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Nat Rev Nephrol. 2009 Dec;5(12):701-12. doi: 10.1038/nrneph.2009.183. Epub 2009 Oct 27.

Application of proteomic analysis to the study of renal diseases.

Nature reviews. Nephrology

Matthew P Welberry Smith, Rosamonde E Banks, Steven L Wood, Andrew J P Lewington, Peter J Selby

Affiliations

  1. Department of Renal Medicine, St James's University Hospital, Leeds, UK. [email protected]

PMID: 19859072 DOI: 10.1038/nrneph.2009.183

Abstract

Proteomics-based approaches are generating considerable data in clinical nephrology covering almost all aspects of the discipline. Proteomic experiments commonly involve fractionation and protein separation, followed by mass spectrometric analysis to identify proteins and peptides. Biostatistical and bioinformatical input is essential in such experiments, from initial experimental design to analysis of data. Standardization of procedures is an important research objective. Depending on study design, results can lead to biomarker discovery, mechanistic insight and identification of potential avenues for therapeutic intervention and treatment evaluation. Understanding proteomic information and its place in current clinical research and practice is fundamental. This Review describes proteomic experimentation and the concepts behind it, and gives an overview of its application to important areas in clinical nephrology including acute kidney injury, chronic kidney disease, end-stage renal disease, genetic diseases and fluid and electrolyte disorders, with a particular focus on biomarker discovery. The importance of future developments, such as the establishment of an infrastructure for a 'biomarker pipeline' with structured validation pathways for candidate biomarkers and development of clinical assays, is also discussed and some future perspectives are presented.

