COMPOSITION FOR CANCER DIAGNOSIS
20220326243 · 2022-10-13
Assignee
Inventors
- Hyung Keun LEE (Seoul, KR)
- Dong Ki LEE (Seongnam-si, Gyeonggi-do, KR)
- Sung - III Jang (Seoul, KR)
- So Young KIM (Suwon-si, Gyeonggi-do, KR)
- A Reum Yeo (Seoul, KR)
Cpc classification
C07K16/2866
CHEMISTRY; METALLURGY
G01N33/566
PHYSICS
C07K2317/73
CHEMISTRY; METALLURGY
C07K2317/76
CHEMISTRY; METALLURGY
G01N2333/70578
PHYSICS
A61P35/00
HUMAN NECESSITIES
International classification
A61P35/00
HUMAN NECESSITIES
G01N33/566
PHYSICS
Abstract
The present disclosure relates to a composition capable of diagnosing cancer, specifically pancreatic cancer or the like, a diagnostic kit comprising the same, and a method of providing information for diagnosis using the composition. Also, the present disclosure relates to a pharmaceutical composition capable of preventing or treating pancreatic cancer.
Claims
1.-6. (canceled)
7. A method for providing information for diagnosing pancreatic cancer, the method comprising a step of measuring an expression level of either at least one protein selected from the group consisting of CD27, fms-like tyrosine kinase 3 ligand (FLT3LG), and interleukin-7 receptor (IL-7R), or a gene encoding the protein, in a biological sample isolated from a subject.
8. The method of claim 7, wherein the step of measuring the expression level further comprises a step of measuring an expression level of either any one or more proteins selected from among interleukin-32 (IL-32) and interleukin-10RA (IL-10RA), or a gene encoding the protein.
9. The method of claim 7, wherein the biological sample contains blood, serum, plasma, or a plasma-derived monocular cell.
10. The method of claim 7, further comprising a step of determining that pancreatic cancer has occurred or predicting that the likelihood of developing pancreatic cancer is high, when the measured expression level of either at least one protein selected from the group consisting of CD27, fms-like tyrosine kinase 3 ligand (FLT3LG), and interleukin-7 receptor (IL-7R), or the gene encoding the protein, is higher than that in a normal control group.
11. The method of claim 7, further comprising a step of predicting the likelihood of developing pancreatic cancer by substituting the measured expression levels of CD27, fms-like tyrosine kinase 3 ligand (FLT3LG), and interleukin-7 receptor (IL-7R) into the following Equation 1 to obtain an LP value, and substituting the LP value into the following Equation 2:
LP=A−B×(IL-7R)−C×(FLT3LG)−D×(CD27) [Equation 1]
Probability of developing pancreatic cancer=1/(1+exp(−LP)) [Equation 2] in Equation 1 above, A is a value of 3 to 4; B is a value of 0.5 to 1.5; C is a value of 0.1 to 0.7; and D is a value greater than 0 and not greater than 0.4, IL-7R is an expression level value of the IL-7R protein or the gene encoding the same relative to a housekeeping protein or gene, measured in the biological sample from the subject; FLT3LG is an expression level value of the FLT3LG protein or the gene encoding the same relative to the housekeeping protein or gene, measured in the biological sample from the subject; and CD27 is an expression level value of the CD27 protein or the gene encoding the same relative to the housekeeping protein or gene, measured in the biological sample from the subject.
12. An apparatus for diagnosing pancreatic cancer comprising a diagnosis unit configured to determine information for pancreatic cancer diagnosis from data including an expression level of either at least one protein selected from the group consisting of CD27, fms-like tyrosine kinase 3 ligand (FLT3LG), and interleukin-7 receptor (IL-7R), or a gene encoding the protein, measured in a biological sample isolated from a subject.
13. The apparatus of claim 12, further comprising a sample receiving unit configured to receive the biological sample isolated from the subject.
14. The apparatus of claim 12, wherein the biological sample is blood, serum, plasma, or a plasma-derived monocular cell.
15. The apparatus of claim 12, further comprising an input unit configured to input the expression level of either at least one protein selected from the group consisting of CD27, fms-like tyrosine kinase 3 ligand (FLT3LG), and interleukin-7 receptor (IL-7R), or the gene encoding the protein, measured in the biological sample.
16. The apparatus of claim 12, wherein the diagnosis unit determines that the likelihood of developing pancreatic cancer is high or the biological sample is positive for pancreatic cancer, when the expression level of either at least one protein selected from the group consisting of CD27, fms-like tyrosine kinase 3 ligand (FLT3LG), and interleukin-7 receptor (IL-7R), or the gene encoding the protein, measured in the biological sample isolated from the subject, is higher than that in a normal control group.
17. The apparatus of claim 12, wherein the diagnosis unit determines the probability of developing pancreatic cancer by substituting the expression levels of CD27, fms-like tyrosine kinase 3 ligand (FLT3LG), and interleukin-7 receptor (IL-7R), measured in the biological sample isolated from the subject, into the following Equation 1 to obtain an LP value, and substituting the LP value into the following Equation 2:
LP=A−B×(IL-7R)−C×(FLT3LG)−D×(CD27) [Equation 1]
Probability of developing pancreatic cancer=1/(1+exp(−LP)) [Equation 2] in Equation 1 above, A is a value of 3 to 4; B is a value of 0.5 to 1.5; C is a value of 0.1 to 0.7; and D is a value greater than 0 and not greater than 0.4, IL-7R is the expression level value of the IL-7R protein or the gene encoding the same relative to a housekeeping protein or gene, measured in the biological sample from the subject; FLT3LG is the expression level value of the FLT3LG protein or the gene encoding the same relative to the housekeeping protein or gene, measured in the biological sample from the subject; and CD27 is the expression level value of the CD27 protein or the gene encoding the same relative to the housekeeping protein or gene, measured in the biological sample from the subject.
18.-19. (canceled)
20. A method for preventing or treating pancreatic cancer containing, administering to a subject in need thereof an effective amount of an agent for inhibiting expression or activity of interleukin-10 receptor beta (IL-10RB).
21. The method of claim 20, wherein the agent inhibits the expression or activity of IL-10RB in a peripheral blood mononuclear cell (PBMC).
22. A kit for diagnosing pancreatic cancer comprising an agent for measuring an expression level of either at least one protein selected from the group consisting of CD27, fms-like tyrosine kinase 3 ligand (FLT3LG), and interleukin-7 receptor (IL7R), or a gene encoding the protein.
23. The kit of claim 22, further containing an agent for measuring an expression level of either at least one protein selected from among interleukin-32 (IL-32) and interleukin-10RA (IL-10RA), or a gene encoding the protein.
Description
BRIEF DESCRIPTION OF DRAWINGS
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MODE FOR INVENTION
[0166] Hereinafter, the present disclosure will be described in more detail with reference to examples. It will be obvious to those skilled in the art that these examples serve merely to illustrate the present disclosure, and the scope of the present disclosure is not limited by these examples.
EXAMPLES
Experimental Example 11 Identification of Pancreatic Cancer-Specific Biomarkers (1)
[0167] 1. scRNA-seq Experiment
[0168] IL-10RB.sup.+ cells were enriched from peripheral blood mononuclear cells (PBMCs) of Pancreatic Ductal Adeno Carcinoma (PDAC) patients using a FACS Aria III flow cytometer (BD Biosciences). In order to count the number of cells and determine the cell death rate, the isolated cells were stained with trypan blue and diluted to a concentration of 1×10.sup.5 to 2×10.sup.6 cells/ml. The cell death rate was estimated to be about 90%. A scRNA-seq library was formed using the Chromium system (10× Genomics) together with the Chromium Single Cell 3′ Library & Gel Bead Kit v2. The cell suspension was loaded on a Chromium Single Cell A Chip to capture 5,000 to 6,000 cells per channel. Cell lysis and reverse transcription were performed in gel bead-in-emulsions (GEMs) using a C1000 Touch Thermal Cycler (Bio-Rad). Next, cDNA amplification and library preparation were performed, and sequencing libraries were pooled for multiplexing, and then sequenced on a NovaSeq 6000 platform (Illumina).
