參考文獻 |
1. Smith, D A, Germolec, D R. (1999). Introduction to Immunology and Autoimmunity. Environmental Health Perspectives. 107(5): 661-665.
2. Rahman A, Isenberg DA. (2008). Systemic lupus erythematosus. N Engl J Med; 358(9):92939
3. Bertsias G, Carvera R, Boumpas TD. (2012). Systemic lupus erythematosus: pathogenesis and clinical features. W: Bijlsma JWJ . red. EULAR Textbook of rheumatic diseases, first edition. London: BMJ Group;. s. 476–505.
4. Choi J, Kim S T, Craft J. (2012) The pathogenesis of systemic lupus erythematosus-an update. Curr Opin Immunol 24 (6):651-657
5. Buyon JP, Petri M A, Kim MY, Kalunian KC, Grossman J, Hahn B H, Merrill JT, Sammaritano L, Lockshin M, Alarcón GS, Manzi S, Belmont HM, Askanase AD, Sigler L, Dooley MA, Von Feldt J, McCune WJ, Friedman A, Wachs J, Cronin M, Hearth-Holmes M, Tan M, Licciardi F. (2005). The effect of combined estrogen and progesterone hormone replacement therapy on disease activity in systemic lupus erythematosus: A randomized trial. Ann. Intern. Med., 142, 953–962.
6. Yu C, Gershwin M E, Chang C. (2014) Diagnostic criteria for systemic lupus erythematosus: a critical review. J Autoimmun. Feb-Mar;48-49:10-3.
7. Antonov D, Kazandjieva J, Etugov D, Gospodinov D, Tsankov N. (2004) Drug-induced lupus erythematosus. Clin Dermatol. Mar-Apr; 22(2):157-66.
8. Bertsias G, Ioannidis JP, Boletis J, et al. EULAR recommendations for the management of systemic lupus erythematosus. Report of a Task Force of the EULAR Standing Committee for International Clinical Studies Including Therapeutics. Ann Rheum Dis. 2008 Feb. 67(2):195-205.
9. Reed AM, Yetterberg, SR (2002). Genetic and environmental risk factors for idiopathic inflammatory myopathies. Rheumatic disease clinics of North America. Understanding Autoimmune Disease – a review article for the layman 28: 891-916.
10. Dooley MA, Hogan SL. (2003). Environmental epidemiology and risk factors for autoimmune disease. Curr Opin Rheumatol 15: 99-103
11. Ahmed SA, Hissong BD, Verthelyi D, Donner K, Becker K, Karpuzoglu-Sahin E. (1999) Gender and risk of autoimmune diseases: possible role of estrogenic compounds. Environ Health Perspect; 107 (Suppl 5):681–6
12. Goris A, Liston A. (2012). The immunogenetic architecture of autoimmune disease. Cold Spring Harb Perspect Biol. Mar 1; 4(3). pii: a007260.
13. Alarcon-Riquelme ME. (2007). Recent advances in the genetics of autoimmune diseases. Ann N Y Acad Sci; 1110:1–9.
14. Yin X, Latif R, Tomer Y, Davies TF. (2007). Thyroid epigenetics: X chromosome inactivation in patients with autoimmune thyroid disease. Ann N Y Acad Sci; 1110:193–200.
15. Hewagama A, Richardson B. (2009). The genetics and epigenetics of autoimmune diseases. J Autoimmun; 33:3e 11.
16. Encinas JA, Kuchroo VK. (2000). Mapping and identification of autoimmunity genes. Curr Opin Immunol; Dec; 12:691-7
17. Jonsen A, Bengtsson A A, Nived O, Truedsson L, Sturfelt G. (2007) Gene-environment interactions in the aetiology of systemic lupus erythematosus. Autoimmunity ; 40(8):613-7.27
18. Arnett FC, Assassi S. Heredity and arthritis. Reviewed: February 2012. Available at http://www.rheumatology.org/practice/clinical/patients/diseases_and_conditions/heredity.pdf#search=sle. Accessed: September 25, 2015
19. Järvinen TM, Hellquist A, Zucchelli M, et al. Replication of GWAS-identified systemic lupus erythematosus susceptibility genes affirms B-cell receptor pathway signalling and strengthens the role of IRF5 in disease susceptibility in a Northern European population. Rheumatology (Oxford). 2012 Jan. 51(1):87-92.
20. Tsokos GC, Magrath IT, Balow JE. Epstein-Barr virus induces normal B cell responses but defective suppressor T cell responses in patients with systemic lupus erythematosus. J Immunol. 1983 Oct. 131(4):1797-801.
21. Faurschou M, Dreyer L, Kamper AL, Starklint H, Jacobsen S. Long-term mortality and renal outcome in a cohort of 100 patients with lupus nephritis. Arthritis Care Res (Hoboken). 2010 Jun. 62(6):873-80.
22. Hahn BH. Management of Systemic Lupus Erythematosus. Harris ED, et al, eds. Kelley′s Textbook of Rheumatology. 7th ed. Philadelphia, Pa: WB Saunders; 2005. 1225-47.
23. Urowitz MB, Gladman DD, Ibañez D, et al. Evolution of disease burden over five years in a multicenter inception systemic lupus erythematosus cohort. Arthritis Care Res (Hoboken). 2012 Jan. 64(1):132-7.
24. Trager J, Ward MM. Mortality and causes of death in systemic lupus erythematosus. Curr Opin Rheumatol. 2001 Sep. 13(5):345-51.
25. Abu-Shakra M, Urowitz MB, Gladman DD, Gough J. Mortality studies in systemic lupus erythematosus. Results from a single center. II. Predictor variables for mortality. J Rheumatol. 1995 Jul. 22(7):1265-70.
26. Wang F, Wang CL, Tan CT, Manivasagar M. Systemic lupus erythematosus in Malaysia: a study of 539 patients and comparison of prevalence and disease expression in different racial and gender groups. Lupus. 1997. 6(3):248-53.
27. Murali R, Jeyaseelan L, Rajaratnam S, John L, Ganesh A. Systemic lupus erythematosus in Indian patients: prognosis, survival and life expectancy. Natl Med J India. 1997 Jul-Aug. 10(4):159-64.
28. Centers for Disease Control and Prevention. Systemic lupus erythematosus (SLE). Available at http://www.cdc.gov/arthritis/basics/lupus.htm/#2. July 23, 2015; Accessed: August 15, 2016.
