mTRAQ-based quantification of potential endometrial carcinoma biomarkers from archived formalin-fixed paraffin-embedded tissues

Proteomics

Volumn 10, Issue 17, 2010, Pages 3108-3116

  DeSouza, Leroi V ^a   Krakovska, Olga ^a   Darfler, Marlene M ^b   Krizman, David B ^b   Romaschin, Alexander D ^c,d   Colgan, Terence J ^d,e   Siu, K W Michael ^a  

^a YORK UNIVERSITY   (Canada)

^b Expression Pathology Inc   (United States)

^c ST MICHAEL'S HOSPITAL   (Canada)

^d UNIVERSITY OF TORONTO   (Canada)

^e MOUNT SINAI HOSPITAL   (Canada)

Author keywords

Biomarker; Cancer; Isotope coded affinity tags; LC; Quantitative analysis; Technology

Indexed keywords

BIOLOGICAL MARKER; FORMALDEHYDE; IMMUNOGLOBULIN RECEPTOR; PARAFFIN; PYRUVATE KINASE; PYRUVATE KINASE M2; TUMOR MARKER; UNCLASSIFIED DRUG;

ARTICLE; ENDOMETRIUM CARCINOMA; EPITHELIUM CELL; HUMAN; HUMAN CELL; HUMAN TISSUE; LASER MICRODISSECTION; LIQUID CHROMATOGRAPHY; MULTIPLE REACTION MONITORING TAGS FOR RELATIVE AND ABSOLUTE QUANTITATION; PRIORITY JOURNAL; PROTEIN EXPRESSION; PROTEOMICS;

AMINO ACID SEQUENCE; CHROMATOGRAPHY, ION EXCHANGE; ENDOMETRIAL NEOPLASMS; EPITHELIAL CELLS; FEMALE; FOLLICULAR PHASE; FORMALDEHYDE; HUMANS; ISOTOPE LABELING; MASS SPECTROMETRY; MICRODISSECTION; PARAFFIN EMBEDDING; PEPTIDE FRAGMENTS; PYRUVATE KINASE; RECEPTORS, POLYMERIC IMMUNOGLOBULIN; TUMOR MARKERS, BIOLOGICAL;

EID: 77956108790     PISSN: 16159853     EISSN: 16159861     Source Type: Journal    
DOI: 10.1002/pmic.201000082     Document Type: Article

References (21)

