Determination of temporal reproducibility and variability of cancer biomarkers in serum and EDTA plasma samples using a proximity extension assay

Christensen, Troels D.; Maag, Emil; Madsen, Kasper; Lindgaard, Sidsel Christy; Nielsen, Dorte L.; Johansen, Julia S.

doi:10.1186/s12014-022-09380-y

Clinical Proteomics

Table 2 List of proteins included in the study

From: Determination of temporal reproducibility and variability of cancer biomarkers in serum and EDTA plasma samples using a proximity extension assay

	Protein name	UniProt ID	Olink I-O v. 3101	Olink I-O v. 3111 and 3112	Plasma/serum ratio^a	Temporal stability^b
ADA	Adenosine deaminase (ADA)	P00813	+	+	X	X
ADGRG1	Adhesion G-protein coupled receptor G1 (ADGRG1)	Q9Y653	+	+	X	X
ANGPT1	Angiopoietin-1 (ANGPT1)	Q15389	+	+	X	X
ANGPT2	Angiopoietin-2 (ANGPT2)	O15123	+	+	X	X
ARG1^c	Arginase-1 (ARG1)	P05089	+	+	X
CAIX	Carbonic anhydrase 9 (CAIX)	Q16790	+	+	X	X
CASP-8	Caspase-8 (CASP-8)	Q14790	+	+	X	X
CCL17	C–C motif chemokine 17 (CCL17)	Q92583	+	+	X	X
CCL19	C–C motif chemokine 19 (CCL19)	Q99731	+	+	X	X
CCL20	C–C motif chemokine 20 (CCL20)	P78556	+	+	X	X
CCL23	C–C motif chemokine 23 (CCL23)	P55773	+	+	X	X
CCL3	C–C motif chemokine 3 (CCL3)	P10147	+	+	X	X
CCL4	C–C motif chemokine 4 (CCL4)	P13236	+	+	X	X
CD244	Natural killer cell receptor 2B4 (CD244)	Q9BZW8	+	+	X	X
CD27	CD27 antigen (CD27)	P26842	+	+	X	X
CD28	T-cell-specific surface glycoprotein CD28 (CD28)	P10747	+	+	X	X
CD4	T-cell surface glycoprotein CD4 (CD4)	P01730	+	+	X	X
CD40	CD40L receptor (CD40)	P25942	+	+	X	X
CD40-L	CD40 ligand (CD40-L)	P29965	+	+	X	X
CD5	T-cell surface glycoprotein CD5 (CD5)	P06127	+	+	X	X
CD70	CD70 antigen (CD70)	P32970	+	+	X	X
CD83	CD83 antigen (CD83)	Q01151	+	+	X	X
CD8A	T-cell surface glycoprotein CD8 alpha chain (CD8A)	P01732	+	+	X	X
CRTAM	Cytotoxic and regulatory T-cell molecule (CRTAM)	O95727	+	+	X	X
CSF-1	Macrophage colony-stimulating factor 1 (CSF-1)	P09603	+	+	X	X
CX3CL1	Fractalkine (CX3CL1)	P78423	+	+	X	X
CXCL1	C-X-C motif chemokine 1 (CXCL1)	P09341	+	+	X	X
CXCL10	C-X-C motif chemokine 10 (CXCL10)	P02778	+	+	X	X
CXCL11	C-X-C motif chemokine 11 (CXCL11)	O14625	+	+	X	X
CXCL12	Stromal cell-derived factor 1 (CXCL12)	P48061	+	+	X	X
CXCL13	C-X-C motif chemokine 13 (CXCL13)	O43927	+	+	X	X
CXCL5	C-X-C motif chemokine 5 (CXCL5)	P42830	+	+	X	X
CXCL9	C-X-C motif chemokine 9 (CXCL9)	Q07325	+	+	X	X
DCN	Decorin (DCN)	P07585	+	+	X	X
EGF	Pro-epidermal growth factor (EGF)	P01133	+	+	X	X
FASLG	Tumor necrosis factor ligand superfamily member 6 (FASLG)	P48023	+	+	X	X
FGF2^c	Fibroblast growth factor 2 (FGF2)	P09038	+	+		X
Gal-1	Galectin-1 (Gal-1)	P09382	+	+	X	X
Gal-9	Galectin-9 (Gal-9)	O00182	+	+	X	X
GZMA	Granzyme A (GZMA)	P12544	+	+	X	X
GZMB	Granzyme B (GZMB)	P10144	+	+	X	X
GZMH	Granzyme H (GZMH)	P20718	+	+	X	X
HGF	Hepatocyte growth factor (HGF)	P14210	+	+	X	X
HO-1	Heme oxygenase 1 (HO-1)	P09601	+	+	X	X
ICOSLG	ICOS ligand (ICOSLG)	O75144	+	+	X	X
IL-1 alpha^{c, d}	Interleukin-1 alpha (IL-1 alpha)	P01583	+	+
IL-10	Interleukin-10 (IL10)	P22301	+	+	X	X
IL-12	Interleukin-12 (IL12)	P29459, P29460	+	+	X	X
IL-12RB1	Interleukin-12 receptor subunit beta-1 (IL12RB1)	P42701	+	+	X	X
IL-13^C,D	Interleukin-13 (IL13)	P35225	+	+
IL-18	Interleukin-18 (IL18)	Q14116	+	+	X	X
IL-2^{c, e}	Interleukin-2 (IL2)	P60568	+	+		(X)
IL-33^{c, d}	Interleukin-33 (IL33)	O95760	+	+
IL-4	Interleukin-4 (IL4)	P05112	+	+	X	X
IL-5^d	Interleukin-5 (IL5)	P05113	+	+		X
IL-6	Interleukin-6 (IL6)	P05231	+	+	X	X
IL-7	Interleukin-7 (IL7)	P13232	+	+	X	X
IL-8	Interleukin-8 (IL8)	P10145	+	+	X	X
KLRD1	Natural killer cells antigen CD94 (KLRD1)	Q13241	+	+	X	X
LAMP3	Lysosome-associated membrane glycoprotein 3 (LAMP3)	Q9UQV4	+	+	X	X
LAP TGF-beta-1	Latency-associated peptide transforming growth factor beta-1 (LAP TGF-beta-1)	P01137	+	+	X	X