[0169] 2. scRNA-seq Data Analysis
[0170] The raw FASTQ file was processed by Cell Ranger software suite (v2.2.0) with default mapping options. Reads were mapped to the human reference genome (GRCh38) using STAR (v2.5.1b), and then quantified with the Ensembl GTF file (release 91). Cell barcodes associated with empty droplets were removed from the gene-by-cell count matrix using the emptyDrops function of the DropletUtils (v1.2.2) R package with FDR<0.01. To filter out low-quality cells, cells with 10% or more of unique molecular identifiers (UMIs) assigned to mitochondrial genes, or with not more than 1,000 total UMIs or with 10 or less expressed genes were excluded. The thresholds were determined by visually inspecting outliers in 2D principal component analysis on all the quality control metrics calculated using the calculateQCMetrics function of the scater (v1.10.1) R package. Using the NormalizeData function of the Seurat (v3.0-alpha) package R, each calculated value was divided by the total calculated value of each cell, multiplied by a 10,000 scale value, and then log-transformed with a pseudo-count of 1. From each data, the most variable top 2,000 genes were selected as a subset of feature genes using the FindVariableFeatures function of the Seurat package with default options. From 3D canonical correlation vectors, a batch effect was removed using the FindIntegrationAnchors and IntegrateData functions of the Seurat package. The integrated expression matrix was scaled using the ScaleData function of the Seurat package, and then cells were visualized in the two-dimensional UMAP plot using the RunUMAP function of the Seurat package on 30 principal components. For cell type annotation, the CreateSinglerSeuratObject function of the SingleR package (v.0.2.2) R was used in the raw UMI coefficient matrix, and the following parameters were set: npca=15, min.cells=0, min.genes=0, and regress.out=NULL. Genes or cell type marker genes that are differentially expressed between P5 and P5(−) were identified using the Wilcoxon rank sum test provided in the Seurat package with an option of adjusted P-value<0.01.
[0171] 3. Analysis Results
[0172] Through the above analysis, biomarkers that are significantly expressed, especially in IL-10RB.sup.+ cells among peripheral blood mononuclear cells (PBMCs) of pancreatic duct adenocarcinoma patients, compared to a normal control group, were analyzed. The results of the analysis are shown in Tables 4 and 5 below. In Table 5 below, grades of each biomarker were selected as grades A, B, C and D based on the change in the expression level thereof in the patient group compared to that in the normal control group.
TABLE-US-00004 TABLE 4 Naïve_IL- Naïve_IL- Gene name Protein name P value 10RB.sup.− 10RB.sup.+ FLT3LG Fms-Like Tyrosine 2.17768E−11 0.020851188 0.063721708 Kinase 3 Ligand CD27 TNFRSF7 1.86034E−06 0.080887909 0.030795115 IL-7R Interleukin 7 receptor 2.95039E−06 0.048373331 0.010340613 IL-32 Interleukin 32 0.000397908 0.333214524 0.218254857
TABLE-US-00005 TABLE 5 GRADE Gene name p_val Naïve_IL10RB.sup.− PDAC_IL10RB.sup.+ A CSF1R Colony 9.11781E−98 0.284661785 0.847480139 stimulating factor 1 receptor; CSF1R A CXCL16 Chemokine 2.97717E−44 0.173089069 0.433164636 (C-X-C motif) ligand 16 A TNFRSF1B TNF 2.91423E−42 0.734350901 1.159456231 receptor superfamily member 1B C CX3CR1 CX3C 1.21369E−41 0.335183671 0.656260057 chemokine receptor 1; CXCR1 A CSF3R Colony 1.28693E−36 0.935711945 0.527110739 stimulating factor 3 receptor C TNFRSF14 TNF 4.47865E−32 0.265530815 0.492608351 receptor superfamily member 14 C TNFSF13B TNF 6.19882E−15 1.248885548 0.985380628 receptor superfamily member 13B C TNF Tumor 1.06559E−13 0.01244331 0.066787124 necrosis factor- alpha A PPBP C-X-C 1.62062E−12 0.152079303 0.050534941 Motif Chemokine 7 B TNFSF10 TNF 1.02773E11 0.485486986 0.624303941 superfamily member 10, TRAIL, CD253, Apo-2L A IL10RB Interleukin 1.86349E−11 0.321019084 0.422021664 10 Receptor Subunit Beta A FLT3LG Fms 2.17768E−11 0.020851188 0.063721708 Related Tyrosine Kinase 3 Ligand A TNFRSF8 TNF 3.5984E−11 0.039764965 0.09114452 receptor superfamily member 8, CD30L Receptor, CD30, Ki-1 Antigen B IL10RA Interleukin 8.96479E11 0.369983726 0.480810254 10 receptor alpha subunit B CKLF Chemokine 2.10306E−10 1.026503487 0.81316181 Like Factor B IL12RB1 Interleukin 4.81611E−10 0.050354795 0.096078879 12 Receptor Subunit Beta 1 A/B CXCL10 CXC Motif 4.04881E−08 0.010635188 0.063392035 Chemokine 10 B LTBR Lymphotoxin 4.56476E−08 0.150942742 0.205881407 beta receptor, TNFRSF3 A PF4 CXC Motif 4.98422E−08 0.090398507 0.027273622 Chemokine 4, Platelet factor 4 B CD40 CD40, 5.50425E−08 0.036005134 0.071015021 TNFRSF5 C IFNGR1 Interferon 5.59763E−08 0.378720037 0.459406945 Gamma Receptor 1, CD119 C IFNAR1 Interferon 5.61082E−08 0.18873117 0.235529872 Alpah And Beta Receptor Subunit 1 C IL2RG Interleukin 2 1.71252E−07 0.178278334 0.222556365 Receptor Subunit Gamma, CD132 B IL1B Interleukin 1 2.08465E−07 0.073138315 0.141224125 beta C IL15 Interleukin 2.11172E−07 0.157803933 0.197796608 15 A CD27 TNFRSF7, 1.86034E−06 0.080887909 0.030795115 CD27, S152, Tp55 C EBI3 Epstein-Barr 2.13937E−06 0.001002257 0.020729713 virus induced gene 3, Interleukin 27 beta(IL27B) Interleukin 35 beta(IL35B) B RETN Resistin, 2.32009E−06 0.470588102 0.282306287 FIZZ3, C/EBP- Epsilon Regulated Myeloid Specific Secreted Cysteine- Rich Protein A IL7R Interleukin 7 2.95039E−06 0.048373331 0.010340613 receptor C CCR2 C-C 4.36492E−06 0.180484969 0.108218752 chemokine receptor type 2 C IL16 Interleukin 16 5.68272E−06 0.234139867 0.27388647 A/B IL21R Interleukin 21 1.32497E−05 0.016111907 0.033939804 receptor, CD360 B IL2RB Interleukin 2 2.34253E−05 0.01800926 0.04014119 receptor subunit beta A/B CCR5 C-C 3.62575E−05 0.002752371 0.019863069 chemokine receptor type 5 C IFNAR2 Interferon 5.97599E05 0.19018063 0.21960771 Alpha And Beta Receptor Subunit 2 B XCL2 X-C Motif 0.000103971 0.003095645 0.017843578 Chemokine Ligand 2 A IL32 Interleukin 32 0.000397908 0.333214524 0.218254857 C TGFB1 Transforming 0.000618962 0.674258755 0.734503831 growth factor beta 1 C IFNGR2 Interferon 0.000754282 0.777587331 0.852751697 gamma receptor 2 C IL13RA1 Interleukin 13 0.000779455 0.333202692 0.238606307 receptor, alpha 1 B CCL3 C-C 0.000788135 0.041033131 0.07103564 chemokine ligand 3 C CD4 CD4 0.00124332 0.611316639 0.653220277 D TNFSF4 Tumor 0.00143276 0.004519993 0 necrosis factor ligand superfamily member 4 C EPOR Erythropoietin 0.001455721 0.022639916 0.035051376 receptor B TNFRSF17 Tumor 0.001630524 0.018851853 0.006218546 necrosis factor ligand superfamily member 17 C IL3RA Interleukin 