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Identification of potential serum proteomic biomarkers for clear cell renal cell carcinoma.

Yang J, Yang J, Gao Y, Zhao L, Liu L, Qin Y, Wang X, Song T, Huang C - PLoS ONE (2014)

Bottom Line: Of 67 m/z peaks that differed among the ccRCC, healthy controls, pre- and post-operative ccRCC patients, 24 were significantly different (P<0.05).Three candidate peaks, which were upregulated in ccRCC group and showed a tendency to return to healthy control values after surgery, were identified as peptide regions of RNA-binding protein 6 (RBP6), tubulin beta chain (TUBB), and zinc finger protein 3 (ZFP3) with the m/z values of 1466.98, 1618.22, and 5905.23, respectively.MB-MALDI-TOF-MS method could generate serum peptidome profiles of ccRCC, and provide a new approach to identify potential biomarkers for diagnosis as well as prognosis of this malignancy.

View Article: PubMed Central - PubMed

Affiliation: Key Laboratory of Environment and Genes Related to Diseases of the Education Ministry, Department of Genetics and Molecular Biology, Medical School of Xi'an Jiaotong University, Xi'an, China.

ABSTRACT

Objective: To investigate discriminating protein patterns and serum biomarkers between clear cell renal cell carcinoma (ccRCC) patients and healthy controls, as well as between paired pre- and post-operative ccRCC patients.

Methods: We used magnetic bead-based separation followed by matrix-assisted laser desorption ionization (MALDI) time-of-flight (TOF) mass spectrometry (MS) to identify patients with ccRCC. A total of 162 serum samples were analyzed in this study, among which there were 58 serum samples from ccRCC patients, 40 from additional paired pre- and post-operative ccRCC patients (n = 20), and 64 from healthy volunteers as healthy controls. ClinProTools software identified several distinct markers between ccRCC patients and healthy controls, as well as between pre- and post-operative patients.

Results: Patients with ccRCC could be identified with a mean sensitivity of 88.38% and a mean specificity of 91.67%. Of 67 m/z peaks that differed among the ccRCC, healthy controls, pre- and post-operative ccRCC patients, 24 were significantly different (P<0.05). Three candidate peaks, which were upregulated in ccRCC group and showed a tendency to return to healthy control values after surgery, were identified as peptide regions of RNA-binding protein 6 (RBP6), tubulin beta chain (TUBB), and zinc finger protein 3 (ZFP3) with the m/z values of 1466.98, 1618.22, and 5905.23, respectively.

Conclusion: MB-MALDI-TOF-MS method could generate serum peptidome profiles of ccRCC, and provide a new approach to identify potential biomarkers for diagnosis as well as prognosis of this malignancy.

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Related in: MedlinePlus

Representative spectra of three selected serum protein peaks of preoperative ccRCC patients (red), healthy controls (green), and postoperative ccRCC patients (blue).A, C, E. Comparison of the spectra of peaks 1466.98, 5905.23 and 1618.22 in the three groups described above. B, D and F. Receiver operating characteristic (ROC) curves for the three selected peaks are shown together with their area under the curve (AUC) values. G. Average expression levels of three selected peaks in preoperative ccRCC patients (red), healthy controls (green), and postoperative ccRCC patients (blue) and their P values. Values are expressed as the mean ± SD.
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pone-0111364-g002: Representative spectra of three selected serum protein peaks of preoperative ccRCC patients (red), healthy controls (green), and postoperative ccRCC patients (blue).A, C, E. Comparison of the spectra of peaks 1466.98, 5905.23 and 1618.22 in the three groups described above. B, D and F. Receiver operating characteristic (ROC) curves for the three selected peaks are shown together with their area under the curve (AUC) values. G. Average expression levels of three selected peaks in preoperative ccRCC patients (red), healthy controls (green), and postoperative ccRCC patients (blue) and their P values. Values are expressed as the mean ± SD.

Mentions: ClinProt data and the GA algorithm model showed that the preoperative ccRCC patient group could be discriminated from healthy controls and postoperative ccRCC patients with sensitivity of 91.2% and specificity of 93.6%. The five peaks used in GA model included two downregulated peaks (m/z values: 1866.63 and 1061.34) and three upregulated peaks (m/z values: 1466.98, 1618.22, and 5905.23) in the preoperative ccRCC group. The three upregulated peaks showed a tendency to return to healthy control values after surgery. Comparison of the spectra of these three peaks among preoperative ccRCC patients (red), healthy controls (green) and postoperative ccRCC patients (blue) and their receiver operating characteristic (ROC) curves were shown in Fig. 2. The area under the curve (AUC) values of these three peaks were 0.8256 (m/z: 1466.98), 0.8135 (m/z: 1618.22), and 0.8183 for m/z peaks 5905.23. (Fig. 2.)


Identification of potential serum proteomic biomarkers for clear cell renal cell carcinoma.

