Novel Serum Biomarkers to Differentiate Cholangiocarcinoma from Benign Biliary Tract Diseases Using a Proteomic Approach

Table 2

A list of differentially expressed serum proteins between CCA and BBTDs. The protein expression measurements were averaged and represented as log₂-transformed intensity values with standard deviation. The values are also indicated.

Protein names	ID details	GI accession	CCA; mean ± SD	BBTD; mean ± SD	values
CCA > BBTD
ABHD11	Alpha/beta hydrolase domain-containing protein 11	23200008	1.20 ± 0.4	0.82 ± 0.3	0.002
—	Antioxidized LDL immunoglobulin light chain variable region	62868476	0.88 ± 0.3	0.55 ± 0.3	0.004
—	Chain L, crystal structure of the Fab fragment of nimotuzumab. An antiepidermal growth factor receptor antibody	255311843	1.93 ± 0.2	1.72 ± 0.3	0.010
—	Complement factor H	758073	−0.86 ± 0.3	−1.51 ± 0.5	0.001
COG7	Conserved oligomeric Golgi complex subunit 7	23957690	−0.50 ± 0.4	−1.23 ± 0.5	<0.001
DHDDS	Dehydrodolichyl diphosphate synthase	13177736	0.14 ± 0.6	−0.61 ± 0.5	0.005
MLH1	DNA mismatch repair protein	4557757	−0.49 ± 0.5	−1.00 ± 0.5	0.004
EIF3J	Eukaryotic translation initiation factor 3 subunit J	83281438	2.40 ± 0.4	1.95 ± 0.4	0.002
FAM19A5	FAM19A5 protein	71052198	0.98 ± 0.3	−0.69 ± 0.7	<0.001
HBZ	Hemoglobin subunite zeta	4885397	−0.23 ± 0.3	−0.78 ± 0.4	0.001
V4-34	IgG	2632200	0.54 ± 0.4	0.20 ± 0.2	0.001
—	Immunoglobulin heavy chain variable region	37694587	1.46 ± 0.4	0.93 ± 0.5	0.003
IGK	Immunoglobulin kappa light chain VLJ region	21669309	1.98 ± 0.3	1.68 ± 0.1	<0.001
IL16	Interleukin 16	119619506	0.15 ± 0.4	−0.36 ± 0.6	0.008
KIAA0321	KIAA0321 protein	2224583	−0.25 ± 0.8	−1.70 ± 0.9	0.002
KIAA0612	KIAA0612 protein	34327964	−1.17 ± 0.4	−1.76 ± 0.5	0.006
KIAA0896	KIAA0896 protein	71891755	0.18 ± 0.6	−0.50 ± 0.6	0.003
MAGED4B	Melanoma-associated antigen D4	29337296	0.33 ± 0.3	−1.17 ± 0.9	0.002
NXF3	Nuclear RNA export factor 3	11545757	0.59 ± 0.4	−0.29 ± 0.5	<0.001
PAXBP1	PAX3- and PAX7-binding protein 1	22035565	0.64 ± 0.1	0.39 ± 0.2	0.001
LOC390791	Peptidyl-prolyl cis-trans isomerase A-like	310113085	−0.50 ± 0.3	−1.24 ± 0.4	0.002
PLEKHO2	Pleckstrin homology domain-containing family O member 2	33457316	−0.29 ± 0.4	−0.91 ± 0.4	0.001
PLEKHM2	PLEKHM2 protein	26251859	−0.46 ± 0.4	−1.06 ± 0.5	0.002
RBAK	RB-associated KRAB zinc finger protein	13430850	0.17 ± 0.5	−0.96 ± 0.7	<0.001