3 0.001731577 0.013799956 0.021284064 receptor subunit alpha C MIF macrophage 0.002413924 0.711256529 0.775989712 migration inhibitory factor B CXCR4 C-X-C Motif 0.002733879 0.124949625 0.072742326 Chemokine receptor 4 B TNFRSF18 Tumor 0.002919496 0.001271501 0.008807401 necrosis factor ligand superfamily member 18 C CMTM6 CKLF-like 0.003749227 0.757237117 0.820752754 MARVEL transmembrane domain containing protein 6 C CMTM7 CKLF-like 0.004946632 0.41201648 0.428916439 MARVEL transmembrane domain containing protein 7 C TNFSF12 Tumor 0.006929679 0.078884062 0.085758974 necrosis factor ligand superfamily member 12 A IL23A Interleukin 23 0.009847488 0.012866874 0.003297754 subunit alpha B TGFB3 Transforming 0.011105785 0.005651646 0.000726786 growth factor beta 3 B XCL1 Chemokine (C 0.012830511 0.002229976 0.009420969 motif) ligand A/B IL27 Interleukin 27 0.015012659 0.005311122 0.014088945 C CXCL3 Chemokine 0.018661077 0 0.003895959 (C-X-C motif) ligand 3 C CCL5 Chemokine 0.021636768 0.41077681 0.299725513 (C-C motif) ligand 5 C CCL4L2 C-C motif 0.025857205 0.007086915 0.015547415 chemokine ligand 4 like 2 B IL7 Interleukin 7 0.037149717 0 0.003785735 D HGF Hepatocyte 0.037163026 0.053581253 0.056236028 growth factor B KIT receptor 0.037831538 0.001401898 0.000200558 tyrosine kinases B CD40LG CD40 ligand, 0.03944883 0.008931828 0.002671554 CD154 B IL6ST Interleukin 6 0.042302409 0.143259092 0.091220512 signal transducer C IL6R Interleukin 6 0.047743896 0.280818466 0.207943125 receptor C CD70 CD70 0.052484351 0.006993966 0.002399669 C MST1 macrophage- 0.05257586 0.006048124 0.002244745 stimulation protein C CXCL2 Chemokine 0.063126585 0.002185765 0.004477288 (C-X-C motif) ligand 2 C TNFSF14 Tumor 0.064138217 0.023150125 0.0137085 necrosis factor ligand superfamily member 14 C FLT3 fms related 0.065231536 0.065851009 0.044541523 tyrosine kinase 3 B IL1R2 Interleukin 1 0.078861992 0.004953866 0.009368026 receptor, type 2 C TGFBR2 Transforming 0.106097301 0.242254247 0.222822872 growth factor beta receptor 2 C IL6 Interleukin 6 0.111194213 0.001125425 0 C LIF Leukemia 0.111194213 0.001615341 0 inhibitory factor C CXCR6 C-X-C 0.111194213 0.001750627 0 chemokine receptor type 6 C CXCL1 Chemokine 0.114758202 0.004269771 0.000962623 (C-X-C motif) ligand 1 C CCR7 C-C 0.118661012 0.014225034 0.006409854 chemokine receptor type 7 C CXCL11 Chemokine 0.124041939 0 0.002087544 (C-X-C motif) ligand 11 B GDF15 growth 0.124041939 0 0.001910754 differentiation factor 15 C IL1RN Interleukin 1 0.124343873 0.158976533 0.123695833 receptor antagonist D IL11RA Interleukin 11 0.141905724 0.00902092 0.013163973 receptor subunit alpha C TNFSF8 Tumor 0.167848948 0.035313524 0.019555954 necrosis factor ligand superfamily member 8 D IL15RA Interleukin 15 0.176000369 0.033004522 0.032324754 receptor subunit alpha D CCL2 Chemokine 0.183466045 0.030971785 0.020641778 (C-C motif) ligand 2 D TNFRSF10A Tumor 0.18549341 0.007553731 0.010408639 necrosis factor receptor superfamily member 10a D CXCL8 Chemokine 0.188208925 0.020257299 0.00750867 (C-X-C motif) ligand 8 D CCL8 Chemokine 0.199491894 0.001605797 0.004965616 (C-C motif) ligand 8 D FAS Fas 0.200554416 0.063607406 0.056656713 D CCR4 C-C 0.209355886 0 0.001716102 chemokine receptor type 4 D CCL23 Chemokine 0.209355886 0 0.001374009 (C-C motif) ligand 23 D ACKR3 Atypical 0.209355886 0 0.001116842 chemokine receptor 3 D TNFSF18 Tumor 0.209355886 0 0.001354822 necrosis factor ligand superfamily member 18 D LTA Lymphotoxin 0.22234073 0.005919625 0.0068245 alpha D CCR10 C-C 0.222908177 0.0067853 0.002565713 chemokine receptor type 10 D CLCF1 Cardiotrophin- 0.246949272 0.003861854 0.006449803 like cytokine factor 1 D CCL4 Chemokine 0.248374123 0.059487415 0.059633488 (C-C motif) ligand 4 C IL9R Interleukin 9 0.277075253 0 0.001232111 receptor C IFNR1 Interferon 0.277075253 0 0.000845322 lambda receptor 1 D TGFBR1 Transforming 0.277167193 0.070147587 0.062445837 growth factor beta receptor 1 D TNFRSF10B Tumor 0.280128382 0.090496295 0.079492009 necrosis factor receptor superfamily member 10b D CSF2RB Cytokine 0.302597637 0.176831966 0.150784921 receptor common subunit beta D TGFA Transforming 0.309036774 0.009591519 0.003346253 growth factor alpha D CXCL9 Chemokine 0.322678934 0.003248331 0.003209156 (C-X-C motif) ligand 9 D TNFRSF1A Tumor 0.328765843 0.467359709 0.433744752 necrosis factor receptor superfamily member 1a D OSM Oncostatin M 0.330158441 0.002674441 0.005184151 D IL4R Interleukin 4 0.367274984 0.112099347 0.099094283 receptor D PF4V1 Platelet factor 0.374976688 0 0.001324035 4 variant 1 D PDGFB Platelet 0.374976688 0 0.000669628 Derived Growth Factor Subunit B D CCL20 Chemokine 0.374976688 0 0.000584681 (C-C motif) ligand 20 D IL12RB2 Interleukin 12 0.374976688 0 0.000863126 receptor subunit beta 2 D CCL25 Chemokine 0.374976688 0 0.00580123 (C-C motif) ligand 25 D TGFBR3 Transforming 0.375008869 0.009011034 0.007969154 growth factor beta receptor 3 D IL17RA Interleukin 17 0.390851067 0.431886939 0.359823626 eceptor subunit alpha D IL2RA Interleukin 2 0.412248665 0.000786814 0.0014688 eceptor subunit alpha D TNFRSF10C Tumor necrosis 0.413513995 0.01718871 0.015252352 factor receptor superfamily member 10c C CXCR3 C-X-C 0.438677072 0.010851236 0.006682484 chemokine receptor type 3 D IL20RB Interleukin 20 0.494545798 0.001055674 0.000388273 receptor subunit beta D CXCL5 Chemokine 0.494545798 0.000778096 0.00024407 (C-X-C motif) ligand 5 D IL5RA Interleukin 5 0.495101812 0.000792311 0.000431045 receptor subunit alpha D CXCR5 C-X-C 0.528429179 0.000776399 0.001535715 chemokine receptor type 5 D TNFRSF11A Tumor necrosis 0.5290942 0.00105724 0.001545943 factor receptor superfamily member 11a C IL24 Interleukin 24 0.530699127 0 0.0046147 C SPP1 secreted 0.530699127 0 0.00035776 phosphoprotein 1 D CCL22 Chemokine 0.530699127 0 0.000180201 (C-C motif) ligand 22 D CCR9 C-C 0.530699127 0 0.000145309 chemokine receptor type 9 D CCL26 Chemokine 0.530699127 0 0.000246975 (C-C motif) ligand 26 D CX3CL1 Chemokine 0.530699127 0 0.000220785 (C-X3-C motif) ligand 1 D CXCL12 Chemokine 0.530699127 0 0.000200006 (C-X-C motif) ligand 12 D CMTM1 CKLF-like 0.530699127 0 0.000192118 MARVEL transmembrane domain containing protein 1 D TNFRSF10D Tumor 0.552826577 0.022394655 0.020118013 necrosis factor receptor superfamily member 10d D CCR3 C-C 0.558547717 0.002502671 0.000954515 chemokine receptor type 3 D CXCR1 C-X-C 0.559296492 0.001929918 0.001071554 chemokine receptor type 1 D CCL3L3 C-C motif 0.666217059 0.027143121 0.022980482 chemokine ligand 3 like 3 D CXCR2 C-X-C 0.675463143 0.014259534 0.009718063 chemokine receptor type 2 D IFNL1 Interferon 