Reduction of preanalytical variability in specimen procurement for molecular profiling

Methods in Molecular Biology

Volumn 823, Issue , 2012, Pages 49-57

  Espina, Virginia ^a   Mueller, Claudius ^a  

^a GEORGE MASON UNIVERSITY   (United States)

Author keywords

Fixation; Histomorphology; Phosphoprotein; Preanalytical variability; Preservative; Stability; Tissue

Indexed keywords

BIOLOGICAL MARKER; PHOSPHOPROTEIN;

ARTICLE; HUMAN; LABORATORY DIAGNOSIS; METABOLISM; METHODOLOGY; PRESERVATION; PROTEIN STABILITY; PROTEOMICS; STANDARD; TRANSLATIONAL RESEARCH;

BIOLOGICAL MARKERS; HUMANS; PHOSPHOPROTEINS; PRESERVATION, BIOLOGICAL; PROTEIN STABILITY; PROTEOMICS; SPECIMEN HANDLING; TRANSLATIONAL MEDICAL RESEARCH;

EID: 82355171048     PISSN: 10643745     EISSN: None     Source Type: Book Series    
DOI: 10.1007/978-1-60327-216-2_4     Document Type: Article

References (32)

1. Poste, G. (2011) Bring on the biomarkers. Nature 469, 156-7.
2. Spruessel, A., Steimann, G., Jung, M., Lee, S. A., Carr, T., Fentz, A. K. et al. (2004) Tissue ischemia time affects gene and protein expression patterns within minutes following surgical tumor excision. Biotechniques 36, 1030-7. (Pubitemid 38747367)
3. Espina, V., Edmiston, K. H., Heiby, M., Pierobon, M., Sciro, M., Merritt, B. et al. (2008) A portrait of tissue phosphoprotein stability in the clinical tissue procurement process. Mol Cell Proteomics 7, 1998-2018.
4. Li, J., Gould, T. D., Yuan, P., Manji, H. K., Chen, G. (2003) Post-mortem interval effects on the phosphorylation of signaling proteins. Neuropsychopharmacology 28, 1017-25.
5. Li, X., Friedman, A. B., Roh, M. S., Jope, R. S. (2005) Anesthesia and post-mortem interval profoundly infl uence the regulatory serine phosphorylation of glycogen synthase kinase-3 in mouse brain. J Neurochem 92, 701-4. (Pubitemid 40189472)
6. Imbeaud, S., Auffray, C. (2005) 'The 39 steps' in gene expression profi ling: critical issues and proposed best practices for microarray experiments. Drug Discov Today 10, 1175-82. (Pubitemid 41327774)
7. Dash, A., Maine, I. P., Varambally, S., Shen, R., Chinnaiyan, A. M., Rubin, M. A. (2002) Changes in differential gene expression because of warm ischemia time of radical prostatectomy specimens. Am J Pathol 161, 1743-8. (Pubitemid 35265532)
8. Espina, V., Mueller, C., Edmiston, K., Sciro, M., Petricoin, E. F., Liotta, L. A. (2009) Tissue is alive: New technologies are needed to address the problems of protein biomarker pre-analytical variability. Proteomics Clin Appl 3, 874-882.
9. Grellner, W., Vieler, S., Madea, B. (2005) Transforming growth factors (TGF-alpha and TGF-beta1) in the determination of vitality and wound age: immunohistochemical study on human skin wounds. Forensic Sci Int 153, 174-80. (Pubitemid 41219670)
10. Grellner, W. (2002) Time-dependent immunohistochemical detection of proinfl ammatory cytokines (IL-1beta, IL-6, TNF-alpha) in human skin wounds. Forensic Sci Int 130, 90-6. (Pubitemid 35449641)
11. Grellner, W., Madea, B. (2007) Demands on scientifi c studies: vitality of wounds and wound age estimation. Forensic Sci Int 165, 150-4. (Pubitemid 46073532)
12. Goldstein, B. J. (2002) Protein-tyrosine phosphatases: emerging targets for therapeutic intervention in type 2 diabetes and related states of insulin resistance. J Clin Endocrinol Metab 87, 2474-80. (Pubitemid 34655303)
13. Neel, B. G., Tonks, N. K. (1997) Protein tyrosine phosphatases in signal transduction. Curr Opin Cell Biol 9, 193-204. (Pubitemid 27135987)
14. Lim, M. D., Dickherber, A., Compton, C. C. (2011) Before you analyze a human specimen, think quality, variability, and bias. Anal Chem 83, 8-13.
15. Baker, A. F., Dragovich, T., Ihle, N. T., Williams, R., Fenoglio-Preiser, C., Powis, G. (2005) Stability of phosphoprotein as a biological marker of tumor signaling. Clin Cancer Res 11, 4338-40. (Pubitemid 40825621)
