Mater. Sci. 2010, 45:6200-6205.
97. Dai K., Peng T.Y., Ke D.N., Wei B.Q. Nanotechnology 2009, 20:125603-125608.
98. Fang G., Gao W., Deng Q., Qian K., Han H., Wang S. Anal. Biochem. 2012, 423:210-217.