0.681029628 0.000508742 0.001420663 lambda 1 D IL18R1 Interleukin 18 0.68659204 0.000971852 0.001873861 receptor, type 1 D TNFSF15 Tumor 0.732158316 0.004169789 0.001803587 necrosis factor ligand superfamily member 15 D CCR1 C-C 0.739465525 0.277919651 0.230061173 chemokine receptor type 1 D TNFRSF13B Tumor 0.76902508 0.009186383 0.00658467 necrosis factor receptor superfamily member 13b D TNFSF13 Tumor 0.791645274 0.007991232 0.006706977 necrosis factor ligand superfamily member 13 D IL18 Interleukin 18 0.838507015 0.102661703 0.088072155 D FASLG Fas ligand 0.839694825 0.001778492 0.001604761 D IFNG Interferon 0.88448231 0.000801789 0.001318267 gamma D PDGFRB Platelet- 0.885956263 0.000817556 0.000819006 derived growth factor receptor beta D TNFRSF25 Tumor 0.920078162 0.016502453 0.010251106 necrosis factor receptor superfamily member 25 D XCR1 X-C Motif 0.940271217 0.001834387 0.003460317 Chemokine Receptor 1 D IL1R1 Interleukin 1 0.941466614 0.002638705 0.002971385 receptor, type 1 D TNFRSF9 Tumor 0.984982929 0.001938184 0.001716434 necrosis factor receptor superfamily member 9 D IL12A Interleukin 12 0.984982929 0.002164432 0.001804813 receptor subunit alpha D CSF2RA Colony 0.989720078 0.268981715 0.215082988 stimulating factor 2 receptor subunit alpha TNFRSF4 Tumor 0.124343873 0.158976533 0.123695833 necrosis factor receptor superfamily member 4 CSF1 Colony 0.139039754 0.013539027 0.00398904 stimulating factor 1 IL17C Interleukin 0.984982929 0.002164432 0.001804813 17C IL2 Interleukin 2 0.989720078 0.268981715 0.215082988 IL26 Interleukin 26 NA 0 0 IL4 Interleukin 4 NA 0 0 PDGFA Platelet- NA 0 0 derived growth factor subunit A TNFSF11 Tumor NA 0 0 necrosis factor ligand superfamily member 11 TNFSF9 Tumor NA 0 0 necrosis factor ligand superfamily member 9 CCR6 C-C NA 0 0 chemokine receptor type 6 CCL19 Chemokine NA 0 0 (C-C motif) ligand 19 MST1R macrophage NA 0 0 stimulating 1 receptor TNFRSF11B Tumor NA 0 0 necrosis factor receptor superfamily member 11b IL23R Interleukin 23 NA 0 0 receptor PDGFRA Platelet- NA 0 0 derived growth factor receptor A CXCL13 Chemokine NA 0 0 (C-X-C motif) ligand 13 EGF Epidermal NA 0 0 growth factor IL13 Interleukin 13 NA 0 0
[Experimental Example 2] Identification of Pancreatic Cancer-Specific Biomarkers (2)
[0173] 1. Comparison of Expression Levels of Biomarkers in Normal Control Group and Pancreatic Cancer Patients
[0174] Peripheral blood mononuclear cells (PBMC) were isolated from blood samples derived from a normal control group (n=31) and a pancreatic cancer patient group (n=38). RNA was isolated from the cells (Qiagen, USA) and then synthesized into cDNA using PrimeScript RT Master Mix (Perfect Real Time, Takara #RR036A), and PCR was performed using a StepOnePlus (AB Company) PCR system. The primer sequences used in the PCR are shown in Table 6 below. The results of comparing the mRNA expression levels of IL-7R, IL-32, FLT3LG, and IL-10RA in the normal control and the pancreatic cancer patient group samples using qPCR as described above are shown in
[0175] The results of performing statistical analysis using a ROC curve (Receiver Operating Characteristic curve) graph based on the qPCR results for each marker are shown in
TABLE-US-00006 TABLE 6 Biomarker Primer Sequence IL7R (Ref. Forward Primer GTAGTCATCACTCCAGAA NM_002185.5) AGC (SEQ ID NO: 5) Reverse Primer ACCTGGAAGAGGAGAGAA TAG (SEQ ID NO: 6) IL32 (Ref. Forward Primer CAGAGCTCACTCCTCTAC NM_001012631.2) TTGAA (SEQ ID NO: 7) Reverse Primer GAACCATCTCATGACCTT GTCAC (SEQ ID NO: 8) IL10RA (Ref. Forward Primer ACTTCAGCCTCCTAACCT NM_001558.3) CTG (SEQ ID NO: 9) Reverse Primer AGGGAGATGCACTCCTCT TTAG (SEQ ID NO: 10) FLT3LG (Ref. Forward Primer TGGAGCCCAACAACCTAT NM_001204502.1) CT (SEQ ID NO: 11) Reverse Primer TAGTCAGACAGCTCACGG ATTT (SEQ ID NO: 12)
TABLE-US-00007 TABLE 7 IL-7R biomarker Area under the ROC curve Area (AUC) 0.8184 Std. Error 0.05323 95% confidence interval 0.7141 to 0.9228 P value <0.0001
TABLE-US-00008 TABLE 8 IL-7R biomarker Sensitiv- Likelihood Cut-off ity % 95% CI Specificity % 95% CI ratio <2.152 73.68 56.90% to 80 61.43% to 3.68 86.60% 92.29% <2.186 73.68 56.90% to 76.67 57.72% to 3.16 86.60% 90.07% <2.231 76.32 59.76% to 76.67 57.72% to 3.27 88.56% 90.07% <2.260 76.32 59.76% to 73.33 54.11% to 2.86 88.56% 87.72% <2.273 78.95 62.68% to 73.33 54.11% to 2.96 90.45% 87.72% <2.283 81.58 65.67% to 73.33 54.11% to 3.06 92.26% 87.72%
TABLE-US-00009 TABLE 9 IL-32 biomarker Area under the ROC curve Area (AUC) 0.8095 Std. Error 0.05738 95% confidence interval 0.6970 to 0.9220 P value <0.0001
TABLE-US-00010 TABLE 10 IL-32 biomarker Sensitiv- Likelihood Cut-off ity % 95% CI Specificity % 95% CI ratio <1.152 71.43 53.70% to 86.67 69.28% to 5.36 85.36% 96.24% <1.205 71.43 53.70% to 83.33 65.28% to 4.29 85.36% 94.36% <1.270 74.29 56.74% to 83.33 65.28% to 4.46 87.51% 94.36% <1.290 74.29 56.74% to 80.00 61.43% to 3.71 87.51% 92.29% <1.294 77.14 59.86% to 80.00 61.43% to 3.86 89.58% 92.29% <1.415 80.00 63.06% to 80.00 61.43% to 4.00 91.56% 92.29% <1.538 80.00 63.06% to 76.67 57.72% to 3.43 91.56% 90.07% <1.588 80.00 63.06% to 73.33 54.11% to 3.00 91.56% 87.72% <1.643 82.86 66.35% to 73.33 54.11% to 3.11 93.44% 87.72%
TABLE-US-00011 TABLE 11 FLT3LG biomarker Area under the ROC curve Area (AUC) 0.7500 Std. Error 0.06245 95% confidence interval 0.6276 to 0.8724 P value 0.0005628
TABLE-US-00012 TABLE 12 FLT3LG biomarker Sensitiv- Likelihood Cut-off ity % 95% CI Specificity % 95% CI ratio <4.390 73.68 56.90% to 78.57 59.05% to 3.44 86.60% 91.70%
TABLE-US-00013 TABLE 13 IL-10RA biomarker Area under the ROC curve Area (AUC) 0.755 Std. Error 0.05959 95% confidence interval 0.6387 to 0.8724 P value 0.0003
TABLE-US-00014 TABLE 14 IL-10RA biomarker Sensitiv- Likelihood Cut-off ity % 95% CI Specificity % 95% CI ratio <1.787 63.89 46.22% to 80.00 61.43% to 3.19 79.18% 92.29% <1.815 63.89 46.22% to 76.67 57.72% to 2.74 79.18% 90.07% <1.834 66.67 49.03% to 76.67 57.72% to 2.86 81.44% 90.07% <1.854 69.44 51.89% to 76.67 57.72% to 2.98 83.65% 90.07% <1.875 69.44 51.89% to 73.33 54.11% to 2.60 83.65% 87.72% <1.888 69.44 51.89% to 70.00 50.60% to 2.31 83.65% 85.27% <1.933 72.22 54.81% to 70.00 50.60% to 2.41 85.80% 85.27%
[0176] As shown in
[0177] As shown in
[0178] 2. Statistical Analysis
[0179] Based on the results of Experimental Example 2-1, Shapiro-Wilk test, Kolmogorov-Smirnov test, independent two sample t-test, and logistic regression analysis for each marker or combinations of the markers were performed using SAS (version 9.3, SAS Inc., NC, USA) and PASS (version 12, NCSS, LLC, Kaysville, Utah, USA). The results of the analysis are shown in Tables 15 to 17 below.