16. Paweletz, C. P., Charboneau, L., Bichsel, V. E., Simone, N. L., Chen, T., Gillespie, J. W. et al. (2001) Reverse phase protein microarrays which capture disease progression show activation of pro-survival pathways at the cancer invasion front. Oncogene 20, 1981-9. (Pubitemid 32458030)
17. Nishizuka, S., Charboneau, L., Young, L., Major, S., Reinhold, W. C., Waltham, M. et al. (2003) Proteomic profi ling of the NCI-60 cancer cell lines using new high-density reversephase lysate microarrays. Proc Natl Acad Sci U S A 100, 14229-34. (Pubitemid 37499219)
18. Fox, C. H., Johnson, F. B., Whiting, J., Roller, P. P. (1985) Formaldehyde fi xation. J Histochem Cytochem 33, 845-53.
19. Helander, K. G. (1994) Kinetic studies of formaldehyde binding in tissue. Biotech Histochem 69, 177-9. (Pubitemid 24163542)
20. Srinivasan, M., Sedmak, D., Jewell, S. (2002) Effect of fi xatives and tissue processing on the content and integrity of nucleic acids. Am J Pathol 161, 1961-71. (Pubitemid 35434840)
21. Nassiri, M., Ramos, S., Zohourian, H., Vincek, V., Morales, A. R., Nadji, M. (2008) Preservation of biomolecules in breast cancer tissue by a formalin-free histology system. BMC Clin Pathol 8, 1.
22. Devireddy, R. V. (2005) Predicted permeability parameters of human ovarian tissue cells to various cryoprotectants and water. Mol Reprod Dev 70, 333-43. (Pubitemid 40170702)
23. He, Y., Devireddy, R. V. (2005) An inverse approach to determine solute and solvent permeability parameters in artifi cial tissues. Ann Biomed Eng 33, 709-18. (Pubitemid 40902562)
24. Bellet, V., Boissiere, F., Bibeau, F., Desmetz, C., Berthe, M., Rochaix, P. et al. (2007) Proteomic analysis of RCL2 paraffi n-embedded tissues. J Cell Mol Med
25. Delfour, C., Roger, P., Bret, C., Berthe, M. L., Rochaix, P., Kalfa, N. et al. (2006) RCL2, a new fi xative, preserves morphology and nucleic acid integrity in paraffi n-embedded breast carcinoma and microdissected breast tumor cells. J Mol Diagn 8, 157-69. (Pubitemid 43811238)
26. Perlmutter, M. A., Best, C. J., Gillespie, J. W., Gathright, Y., Gonzalez, S., Velasco, A. et al. (2004) Comparison of snap freezing versus ethanol fi xation for gene expression profi ling of tissue specimens. J Mol Diagn 6, 371-7. (Pubitemid 39517406)
27. Nadji, M., Nassiri, M., Vincek, V., Kanhoush, R., Morales, A. R. (2005) Immunohistochemistry of tissue prepared by a molecular-friendly fi xation and processing system. Appl Immunohistochem Mol Morphol 13, 277-82. (Pubitemid 41209024)
28. Chu, W. S., Furusato, B., Wong, K., Sesterhenn, I. A., Mostofi, F. K., Wei, M. Q. et al. (2005) Ultrasound-accelerated formalin fi xation of tissue improves morphology, antigen and mRNA preservation. Mod Pathol 18, 850-63. (Pubitemid 40780520)
29. Stanta, G., Mucelli, S. P., Petrera, F., Bonin, S., Bussolati, G. (2006) A novel fi xative improves opportunities of nucleic acids and proteomic analysis in human archive's tissues. Diagn Mol Pathol 15, 115-23. (Pubitemid 44350489)
30. Vincek, V., Nassiri, M., Nadji, M., Morales, A. R. (2003) A tissue fi xative that protects macromolecules (DNA, RNA, and protein) and histomorphology in clinical samples. Lab Invest 83, 1427-35. (Pubitemid 37267826)
31. Svensson, M., Skold, K., Nilsson, A., Falth, M., Nydahl, K., Svenningsson, P. et al. (2007) Neuropeptidomics: MS applied to the discovery of novel peptides from the brain. Anal Chem 79, 15-6, 18-21.
32. Morales, A. R., Nassiri, M., Kanhoush, R., Vincek, V., Nadji, M. (2004) Experience with an automated microwave-assisted rapid tissue processing method: validation of histologic quality and impact on the timeliness of diagnostic surgical pathology. Am J Clin Pathol 121, 528-36. (Pubitemid 38392960)