29. Ray S, Sonthalia N, Kundu S, Ganguly S. (2012). Autoimmune Disorders: An Overview of Molecular and Cellular Basis in Today’s Perspective, J Clin Cell Immunol, S10
30. Burke HB. Predicting clinical outcomes using molecular biomarkers. Biomark Cancer. 2016;8:89–99.
31. Maier, S., Dahlstroem, C., Haefliger, C., Plum, A. & Piepenbrock, C. Identifying DNA methylation biomarkers of cancer drug response. Am J Pharmacogenomic 5, 223-232 (2005).
32. Denkert, C. et al. Metabolomics of human breast cancer: new approaches for tumor typing and biomarker discovery. Genome Med 4, 37-37 (2012).
33. Clague, A. & Thomas, A. Neonatal biochemical screening for disease. Clin Chim Acta 315, 99-110 (2002).
34. Wang Y, Yang F, Gritsenko MA, Clauss T, Liu T, Shen Y, Monroe ME, Lopez-Ferrer D, Reno T, Moore RJ, Klemke RL, Camp DG 2nd, Smith RD. Proteomics. 2011; 11:2019–2026.
35. Etzioni, R. et al. Overdiagnosis due to prostate-specific antigen screening: lessons from US prostate cancer incidence trends. J Natl Cancer Inst 94, 981-990 (2002).
36. Bell, R., Petticrew, M. & Sheldon, T. The performance of screening tests for ovarian cancer: results of a systematic review. BJOG-Int J Obstet Gyn 105, 1136-1147 (1998).
37. Havrilesky, L. J. et al. Evaluation of biomarker panels for early stage ovarian cancer detection and monitoring for disease recurrence. Gynecol Oncol 110, 374-382 (2008).
38. Mallick, P. & Kuster, B. Proteomics: a pragmatic perspective. Nat Biotechnol 28, 695-709 (2010).
39. Lee, E. C. Yi, R. Ossola and R. Aebersold (2005). Human Plasma PeptideAtlas. Proteomics. 5, 3497-500. Schenk, Schoenhals et al. 2008
40. Mallick, J. E. Katz, J. Malmstrom, R. Ossola, J. D. Watts, B. Lin, H. Zhang, R. L. Moritz and R. Aebersold (2011). A high-confidence human plasma proteome reference set with estimated concentrations in PeptideAtlas. Mol Cell Proteomics. 10, M110 006353.
41. Anderson NL. et al. The human plasma proteome. Mol Cell Proteomics 3, 311 (2004).
42. Blackburn, K., Mbeunkui, F., Mitra, S. K., Mentzel, T. & Goshe, M. B. Improving protein and proteome coverage through data-independent multiplexed peptide fragmentation. J Proteome Res 9, 3621-3637 (2010).
43. de Roos B. (2008) Proteomic analysis of human plasma and blood cells in nutritional studies: development of biomarkers to aid disease prevention. Expert Rev Proteomics. Dec;5(6):819-26.
44. Tian Z et al. Enhanced top-down characterization of histone post-translational modifications. Genome Biol 13, R86 (2012).
45. Nielsen ML, Vermeulen M, Bonaldi T, Cox J, Moroder L, Mann M. Nat Methods. 2008; 5:459–460.
46. Rappsilber, J., Ryder, U., Lamond, A. I. & Mann, M. Large-scale proteomic analysis of the human spliceosome. Genome Res. 12, 1231-1245 (2002).
47. Swaney, DL, Wenger CD. & Coon JJ. Value of using multiple proteases for large-scale mass spectrometry-based proteomics. J Proteome Res 9, 1323-1329 (2010).
48. Wang Y, Yang F, Gritsenko MA, Clauss T, Liu T, Shen Y, Monroe ME, Lopez-Ferrer D, Reno T, Moore RJ, Klemke RL, Camp DG 2nd, Smith RD. Proteomics. 2011; 11:2019–2026.
49. Deutsch, E. W., J. K. Eng, H. Zhang, N. L. King, A. I. Nesvizhskii, B. Lin, H.
50. Aebersold, R. and M. Mann (2003). Mass spectrometry-based proteomics. Nature. 422, 198-207.
51. Van den Steen, P., P. M. Rudd, R. A. Dwek and G. Opdenakker (1998). Concepts and principles of O-linked glycosylation. Crit Rev Biochem Mol Biol. 33, 151-208.
52. Durand, G. and N. Seta (2000). Protein glycosylation and diseases: blood and urinary oligosaccharides as markers for diagnosis and therapeutic monitoring. Clin Chem. 46, 795-805
53. Freeze, H. H. (2001). Update and perspectives on congenital disorders of glycosylation. Glycobiology. 11, 129R-143R. Spiro 2002
54. Yang, Z., L. E. Harris, D. E. Palmer-Toy and W. S. Hancock (2006). Multilectin affinity chromatography for characterization of multiple glycoprotein biomarker candidates in serum from breast cancer patients. Clin Chem. 52, 1897-905.
55. Berven, F. S., R. Ahmad, K. R. Clauser and S. A. Carr (2010). Optimizing performance of glycopeptide capture for plasma proteomics. J Proteome Res. 9, 1706-15.
56. Pan, S., Y. Wang, J. F. Quinn, E. R. Peskind, D. Waichunas, J. T. Wimberger, J. Jin, J. G. Li, D. Zhu, C. Pan and J. Zhang (2006). Identification of glycoproteins in human cerebrospinal fluid with a complementary proteomic approach. J Proteome Res. 5, 2769-79.
57. Simpson, D. M. and R. J. Beynon (2010). Acetone precipitation of proteins and the modification of peptides. J Proteome Res. 9, 444-50.
58. Reynolds, J. A. and C. Tanford (1970). Binding of dodecyl sulfate to proteins at high binding ratios. Possible implications for the state of proteins in biological membranes. Proc Natl Acad Sci U S A. 66, 1002-7.
59. Qian, W., Jacobs, J. M., Liu, T., Camp, D. G. & Smith, R. D. Advances and challenges in liquid chromatography-mass spectrometry-based proteomics profiling for clinical applications. Mol Cell Proteomics 5, 1727-1744 (2006).
60. Nesvizhskii, A. I. et al. Dynamic spectrum quality assessment and iterative computational analysis of shotgun proteomic data toward more efficient identification of post-translational modifications, sequence polymorphisms, and novel peptides. Mol Cell Proteomics 5, 652-670 (2006).