TABLE-US-00015 TABLE 15 Shapiro-Wilk test and Kolmogorov-Smirnov test Shapiro-Wilk test Kolmogorov-Smirnov test Pancreatic Pancreatic Total Control cancer Total Control cancer (N = 68) (N = 30) (N = 38) (N = 68) (N = 30) (N = 38) IL-7R(ΔCt) 0.4697 0.4726 0.4691 0.1359 >0.1500 0.105 IL-32(ΔCt) 0.8153 0.1117 0.0122 >0.1500 >0.1500 0.0203 FLT3LG(ΔCt) 0.604 0.6507 0.0233 >0.1500 >0.1500 0.1487 IL10RA(ΔCt) 0.6982 0.2683 0.8054 >0.1500 >0.1500 >0.1500
TABLE-US-00016 TABLE 16 Independent two sample t-test (mean ± standard deviation) Pancreatic Total Control cancer Variable (N = 68) (N = 30) (N = 38) p-value Model 1 PC1 1.984 ± 1.314 2.777 ± 1.049 1.358 ± 1.163 <0.0001 Model 2 PC2 1.377 ± 1.152 1.944 ± 0.882 0.892 ± 1.144 0.0001 Model 3 PC3 4.388 ± 0.965 4.824 ± 0.778 4.066 ± 0.0973 0.0012 Model 4 PC4 1.887 ± 0.792 2.268 ± 0.656 1.570 ± 0.762 0.0002 Model 5 PC1 + PC2 0.538 ± 0.276 0.369 ± 0.230 0.684 ± 0.225 <0.0001 Model 6 PC1 + PC3 0.576 ± 0.262 0.413 ± 0.224 0.695 ± 0.222 <0.0001 Model 7 PC1 + PC4 0.545 ± 0.293 0.352 ± 0.240 0.706 ± 0.232 <0.0001 Model 8 PC2 + PC3 0.556 ± 0.234 0.420 ± 0.194 0.664 ± 0.207 <0.0001 Model 9 PC2 + PC4 0.538 ± 0.260 0.384 ± 0.212 0.671 ± 0.223 <0.0001 Model 10 PC3 + PC4 0.562 ± 0.223 0.446 ± 0.189 0.653 ± 0.207 0.0001 Model 11 PC1 + PC2 + PC3 0.556 ± 0.264 0.394 ± 0.225 0.685 ± 0.220 <0.0001 Model 12 PC1 + PC2 + PC4 0.538 ± 0.290 0.354 ± 0.239 0.697 ± 0.231 <0.0001 Model 13 PC1 + PC3 + PC4 0.562 ± 0.285 0.377 ± 0.236 0.707 ± 0.233 <0.0001 Model 14 PC2 + PC3 + PC4 0.556 ± 0.246 0.410 ± 0.200 0.672 ± 0.216 <0.0001 Model 15 PC1 + PC2 + PC3 + PC4 0.556 ± 0.282 0.378 ± 0.235 0.698 ± 0.232 <0.0001 (PC1: IL7R, PC2: IL32, PC3: FLT3LG, PC4: IL10RA)
TABLE-US-00017 TABLE 17 Logistic regression analysis Optimal OR AUC cut-off Sensitivity Specificity Marker (95% CI) p-value (95% CI) point (95% CI) (95% CI) Model PC1 0.327 <0.0001 0.818 <2.283 0.816 0.733 1 (0.186-0.574) (0.713-0.923) (0.693-0.939) (0.575-0.892) Model PC2 0.344 0.0009 0.810 <1.415 0.800 0.800 2 (0.184-0.645) (0.696-0.923) (0.667-0.933) (0.657-0.943) Model PC3 0.375 0.0035 0.750 <4.39 0.737 0.786 3 (0.194-0.724) (0.627-0.873) (0.597-0.877) (0.634-0.938) Model PC4 0.223 0.0014 0.756 <1.8535 0.694 0.767 4 (0.089-0.561) (0.638-0.873 (0.544-0.845) (0.615-0.918) Model PC1 0.383 0.0185 5 (0.172-0.851) PC2 0.798 0.5886 (0.352-1.808) PC1 + 0.822 ≥0.5043565 0.800 0.833 PC2 (p) (0.714-0.930) (0.667-0.933) (0.700-0.967) Model PC1 0.340 0.0059 6 (0.158-0.732) PC3 1.001 0.9981 (0.400-2.507 PC1 + 0.807 ≥0.5868947 0.711 0.821 PC3 (p) (0.697-0.917) (0.566-0.855) (0.680-0.963) Model PC1 0.403 0.0032 7 (0.221-0.738) PC4 0.416 0.0991 (0.147-1.180) PC1 + 0.846 ≥0.5438642 0.833 0.867 PC4 (p) (0.746-0.946) (0.712-0.955) (0.745-0.988) (PC1: IL7R, PC2: IL32, PC3: FLT3LG, PC4: IL10RA)
[0180] From the results in Tables 15 to 17 above, as a result of the normality test, it was confirmed that the IL-7R, IL-32, FLT3LG and IL-10RA biomarkers satisfied normality in pancreatic cancer diagnosis, and that the ability to diagnosis and predict pancreatic cancer was better when a combination of IL-7R and IL-10RA was measured than the markers were measured alone.
[0181] In addition, equations for predicting the likelihood of developing pancreatic cancer depending on the expression level of the combination of IL-7R and IL-10RA were derived.
LP=3.7068−0.9077×(IL-7R)−0.8776×(IL-10RA) [Equation 3]
Probability of developing pancreatic cancer=1/(1+exp(−LP)) [Equation 4]
[0182] In Equation 3 above, IL-7R and IL-10RA are ΔCt values which are IL-7R mRNA and IL-10RA mRNA expression levels, respectively, relative to the housekeeping gene (GADPH). It is possible to predict the likelihood of developing pancreatic cancer by substituting the LP value, obtained from Equation 3, into Equation 4 above.
[0183] In addition, using the results in Tables 15 to 17 above, the specificity and sensitivity of pancreatic cancer diagnosis depending on the combination of the cut-off values of IL-7R and IL-10RA were analyzed, and the results of the analysis are shown in Table 18 below. At this time, when two variables for the mRNA expression levels of IL-7R and IL-10RA, obtained in the patients, were greater than the cut-off value, a score of 0 points was given, and when only one of the two variables was smaller than the cut-off value and the other was greater than the cut-off value, a score of 1 point was given, and when the two variables were all smaller than the cut-off value, a score of 2 points was given. Then, the scores were cut off and the specificity and sensitivity for each cut off score were calculated.