Yang J, Yang J, Gao Y, Zhao L, Liu L, Qin Y, Wang X, Song T, Huang C - PLoS ONE (2014)

Representative spectra of three selected serum protein peaks of preoperative ccRCC patients (red), healthy controls (green), and postoperative ccRCC patients (blue).A, C, E. Comparison of the spectra of peaks 1466.98, 5905.23 and 1618.22 in the three groups described above. B, D and F. Receiver operating characteristic (ROC) curves for the three selected peaks are shown together with their area under the curve (AUC) values. G. Average expression levels of three selected peaks in preoperative ccRCC patients (red), healthy controls (green), and postoperative ccRCC patients (blue) and their P values. Values are expressed as the mean ± SD.
© Copyright Policy
Related In: Results  -  Collection

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Show All Figures
getmorefigures.php?uid=PMC4219714&req=5

pone-0111364-g002: Representative spectra of three selected serum protein peaks of preoperative ccRCC patients (red), healthy controls (green), and postoperative ccRCC patients (blue).A, C, E. Comparison of the spectra of peaks 1466.98, 5905.23 and 1618.22 in the three groups described above. B, D and F. Receiver operating characteristic (ROC) curves for the three selected peaks are shown together with their area under the curve (AUC) values. G. Average expression levels of three selected peaks in preoperative ccRCC patients (red), healthy controls (green), and postoperative ccRCC patients (blue) and their P values. Values are expressed as the mean ± SD.
Mentions: ClinProt data and the GA algorithm model showed that the preoperative ccRCC patient group could be discriminated from healthy controls and postoperative ccRCC patients with sensitivity of 91.2% and specificity of 93.6%. The five peaks used in GA model included two downregulated peaks (m/z values: 1866.63 and 1061.34) and three upregulated peaks (m/z values: 1466.98, 1618.22, and 5905.23) in the preoperative ccRCC group. The three upregulated peaks showed a tendency to return to healthy control values after surgery. Comparison of the spectra of these three peaks among preoperative ccRCC patients (red), healthy controls (green) and postoperative ccRCC patients (blue) and their receiver operating characteristic (ROC) curves were shown in Fig. 2. The area under the curve (AUC) values of these three peaks were 0.8256 (m/z: 1466.98), 0.8135 (m/z: 1618.22), and 0.8183 for m/z peaks 5905.23. (Fig. 2.)

Bottom Line: Of 67 m/z peaks that differed among the ccRCC, healthy controls, pre- and post-operative ccRCC patients, 24 were significantly different (P<0.05).Three candidate peaks, which were upregulated in ccRCC group and showed a tendency to return to healthy control values after surgery, were identified as peptide regions of RNA-binding protein 6 (RBP6), tubulin beta chain (TUBB), and zinc finger protein 3 (ZFP3) with the m/z values of 1466.98, 1618.22, and 5905.23, respectively.MB-MALDI-TOF-MS method could generate serum peptidome profiles of ccRCC, and provide a new approach to identify potential biomarkers for diagnosis as well as prognosis of this malignancy.

View Article: PubMed Central - PubMed

Affiliation: Key Laboratory of Environment and Genes Related to Diseases of the Education Ministry, Department of Genetics and Molecular Biology, Medical School of Xi'an Jiaotong University, Xi'an, China.

ABSTRACT

Objective: To investigate discriminating protein patterns and serum biomarkers between clear cell renal cell carcinoma (ccRCC) patients and healthy controls, as well as between paired pre- and post-operative ccRCC patients.

Methods: We used magnetic bead-based separation followed by matrix-assisted laser desorption ionization (MALDI) time-of-flight (TOF) mass spectrometry (MS) to identify patients with ccRCC. A total of 162 serum samples were analyzed in this study, among which there were 58 serum samples from ccRCC patients, 40 from additional paired pre- and post-operative ccRCC patients (n = 20), and 64 from healthy volunteers as healthy controls. ClinProTools software identified several distinct markers between ccRCC patients and healthy controls, as well as between pre- and post-operative patients.

Results: Patients with ccRCC could be identified with a mean sensitivity of 88.38% and a mean specificity of 91.67%. Of 67 m/z peaks that differed among the ccRCC, healthy controls, pre- and post-operative ccRCC patients, 24 were significantly different (P<0.05). Three candidate peaks, which were upregulated in ccRCC group and showed a tendency to return to healthy control values after surgery, were identified as peptide regions of RNA-binding protein 6 (RBP6), tubulin beta chain (TUBB), and zinc finger protein 3 (ZFP3) with the m/z values of 1466.98, 1618.22, and 5905.23, respectively.

Conclusion: MB-MALDI-TOF-MS method could generate serum peptidome profiles of ccRCC, and provide a new approach to identify potential biomarkers for diagnosis as well as prognosis of this malignancy.

Show MeSH
Related in: MedlinePlus