PTPRG	Receptor tyrosine phosphatase gamma	1263069	0.90 ± 0.3	0.54 ± 0.2	<0.001
RPS10	Ribosomal protein S10	3088338	0.99 ± 0.2	0.67 ± 0.1	<0.001
NOB1	RNA-binding protein NOB1	7661532	−0.81 ± 0.4	−1.26 ± 0.4	0.002
VAT1	Synaptic vesicle membrane protein VAT-1	18379349	0.57 ± 0.4	0.15 ± 0.3	0.003
TRAC-1	T3 receptor-associating cofactor-1	1911770	0.12 ± 0.3	−0.28 ± 0.2	<0.001
—	Unnamed protein product	10433849	1.67 ± 0.5	0.77 ± 0.3	<0.001
—	Unnamed protein product	21752201	0.27 ± 0.2	−0.07 ± 0.3	0.001
CCA < BBTD
GCAT	2-Amino-3-ketobutyrate coenzyme A ligase	7657118	−1.62 ± 0.5	−1.17 ± 0.3	0.002
ALB	Albumin	119626083	1.05 ± 0.3	1.45 ± 0.3	<0.001
SERPINA1	Alpha-1-antitrypsin	1703025	0.84 ± 0.4	1.24 ± 0.3	<0.001
A2M	Alpha-2-macroglobulin	177872	−0.04 ± 0.4	0.52 ± 0.3	<0.001
AGT	Angiotensinogen	4261988	0.09 ± 0.6	0.79 ± 0.2	<0.001
apo AII	Apolipoprotein	671882	0.04 ± 0.3	0.31 ± 0.2	0.003
APOB	Apolipoprotein B-100	105990532	−1.67 ± 0.4	−0.86 ± 0.5	<0.001
ARID5B	AT-rich interactive domain-containing protein 5B	74136549	0.08 ± 0.5	0.71 ± 0.7	0.006
BAZ2	BWSCR2 associated zinc-finger protein BAZ2	6002480	−0.50 ± 0.9	0.23 ± 0.3	0.005
C1orf87	C1orf87 protein	27503780	−0.91 ± 0.4	−0.49 ± 0.3	0.001
PDEA	cGMP phosphodiesterase	2366987	0.11 ± 0.4	0.73 ± 0.3	<0.001
	Chain D, The Nucleosome Containing A Testis-Specific Histone Variant	296863399	−2.56 ± 0.4	−2.04 ± 0.5	0.002
C4A	Complement C4-A	476007827	−0.81 ± 0.7	−0.02 ± 0.3	<0.001
DCAF15	DDB1- and CUL4-associated factor 15	78486540	0.87 ± 0.4	1.31 ± 0.2	<0.001
FN1	Fibronectin 1	53791223	−0.98 ± 0.5	−0.29 ± 0.4	<0.001
FLJ00044	FLJ00044 protein	10440418	−1.02 ± 0.4	−0.59 ± 0.2	0.004
FLJ16008	FLJ16008 protein, isoform CRA_b	119615716	1.79 ± 0.1	1.94 ± 0.2	0.006
GNG5	Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-5	4885287	0.94 ± 0.3	1.24 ± 0.1	<0.001
hCG_1817987	hCG1817987	119612015	−0.09 ± 0.3	0.36 ± 0.3	<0.001
hCG_1981701	hCG1981701	119572460	−1.14 ± 0.5	−0.52 ± 0.5	0.002
hCG_2008076	hCG2008076	119592316	0.05 ± 0.4	0.42 ± 0.2	0.012
hCG_2008267	hCG2008267	119592800	−0.07 ± 0.4	0.35 ± 0.2	0.001
hCG_201157	hCG201157	119576573	0.64 ± 0.3	0.89 ± 0.3	0.009
hCG_2020343	hCG2020343	119629275	−0.95 ± 0.4	−0.27 ± 0.4	<0.001
—	Hypothetical protein	12224988	−1.46 ± 0.5	−0.90 ± 0.4	<0.001
FLJ22688	Hypothetical protein FLJ22688, isoform CRA_b	119572924	−0.93 ± 0.6	−0.17 ± 0.4	<0.001
LOC286076	Hypothetical protein LOC286076	119602615	1.19 ± 0.4	1.52 ± 0.2	0.003
