International Journal of Proteomics

Research Article

The Application of a Three-Step Proteome Analysis for Identification of New Biomarkers of Pancreatic Cancer

Table 2

(a) Proteins upregulated in pancreatic cancer.


Protein's name	Experimental	Theoretical	Score⁽¹⁾	Queries	Validation
Protein's name	mass (Da)	mass (Da)	Score⁽¹⁾	matched⁽²⁾	Validation

Histidine-rich glycoprotein precursor	80000	59541	150	3	WB⁽³⁾
Plasminogen precursor	100000	90510	331	8
IGHM protein	50000	52754	105	2
TF Serotransferrin precursor	75000	77000	601	14	WB
Isoform LMW of Kininogen-1 precursor	70000	47853	242	6
F2 Prothrombin precursor (Fragment)	90000	69992	486	8
Alpha-1B-glycoprotein precursor	43000	54239	590	8	WB
Vitronectin precursor	62000	54271	581	8	WB
Hepatocyte growth factor-like protein precursor	85000	80268	284	6	WB
Plasma kallikrein precursor	90000	71323	246	8
Ceruloplasmin precursor	115000	122128	1452	49
Isoform 1 of Ficolin-3 precursor	34400	32883	58	1
Transthyretin precursor	95000	15877	4489	13
Serum amyloid P-component precursor	24000	25371	2293	12
Antithrombin III variant	61000	52658	1984	20
SERPINC1 protein	61000	29074	1147	11
Carbonic anhydrase 1	30800	28852	679	10	WB
Isoform 1 of C-reactive protein precursor	26000	25023	169	6
Apolipoprotein A-1	31600	30759	225	4
Isoform 1 of Inter-alpha-trypsin inhibitor heavy chain H3	138000	75031	529	12
Leucine-rich alpha-2-glycoprotein precursor	47000	38154	549	8
Isoform 1 of N-acetylmuramoyl-L-alanine amidase precursor	68900	67957	193	4
Xaa-Pro dipeptidase	53700	54513	144	3
Inter-alpha (globulin) inhibitor H4	130500	103261	1242	26	WB
Vitamin K-dependent protein S precursor	84000	75074	136	4	WB
Serpin peptidase inhibitor, clade D (Heparin cofactor),	72000	57034	374	9
Isoform 1 of Fibronectin precursor	200000	262442	553	14	WB
Alpha-1-antichymotrypsin precursor	62800	50566	3315	33	WB
Kallistatin precursor	59600	48511	123	2
Plastin-2	72000	70245	215	5
Corticosteroid-binding globulin precursor	62500	45112	52	1
Myosin-1	31600	222976	96	2
Isoform 1 of Serum albumin precursor	73000	69321	261	9
Cholinesterase precursor	83000	72836	50	1
AMBP protein precursor	200000	38974	68	1
Plasma protease C1 inhibitor precursor	87000	55119	1168	15
Apolipoprotein B-100 precursor	300000	515241	3982	117

⁽¹⁾MOWSE score of candidate proteins.
⁽²⁾Number of peptide fragments yielding informative MS/MS.
⁽³⁾WB: western blot.

(b) Proteins downregulated in pancreatic cancer.


Protein's name	Experimental	Theoretical	Score⁽¹⁾	Queries	Validation
Protein's name	mass (Da)	mass (Da)	Score⁽¹⁾	matched⁽²⁾	Validation

Plasma retinol-binding protein precursor	19000	22995	373	8	WB⁽³⁾
Coagulation factor XII precursor	75000	67774	140	5
Tetranectin precursor	19000	22552	61	1	WB
Hyaluronan-binding protein 2 precursor	68000	62630	195	6
Vitamin D-binding protein precursor	55000	52883	284	14	WB
Hemopexin precursor	75000	51643	635	8	WB
Lumican precursor	100000	38405	120	6	WB
Isoform 1 of Gelsolin precursor	80000	85644	1360	23	WB
Afamin precursor	80000	69024	307	7
Carboxypeptidase N catalytic chain precursor	49000	52253	244	12	WB
Inter-alpha-trypsin inhibitor heavy chain H1 precursor	200000	101326	812	13	WB
Histone H4	25700	11360	59	1
JUP JUP protein	100000	81675	90	3
apolipoprotein A-IV precursor	42000	45371	2188	35	WB
Inter-alpha-trypsin inhibitor heavy chain H2 precursor	200000	106370	1636	26	WB
Pigment epithelium-derived factor precursor	50000	46313	529	11
Angiotensinogen precursor	56300	53121	986	13
SERPINF2 protein	58000	55029	75	2
Actin, cytoplasmic 1	100000	41710	208	5
Thrombospondin-1 precursor	175000	129300	152	4
Alpha-2-macroglobulin precursor	180000	163175	559	18

⁽¹⁾MOWSE score of candidate proteins.
⁽²⁾Number of peptide fragments yielding informative MS/MS data. The minimum significant threshold level of the probability-based MASCOT/MOWSE score was set at 5%.
⁽³⁾WB: western blot.