References

  1. Nature. 2003 Mar 13;422(6928):198-207 - PubMed
  2. J Proteome Res. 2007 Jan;6(1):194-206 - PubMed
  3. J Proteome Res. 2005 Jul-Aug;4(4):1053-9 - PubMed
  4. Proteomics Clin Appl. 2008 Jul;2(7-8):1167-82 - PubMed
  5. Am J Pathol. 2002 Apr;160(4):1301-10 - PubMed
  6. J Am Soc Nephrol. 2004 Jan;15(1):219-27 - PubMed
  7. J Am Soc Nephrol. 2005 Oct;16(10):2852-63 - PubMed
  8. Am J Physiol Cell Physiol. 2008 Sep;295(3):C661-78 - PubMed
  9. Proteomics. 2005 Feb;5(3):816-25 - PubMed
  10. Am J Transplant. 2009 Mar;9(3):483-93 - PubMed
  11. J Am Soc Nephrol. 2009 Feb;20(2):278-88 - PubMed
  12. J Proteome Res. 2009 Jun;8(6):3109-17 - PubMed
  13. Mol Cell Proteomics. 2002 Nov;1(11):845-67 - PubMed
  14. Proteomics Clin Appl. 2008 Jul;2(7-8):956-63 - PubMed
  15. J Am Soc Nephrol. 2008 Jul;19(7):1283-90 - PubMed
  16. Rheumatology (Oxford). 2006 Dec;45(12):1497-504 - PubMed
  17. Curr Opin Nephrol Hypertens. 2005 May;14(3):265-70 - PubMed
  18. J Proteome Res. 2007 Sep;6(9):3680-90 - PubMed
  19. Am J Transplant. 2007 Apr;7(4):930-40 - PubMed
  20. Nephrol Dial Transplant. 2007 Dec;22(12):3670 - PubMed
  21. Cancer Res. 2003 Oct 15;63(20):6971-83 - PubMed
  22. Mol Cell Proteomics. 2005 May;4(5):637-50 - PubMed
  23. Proteomics Clin Appl. 2007 Aug;1(8):739-46 - PubMed
  24. Proteomics. 2008 Jan;8(1):21-7 - PubMed
  25. Proteomics. 2005 Mar;5(4):1033-42 - PubMed
  26. Am J Physiol Renal Physiol. 2009 Jun;296(6):F1346-54 - PubMed
  27. J Am Soc Nephrol. 2004 Dec;15(12):3240-8 - PubMed
  28. Transplantation. 2002 Jun 27;73(12):1965-8 - PubMed
  29. Mol Cell Proteomics. 2009 Oct;8(10):2296-307 - PubMed
  30. J Biol Chem. 2007 Mar 2;282(9):6644-52 - PubMed
  31. Proteomics. 2005 Mar;5(4):1083-96 - PubMed
  32. Am J Kidney Dis. 2009 Apr;53(4):584-95 - PubMed
  33. J Am Soc Nephrol. 2007 Mar;18(3):799-810 - PubMed
  34. Proteomics Clin Appl. 2008 Jul;2(7-8):1127-39 - PubMed
  35. Diabetes Metab Res Rev. 2009 Mar;25(3):232-41 - PubMed
  36. Proteomics. 2004 Apr;4(4):1159-74 - PubMed
  37. J Mass Spectrom. 2009 Mar;44(3):419-25 - PubMed
  38. Proteomics. 2006 Feb;6(3):1066-76 - PubMed
  39. Diabet Med. 2000 Jan;17(1):7-14 - PubMed
  40. N Engl J Med. 2004 Jan 8;350(2):151-64 - PubMed
  41. J Proteome Res. 2007 Nov;6(11):4173-81 - PubMed
  42. Proteomics. 2009 Apr;9(8):2108-17 - PubMed
  43. Biomarkers. 2003 May-Aug;8(3-4):272-86 - PubMed
  44. Clin Chem. 2005 Sep;51(9):1577-86 - PubMed
  45. Kidney Int. 2004 Jan;65(1):323-32 - PubMed
  46. Cell Res. 2008 Jul;18(7):716-24 - PubMed
  47. J Proteome Res. 2009 Jan;8(1):94-103 - PubMed
  48. N Engl J Med. 2003 Dec 11;349(24):2326-33 - PubMed
  49. Mol Cell Proteomics. 2009 Sep;8(9):2145-58 - PubMed
  50. Proteomics Clin Appl. 2009 Jan;3(1):95-105 - PubMed
  51. Electrophoresis. 2006 Jul;27(13):2659-75 - PubMed
  52. Mol Cell Proteomics. 2006 Apr;5(4):573-88 - PubMed
  53. Proteomics. 2004 Nov;4(11):3485-97 - PubMed
  54. Nat Biotechnol. 2001 Mar;19(3):242-7 - PubMed
  55. Am J Nephrol. 2006;26(3):258-67 - PubMed
  56. J Biol Chem. 2004 Nov 19;279(47):49026-35 - PubMed
  57. J Proteome Res. 2002 Jan-Feb;1(1):73-82 - PubMed
  58. Proteomics Clin Appl. 2008;2(7-8):1058-1064 - PubMed