IgA1	Ig Aalpha1 Bur	223099	1.84 ± 0.6	2.28 ± 0.3	0.006
	Immunoglobulin heavy chain variable region	37694587	1.48 ± 0.3	1.70 ± 0.1	0.007
ITIH1	Interalpha (globulin) inhibitor H1	825681	−0.74 ± 0.4	0.08 ± 0.6	0.001
ITIH2	Interalpha (globulin) inhibitor H2	119606784	−1.44 ± 0.5	−0.54 ± 0.4	<0.001
KRT1	Keratin 1	11935049	−1.12 ± 0.3	−0.56 ± 0.4	<0.001
KRT10	Keratin-10	307086	−2.40 ± 0.5	−1.50 ± 0.6	<0.001
KIAA0366	KIAA0366 protein	2224673	−1.45 ± 0.4	−0.61 ± 0.6	<0.001
KIAA0920	KIAA0920 protein	40788986	1.05 ± 0.3	1.37 ± 0.2	<0.001
KIAA1234	KIAA1234 protein	6330736	−0.70 ± 0.4	−0.38 ± 0.3	0.007
KIAA1529	KIAA1529 protein	7959325	1.33 ± 0.3	2.38 ± 0.4	<0.001
MAGEB2	Melanoma-associated antigen B2	222418639	−0.48 ± 0.3	−0.07 ± 0.4	0.001
MTDH	Metadherin	119612168	−0.45 ± 0.3	−0.09 ± 0.3	<0.001
MUC16	Mucin-16	74716283	−0.49 ± 0.5	0.41 ± 0.4	<0.001
MYOT	Myotilin	5803106	−0.41 ± 0.5	0.30 ± 0.3	<0.001
NPTX1	Neuronal pentraxin 1	1438954	1.51 ± 0.3	1.74 ± 0.2	0.010
PLG	Plasminogen	38051823	1.67 ± 0.3	2.17 ± 0.4	<0.001
GALNT2	Polypeptide N-acetylgalactosaminyltransferase 2	4758412	−0.99 ± 0.3	−0.50 ± 0.3	<0.001
FAM83E	Protein FAM83E	153251792	0.70 ± 0.5	1.33 ± 0.3	0.006
LOC100131107	Putative UPF0607 protein ENSP00000383783	239741331	1.03 ± 0.7	2.07 ± 0.7	0.002
RAB-R	RAB-R protein	4102709	−0.83 ± 0.4	−0.05 ± 0.3	0.002
UPF3B	Regulator of nonsense transcripts 3B	18375528	−2.17 ± 0.5	−0.99 ± 0.6	<0.001
RIMBP3	RIMBP3 protein	71052030	0.07 ± 0.4	0.69 ± 0.4	<0.001
	Suppressor of cytokine signaling 3	54695958	0.85 ± 0.4	1.23 ± 0.2	0.004
	Testis specific kinase-1	21886788	−1.65 ± 0.3	−1.07 ± 0.7	0.005
TTC34	Tetratricopeptide repeat protein 34	239741018	−0.54 ± 0.5	0.34 ± 0.3	<0.001
TPO	Thyroid peroxidase	4680721	0.69 ± 0.4	1.15 ± 0.2	<0.001
—	Ubiquitously transcribed tetratricopeptide repeat protein Y-linked transcript	148733192	−1.43 ± 0.4	−0.88 ± 0.5	0.001
—	Unnamed protein product	34531956	0.84 ± 0.3	1.17 ± 0.2	<0.001
—	Unnamed protein product	10435479	0.76 ± 0.4	1.15 ± 0.3	0.003
—	Unnamed protein product	194384842	1.24 ± 0.3	1.67 ± 0.2	<0.001
—	Unnamed protein product	22760231	1.14 ± 0.5	1.77 ± 0.3	<0.001
—	Unnamed protein product	194381130	−2.08 ± 0.4	−1.34 ± 0.5	<0.001
DBP	Vitamin D-binding protein	455970	0.88 ± 0.5	1.30 ± 0.3	0.007
ZNF410	Zinc finger protein 410	119601547	−0.27 ± 0.4	0.46 ± 0.3	<0.001
ZnF_RBZ	ZIS1	4191327	0.03 ± 0.4	0.55 ± 0.4	0.001