61. Wu CC & Mac Coss MJ. Shotgun proteomics: tools for the analysis of complex biological systems. Curr Opin Mol Ther 4, 242-250 (2002).
62. Reid GE. & McLuckey, SA. ‘Top down’protein characterization via tandem mass spectrometry. J Mass Spectrom 37, 663-675 (2002).
63. Mischak, H. et al. Implementation of proteomic biomarkers: making it work. Eur J Clin Invest 42, 10271036 (2012).
64. Zhang H, Cui W, Wen J, Blankenship R E. & Gross ML. Native electrospray and electron-capture dissociation in FTICR mass spectrometry provide top-down sequencing of a protein component in an intact protein assembly. J Am Soc Mass Spectrom 21, 1966-1968 (2010).
65. Huang Z, Shi Y, Cai B, et al. MALDI-TOF MS combined with magnetic beads for
66. detecting serum protein biomarkers and establishment of boosting decision tree model for diagnosis of systemic lupus erythematosus. Rheumatology (Oxford). 2009; 48: 626–31.
67. Fenn, JB, Mann, M, Meng, CK, Wong SF & Whitehouse CM. Electrospray ionization for mass spectrometry of large biomolecules. Science 246, 64-71 (1989).
68. Fenn JB, Mann M, Meng CK, Wong SF & Whitehouse CM. Electrospray ionization for mass spectrometry of large biomolecules. Science 246, 64-71 (1989).
69. Karas M. & Hillenkamp F. Laser desorption ionization of proteins with molecular masses exceeding 10,000 daltons. Anal Chem 60, 2299-2301 (1988).
70. Cole RB. Some tenets pertaining to electrospray ionization mass spectrometry. J Mass Spectrom 35, 763-772 (2000).
71. Wilm M. & Mann M. Analytical properties of the nano electrospray ion source. Anal Chem 68, 1-8 (1996).
72. Lin D, Tabb DL. & Yates III JR. Large-scale protein identification using mass spectrometry. BBA- Proteins Proteom. 1646, 1-10 (2003).
73. Michalski A. et al. Ultra-high resolution linear ion trap Orbitrap mass spectrometer (Orbitrap Elite) facilitates top down LC MSMS and versatile peptide fragmentation modes. Mol Cell Proteomics 11 (2012).
74. Ens W & Standing KG. Hybrid quadrupole/time-of-flight mass spectrometers for analysis of biomolecules. Method Enzymol 402, 49 (2005).
75. Makarov A. Electrostatic axially harmonic orbital trapping: a high-performance technique of mass analysis. Anal Chem 72, 1156-1162 (2000).
76. Kristensen DB, Imamura K, Miyamoto Y. & Yoshizato K. Mass spectrometric approaches for the characterization of proteins on a hybrid quadrupole time‐of‐flight (Q‐TOF) mass spectrometer. Electrophoresis 21, 430-439 (2000).
77. Morris HR. et al. High sensitivity collisionally‐activated decomposition tandem mass spectrometry on a novel quadrupole/orthogonal‐acceleration time‐of‐flight mass spectrometer. Rapid Commun Mass Sp 10, 889-896 (1996).
78. Pringle SD. et al. An investigation of the mobility separation of some peptide and protein ions using a new hybrid quadrupole/travelling wave IMS/oa-ToF instrument. Int J Mass Spectrom 261, 1-12 (2007).
79. Wu C, Siems WF, Klasmeier J. & Hill HH. Separation of isomeric peptides using electrospray ionization/high-resolution ion mobility spectrometry. Anal Chem 72, 391-395 (2000).
80. Shliaha PV, Bond NJ, Gatto L, & Lilley KS. The Effects of Travelling Wave Ion Mobility Separation on Data Independent Acquisition in Proteomics Studies. J Proteome Res (2013).
81. Duijn, EV, Barendregt A, Synowsky S, Versluis C, & Heck AJ. Chaperonin complexes monitored by ion mobility mass spectrometry. J Am Chem Soc 131, 1452-1459 (2009).
82. Williams JP. et al. Characterization of simple isomeric oligosaccharides and the rapid separation of glycan mixtures by ion mobility mass spectrometry. Int J Mass Spectrom 298, 119-127 (2010).
83. Hunt D F, Yates J R, Shabanowitz J, Winston S, and Hauer CR. Protein sequencing by tandem mass spectrometry. P Natl Acad Sci USA83, 6233-6237 (1986).
84. Kapp E A. et al. Mining a tandem mass spectrometry database to determine the trends and global factors influencing peptide fragmentation. Anal Chem 75, 6251-6264 (2003).
85. McCormack ALDM. Schieltz B, Goode S, Yang G, Barnes D, Drubin and Yates JR. (1997). Direct Analysis and Identification of Proteins in Mixtures by LC/MS/MS and Database Searching at the Low-Femtomole Level. Analytical Chemistry. 69, 767-776.
86. McCormack, A. L., D. M. Schieltz, B. Goode, S. Yang, G. Barnes, D. Drubin and J. R. Yates (1997). Direct Analysis and Identification of Proteins in Mixtures by LC/MS/MS and Database Searching at the Low-Femtomole Level. Analytical Chemistry. 69, 767-776.
87. Stahl, D. C., K. M. Swiderek, M. T. Davis and T. D. Lee (1996). Data-controlled automation of liquid chromatography/tandem mass spectrometry analysis of peptide mixtures. Journal of the American Society for Mass Spectrometry. 7, 532-540
88. Gygi, S. P., B. Rist, S. A. Gerber, F. Turecek, M. H. Gelb and R. Aebersold (1999b). Quantitative analysis of complex protein mixtures using isotopecoded affinity tags. Nat Biotech. 17, 994-999.
89. Link, A. J., J. Eng, D. M. Schieltz, E. Carmack, G. J. Mize, D. R. Morris, B. M. Garvik and J. R. Yates (1999). Direct analysis of protein complexes using mass spectrometry. Nat Biotech. 17, 676-682.
90. Liu, H., R. G. Sadygov and J. R. Yates (2004). A Model for Random Sampling and Estimation of Relative Protein Abundance in Shotgun Proteomics. Analytical Chemistry. 76, 4193-4201.
91. Cagney, G., Amiri, S., Premawaradena, T., Lindo, M. & Emili, A. In silico proteome analysis to facilitate proteomics experiments using mass spectrometry. Proteome Sci 1 (2003).