TABLE-US-00018 TABLE 18 Component 1 0 1 2 PC1 ≥ 2.283, PC1 < 2.283, PC1 < 2.283, PC4 ≥ 1.8535 PC4 ≥ 1.8535 PC4 < 1.8535 or PC1 ≥ 2.283, PC4 < 1.8535 OR(95% CI) ref (1) 4.111(1.013-16.691) 27.602(5.827-130.743) p-value 0.048 <.0001 AUC(95% CI) 0.828(0.731-0.924) Cut off ≥1 ≥2 point Sensitivity 0.889(0.786-0.992) 0.639(0.482-0.796) (95% CI) Specificity 0.600(0.425-0.775) 0.900(0.793-1.000) (95% CI)
[0184] As shown in Table 18 above, it could be confirmed that, when the variable of IL-7R was less than 2.283 and the variable of IL-10RA was 1.8535 or more, or when the variable of IL-7R variable was 2.283 or more and the variable of IL-10RA was less than 1.8535, when the variable of IL-7R was less than 2.283 and the variable of IL-10RA was less than 1.8535, both the specificity and sensitivity of pancreatic cancer diagnosis were excellent.
[Experimental Example 3] Identification of Pancreatic Cancer-Specific Biomarkers (3)
[0185] 1. Comparison of Expression Levels of Biomarkers in Normal Control Group and Pancreatic Cancer Patients
[0186] Peripheral blood mononuclear cells (PBMC) were isolated from blood samples derived from a normal control group (n=31) and a pancreatic cancer patient group (n=38). RNA was isolated from the cells (Qiagen, USA) and then synthesized into cDNA using PrimeScript RT Master Mix (Perfect Real Time, Takara #RR036A), and PCR was performed using a StepOnePlus (AB Company) PCR system. The primer sequences used in the PCR are shown in Table 19 below. The results of comparing the mRNA expression levels of IL-7R, FLT3LG and CD27 in the normal control group sample and the pancreatic cancer patient group samples using qPCR as described above are shown in
[0187] The results of performing statistical analysis using a ROC curve (Receiver Operating Characteristic curve) graph based on the qPCR results for each marker are shown in
TABLE-US-00019 TABLE 19 Biomarker Primer Sequence IL7R (Ref. Forward Primer GTAGTCATCACTCCAGAA NM_002185.5) AGC (SEQ ID NO: 5) Reverse Primer ACCTGGAAGAGGAGAGAA TAG (SEQ ID NO: 6) FLT3LG (Ref. Forward Primer TGGAGCCCAACAACCTAT NM_001204502.1) CT (SEQ ID NO: 11) Reverse Primer TAGTCAGACAGCTCACGG ATTT (SEQ ID NO: 12) CD27 (Ref. Forward Primer GAAGGACTGTGACCAGCA NM_001242.4) TAGA (SEQ ID NO: 13) Reverse Primer CGAACGAGAAGACCAGAGT TACA (SEQ ID NO: 14)
TABLE-US-00020 TABLE 20 IL-7R biomarker Area under the ROC curve Area (AUC) 0.8280 Std. Error 0.04963 95% confidence interval 0.7307 to 0.9253 P value <0.0001
TABLE-US-00021 TABLE 21 FLT3LG biomarker Area under the ROC curve Area (AUC) 0.7881 Std. Error 0.05708 95% confidence interval 0.6762 to 0.9001 P value <0.0001
TABLE-US-00022 TABLE 22 CD27 biomarker Area under the ROC curve Area (AUC) 0.7437 Std. Error 0.07107 95% confidence interval 0.6043 to 0.8830 P value 0.004223
[0188] As shown in
[0189] As shown in
[0190] 2. Statistical Analysis
[0191] Based on the results of Experimental Example 3-1, Mann-Whitney U test and logistic regression analysis for each marker or combinations of the markers were performed using SAS (version 9.3, SAS Inc., NC, USA) and PASS (version 12, NCSS, LLC, Kaysville, Utah, USA). The results of the analysis are shown in Tables 23 and 24 below. However, regarding the cut-off value, the point at which the Youden index, i.e., “sensitivity+specificity−1”, was the maximum was determined as an optimal cut-off point, and a P value<0.05 was considered significant.
TABLE-US-00023 TABLE 23 Mann-Whitney U test Control Pancreatic cancer (N = 30) (N = 42) p-value Age 61 (52-70), (42-86) 66.5(59-79), (38-84) 0.0601 Sex 0.3390 Male 17(56.67) 19(45.24) Female 13(43.33) 23(54.76) IL-7R 2.778(2.254-3.537), 1.094(0.533-2.139), <0.0001 (0.527-4.574) (−0.734-4.568) IL-32 2.027(1.541-2.402), 0.761(0.302-1.296), <0.0001 (−0.149-3.244) (−0.976-4.982) FLT3LG 4.86(4.463-5.314), 3.821(3.391-4.22), <0.0001 (3.272-6.3) (2.354-7.491) IL-10RA 2.211(1.87-2.509), 1.708(1.364-2.108), 0.0014 (0.97-4.186) (0.128-3.228) CD27 4.972(4.045-5.881), 3.902(2.807-4.971), 0.0043 (3.327-6.333) (1.749-6.07)
TABLE-US-00024 TABLE 24 Logistic regression analysis Optimal OR AUC cut-off Sensitivity Specificity Biomarker (95% CI) p-value (95% CI) point (95% CI) (95% CI) Mode IL-7R 0.341 <0.0001 0.823 0.7206507<, 0.714 0.867 11 (0.203-0.572) (0.723-0.923) >0.7206507 (0.578-0.851) (0.745-0.988) Mode IL-32 0.372 0.0008 0.798 0.5523593<, 0.821 0.800 12 (0.209-0.662) (0.683-0.913) >0.5523593 (0.700-0.941) (0.657-0.943) Mode FLT3LG 0.334 0.001 0.787 0.5926827<, 0.810 0.786 13 (0.174-0.642) (0.673-0.900) >0.5926827 (0.691-0.928) (0.634-0.938) Mode IL-10RA 0.260 0.0039 0.726 0.5303559<, 0.744 0.667 14 (0.105-0.649) (0.605-0.847) >0.5303559 (0.607-0.881)) (0.498-0.835) Mode CD27 0.428 0.0044 0.744 0.7527883<, 0.417 1.000 15 (0.238-0.768) (0.603-0.884) >0.7527883 (0.219-0.614) (1.000-1.000) Mode IL-7R 0.356 0.1093 16 (0.100-1.261) FLT3LG 0.714 0.5651 (0.227-2.248) CD27 0.949 0.9063 (0.395-2.280) IL-7R + 0.830 0.5400606<, 0.750 0.826 FLT3LG + (0.710-0.949) ≥0.5400606 (0.577-0.923) (0.671-0.981) CD27(p)
[0192] As shown in Tables 23 and 24 above, it can be seen that the IL-7R, IL-32, FLT3LG, IL-10RA and CD27 biomarkers showed high sensitivity and specificity in pancreatic cancer diagnosis, and thus there was a statistical significance of pancreatic cancer diagnosis. Additionally, through this Experimental Example, it was confirmed that the ability to diagnosis and predict pancreatic cancer was better when a combination of IL-7R, FLT3LG and CD27 was measured than the markers were measured alone.
[0193] In addition, using the results in Tables 23 and 24 above, equations for predicting the likelihood of developing pancreatic cancer depending on the expression levels of IL-7R, FLT3LG and CD27 were derived.
LP=3.8688−1.0342×(IL-7R)−0.3365×(FLT3LG)−0.0526×(CD27) [Equation 5]
Probability of developing pancreatic cancer=1/(1+exp(−LP)) [Equation 6]
[0194] In Equation 5 above, IL-7R, FLT3LG and CD27 are ΔCt values which are IL-7R mRNA, FLT3LG mRNA and CD27 mRNA expression levels, respectively, relative to the housekeeping gene (GADPH). It is possible to predict the likelihood of developing pancreatic cancer by substituting the LP value, obtained from Equation 5, into Equation 6 above.