1. DeSouza, L., Diehl, G., Rodrigues, M. J., Guo, J. et al., Search for cancer markers from endometrial tissues using differentially labeled tags iTRAQ and cICAT with multidimensional liquid chromatography and tandem mass spectrometry. J. Proteome Res. 2005, 4, 377-386. (Pubitemid 40548142)
2. DeSouza, L. V., Grigull, J., Ghanny, S., Dubé, V. et al., Endometrial carcinoma biomarker discovery and verification using differentially tagged clinical samples with multidimensional liquid chromatography and tandem mass spectrometry. Mol. Cell. Proteomics 2007, 6, 1170-1182.
3. Finke, J., Fritzen, R., Ternes, P., Lange, W., Dölken, G., An improved strategy and a useful housekeeping gene for RNA analysis from formalin-fixed, paraffin-embedded tissues by PCR. Biotechniques 1993, 14, 448-453.
4. Lin, Y. C., Canatan, H., Chang, C. J., Hu, Y. F. et al., Detection of keratinocyte growth factor (KGF) transcripts from normal human and archival canine benign prostatic hyperplastic tissues. J. Med. 1994, 25, 41-64.
5. Lehmann, U., Bock, O., Glöckner, S., Kreipe, H., Quantitative molecular analysis of laser-microdissected paraffinembedded human tissues. Pathobiology 2000, 68, 202-208.
6. Farragher, S. M., Tanney, A., Kennedy, R. D., Paul Harkin, D., RNA expression analysis from formalin fixed paraffin embedded tissues. Histochem. Cell Biol. 2008, 130, 435-445.
7. Hood, B. L., Darfler, M. M., Guiel, T. G., Furusato, B. et al., Proteomic analysis of formalin-fixed prostate cancer tissue. Mol. Cell. Proteomics 2005, 4, 1741-1753. (Pubitemid 41749267)
8. Negishi, A., Masuda, M., Ono, M., Honda, K. et al., Quantitative proteomics using formalin-fixed paraffin-embedded tissues of oral squamous cell carcinoma. Cancer Sci. 2009, 100, 1605-1611.
9. Jain, M. R., Liu, T., Hu, J., Darfler, M. et al., Quantitative proteomic analysis of formalin fixed paraffin embedded oral HPV lesions from HIV patients. Open Proteomics J. 2008, 1, 40-45.
10. DeSouza, L. V., Taylor, A. M., Li, W., Minkoff, M. S. et al., Multiple reaction monitoring of mTRAQ-labeled peptides enables absolute quantification of endogenous levels of a potential cancer marker in cancerous and normal endometrial tissues. J. Proteome Res. 2008, 7, 3525-3534.
11. DeSouza, L. V., Romaschin, A. D., Colgan, T. J., Siu, K. W. M., Absolute quantification of potential cancer markers in clinical tissue homogenates using multiple reaction monitoring on a hybrid triple quadrupole/linear ion trap tandem mass spectrometer. Anal. Chem. 2009, 81, 3462-3470.
12. Mazurek, S., Boschek, C. B., Hugo, F., Eigenbrodt, E., Pyruvate kinase type M2 and its role in tumor growth and spreading. Semin. Cancer Biol. 2005, 15, 300-308. Review. (Pubitemid 41058775)
13. Christofk, H. R., Vander Heiden, M. G., Harris, M. H., Ramanathan, A. et al., The M2 splice isoform of pyruvate kinase is important for cancer metabolism and tumour growth. Nature 2008, 452, 230-233. (Pubitemid 351380249)
14. Sprung Jr, R. W., Brock, J. W., Tanksley, J. P., Li, M. et al., Equivalence of protein inventories obtained from formalin-fixed paraffin-embedded and frozen tissue in multidimensional liquid chromatography-tandem mass spectrometry shotgun proteomic analysis. Mol. Cell. Proteomics 2009, 8, 1988-1998.
15. Hempen, P. M., Phillips, K. M., Conway, P. S., Sandoval, K. H. et al., Transcriptional regulation of the human polymeric Ig receptor gene: analysis of basal promoter elements. J. Immunol. 2002, 169, 1912-1921.
16. Norderhaug, I. N., Johansen, F. E., Schjerven, H., Brandtzaeg, P., Regulation of the formation and external transport of secretory immunoglobulins. Crit. Rev. Immunol. 1999, 19, 481-508. Review.
17. Yang, X., Cao, W., Lin, H., Zhang, W. et al., Isoform-specific expression of 14-3-3 proteins in human astrocytoma. J. Neurol. Sci. 2009, 276, 54-59.
18. Ralhan, R., Desouza, L. V., Matta, A., Chandra Tripathi, S. et al., Discovery and verification of head-and-neck cancer biomarkers by differential protein expression analysis using iTRAQ labeling, multidimensional liquid chromatography, and tandem mass spectrometry. Mol. Cell. Proteomics 2008, 7, 1162-1173. (Pubitemid 351943962)
19. Ralhan, R., Desouza, L. V., Matta, A., Chandra Tripathi, S. et al., iTRAQ-multidimensional liquid chromatography and tandem mass spectrometry-based identification of potential biomarkers of oral epithelial dysplasia and novel networks between inflammation and premalignancy. J. Proteome Res. 2009, 8, 300-309.
20. Matta, A., DeSouza, L. V., Shukla, N. K., Gupta, S. D. et al., Prognostic significance of head-and-neck cancer biomarkers previously discovered and identified using iTRAQ-labeling and multidimensional liquid chromatographytandem mass spectrometry. J. Proteome Res. 2008, 7, 2078-2087.
21. Ariztia, E. V., Lee, C. J., Gogoi, R., Fishman, D. A., The tumor microenvironment: key to early detection. Crit. Rev. Clin. Lab. Sci. 2006, 43, 393-425. (Pubitemid 44596061)