92. Geromanos, S. J. et al. The detection, correlation, and comparison of peptide precursor and product ions from data independent LC‐MS with data dependant LC‐MSMS. Proteomics 9, 1683-1695 (2009).
93. Karpievitch, YV, Polpitiya AD, Anderson GA, Smith RD and Dabney AR (2010). Liquid Chromatography Mass Spectrometry-Based Proteomics: Biological and Technological Aspects. Ann Appl Stat. 4, 17971823
94. Venable, J. D., Dong, M., Wohlschlegel, J., Dillin, A. & Yates, J. R. Automated approach for quantitative analysis of complex peptide mixtures from tandem mass spectra. Nat Methods 1, 39-45 (2004).
95. Rodríguez‐Suárez, E. & Whetton, A. D. The application of quantification techniques in proteomics for biomedical research. Mass Spectrom Rev 32, 1-26 (2013).
96. Churchwell, M. I., Twaddle, N. C., Meeker, L. R. & Doerge, D. R. Improving LC–MS sensitivity through increases in chromatographic performance: Comparisons of UPLC–ES/MSMS to HPLC–ES/MSMS. J Chromatogr B 825, 134-143 (2005).
97. Perkins, D. N., Pappin, D. J., Creasy, D. M. & Cottrell, J. S. Probability-based protein identification by searching sequence databases using mass spectrometry data. Electrophoresis 20, 3551-3567 (1999).
98. Donato, P., F. Cacciola, L. Mondello and P. Dugo (2011). Comprehensive chromatographic separations in proteomics. Journal of Chromatography A. 1218, 8777-8790.
99. Gilar, M., A. E. Daly, M. Kele, U. D. Neue and J. C. Gebler (2004). Implications of column peak capacity on the separation of complex peptide mixtures in single- and two-dimensional high-performance liquid chromatography. Journal of Chromatography A. 1061, 183-192.
100. Zhang, X., A. Fang, C. P. Riley, M. Wang, F. E. Regnier and C. Buck (2010). Multi-dimensional liquid chromatography in proteomics—A review. Analytica Chimica Acta. 664, 101-113.
101. Henzel, W. J. et al. Identifying proteins from two-dimensional gels by molecular mass searching of peptide fragments in protein sequence databases. P Natl Acad Sci USA90, 5011-5015 (1993).
102. Dasari, S. et al. TagRecon: high-throughput mutation identification through sequence tagging. J Proteome Res 9, 1716-1726 (2010).
103. Yates III, J. R., Eng, J. K., McCormack, A. L. & Schieltz, D. Method to correlate tandem mass spectra of modified peptides to amino acid sequences in the protein database. Anal Chem 67, 1426-1436 (1995).
104. Eng, J. K., McCormack, A. L. & Yates Iii, J. R. An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database. J Am Soc Mass Spectrom 5, 976-989 (1994).
105. Vizcaíno, J. A. et al. The Proteomics Identifications (PRIDE) database and associated tools: status in 2013. Nucleic Acids Res 41, D1063-D1069 (2013).
106. Pruitt, K. D., Tatusova, T. & Maglott, D. R. NCBI reference sequences (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins. Nucleic Acids Res 35, D61-D65 (2007).
107. Apweiler, R., Bairoch, A. & Wu, C. H. Protein sequence databases. Curr Opin Chem Biol 8, 76-80 (2004).
108. Magrane, M. UniProt Knowledgebase: a hub of integrated protein data. Database 2011 (2011).
109. Yates, J. R. Database searching using mass spectrometry data. Electrophoresis 19, 893-900 (1998).
110. Pevzner, P. A., Dancik, V. & Tang, C. L. Mutation-tolerant protein identification by mass spectrometry. J Comput Biol 7, 777-787 (2000).
111. Taylor, J. A. & Johnson, R. S. Implementation and uses of automated de novo peptide sequencing by tandem mass spectrometry. Anal Chem 73, 2594-2604 (2001).
112. Taylor, J. A. & Johnson, R. S. Sequence database searches via de novo peptide sequencing by tandem mass spectrometry. Rapid Commun Mass Sp 11, 1067-1075 (1997).
113. Wang, P. & Wilson, S. R. Mass spectrometry-based protein identification by integrating de novo sequencing with database searching. BMC Bioinformatics 14, S24 (2013).
114. Corthals, G. L., Wasinger, V. C., Hochstrasser, D. F. & Sanchez, J. The dynamic range of protein expression: a challenge for proteomic research. Electrophoresis 21, 1104-1115 (2000).
115. Zhu, W., Smith, J. W. & Huang, C. Mass spectrometry-based label-free quantitative proteomics. J Biomed Biotechnol 2010 (2009).
116. Lundgren, D. H., Hwang, S., Wu, L. & Han, D. K. Role of spectral counting in quantitative proteomics. Expert Rev Proteomic 7, 39-53 (2010).
117. Ishihama, Y. et al. Exponentially modified protein abundance index (emPAI) for estimation of absolute protein amount in proteomics by the number of sequenced peptides per protein. Mol Cell Proteomics 4, 1265-1272 (2005).
118. Colinge, J., Chiappe, D., Lagache, S., Moniatte, M. & Bougueleret, L. Differential proteomics via probabilistic peptide identification scores. Anal Chem 77, 596-606 (2005).
119. Grossmann, J. et al. Implementation and evaluation of relative and absolute quantification in shotgun proteomics with label-free methods. J Proteomics 73, 1740-1746 (2010).
120. Braisted, J. et al. The APEX Quantitative Proteomics Tool: generating protein quantitation estimates from LC-MSMS proteomics results. BMC Bioinformatics 9, 529 (2008).
121. Griffin, N. M. et al. Label-free, normalized quantification of complex mass spectrometry data for proteomic analysis. Nat Biotechnol 28, 83-89 (2009).
122. Wu CC & Mac Coss, M J. Shotgun proteomics: tools for the analysis of complex biological systems. Curr Opin Mol Ther 4, 242-250 (2002).
123. Old WM. et al. Comparison of label-free methods for quantifying human proteins by shotgun proteomics. Mol Cell Proteomics 4, 1487-1502 (2005).
124. Weiss M, Schrimpf S, Hengartner MO, Lercher M J & von Mering C. Shotgun proteomics data from multiple organisms reveals remarkable quantitative conservation of the eukaryotic core proteome. Proteomics 10, 1297-1306 (2010).