MCP-1	C–C motif chemokine 2 (MCP-1)	P13500	+	+	X	X
MCP-2	C–C motif chemokine 8 (MCP-2)	P80075	+	+	X	X
MCP-3	C–C motif chemokine 7 (MCP-3)	P80098	+	+	X	X
MCP-4	C–C motif chemokine 13 (MCP-4)	Q99616	+	+	X	X
MIC-A/B	MHC class I polypeptide-related sequence A/B (MIC-A/B)	Q29983, Q29980	+	+	X	X
MMP-12	Macrophage metalloproteinase-12 (MMP12)	P39900	+	+	X	X
MMP-7	Matrix metalloproteinase-7 (MMP7)	P09237	+	+	X	X
NCR1	Natural cytotoxicity triggering receptor (NCR1)	O76036	+	+	X	X
NOS3	Nitric oxide synthase, endothelial (NOS3)	P29474	+	+	X	X
PDCD1	Programmed cell death protein 1 (PDCD1)	Q15116	+	+	X	X
PDGF subunit B	Platelet-derived growth factor subunit B (PDGF subunit B)	P01127	+	+	X	X
PD-L1	Programmed cell death 1 ligand 1 (PD-L1)	Q9NZQ7	+	+	X	X
PD-L2	Programmed cell death 1 ligand 2 (PD-L2)	Q9BQ51	+	+	X	X
PGF	Placenta growth factor (PGF)	P49763	+	+	X	X
PTN	Pleiotrophin (PTN)	P21246	+	+	X	X
TIE2	Angiopoietin-1 receptor (TIE2)	Q02763	+	+	X	X
TNFRSF12A	Tumor necrosis factor receptor superfamily member 12A (TNFRSF12A)	Q9NP84	+	+	X	X
TNFRSF21	Tumor necrosis factor receptor superfamily member 21 (TNFRSF21)	O75509	+	+	X	X
TNFRSF4	Tumor necrosis factor receptor superfamily member 4 (TNFRSF4)	P43489	+	+	X	X
TNFRSF9	Tumor necrosis factor receptor superfamily member 9 (TNFRSF9)	Q07011	+	+	X	X
TNFSF14	Tumor necrosis factor ligand superfamily member 14 (TNFSF14)	O43557	+	+	X	X
TRAIL	TNF-related apoptosis-inducing ligand (TRAIL)	P50591	+	+	X	X
TWEAK	Tumor necrosis factor ligand superfamily member 12 (TWEAK)	O43508	+	+	X	X
VEGFA	Vascular endothelial growth factor A (VEGFA)	P15692	+	+	X	X
VEGFR-2	Vascular endothelial growth factor receptor 2 (VEGFR-2)	P35968	+	+	X	X
IL-15^f,g	Interleukin-15 (IL15)	P40933		+	X	(X)
KIR3DL1^f,g	Killer cell immunoglobulin-like receptor 3DL1 (KIR3DL1)	P43629		+	X	(X)
LAG3^f,g	Lymphocyte activation gene 3 protein (LAG3)	P18627		+	(X)	(X)
MUC-16^f,g	Mucin-16 (MUC-16)	Q8WXI7		+	(X)	(X)
IFN- gamma^f,h	Interferon gamma (IFN-gamma)	P01579	+	+	(X)	(X)
TNF^f,h	Tumor necrosis factor (TNF)	P01375	+	+	(X)	(X)
IFN-betaⁱ	Interferon beta	P01574	+
IL-21ⁱ	Interleukin-21	Q9HBE4	+
IL-35ⁱ	Interleukin-35	Q14213, P29459	+
VEGFCⁱ	Vascular endothelial growth factor C	P49767	+

+ Protein included in the version of the Olink immune-oncology panel; X Protein included in all analyses; (X) Protein included in subset of analyses
^aSerum-to-plasma variability investigated
^bTemporal reproducibility and effect of storage investigated
^cThe protein failed quality control in at least one of five original studies using the newer version of the panel, and therefore not possible to assess interstudy variation
^dMore than 75% of the measurements below the LOD in serum or in both serum and EDTA plasma in serum-plasma sub-study and not included in analyses
^eThe protein failed quality control in the study using the older version of the panel, and it was only possible to assess interstudy variation for the protein between older and newer versions of the panel
^fThe ratio was not reported in the data provided by Olink, and the protein is therefore only evaluated on three criteria for plasma-to-serum ratio stability
^gThe protein was only included in the newer version and not possible to compare bridging sample stability between versions
^hThe protein assay changed significantly between older and newer versions, and therefore not possible to compare data between studies using different versions
ⁱThe protein were only included in the oldest version of the panel, which was only used in one study, and temporal reproducibility was not possible to assess

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ISSN: 1559-0275

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