Tissue Sample Preparation for Proteomic Analysis - Proteomic and Metabolomic Approaches to Biomarker Discovery - page 48

pro ling of diseased tissue, normal adjacent

tissue, and corresponding body

analysis of thin fresh-frozen tissue sections. J Proteome
Res 2012; 11 (3):1561 e 70.

fluids represent
promising avenues for important discoveries of
disease-relevant protein markers.

10. Johann DJ, Rodriguez-Canales J, Mukherjee S, et al.

Approaching solid tumor heterogeneity on a cellular
basis by tissue proteomics using laser capture micro-
dissection and biological mass spectrometry. J Proteome
Res 2009; (5):2310 e 8.

11. Hewitt SM, Lewis FA, Cao Y, et al. Tissue handling and
specimen preparation in surgical pathology: issues
concerning the recovery of nucleic acids from formalin-

8

Acknowledgment
This project has been funded in whole or in part with federal
funds from the National Cancer Institute, National Institutes
of Health, under Contracts HHSN261200800001E and
NO1-CO-12400. The content of this publication does not
necessarily re

fixed, paraf n-embedded tissue. Arch Pathol Lab Med

2008; 132 (12):1929 e 35.

12. Klop eisch R, Weiss AT, Gruber AD. Excavation of

a buried treasure d DNA, mRNA, miRNA and protein
analysis in formalin

ect the views or policies of the Department of
Health and Human Services, nor does mention of trade
names, commercial products, or organization imply
endorsement by the United States Government.

fixed, paraf in embedded tissues.

(6):797 e 810.
13. Blow N. Tissue preparation: tissue issues. Nature 2007;
448

Histol Histopathol 2011; 26

(7156):959 e 63.
14. Zang L, Palmer Toy D, Hancock WS, et al. Proteomic
analysis of ductal carcinoma of the breast using laser
capture microdissection, LC-MS, and 16O/18O isotopic
labeling. J Proteome Res 2004;

References
1. McDonald WH, Yates 3rd JR. Shotgun proteomics
and biomarker discovery. Dis Markers 2002; 18 (2):

3 (3):604 e 12.

99 e 105.
2. Emmert-Buck MR, Strausberg RL, Krizman DB, et al.
Molecular pro

15. Prieto DA, Hood BL, Dar er MM, et al. Liquid tissue:

xed tissues. Bio-

proteomic pro ling of formalin-

ling of clinical tissues specimens:
feasibility and applications. J Mol Diagn 2000;

(Suppl.):S32 e 5.
16. Hwang SI, Thumar J, Lundgren DH, et al. Direct cancer
tissue proteomics: a method to identify candidate
cancer

techniques 2005; 38

2 (2):

60 e 6.

3. Johann Jr DJ, Wei BR, Prieto DA, et al. Combined

blood/tissue analysis for cancer biomarker discovery:
application to renal cell carcinoma. Anal Chem 2010;
82

biomarkers from formalin- fixed paraf n-

(1):65 e 76.
17. Patel V, Hood BL, Molinolo AA, et al. Proteomic
analysis of laser-captured paraf

embedded archival tissues. Oncogene 2007; 26

(5):1584 e 8.
4. Pawar H, Kashyap MK, Sahasrabuddhe NA, et al.
Quantitative tissue proteomics of esophageal squamous
cell carcinoma for novel biomarker discovery. Cancer
Biol Ther 2011;

n-embedded tissues:
a molecular portrait of head and neck cancer progres-
sion. Clin Cancer Res 2008; (4):1002 e 14.

18. Wisniewski JR, Ostasiewicz P, Mann M. High recovery
FASP applied to the proteomic analysis of micro-
dissected formalin

14

(6):510 e 22.
5. Wiedl T, Arni S, Roschitzki B, et al. Activity-based
proteomics: identi

12

n embedded cancer
tissues retrieves known colon cancer markers. J Pro-
teome Res 2011;

fixed paraf

cation of ABHD11 and ESD activi-
ties as potential biomarkers for human lung adenocar-
cinoma. J Proteomics 2011;

(7):3040 e 9.
19. Sprung Jr RW, Brock JW, Tanksley JP, et al. Equivalence
of protein inventories obtained from formalin-

10

(10):1884 e 94.
6. Rifai N, Gillette MA, Carr SA. Protein biomarker
discovery and validation: the long and uncertain
path to clinical utility. Nature Biotech 2006;

74

xed

paraf n-embedded and frozen tissue in multidimen-

sional liquid chromatography-tandem mass spectrom-
etry shotgun proteomic analysis. Mol Cell Proteomics
2009;

(8):971 e 83.
7. Blonder J, Terunuma A, Conrads TP, et al. A proteomic
characterization of the plasma membrane of human
epidermis by high-throughput mass

24

(8):1988 e 98.
20. Alkhas A, Hood BL, Oliver K, et al. Standardization of
a sample preparation and analytical work

8

spectrometry.

J Invest Dermatol 2004; 123 (4):691 e 9.

ow for

8. Siu KW, DeSouza LV, Scorilas A, et al. Differential

protein expressions in renal cell carcinoma: new
biomarker discovery by mass spectrometry. J Proteome
Res 2009;

proteomics of archival endometrial cancer tissue.

(11):5264 e 71.
21. Shi SR, Key ME, Kalra KL. Antigen retrieval in formalin-

J Proteome Res 2011; 10

(8):3797 e 807.
9. Wei BR, Simpson RM, Johann DJ, et al. Proteomic
pro

8

n-embedded tissues: an enhancement
method for immunohistochemical staining based on
microwave oven heating of tissue sections. J Histochem
Cytochem 1991;

fixed, paraf

ling of H-Ras-G12V induced hypertrophic cardio-
myopathy in transgenic mice using comparative LC-MS 39 (6):741 e 8.