125. Bondarenko, P. V., Chelius, D. & Shaler, T. A. Identification and relative quantitation of protein mixtures by enzymatic digestion followed by capillary reversed-phase liquid chromatography-tandem mass spectrometry. Anal Chem 74, 4741-4749 (2002).
126. Chelius, D. & Bondarenko, P. V. Quantitative profiling of proteins in complex mixtures using liquid chromatography and mass spectrometry. J Proteome Res 1, 317-323 (2002).
127. Silva, J. C. et al. Quantitative proteomic analysis by accurate mass retention time pairs. Anal Chem 77, 2187-2200 (2005).
128. Kitteringham, N. R., Jenkins, R. E., Lane, C. S., Elliott, V. L. & Park, B. K. Multiple reaction monitoring for quantitative biomarker analysis in proteomics and metabolomics.
129. J Chromatogr B 877, 1229-1239 (2009). 135. Kuzyk, M. A. et al. Multiple reaction monitoring-based, multiplexed, absolute quantitation of 45 proteins in human plasma. Mol Cell Proteomics 8, 1860-1877 (2009).
130. Mead, J. A., Bianco, L. & Bessant, C. Recent developments in public proteomic MS repositories and pipelines. Proteomics 9, 861-881 (2009).
131. Gerber, S. A., Rush, J., Stemman, O., Kirschner, M. W. & Gygi, S. P. Absolute quantification of proteins and phosphoproteins from cell lysates by tandem MS. P Natl Acad Sci USA100, 6940-6945 (2003).
132. Pratt, J. M. et al. Multiplexed absolute quantification for proteomics using concatenated signature peptides encoded by QconCAT genes. Nat Protoc 1, 1029-1043 (2006).
133. Silva, J. C., Gorenstein, M. V., Li, G. Z., Vissers, J. P. & Geromanos, S. J. Absolute quantification of proteins by LCMSE: a virtue of parallel MS acquisition. Mol Cell Proteomics 5, 144-156 (2006).
134. Zhang H, Cui W, Wen J, and Blankenship RE, & Gross and ML. Native electrospray and electron-capture dissociation in FTICR mass spectrometry provide top-down sequencing of a protein component in an intact protein assembly. J Am Soc Mass Spectrom 21, 1966-1968 (2010).
135. Bard, J. B. & Rhee, S. Y. Ontologies in biology: design, applications and future challenges. Nat Rev Genet 5, 213-222 (2004).
136. Ashburner, M. et al. Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat Genet 25, 25-29 (2000).
137. Smith, B. et al. The OBO Foundry: coordinated evolution of ontologies to support biomedical data integration. Nat Biotechnol 25, 1251-1255 (2007).
138. Osborne, J. et al. Annotating the human genome with Disease Ontology. BMC Genomics 10, S6 (2009).
139. Schriml, L. M. et al. Disease Ontology: a backbone for disease semantic integration. Nucleic Acids Res 40, D940-D946 (2012).
140. Smith, C. L., Goldsmith, C. & Eppig, J. T. The Mammalian Phenotype Ontology as a tool for annotating, analyzing and comparing phenotypic information. Genome Biol. 6, R7 (2005).
141. Gkoutos, G., Green, E., Mallon, A., Hancock, J. & Davidson, D. Building mouse phenotype ontologies Proceedings of the 9th Pacific Symposium on Biocomputing (PSB 2004), Hawaii, USA, Jan 6 Ser. 10, 2003.
142. Carbon, S. et al. AmiGO: online access to ontology and annotation data. Bioinformatics 25, 288-289 (2009).
143. Dennis Jr, G. et al. DAVID: database for annotation, visualization, and integrated discovery. Genome Biol 4, P3 (2003).
144. www.ingenuity.com.
145. Rifai, N., Gillette, M. A. & Carr, S. A. Protein biomarker discovery and validation: the long and uncertain path to clinical utility. Nat Biotechnol 24, 971-983 (2006).
146. http://www.ncbi.nlm.nih.gov/gtr/.
147. Anderson, N. L. The clinical plasma proteome: a survey of clinical assays for proteins in plasma and serum. Clin Chem 56, 177-185 (2010).
148. Khleif, S. N., Doroshow, J. H. & Hait, W. N. AACR-FDA-NCI Cancer Biomarkers Collaborative consensus report: advancing the use of biomarkers in cancer drug development. Clin Cancer Res 16, 3299-3318 (2010).
149. Etzioni, R. et al. The case for early detection. Nat Rev Cancer 3, 243-252 (2003).
150. Rao, P. V. et al. Proteomic identification of salivary biomarkers of type-2 diabetes. J Proteome Res 8, 239-245 (2009).
151. Rappsilber, J., Ryder, U., Lamond, A. I. & Mann, M. Large-scale proteomic analysis of the human spliceosome. Genome Res. 12, 1231-1245 (2002).
152. Rifai, N., Gillette, M. A. & Carr, S. A. Protein biomarker discovery and validation: the long and uncertain path to clinical utility. Nat Biotechnol 24, 971-983 (2006).
153. Mischak, H. et al. Implementation of proteomic biomarkers: making it work. Eur J Clin Invest 42, 10271036 (2012).
154. Rosty, C. et al. Identification of hepatocarcinoma-intestine-pancreas/pancreatitis-associated protein I as a biomarker for pancreatic ductal adenocarcinoma by protein biochip technology. Cancer Res 62, 18681875 (2002).
155. Celis, J. E. et al. Proteomic Characterization of the Interstitial Fluid Perfusing the Breast Tumor Microenvironment A Novel Resource for Biomarker and Therapeutic Target Discovery. Mol Cell Proteomics 3, 327-344 (2004).
156. Hawkridge, A. M. & Muddiman, D. C. mass spectrometry–based biomarker discovery: toward a global proteome index of individuality. Annu Rev Anal Chemistry (Palo Alto, Calif.) 2, 265 (2009).
157. Mischak, H. et al. Implementation of proteomic biomarkers: making it work. Eur J Clin Invest 42, 10271036 (2012).
158. Suzuki, J. et al. Protein acetylation and histone deacetylase expression associated with malignant breast cancer progression. Clin Cancer Res 15, 3163-3171 (2009).
159. Hawkridge, A. M. & Muddiman, D. C. mass spectrometry–based biomarker discovery: toward a global proteome index of individuality. Annu Rev Anal Chemistry (Palo Alto, Calif.) 2, 265 (2009).