  59. Mol Cell Proteomics. 2004 Apr;3(4):311-26 - PubMed
  60. Clin Chem. 2007 Mar;53(3):421-8 - PubMed
  61. J Proteome Res. 2007 Oct;6(10):3881-90 - PubMed
  62. Transplantation. 1994 Jan;57(2):208-11 - PubMed
  63. Am J Physiol Renal Physiol. 2007 Aug;293(2):F456-67 - PubMed
  64. Clin Sci (Lond). 2004 Nov;107(5):485-95 - PubMed
  65. Proteomics Clin Appl. 2009 Sep;3(9):1112-22 - PubMed
  66. Mol Cell Proteomics. 2009 Jul;8(7):1658-73 - PubMed
  67. Drug Metab Rev. 1999 Nov;31(4):971-97 - PubMed
  68. Ann Clin Biochem. 1987 Jan;24 ( Pt 1):111-2 - PubMed
  69. J Am Soc Nephrol. 2006 Nov;17(11):3139-48 - PubMed
  70. J Am Soc Nephrol. 2005 Nov;16(11):3365-70 - PubMed
  71. Proteomics. 2006 Mar;6(5):1676-80 - PubMed
  72. Kidney Int. 2006 Nov;70(10):1847-57 - PubMed
  73. Mol Cell Proteomics. 2004 Dec;3(12):1154-69 - PubMed
  74. Clin Chem. 2005 Jan;51(1):3-5 - PubMed
  75. Am J Transplant. 2005 Apr;5(4 Pt 1):729-38 - PubMed
  76. J Am Soc Nephrol. 2009 Feb;20(2):428-35 - PubMed
  77. Am J Transplant. 2005 Oct;5(10):2479-88 - PubMed
  78. Kidney Int. 2008 Sep;74(6):799-807 - PubMed
  79. Transplantation. 2007 Jul 15;84(1):104-12 - PubMed
  80. Kidney Int. 2005 Jul;68(1):193-205 - PubMed
  81. Am J Nephrol. 2004 Mar-Apr;24(2):268-74 - PubMed
  82. J Am Soc Nephrol. 2005 Oct;16(10):2967-75 - PubMed
  83. Ann Surg. 2003 May;237(5):660-4; discussion 664-5 - PubMed
  84. Proc Natl Acad Sci U S A. 2006 May 2;103(18):7159-64 - PubMed
  85. Kidney Int. 2005 Jun;67(6):2313-20 - PubMed
  86. Ann Emerg Med. 2010 Jan;55(1):62-70.e4 - PubMed
  87. J Am Soc Nephrol. 2009 Sep;20(9):2065-74 - PubMed
  88. Kidney Int. 2008 May;73(9):1008-16 - PubMed
  89. Blood. 2006 Aug 15;108(4):1381-7 - PubMed
  90. J Am Soc Nephrol. 2009 Feb;20(2):363-79 - PubMed
  91. Proteomics Clin Appl. 2008 Jul;2(7-8):1025-35 - PubMed
  92. Electrophoresis. 2009 Jun;30 Suppl 1:S150-5 - PubMed
  93. J Proteome Res. 2008 Sep;7(9):4022-30 - PubMed
  94. Proteomics. 2005 Jan;5(1):101-12 - PubMed
  95. J Am Soc Nephrol. 2004 Mar;15(3):650-62 - PubMed
  96. Proc Natl Acad Sci U S A. 2008 Mar 4;105(9):3634-9 - PubMed
  97. Proteomics Clin Appl. 2007 Jun;1(6):577-87 - PubMed
  98. Am J Physiol Renal Physiol. 2004 Sep;287(3):F353-64 - PubMed
  99. Mol Cell Proteomics. 2008 Oct;7(10):1983-97 - PubMed
  100. J Am Soc Nephrol. 2009 Jun;20(6):1175-8 - PubMed
  101. Int J Cancer. 2006 Dec 1;119(11):2642-50 - PubMed
  102. J Am Soc Nephrol. 2009 Jun;20(6):1199-209 - PubMed
  103. J Proteome Res. 2007 Nov;6(11):4356-62 - PubMed
  104. J Proteome Res. 2006 Oct;5(10):2824-38 - PubMed
  105. Genome Biol. 2006;7(9):R80 - PubMed
  106. Proteomics. 2005 Jul;5(10):2648-55 - PubMed
  107. Crit Rev Clin Lab Sci. 2009;46(3):129-52 - PubMed
  108. Kidney Int. 2009 Jul;76(1):89-96 - PubMed
  109. Mol Cell Proteomics. 2006 Oct;5(10):1899-913 - PubMed
  110. Proteomics Clin Appl. 2008 Apr;2(4):478-91 - PubMed
  111. Mol Cell Proteomics. 2005 Oct;4(10):1445-58 - PubMed
  112. Nat Clin Pract Nephrol. 2006 Aug;2(8):445-58 - PubMed
  113. Clin Chem. 2007 Apr;53(4):620-8 - PubMed
  114. Proc Natl Acad Sci U S A. 2004 Sep 7;101(36):13368-73 - PubMed
  115. Mol Cell Proteomics. 2005 Jul;4(7):1009-18 - PubMed

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