[0195] In addition, using the results in Tables 23 to 24 above, the specificity and sensitivity of pancreatic cancer diagnosis depending on the combination of the cut-off values of IL-7R, FLT3LG and CD27 were analyzed, and the results of the analysis are shown in Table 25 below. At this time, when the expression levels of two biomarkers among the IL-7R, FLT3LG and CD27, obtained in the patients, were greater than the cut-off value, a score of 0 points was given, and when only one of the three biomarkers was smaller than the cut-off value and the other two were greater than the cut-off value, a score of 1 point was given, and when two of the three biomarkers were smaller than the cut-off value, a score of 2 points was given, and the three biomarkers were all smaller than the cut-off value, a score of 3 points was given. Then, the scores were cut off and the specificity and sensitivity for each cut off score were calculated.
TABLE-US-00025 TABLE 25 Component 1 0 1 2 3 7R ≥ 0.7206507, 7R < 0.7206507, 7R < 0.7206507, 7R < 0.7206507, T3 ≥ 0.5926827, T3 ≥ 0.5926827, T3 < 0.5926827, T3 < 0.5926827, 27 ≥ 0.7527883 27 ≥ 0.7527883 27 ≥ 0.7527883 27 < 0.7527883 or or 7R ≥ 0.7206507, 7R < 0.7206507, T3 < 0.5926827, T3 ≥ 0.5926827, 27 ≥ 0.7527883 27 < 0.7527883 or or 7R ≥ 0.7206507, 7R ≥ 0.7206507, T3 ≥ 0.5926827, T3 < 0.5926827, 27 < 0.7527883 27 < 0.7527883 OR(95% CI) ref(1) 5.571(1.043-29.757) 12.256(1.748-85.953) 89.545(3.559-2246.524) P-value 0.0445 0.0117 0.0063 AUC(95% CI) 0.859(0.757-0.961) Cut off ≥1 ≥2 ≥3 point Sensitivity 0.875(0.743-1.000) 0.625(0.431-0.819) 0.375(0.181-0.569) (95% CI) Specificity 0.696(0.508-0.384) 0.913(0.798-1.000) 1.000(1.000-1.000) (95% CI)
[0196] As shown in Table 25 above, it could be confirmed that, when the expression level of IL-7R was less than 0.7206507, the expression level of FLT3LG was 0.5926827 or more, and the expression level of CD27 was 0.7527883 or more, or when the expression level of IL-7R was 0.7206507 or more, the expression level of FLT3LG was less than 0.5926827, and the expression level of CD27 was 0.7527883 or more, or when the expression level of IL-7R was 0.7206507 or more, the expression level of FLT3LG was 0.5926827 or more, and the expression level of CD27 was less than 0.7527883, both the specificity and sensitivity of pancreatic cancer diagnosis were excellent.
[Experimental Example 4] Evaluation of Clinical Efficacy of Pancreatic Cancer-Specific Biomarkers
[0197] In order to evaluate the clinical efficacy of the pancreatic cancer-specific biomarkers, the expression levels of the biomarkers were measured for a group of patients diagnosed with pancreatic cancer. Specifically, for patient A, who was diagnosed with T1 stage pancreatic cancer with a size of 0.6 cm×0.64 cm, and patient B, who was diagnosed with pancreatitis and was diagnosed with pancreatic cancer after 3 months of follow-up and had received surgery for pancreatic cancer, peripheral blood mononuclear cells were isolated. Thereafter, RNA was isolated from the cells (Qiagen, USA) and then synthesized into cDNA using PrimeScript RT Master Mix (Perfect Real Time, Takara #RR036A), and PCR was performed using a StepOnePlus (AB Company) PCR system. Then, the expression levels of the pancreatic cancer-specific biomarkers were measured in the same manner as in the above-described Experimental Example.
[0198] The experimental results for patient A are shown in Tables 26 and 27 below. Values in parentheses in Tables 26 and 27 below indicate ΔCt values for expression levels in a normal control.
TABLE-US-00026 TABLE 26 hIL-7RA hFLT3LG hIL-22RA CA19-9 PBMC_qPCR (ΔCt) (<2.283) (<4.39) (<6.62 (>24.0) Patient A 2017 Dec. 11 1.270 2.767 6.223 9.8
TABLE-US-00027 TABLE 27 IL-22RA IL-10RB PBMC_FACS (% cells) (>5.5) (>5.5) Patient A 2017 Dec. 11 5.65 8.17
[0199] As shown in Table 26 above, the expression of IL-7RA and FLT3LG mRNA increased in peripheral blood mononuclear cells derived from patient A, who was diagnosed with T1 stage pancreatic cancer, compared to the normal control, whereas the expression of the other markers, specifically CA9-9 and IL-22RA mRNA was within the normal range. In addition, as shown in Table 27 above, it could be confirmed that the expression of IL-22RA and IL-10RB proteins was also within the normal range.
[0200] The experimental results for patient B are shown in Tables 28 and 29 below. Values in parentheses in Tables 28 and 29 below indicate ΔCt values for expression levels in a normal control.
TABLE-US-00028 TABLE 28 hIL-7RA hFLT3LG hCD27 PBMC_qPCR (ΔCT) (<2.283) (<4.39) (<3.21) Time of diagnosis of 2017 May 22 0.011 3.393 5.218 pancreatitis Time of diagnosis of 2017 Aug. 21 −0.689 3.939 3.040 pancreatic cancer Month 6 after 2018 Feb. 14 4.423 6.175 6.942 pancreatic cancer surgery
TABLE-US-00029 TABLE 29 hIL-22RA hIL-10RB PBMC_qPCR (ΔCT) (<6.62) (<4.53) Time of diagnosis 2017 Aug. 21 8.113 6.023 of pancreatic cancer Month 6 after 2018 Feb. 14 8.54 3.317 pancreatic cancer surgery
[0201] As shown in Table 28 above, it was confirmed that, at the time of diagnosis of pancreatic cancer, the expression levels of IL-7RA, FLT3LG, and CD27 mRNA all increased in the peripheral blood mononuclear cells derived from patient B compared to the normal control group, and such increases in the expression levels were all restored to the normal ranges after pancreatic cancer surgery. In addition, as shown in Table 29, it could be confirmed that the expression levels of IL-22RA and IL-10RB mRNA at the time of pancreatic cancer diagnosis were within the normal ranges.
[0202] Taken together, these experimental results indicate that the pancreatic cancer-specific biomarkers according to one embodiment may be used as specific biomarkers in pancreatic cancer diagnosis, which have a function distinct from other biomarkers.
Experimental Example 5
[0203] Evaluation of Efficacy OF Pancreatic Cancer-Specific Biomarkers Using Pancreatic Cancer Animal Model
[0204] Evaluation of the efficacy of the pancreatic cancer-specific biomarkers using a pancreatic cancer animal model was performed as shown in
[0205] As shown in
[0206] In addition, as shown in
[0207] Taken together, these experimental results indicate that the pancreatic cancer-specific biomarkers according to one embodiment may be used not only for early diagnosis of pancreatic cancer, but also for evaluating the progression or prognosis of pancreatic cancer.
[Experimental Example 6] Analysis of Correlation Between Expression of IL-10RB in Peripheral Blood Mononuclear Cells (PBMCs) and Proliferation of Pancreatic Cancer Cells
[0208] 1. Materials and Method
[0209] 1-1. Analysis of Proliferation of Pancreatic Cancer Cells by CCK-8 Assay (Cell Proliferation Assay)
[0210] 100 μl (5×10.sup.3 cells/well) of a PanO2 cell (pancreatic cancer cell) culture was inoculated into each well of 96-well plates (n=5), and pre-incubated in a humidified incubator at 37° C. under 5% CO.sub.2.
[0211] The pancreatic cancer cell culture of each well was inoculated with 200 μl of IL-10RB.sup.+ PBMC conditioned medium (CM) or IL-10RB.sup.− PBMC conditioned medium (CM). In addition, some experimental groups were inoculated with 2 μg/ml (R & D) or 1 μg/ml (Novus) anti-IL-10RB neutralizing antibody (neutralizing Ab). Then, each well was incubated for 24 hours, 48 hours, or 72 hours.