160. Qian, W., Jacobs, J. M., Liu, T., Camp, D. G. & Smith, R. D. Advances and challenges in liquid chromatography-mass spectrometry-based proteomics profiling for clinical applications. Mol Cell Proteomics 5, 1727-1744 (2006).
161. Anderson, N. L. The clinical plasma proteome: a survey of clinical assays for proteins in plasma and serum. Clin Chem 56, 177-185 (2010).
162. Mallick, P. & Kuster, B. Proteomics: a pragmatic perspective. Nat Biotechnol 28, 695-709 (2010).
163. Alaiya A, Assad L, Alkhafaji D, Shinwari Z, Almana H, Shoukri M, Alkorbi L, Ibrahim HG, Abdelsalam MS, Skolnik E, Adra C, Albaqumi M: Proteomic analysis of Class IV lupus nephritis. Nephrol. Dial, Transplant 2015; 30: 62-70.
164. Caster DJ, Korte EA, Merchant ML, et al. Autoantibodies targeting glomerular annexin A2 identify patients with proliferative lupus nephritis. Proteomics Clin Appl. 2015; 9: 1012–20.
165. Dai Y, Hu C, Huang Y, et al. A proteomic study of peripheral blood mononuclear cells in systemic lupus erythematosus. Lupus. 2008; 17: 799–804.
166. Fang S, Zeng F, Guo Q. Comparative proteomics analysis of cytokeratin and involucrin expression in lesions from patients with systemic lupus erythematosus. Acta Biochim Biophys Sin (Shanghai). 2008; 40: 989–95.
167. Wang Y, Yang F, Gritsenko MA, Clauss T, Liu T, Shen Y, Monroe ME, Lopez-Ferrer D, Reno T, Moore RJ, Klemke RL, Camp DG 2nd, Smith RD. Proteomics. 2011; 11:2019–2026.
168. Kazemipour, N, Qazizadeh, H, Sepehrimanesh, M, and Salimi S. (2015) Biomarkers identified from serum proteomic analysis for the differential diagnosis of systemic lupus erythematosus. Lupus 24:582-87.
169. Kimura A, Kanoh Y, Sakurai T, et al. Antibodies in patients with neuropsychiatric systemic lupus erythematosus. Neurology. 2010; 74: 1372–9.
170. Li Y, Huang C, Zhao M, et al. A possible role of HMGB1 in DNA demethylation in CD4+ T cells from patients with systemic lupus erythematosus. Clin Dev Immunol. 2013; 2013: 206298.
171. Morgan PE, Sturgess AD, Hennessy A, et al. Serum protein oxidation and apolipoprotein CIII levels in people with systemic lupus erythematosus with and without nephritis. Free Radic Res. 2007; 41: 1301–12.
172. Mosley K, Tam FW, Edwards RJ, et al. Urinary proteomic profiles distinguish between active and inactive lupus nephritis. Rheumatology (Oxford). 2006; 45: 1497– 504.
173. Crispín JC, Liossis SN, Kis-Toth K, Lieberman LA, Kyttaris VC, Juang YT, et al. Pathogenesis of human systemic lupus erythematosus: recent advances. Trends Mol Medicine. 2010; 16(2):47-57.
174. Ramanujam M and Davidson A. Targeting of the immune system in systemic lupus erythematosus. Expert Rev Mol Med 2008; 10:e2.
175. Korte EA, Gaffney PM, Powell DW. Contributions of mass spectrometry-based proteomics to defining cellular mechanisms and diagnostic markers for systemic lupus erythematosus. Arthritis Res Ther 2012; 14(1):204.
176. Ahearn JM, Liu CC, Kao AH, Manzi S. Biomarkers for systemic lupus erythematosus. Transl Res 2012; 159:326-342.
177. Marks SD, Shah V, Pilkington C, Tullus K. Urinary monocyte chemoattractant protein-1 correlates with disease activity in lupus nephritis. Pediatr Nephrol 2010; 25:2283-2288.
178. Schwartz N, Michaelson JS, Putterman C. Lipocalin-2, TWEAK, and other cytokines as urinary biomarkers for lupus nephritis. Ann N. Y. Acad Sci 2007; 1109:265-274.
179. Suzuki M, Ross GF, Wiers K, Nelson S, Bennett M, Passo MH, et al. Identification of a urinary proteomic signature for lupus nephritis in children. Pediatr Nephrol 2007; 22:2047-2057.
180. Almoallim H, Al-Ghamdi Y, Almaghrabi H, Alyasi O. Anti-Tumor Necrosis Factor-α Induced Systemic Lupus Erythematosus. Open Rheumatol J 2012; 6:315-319.
181. Anderson NL, and Anderson NG. The Human Plasma Proteome: History, Character, and Diagnostic Prospects. Mol Cell Proteomics 2002; 1:845-867.
182. Tan EM, Cohen AS, Fries JF, Masi AT, Mcshane DJ, Rothfield NF, et al. The 1982 revised criteria for the classification of systemic lupus erythematosus. Arthritis Rheum 1982; 25:1271–1277.
183. Bombardier C, Gladman DD, Urowitz MB, Caron D, Chang CH. Derivation of the SLEDAI. A disease activity index for lupus patients. The Committee on Prognosis Studies in SLE. Arthritis Rheum 1992; 35:630–640.
184. Wang KY, Yang YH, Chuang YH, Chan PJ, Yu HH, Lee JH, et al. The initial manifestations and final diagnosis of patients with high and low titers of antinuclear antibodies after 6 months of follow-up. J Microbiol Immunol Infect 2011; 44:222–228.
185. Tuck MK, Chan DW, Chia D, Godwin AK, Grizzle WE, Krueger KE, et al. Standard Operating Procedures for Serum and Plasma Collection: Early Detection Research Network Consensus Statement Standard Operating Procedure Integration Working Group. J. Proteome Res 2009; 8(1):113–117.
186. Ahmed N, Barker G, Oliva K, Garfin D, Talmadge K, Georgiou H, et al. An approach to remove albumin for the proteomic analysis of low abundance biomarkers in human serum. Proteomics 2003; 3:1980–1987.
187. Bradford MM. Rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding. Anal. Biochem 1976; 72:248-254.
188. Laemmli
189. Syal K, Tadala R. Modifications in trypsin digestion protocol for increasing the efficiency and coverage. Protein Pept Lett 2015; 22:372-378.
190. Mi H, Huang X, Muruganujan A, Tang H, Mills C, Kang D, et al. PANTHER version 11: expanded annotation data from Gene Ontology and Reactome pathways, and data analysis tool enhancements. Nucleic Acids Res 2017; 45:D183–D189.
