Effects of thawing, refreezing and storage conditions of tissue samples and protein extracts on 2-DE spot intensity

Proteomics

Volumn 10, Issue 7, 2010, Pages 1515-1521

  Weist, Stephanie ^a,b   Brunkau, Cindy ^b   Wittke, Janosch ^b   Eravci, Murat ^a,b   Broedel, Oliver ^a,b   Krause, Eberhard ^c   Stephanowitz, Heike ^c   Eravci, Selda ^b   Baumgartner, Andreas ^a,b  

^a CHARITÉ UNIVERSITÄTSMEDIZIN BERLIN   (Germany)

^b A+M Proteome Science   (Germany)

^c LEIBNIZ INSTITUT FÜR MOLEKULARE PHARMAKOLOGIE   (Germany)

Author keywords

2 DE; Freezing; Rat brain; Storage; Technology; Thawing

Indexed keywords

PROTEIN; PROTEOME;

ANIMAL TISSUE; ARTICLE; BRAIN TISSUE; CEREBELLUM; CONTROLLED STUDY; FREEZING; HIGH TEMPERATURE; HIPPOCAMPUS; MALE; MATRIX ASSISTED LASER DESORPTION IONIZATION TIME OF FLIGHT MASS SPECTROMETRY; NONHUMAN; POLYACRYLAMIDE GEL ELECTROPHORESIS; PONS; PRIORITY JOURNAL; RAT; THAWING; TISSUE PRESERVATION;

ANIMALS; BRAIN CHEMISTRY; ELECTROPHORESIS, GEL, TWO-DIMENSIONAL; FREEZING; MALE; NERVE TISSUE PROTEINS; PROTEOMICS; RATS; RATS, SPRAGUE-DAWLEY; SPECIMEN HANDLING;

RATTUS;

EID: 77950670981     PISSN: 16159853     EISSN: 16159861     Source Type: Journal    
DOI: 10.1002/pmic.200900471     Document Type: Article

References (24)

1. Meyer, H. E., Hamacher, M., Quintessence from proteomics networks - the HUPO Brain Proteome Project Pilot Studies. Proteomics 2006, 6, 4887-4889. (Pubitemid 44483885)
2. Turck, C. W., Falick, A. M., Kowalak, J. A., Lane, W. S. et al., The Association of Biomolecular Resource Facilities Proteomics Research Group 2006 study: relative protein quantitation. Mol. Cell. Proteomics 2007, 6, 1291-1298.
3. Fang, Q., Strand, A., Law, W., Faca, V. M. et al., Brainspecific proteins decline in the cerebrospinal fluid of humans with Huntington disease. Mol. Cell. Proteomics 2009, 8, 451-466.
4. Taylor, C. F., Paton, N. W., Lilley, K. S., Binz, P. A. et al., The minimum information about a proteomics experiment (MIAPE). Nat. Biotechnol. 2007, 25, 887-893.
5. Li, J., Chen, J., Zhang, Z., Pan, Y., Proteome analysis of tea pollen (Camellia sinensis) under different storage conditions. J. Agric. Food Chem. 2008, 56, 7535-7544.
6. Kjærsgård, I. V., Nørrelykke, M. R., Jessen, F., Changes in cod muscle proteins during frozen storage revealed by proteome analysis and multivariate data analysis. Proteomics 2006, 6, 1606-1618.
7. Baumann, S., Ceglarek, U., Fiedler, G. M., Lembcke, J. et al., Standardized approach to proteome profiling of human serum based on magnetic bead separation and matrixassisted laser desorption/ionization time-of-flight mass spectrometry. Clin. Chem. 2005, 51, 973-980.
8. Mitchell, B. L., Yasui, Y., Li, C. I., Fitzpatrick, A. L., Lampe, P. D., Impact of freeze-thaw cycles and storage time on plasma samples used in mass spectrometry based biomarker discovery projects. Cancer Inform. 2005, 1, 98-104.
9. West-Nielsen, M., Høgdall, E. V., Marchiori, E., Høgdall, C. K. et al., Sample handling for mass spectrometric proteomic investigations of human sera. Anal. Chem. 2005, 77, 5114-5123.
10. Hsieh, S. Y., Chen, R. K., Pan, Y. H., Lee, H. L., Systematical evaluation of the effects of sample collection procedures on low-molecular-weight serum/plasma proteome profiling. Proteomics 2006, 6, 3189-3198.
11. Fiedler, G. M., Baumann, S., Leichtle, A., Oltmann, A. et al., Standardized peptidome profiling of human urine by magnetic bead separation and matrix-assisted laser desorption/ionization time-of-flight mass spectrometry. Clin. Chem. 2007, 53, 421-428. (Pubitemid 46447938)
12. Lee, R. S., Monigatti, F., Briscoe, A. C., Waldon, Z. et al., Optimizing sample handling for urinary proteomics. J. Proteome Res. 2008, 7, 4022-4030.
13. Schipper, R., Loof, A., de Groot, J., Harthoorn, L. et al., Salivary protein/peptide profiling with SELDI-TOF-MS. Ann. NY Acad. Sci. 2007, 1098, 498-503.
14. Papale, M., Pedicillo, M. C., Di Paolo, S., Thatcher, B. J. et al., Saliva analysis by surface-enhanced laser desorption/ionization time-of-flight mass spectrometry (SELDI-TOF/MS): from sample collection to data analysis. Clin. Chem. Lab. Med. 2008, 46, 89-99.
15. Robinson, A. A., Westbrook, J. A., English, J. A. et al., Assessing the use of thermal treatment to preserve the intact proteomes of post-mortem heart and brain tissue. Proteomics 2009, 9, 4433-4444.
16. Eravci, M., Fuxius, S., Broedel, O., Weist, S. et al., Improved comparative proteome analysis based on two-dimensional gel electrophoresis. Proteomics 2007, 7, 513-523. (Pubitemid 46362614)
17. Fuxius, S., Eravci, M., Broedel, O., Weist, S. et al., Technical strategies to reduce the amount of ''false significant'' results in quantitative proteomics. Proteomics 2008, 8, 1780-1784.
18. Weist, S., Eravci, M., Broedel, O., Fuxius, S. et al., Results and reliability of protein quantification for two-dimensional gel electrophoresis strongly depend on the type of protein sample and the method employed. Proteomics 2008, 8, 3389-3396.
19. Eravci, M., Mansmann, U., Broedel, O., Weist, S. et al., Strategies for a reliable biostatistical analysis of differentially expressed spots from two-dimensional electrophoresis gels. J. Proteome Res. 2009, 8, 2601-2607.
20. Wainer, H., Robust statistics: survey and some prescriptions. J. Educ. Stat. 1976, 1, 285-312.
21. Benjamini, Y., Hochberg, Y., Controlling the false discovery rate: a practical and powerful approach to multiple testing. J. R. Stat. Soc. B 1995, 57, 289-300.
22. Strathmann, J., Paal, K., Ittrich, C., Krause, E. et al., Proteome analysis of chemically induced mouse liver tumors with different genotype. Proteomics 2007, 7, 3318-3331
23. Kersey, P. J., Duarte, J., Williams, A., Karavidopoulou, Y. et al., The International Protein Index: an integrated database for proteomics experiments. Proteomics 2004, 4, 1985-1988.
24. Perkins, D. N., Pappin, D. J. C., Creasy, D. M., Cottrell, J. S., Probability-based protein identification by searching sequence databases using mass spectrometry data. Electrophoresis 1999, 20, 3551-3567.