Multicenter matrix-assisted laser desorption/ionization mass spectrometry imaging (MALDI MSI) identifies proteomic differences in breast-cancer-associated stroma

Journal of Proteome Research

Volumn 13, Issue 11, 2014, Pages 4730-4738

  Dekker, Tim J A ^a   Balluff, Benjamin D ^a   Jones, Emrys A ^a   Schöne, Cédrik D ^b   Schmitt, Manfred ^c   Aubele, Michaela ^b   Kroep, Judith R ^a   Smit, Vincent T H B M ^a   Tollenaar, Rob A E M ^a   Mesker, Wilma E ^a   Walch, Axel ^b   McDonnell, Liam A ^a  

^a LEIDEN UNIVERSITY MEDICAL CENTER   (Netherlands)

^b INSTITUTE OF EPIDEMIOLOGY   (Germany)

^c TECHNICAL UNIVERSITY OF MUNICH   (Germany)

Author keywords

breast cancer; MALDI imaging mass spectrometry; MSI; multicenter study; proteomics; tumor associated stroma

Indexed keywords

BIOLOGICAL MARKER; PROTEIN; TUMOR MARKER;

ADULT; ARTICLE; BREAST CANCER; CANCER DIAGNOSIS; CLINICAL ARTICLE; FEMALE; HUMAN; HUMAN TISSUE; IMMUNOHISTOCHEMISTRY; INTRATUMORAL DRUG ADMINISTRATION; MASS SPECTROMETRY; MATRIX ASSISTED LASER DESORPTION IONIZATION MASS SPECTROMETRY IMAGING; PROTEIN ANALYSIS; PROTEOMICS; STROMA; BREAST NEOPLASMS; CLASSIFICATION; CLINICAL TRIAL; GENE EXPRESSION REGULATION; GENETICS; GERMANY; IMAGE PROCESSING; METABOLISM; MULTICENTER STUDY; NETHERLANDS; PHYSIOLOGY; PROCEDURES; STROMA CELL; VALIDATION STUDY;

BIOMARKERS, TUMOR; BREAST NEOPLASMS; FEMALE; GENE EXPRESSION REGULATION, NEOPLASTIC; GERMANY; HUMANS; IMAGE PROCESSING, COMPUTER-ASSISTED; IMMUNOHISTOCHEMISTRY; NETHERLANDS; PROTEOMICS; SPECTROMETRY, MASS, MATRIX-ASSISTED LASER DESORPTION-IONIZATION; STROMAL CELLS;

EID: 84903836323     PISSN: 15353893     EISSN: 15353907     Source Type: Journal    
DOI: 10.1021/pr500253j     Document Type: Article

References (27)