191. Kanehisa M, SatoY, Kawashima M, Furumichi M, Tanabe M. KEGG as a reference resource for gene and protein annotation. Nucleic Acids Res 2016; 44:D457-D462.
192. Fang S, Zeng F, Guo Q. Comparative proteomics analysis of cytokeratin and involucrin expression in lesions from patients with systemic lupus erythematosus. Acta Biochim Biophys Sin (Shanghai). 2008; 40: 989–95.
193. Zhang X, Jin M, Wu H, Nadasdy T, Nadasdy G, Harris N, et al. Biomarkers of lupus nephritis determined by serial urine proteomics. Kidney Int 2008; 74:799-807.
194. Maroz N, and Segal MS. Lupus nephritis and end-stage kidney disease. Am J Med Sci 2013; 346:319-323.
195. Sesso R, Rettori R, Nishida S, Sato E, Ajzen H, Pereira AB. Assessment of lupus nephritis activity using urinary retinol-binding protein. Nephrol Dial Transplant 1994; 9(4):367-71.
196. Aggarwal A, Gupta R, Negi VS, Rajasekhar L, Misra R, Singh P, et al. Urinary haptoglobin, alpha-1 anti-chymotrypsin and retinol binding protein identified by proteomics as potential biomarkers for lupus nephritis. Clin Exp Immunol 2017; 188:254–262.
197. Alaiya A, Assad L, Alkhafaji D, Shinwari Z, Almana H, Shoukri M, et al. Proteomic analysis of Class IV lupus nephritis. Nephrol. Dial. Transplant 2015; 30:62-70.
198. Pavon EJ, Munoz P, Lario A, Longobardo V, Carrascal M, Abian J, et al. Proteomic analysis of plasma from patients with systemic lupus erythematosus: Increased presence of haptoglobin α2 polypeptide chains over the α1 isoforms. Proteomics 2006; 6:282–292.
199. Galicia G, Ceuppens JL. Haptoglobin function and regulation in autoimmune diseases. In: Prof. Francisco Veas Editor. Acute phase proteins - regulation and functions of acute phase proteins. InTech open access publisher; 2011, p. 5772-22483.
200. Ruberg FL, Berk JL. Transthyretin (TTR) Cardiac Amyloidosis. Circulation 2012; 126(10):1286-1300.
201. Westermark P, Bergstrom J, Solomon A, Murphy C, Sletten K. Transthyretin-derived senile systemic amyloidosis: clinicopathologic and structural considerations. Amyloid:J Protein Folding Discord 2003; 10(Suppl 1) :48-55.
202. Smržová A, Horák P, Skácelová M, Žurek M, Fryšáková L, Vymětal J, et al. Cardiovascular events in patients with systemic lupus erythematosus. In Cor et Vasa 2014; 56:e145-e152.
203. Reyes-Thomas J, Blanco I, Putterman C. Urinary biomarkers in lupus nephritis. Clin Rev Allergy Immunol 2011; 40(3):138–150.
204. Saso L, Silvestrini B, Guglielmotti A, Lahita R, Cheng CY. Abnormal glycosylation of alpha 2-macroglobulin, a non-acute-phase protein in patients with autoimmune diseases. Inflammation 1993; 17:465-479.
205. Barilla-LaBarca ML, Toder K, Furie R. Targeting the complement system in systemic lupus erythematosus and other diseases. Clin Immunol 2013; 148(3):313-321.
206. Zhao J, Wu H, Khosravi M, Cui H, Qian X, Kelly JA, et al. Association of genetic variants in complement factor H and factor H-related genes with systemic lupus erythematosus susceptibility. Georges M, ed. PLoS Genet 2011; 7(5):e1002079.
207. Yang Y, Lhotta K, Chung EK, Eder P, Neumair F, Yu CY. Complete complement components C4A and C4B deficiencies in human kidney diseases and systemic lupus erythematosus. J. immunol 2004; 173:2803-2814.
208. Lin HP, Wang YM, Huo AP. Severe, recurrent lupus enteritis as the initial and only presentation of systemic lupus erythematosus in a middle-aged woman. J Microbiol Immunol Infect 2011; 44:152e5.
209. Carlsson A, Wuttge DM, Ingvarsson J, Bengtsson AA, Sturfelt G, Borrebaeck CAK, et al. Serum Protein Profiling of Systemic Lupus Erythematosus and Systemic Sclerosis Using Recombinant Antibody Microarrays. Mol Cell Proteomics 2011; 10(5):M110.005033.
210. Janciauskiene SM, Bals R, Koczulla R, Vogelmeier C, Köhnlein T, Welte T. The discovery of α1-antitrypsin and its role in health and disease. Respir Med 2011; 105:1129-1139.
211. Varghese SA, Powell TB, Budisavljevic MN, Oates JC, Raymond JR, Almeida JS, et al. Urine biomarkers predict the cause of glomerular disease. J Am Soc Nephrol 2007; 18:913–922.
212. Kaiser R, Li Y, Chang M, Catanese J, Begovich AB, Brown EE, et al. Genetic Risk Factors for Thrombosis in Systemic Lupus Erythematosus. J Rheumatol 2012; 39:1603-1610.
213. Yip J, Aghdassi E, Su J, Lou W, Reich H, Bargman J, et al. Serum Albumin as a Marker for Disease Activity in Patients with Systemic Lupus Erythematosus. J Rheumatol 2010; 37:1667-1672.
214. Candiano G, Musante L, Bruschi M, Petretto A, Santucci L, Del Boccio P, et al. Repetitive fragmentation products of albumin and α1-antitrypsin in glomerular diseases associated with nephrotic Syndrome. J Am Soc Nephrol 2006; 17:3139-3148.
215. Lisnevskaia L, Murphy G, Isenberg D. (2014) Systemic lupus erythematosus. Lancet 384: 1878–88.
216. Pisetsky DS. (1997) Systemic lupus erythematosus. A. Epidemiology, pathology and pathogenesis. In: Klippel JH, ed. Primer on the rheumatic diseases, 11th ed. Georgia, USA: Arthritis Foundation, 246–51.
