1% dithiothreitol. Protein concentration was determined by the Non Interfering protein assay kit, in accordance to the manufacturers protocol. Immobilized 18 cm linear pH gradient strips, pH 4 7, were rehydrated in a rehy dration buffer CHAPS, 0. 002% Bromophenol blue For the first dimension, 100 ug protein was focused using selleck chemicals Bicalutamide the Ettan IPG Phor II at 50 Inhibitors,Modulators,Libraries V for 1 h, followed by 200 V for 1 h, 500 V for 30 min, 4000 V for 30 min, 4000 V for 1 h, 10000 V for 1 h, 10000 V for 13 h, and 50 V for 3 h. The focused strips were equilibrated twice, 15 min each time, first with 10 mg mL DTT and then with 40 mg mL iodoacetamide prepared in equilibration buffer containing 50 mM Tris HCl, 6 M urea, 30% glycerol, 2% SDS, and 0. 002% Bromophenol blue.

The focused proteins were then separated in the sec ond dimension by 12% linear gradient SDS PAGE with a constant current of 20 mA gel at 20 C. Gels were run until the Inhibitors,Modulators,Libraries Bromophenol dye front reached the end of the gel. Protein detection, analysis, and in gel digestion The gels were stained with silver nitrate, similar to the method described by Swain and Ross with slight mod ifications. Three independent gels were performed in tripli cate. Gels were scanned and image analysis was performed, using Progenesis Samespots software. Using this software, the differentially expressed spots were identified by automatic matching of the detected protein spots. Those spots differing signifi cantly in their intensities with a fold change 2 were used for further analysis. Selected protein spots were excised manually from the two dimensional electrophor esis gel and protein digestion was performed with slight modifications.

Briefly, the excised gel pieces were washed with 100 ul of 100 mM NH4HCO3 for 5 min, and then dehydrated in 100 ul of acetonitrile for 10 min. After being dried in a lyophilizer, the gel pieces were rehydrated in 5 10 ul of 50 mM NH4HCO3 containing 20 ng ul trypsin on ice. After 45 min, the trypsin solution was removed and Inhibitors,Modulators,Libraries re placed with 10 Inhibitors,Modulators,Libraries 20 ul of 50 mM NH4HCO3 without trypsin, and digestion was carried out for a minimum of 16 h at 37 C. These peptide mixtures were collected and analyzed by a mass spectrometry. Matrix assisted laser desorption ionization time of flight mass spectrometry mass spectrometry and database searching Tryptic peptides obtained as described above were subse quently extracted by an addition of 10 ul of the extraction buffer, followed by an addition of 10 15 ul of acetonitrile.

Pooled extracts were dried in a lyophilizer Cilengitide and the extracts were re dissolved in 1 ul of extraction buffer and 1 ul of matrix solution and targeted onto a MALDI TOF plate. After drying the samples completely onto the targeting plate, currently MALDI TOF MS was conducted using a Voyager DE STR mass spectrometer equipped with delay ion extraction. Mass spectra were obtained over a mass range of 800 3,000 Da. For identification of proteins, the peptide mass fingerprint ing data were used to search against the Swissprot databa