1. Kalluri, R.; Zeisberg, M. Fibroblasts in cancer Nat. Rev. Cancer 2006, 6, 392-401
2. Sugimoto, H.; Mundel, T. M.; Kieran, M. W. Raghu Kalluri Identification of fibroblast heterogeneity in the tumor microenvironment Cancer Biol. Ther. 2006, 5, 1640-1646
3. Chaurand, P.; Sanders, M. E.; Jensen, R. A.; Caprioli, R. M. Proteomics in Diagnostic Pathology-Profiling and Imaging Proteins Directly in Tissue Sections Am. J. Pathol. 2004, 165, 1057-1068
4. Cornett, D. S.; Reyzer, M. L.; Chaurand, P.; Caprioli, R. M. MALDI Imaging Mass Spectrometry: Molecular Snapshots of Biochemical Systems Nat. Methods 2007, 4, 828-833
5. McDonnell, L. A.; Heeren, R. M. A. Imaging Mass Spectrometry Mass Spectrom. Rev. 2007, 26, 606-643
6. Rauser, S.; Deininger, S.-O.; Suckau, D.; Höfler, H.; Walch, A. Approaching MALDI Molecular Imaging for Clinical Proteomic Research: Current State and Fields of Application Expert Rev. Proteomics 2010, 7, 927-941
7. Reyzer, M. L.; Caldwell, R. L.; Dugger, T. C.; Forbes, J. T.; Ritter, C. A.; Guix, M.; Arteaga, C. L.; Caprioli, R. M. Early Changes in Protein Expression Detected by Mass Spectrometry Predict Tumor Response to Molecular Therapeutics Cancer Res. 2004, 64, 9093-9100
8. Aichler, M.; Elsner, M.; Ludyga, N.; Feuchtinger, A.; Zangen, V.; Maier, S. K.; Balluff, B.; Schöne, C.; Hierber, L.; Braselmann, H.; Meding, S.; Rauser, S.; Zischka, H.; Aubele, M.; Schmitt, M.; Feith, M.; Hauck, S. M.; Ueffing, M.; Langer, R.; Kuester, B.; Zitzelsberger, H.; Höfler, H.; Walch, A. K. Clinical response to chemotherapy in oesophageal adenocarcinoma patients is linked to defects in mitochondria J. Pathol. 2013, 230, 410-419
9. Seeley, E. H.; Lazova, R.; Sepehr, A.; Caprioli, R. M. In Molecular Diagnosis of Atypical Spitzoid Neoplasms using Direct Tissue Profiling Mass Spectrometry, 61st ASMS Conference on Mass Spectrometry and Allied Topics, Minneapolis, MN, USA, 2013.
10. Goodwin, R. J. A. Sample preparation for mass spectrometry imaging: Small mistakes can lead to big consequences J. Proteomics 2012, 75, 4893-4911
11. Cohen, S. L.; Chait, B. T. Influence of Matrix Solution Conditions on the MALDI-MS Analysis of Peptides and Proteins Anal. Chem. 1996, 68, 31-37
12. Seeley, E. H.; Oppenheimer, S. R.; Mi, D.; Chaurand, P.; Caprioli, R. M. Enhancement of protein sensitivity for MALDI imaging mass spectrometry after chemical treatment of tissue sections J. Am. Soc. Mass Spectrom. 2008, 19, 1069-77
13. Deininger, S. O.; Cornett, D. S.; Paape, R.; Becker, M.; Pineau, C.; Rauser, S.; Walch, A.; Wolski, E. Normalization in MALDI-TOF imaging datasets of proteins: practical considerations Anal. Bioanal. Chem. 2011, 401, 167-181
14. 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
15. Hardesty, W. M.; Kelley, M. C.; Mi, D.; Low, R. L.; Caprioli, R. M. Protein Signatures for Survival and Recurrence in Metastatic Melanoma J. Proteomics 2011, 74, 1002-1014
16. McDonnell, L. A.; Walch, A.; Stoeckli, M.; Corthals, G. L. MSiMass List: A Public Database of Identifications for Protein MALDI MSI J. Proteome Res. 2013, 13, 1138-1142
17. Longuespée, R.; Boyon, C.; Castellier, C.; Jacquet, A.; Desmons, A.; Kerdraon, O.; Vinatier, D.; Fournier, I.; Day, R.; Salzet, M. The C-terminal fragment of the immunoproteasome PA28S (Reg alpha) as an early diagnosis and tumor-relapse biomarker: evidence from mass spectrometry profiling Histochem. Cell Biol. 2012, 138, 141-154
18. Navab, R.; Strumpf, D.; Bandarchi, B.; Zhu, C.-Q.; Pintilie, M.; Ramnarine, V. R.; Ibrahimov, E.; Radulovich, N.; Leung, L.; Barczyk, M.; Panchal, D.; To, C.; Yun, J. J.; Der, S.; Shepherd, F. A.; Jurisica, I.; Tsao, M.-S. Prognostic gene-expression signature of carcinoma-associated fibroblasts in non-small cell lung cancer Proc. Natl. Acad. Sci. U.S.A. 2011, 108, 7160-7165
19. Troester, M. A.; Lee, M. H.; Carter, M.; Fan, C.; Cowan, D. W.; Perez, E. R.; Pirone, J. R.; Perou, C. M.; Jerry, D. J.; Schneider, S. S. Activation of Host Wound Responses in Breast Cancer Microenvironment Clin. Cancer Res. 2009, 15, 7020-7028
20. Caldwell, R. L.; Gonzalez, A.; Oppenheimer, S. R.; Schwartz, H. S.; Caprioli, R. M. Assessment of the Tumor Protein Microenvironment Using Imaging Mass Spectrometry Cancer Genomics Proteomics 2006, 3, 279-288
21. Oppenheimer, S. R.; Mi, D.; Sanders, M. E.; Caprioli, R. M. Molecular Analysis of Tumor Margins by MALDI Mass Spectrometry in Renal Carcinoma J. Proteome Res. 2010, 9, 2182-2190
22. Ahn, K.; Erlander, M.; Leturcq, D.; Peterson, P. A.; Früh, K.; Yang, Y. In vivo characterization of the proteasome regulator PA28 J. Biol. Chem. 1996, 271, 18237-18242
23. Chen, D.; Landis-Piwowar, K. R.; Chen, M. S.; Dou, Q. P. Inhibition of proteasome activity by the dietary flavonoid apigenin is associated with growth inhibition in cultured breast cancer cells and xenografts Breast Cancer Res. 2007, 9, R80
24. Malinda, K.; Sidhu, G.; al, M. H. e. Thymosin beta4 accelerates wound healing J. Invest Dermatol. 1999, 113, 364-368
25. Cha, H.-J.; Jeong, M.-J.; Kleinman, H. K. Role of Thymosin β4 in Tumor Metastasis and Angiogenesis J. Natl. Cancer Inst 2003, 95, 1674-1680
26. Villanueva, J.; Philip, J.; Chaparro, C. A.; Li, Y.; Toledo-Crow, R.; DeNoyer, L.; Fleisher, M.; Robbins, R. J.; Tempst, P. Correcting Common Errors in Identifying Cancer-Specific Serum Peptide Signatures J. Proteome Res. 2005, 4, 1060-1072
27. Stephens, P. J.; Tarpey, P. S.; Davies, H.; Loo, P. V.; Greenman, C.; Wedge, D. C.; Nik-Zainal, S.; Martin, S.; Varela, I.; Bignell, G. R.; Yates, L. R.; Papaemmanuil, E.; Beare, D.; Butler, A.; Cheverton, A.; Gamble, J.; Hinton, J.; Jia, M.; Jayakumar, A.; Jones, D.; Latimer, C.; Lau, K. W.; McLaren, S.; McBride, D. J.; Menzies, A.; Mudie, L.; Raine, K.; Rad, R.; Chapman, M. S.; Teague, J.; Easton, D.; Langerød, A.; The Oslo Breast Cancer Consortium (OSBREAC); Lee, M. T. M.; Shen, C.-Y.; Tee, B. T. K.; Huimin, B. W.; Broeks, A.; Vargas, A. C.; Turashvili, G.; Martens, J.; Fatima, A.; Miron, P.; Chin, S.-F.; Thomas, G.; Boyault, S.; Mariani, O.; Lakhani, S. R.; Vijver, M. v. d.; AVeer, L. v. t.; Foekens, J.; Desmedt, C.; Sotiriou, C.; Tutt, A.; Caldas, C.; Reis-Filho, J. S.; Aparicio, S. A. J. R.; Salomon, A. V.; Børresen-Dale, A.-L.; Richardson, A. L.; Campbell, P. J.; Futreal, P. A.; Stratton, M. R. The landscape of cancer genes and mutational processes in breast cancer. Nature 486, 400-404.