217. Hu S. Loo JA, and Wong DT. (2006). Human body fluid proteome analysis. Proteomics 6: 6326–6353.
218. Ru QC, Zhu LA, Katenhusen RA, Silberman J, Brzeski H, Liebman M, Shriver CD. (2006). Exploring human plasma proteome strategies: High efficiency in-solution digestion protocol for multi-dimensional protein identification technology. J Chromatogr A 1111:175–191.
219. Zhang J, Xin L, Shan B, Chen W. et al. (2012). PEAKS DB: de novo sequencing assisted database search for sensitive and accurate peptide identification. MCP 11:M111.010587.
220. Huang da W, Sherman BT, and Lempicki RA. (2009). Systematic and integrative analysis of large gene lists using david bioinformatics resources. Nat Protoc 4:44–57.
221. Simon JD (2013). Inflammation and Acute Phase Proteins in Haemostasis, Acute Phase Proteins Sabina Janciauskiene, IntechOpen, London. DOI: 10.5772-55998.
222. der Velden MGM, de Sain-van V, Rabelink TJ, Reijngoud DJ, Gadellaa MM, Voorbij H AM, Stellaard F, Kaysen GA. (1998) Plasma α2 macroglobulin is increased in nephrotic patients as a result of increased synthesis alone. Kidney Int 54: 530 – 535.
223. Bots SH, van der Graaf Y, Nathoe HMW, et al. (2016). The influence of baseline risk on the relation between HbA1c and risk for new cardiovascular events and mortality in patients with type 2 diabetes and symptomatic cardiovascular disease. Cardiovasc Diabetol 15:101.
224. Barry B, Martina G, Oliver FG, and Jean MD. (2004). Apolipoprotein A-I infiltration in rheumatoid arthritis synovial tissue: a control mechanism of cytokine production. Arthritis Res Ther 6:563-66.
225. Abe H, Tsuboi N, Suzuki S, and Sakuraba H (2001). Anti-apolipoprotein A-I autoantibody: characterization of monoclonal autoantibodies from patients with systemic lupus erythematosus. Rheumatology 28:990-95.
226. Brunner H, Bennett M, Mina R, Suzuki M, Petri M and Kiani A. (2012). Association of noninvasively measured renal protein biomarkers with histologic features of lupus nephritis. Arthritis Rheum 64:2687–2697
227. Aggarwal, A., Gupta, R., Negi, V. S., Rajasekhar, L., Misra, R., Singh, P., Chaturvedi, V. and Sinha, S. (2017), Urinary haptoglobin, alpha-1 anti-chymotrypsin and retinol binding protein identified by proteomics as potential biomarkers for lupus nephritis. Clin Exp Immunol, 188: 254–262.
228. Georgina Galicia and Jan L. Ceuppens (2011). Haptoglobin Function and Regulation in Autoimmune Diseases, Acute Phase Proteins - Regulation and Functions of Acute Phase Proteins, Prof. Francisco Veas (Ed.), ISBN: 978-953-307-252-4, InTech,
229. Pavón, E. J., Muñoz, P., Lario, A., Longobardo, V., Carrascal, M., Abián, J., Martin, A. B., Arias, S. A., Callejas-Rubio, J.-L., Sola, R., Navarro-Pelayo, F., Raya-Alvarez, E., Ortego-Centeno, N., Zubiaur, M. and Sancho, J. (2006), Proteomic analysis of plasma from patients with systemic lupus erythematosus: Increased presence of haptoglobin α2 polypeptide chains over the α1 isoforms. Proteomics, 6: S282–S292.
230. Newkirk MM, Apostolakos P, Neville C, and Fortin PR. (1999). Systemic lupus erythematosus, a disease associated with low levels of clusterin/apoJ, an anti-inflammatory protein. J Rheumatol 26: 597-603.
231. Mehta NU, Reddy ST. (2015). Role of hemoglobin/heme scavenger protein hemopexin in atherosclerosis and inflammatory diseases. Curr Opin Lipidol 26:384-387.
232. Andrade F, Casciola-Rosen L, and Rosen A. (2000). Apoptosis in systemic lupus erythematosus. Clinical implications. Rheum Dis Clin North Am 26:215–27.
233. Burger D, and Dayer JM. (2012). High-density lipoprotein-associated apolipoprotein A-I: the missing link between infection and chronic inflammation. Autoimmun Rev 1:111-117.
234. Zheng W, Lu YM, Lu GY, et al. (2001). Transthyretin, thyroxine, and retinol-binding protein in human cerebrospinal fluid: effect of lead exposure. Toxicol Sci 61: 107–14.
235. Rana A, Minz RW, Aggarwal R, Sharma S, Pasricha N, Anand S, Singh S. (2012). A comparative proteomic study of sera in paediatric systemic lupus erythematosus patients and in healthy controls using MALDI-TOF-TOF and LC MS-A pilot study. Pediatr Rheumatol Online J. 17;10(1):24.
236. Han X, He L, Xin L, Shan B, Ma B. PeaksPTM: Mass spectrometry-based identification of peptides with unspecified modifications. J. Proteome Res. 2011, 10, 2930.
237. Ma B, Zhang K, Hendrie C, Liang C, Li M, DohertyKirby A, Lajoie G. PEAKS: powerful software for peptide de novo sequencing by tandem mass spectrometry. Rapid Commun. Mass Spectrom. 2003, 17, 2337.
238. Available:http://www.unimod.org/modifications_list.php.
239. Diz AP, Carvajal-Rodriguez A, Skibinski A.O Multiple hypothesis testing in proteomics: a strategy for experimental work. Mol. Cell. Proteomics 2011,10, M110004374.
240. Reiner A, Yekutieli D, Benjamini Y. Identifying differentially expressed genes using false discovery rate controlling procedures. Bioinformatics 2003, 19, 368.
241. Zhang J, Xin L, Shan B, Chen W, Xie M, Yuen D, Zhang W, Zhang Z, Lajoie GA, Ma B. PEAKS DB: de novo sequencing assisted database search for sensitive and accurate peptide identification. Mol. Cell. Proteomics 2012, 11, M111010587.
242. Available: http://www.uniprot.org/.
243. Nousiainen M, Sillje HH, Sauer G, Nigg EA, Korner R. Phosphoproteome analysis of the human mitotic spindle. Proc. Natl. Acad. Sci. USA 2006, 103, 5391.
244. Dephoure N, Zhou C, Villen J Beausoleil AS, Bakalarski CE, Elledge SJ, Gygi SP. A quantitative atlas of mitotic phosphorylation. Proc. Natl. Acad. Sci. USA 2008, 105, 10762. |