Tissue Sample Preparation for Proteomic Analysis - Proteomic and Metabolomic Approaches to Biomarker Discovery - page 49

22. Guo T, Wang W, Rudnick PA, et al. Proteome analysis of
microdissected formalin-

protein identi cation technology. Nature Biotech 2001;

xed and paraf n-embedded (3):242 e 7.

35. Nakorchevsky A, Hewel JA, Kurian SM, et al. Molec-
ular mechanisms of chronic kidney transplant rejection
via large-scale proteogenomic analysis of tissue biop-
sies. J Am Soc Nephrol 2010;

19

(7):763 e 72.
23. Bagnato C, Thumar J, Mayya V, et al. Proteomics
analysis of human coronary atherosclerotic plaque:
a feasibility study of direct tissue proteomics by liquid
chromatography and tandem mass spectrometry. Mol
Cell Proteomics 2007;

tissue specimens. J HistochemCytochem 2007; 55

(2):362 e 73.
36. Loo RR, Dales N, Andrews PC. Surfactant effects
on protein structure examined by electrospray ioniza-
tion mass spectrometry. Protein Sci 1994;

21

(6):1088 e 102.
24. Simpson RJ. Homogenization of mammalian tissue.
Cold Spring Harb Protoc 2010;(7):1 e 4.
25. Blank JA, Lane LA, Menton RG, et al. Procedure for
assessing myeloperoxidase and in

6

(11):1975 e 83.
37. Wisniewski JR, Zougman A, Nagaraj N, et al. Universal
sample preparation method for proteome analysis. Nat
Methods 2009;

3

ammatory mediator
responses in hairless mouse skin. J Applied Toxicol 2000;
21

(5):359 e 62.
38. Ye X, Johann Jr DJ, Hakami RM, et al. Optimization of
protein solubilization for the analysis of the CD14
human monocyte membrane proteome using LC-MS/
MS. J Proteomics 2009;

6

:S137 e 9.
26. Lizotte E, Tremblay A, Allen BG, et al. Isolation and
characterization of subcellular protein fractions from
mouse heart. Anal Biochem 2005;

(1):112 e 22.
39. Zaks A, Klibanov AM. The effect of water on enzyme
action in organic media.

73

(1):47 e 54.
27. Lolo M, Pedreira S, Vazquez BI, et al. Cryogenic
grinding pre-treatment improves extraction ef

345

J Biol Chem 1988; 263 (17):

ciency 8017 e 21.

40. Russell WK, Park ZY, Russell DH. Proteolysis in mixed
organic-aqueous solvent systems: applications for
peptide mass mapping using mass spectrometry. Anal
Chem 2001;

of fluoroquinolones for HPLC-MS/MS determination

in animal tissue. Anal Bioanal Chem 2007; (5):1933 e 7.

28. Gao QA, Madian AG, Liu XP, et al. Coupling protein
complex analysis to peptide based proteomics. J Chro-
matogr A 2010;

387

(11):2682 e 5.
41. Blonder J, Goshe MB, Moore RJ, et al. Enrichment of
integral membrane proteins for proteomic analysis
using liquid chromatography-tandem mass spectrom-
etry. J Proteome Res 2002;

73

(49):7661 e 8.
29. Gross V, Carlson G, Kwan AT, et al. Tissue fractionation
by hydrostatic pressure cycling technology: the uni

1217

ed
sample preparation technique for systems biology studies.
JBiomolTech 2008;

(4):351 e 60.
42. Blonder J, Chan KC, Issaq HJ, et al. Identi

1

(3):189 e 99.
30. Gross VS, Greenberg HK, Baranov SV, et al. Isolation of
functional mitochondria from rat kidney and skeletal
muscle without manual homogenization. Anal Biochem
2011;

19 cation of

membrane proteins from mammalian cell/tissue using
methanol-facilitated solubilization and tryptic digestion
coupled with 2D-LC-MS/MS. Nat Protoc 2006; 1 (6):

(2):213 e 23.
31. Blonder J, Hale ML, Lucas DA, et al. Proteomic analysis
of detergent-resistant membrane rafts. Electrophoresis
2004;

418 2784 e 90.

43. Blonder J, Conrads TP, Yu LR, et al. A detergent- and
cyanogen bromide-free method for integral membrane
proteomics: application to Halobacterium purple
membranes and the human epidermal membrane pro-
teome. Proteomics 2004;

(9):1307 e 18.
32. Kamper P, Ludvigsen M, Bendix K, et al. Proteomic
analysis identi

25

es galectin-1 as a predictive biomarker
for relapsed/refractory disease in classical Hodgkin
lymphoma. Blood 2011;

(1):31 e 45.
44. Blonder J, Conrads TP, Veenstra TD. Characterization
and quantitation of membrane proteomes using multi-
dimensional MS-based proteomic technologies. Expert
Rev Proteomics 2004;

4

117 (24):6638 e 49.

33. Junker H, Venz S, Zimmermann U, et al. Stage-related

alterations in renal cell carcinoma d comprehensive
quantitative analysis by 2D-DIGE and protein network
analysis. PLoS One 2011;

(2):153 e 63.
45. Geier FM, Want EJ, Leroi AM, et al. Cross-platform
comparison of caenorhabditis elegans tissue extraction
strategies for comprehensive metabolome coverage.
Anal Chem 2011;

1

(7). e21867.
34. Washburn MP, Wolters D, Yates 3rd JR. Large-scale
analysis of the yeast proteome by multidimensional

6

83 (10):3730 e 6.