. Author manuscript; available in PMC: 2014 Jul 24.

Published in final edited form as: J Proteomics Bioinform. 2014 Jun 24;7(6):151–157. doi: 10.4172/jpb.1000315

Table 3.

MS analysis for Fresh and FFPE mouse liver extracted at atmospheric or elevated hydrostatic pressure. FFPE mouse liver was homogenized in extraction buffer and heated with or without elevated pressure. Fresh-frozen tissue from was extracted either at atmospheric pressure using the indicated extraction condition, or on ice for 2.5 h.

Tissue	Pressure (psi)	Buffer^a	Extraction condition	% Protein Extraction^c	Unique Peptide IDs	Unique Protein IDs
Frozen, 30 d	14.7^*	EB1	On ice, 2.5 h	100%	10237	4727
Frozen, 30 d	14.7^*	EB1	100°C+80°C^b	100%	9964	4581
FFPE, 30 d	14.7^*	EB1	100°C+80°C^b	17%	5565	3449
FFPE, 30 d	40,000	EB1	100°C+80°C^b	77%	9621	5192
Frozen, 1 y	14.7^*	EB2	95°C, 3 min	100%	5872	3415
FFPE, 1 y	14.7^*	EB2	95°C, 1 h	18%	107	107
FFPE, 1 y	40,000	EB2	95°C, 1 h	79%	5180	3492

atmospheric pressure.

EB1: 50 mM Tris-HCl, pH 7, with 2% added [1]; EB2: 100 mM Tris HCl, pH 8, 100 mM DTT, 4% SDS [2].

Tissue was heated at 100°C for 30 min, then the temperature was lowered to 80°C for 2 h.

The amount of protein extracted from fresh frozen tissue was set to 100%.