[0212] After incubation, each well of the 96-well plate was inoculated with 10 μl of CCK-8 solution, followed by incubation for 3 hours. Then, for the 96-well plate, the absorbance at 450 nm was measured using a microplate reader. The proliferation level of the pancreatic cancer cells was analyzed by calculating the fold increase in the absorbance value of the experimental group inoculated with the IL-10RB.sup.+ PBMC conditioned medium (CM), relative to the absorbance value of the experimental group inoculated with the IL-10RB.sup.− PBMC conditioned medium (CM).
[0213] 1-2. Analysis of Proliferation of Pancreatic Cancer Cells by FACS (Fluorescence-Activated Cell Sorting, Cell Counting) (Cell Proliferation Assay)
[0214] PanO2 cells (3×10.sup.6) were labeled with CellTracker™ Green CMFDA (5-chloromethylfluorescein diacetate), and then each well of 96-well plates (n=3) was inoculated with into the PanO2 cell culture (1×10.sup.5 cells/well).
[0215] The labeled pancreatic cancer culture of each well was inoculated with IL-10RB.sup.+ PBMC conditioned medium (CM) or IL-10RB.sup.− PBMC conditioned medium (CM) at a concentration of 1×10.sup.5 cells/well. In addition, some experimental groups were inoculated with 2 μg/ml (R & D) or 1 μg/ml (Novus) anti-IL-10RB neutralizing antibody (neutralizing Ab). Then, each well was incubated for 48 hours or 72 hours. Thereafter, the labeled pancreatic cancer cells were counted using a hemocytometer.
[0216] 1-3. Statistical Analysis
[0217] All quantitative experiments were performed at least in triplicate (n=3 or n=5), and data values were expressed as mean±SD. The data values shown in
[0218] 2. Confirmation of the Increase in Pancreatic Cancer Cell Proliferation Caused by Increased Expression of IL-10RB in PBMCs (Confirmation of the Function of IL-10RB as Biomarker Related to Pancreatic Cancer Cell Proliferation)
[0219] In this Experimental Example, in order to examine whether the proliferation of pancreatic cancer cells increases as the expression of IL-10RB in PBMCs increases, the proliferation level of pancreatic cancer cells was analyzed by CCK-8 assay and FACS analysis.
[0220] As a result, as shown in
[0221] Likewise, as shown in
[0222] Therefore, through this Experimental Example, it was confirmed that the proliferation of pancreatic cancer cells may be detected by measuring the expression level of IL-10RB in PBMCs, suggesting that IL-10RB may function as a biomarker related to the proliferation of pancreatic cancer cells.
[0223] 3. Confirmation of Inhibition of Pancreatic Cancer Cell Proliferation by Inhibition of IL-10RB in PBMCs (Evaluation of Pancreatic Cancer Cell Proliferation Inhibitory Function of IL-10RB Inhibitor)
[0224] In this Experimental Example, in order to examine whether the proliferation of pancreatic cancer cells is inhibited by the inhibition of IL-10RB in PBMCs, the proliferation level of pancreatic cancer cells was analyzed through CCK-8 assay and FACS analysis.
[0225] As a result, as shown in
[0226] Through this Experimental Example, it was confirmed that the proliferation of pancreatic cancer cells can be inhibited by inhibiting IL-10RB in PBMCs. Specifically, inhibition of IL-10RB in PBMCs may lead to inhibition of the activity of IL-10RB protein or inhibition of the expression of a gene encoding IL-10RB. Therefore, the IL-10RB inhibitor is not limited to the anti-IL-10RB neutralizing antibody (neutralizing Ab) used in this Experimental Example, but may be any agent capable of inhibiting the activity of the IL-10RB protein or inhibiting the expression of the gene encoding IL-10RB, and this IL-10RB inhibitor may be used as an anticancer therapeutic agent that inhibits the proliferation of pancreatic cancer cells.
[Experimental Example 7] Analysis of Correlation of IL-10RB, IL-22, and Pancreatic Cancer Cell Proliferation
[0227] 1. Confirmation of Inhibition of IL-10RB Expression in PBMCs of IL-22 Knockout (KO) Mice
[0228] In this Experimental Example, in order to examine whether IL-10RB expression is inhibited in PBMCs of IL-22 KO mice, PBMCs were extracted from IL-22 KO mice and B6 mice (WT), and IL-10RB expression levels therein were measured. In addition, after the PanO2 cell line (pancreatic cancer cell line) was injected into the pancreas of IL-22 KO mice and B6 mice (WT), PBMCs around pancreatic cancer cells were extracted, and IL-10RB expression levels therein were measured. For reference, IL-22 is a cytokine encoded by the IL-22 gene. Although IL-22 stimulation results in activation of STAT1, STAT3 or STAT5, the physiological function of IL-22 is still unclear.
[0229] As a result, as shown in
[0230] Also, as shown in
[0231] Through this Experimental Example, it was confirmed that IL-10RB in PBMCs may be inhibited by completely removing the IL-22 gene or inhibiting the expression of the IL-22 gene. Therefore, the IL-22 gene inhibitor can inhibit the proliferation of pancreatic cancer cells, and thus can be used as an anticancer therapeutic agent, like an IL-10RB inhibitor.
[0232] 2. Confirmation of Decrease in Pancreatic Cell Size and Restoration of Normal Immune System in IL-22 Knockout (KO) Mice
[0233] In this Experimental Example, in order to confirm the specific pancreatic cancer treatment effect in IL-22 KO mice, the PanO2 cell line (pancreatic cancer cell line) was injected into the pancreas of IL-22 KO mice and B6 mice (WT), and analysis was made as to changes in the pancreatic cancer cells size and the recovery of lymph nodes (LN) around pancreatic cancer cells.
[0234] As a result, as shown in
[0235] In addition, as shown in
[0236] Through this Experimental Example, it was confirmed that, when the IL-22 gene is completely removed or the expression of the IL-22 gene is inhibited, the size of pancreatic cancer cells may be decreased and the recovery of lymph nodes around pancreatic cancer cells may be induced. The following demonstrates whether inhibition of the IL-22 gene directly induces this effect or whether inhibition of the IL-22 gene indirectly induces this effect by inhibiting IL-10RB in PBMCs.
[0237] 3. Analysis of Correlation Between IL-22 and IL-10RB by Examination of Whether Inhibition of IL-22 Directly Affects Pancreatic Cancer Cell Proliferation
[0238] In this Experimental Example, in order to examine whether the inhibition of IL-22 directly affects the proliferation of pancreatic cancer cells, analysis was made as to the proliferation of pancreatic cancer cells when the activity of already expressed IL-22 protein was inhibited, not the case of IL-22 KO mice in which the IL-22 gene has been completely removed or the expression of the IL-22 gene has been inhibited. Specifically, to inhibit the activity of the IL-22 protein, an anti-IL-22 blocking antibody that binds to the IL-22 protein was used.
[0239] As a result, as shown in
[0240] Therefore, through this Experimental Example, it was confirmed that inhibition of IL-22 does not directly affect pancreatic cancer cells, but inhibition of IL-10RB in PBMCs may be induced only by inhibition of the IL-22 gene, resulting in reduction of pancreatic cancer cell proliferation. That is, it was confirmed that the control of IL-10RB can directly affect pancreatic cancer cells, and inhibition of the IL-22 gene can indirectly affect pancreatic cancer cells. It was confirmed that, although an inhibitor of the IL-22 gene induces an indirect effect, it may be used as an IL-10RB inhibitor, and thus the inhibitor of the IL-22 inhibitor may be used as an anticancer therapeutic agent that indirectly inhibits the proliferation of pancreatic cancer cells.
[0241] Although the present disclosure has been described in detail with reference to specific features, it will be apparent to those skilled in the art that this description is only of a preferred embodiment thereof, and does not limit the scope of the present disclosure. Thus, the substantial scope of the present disclosure will be defined by the appended claims and equivalents thereto.
DESCRIPTION OF REFERENCE NUMERALS
[0242] 100: Sample receiving unit [0243] 200: Input unit [0244] 300: Diagnosis unit [0245] 400: Output unit