TW201432051A - Gene markers for colorectal cancer, method for detecting colorectal cancer using the same and kit containing the same - Google Patents

Gene markers for colorectal cancer, method for detecting colorectal cancer using the same and kit containing the same Download PDF

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TW201432051A
TW201432051A TW102104274A TW102104274A TW201432051A TW 201432051 A TW201432051 A TW 201432051A TW 102104274 A TW102104274 A TW 102104274A TW 102104274 A TW102104274 A TW 102104274A TW 201432051 A TW201432051 A TW 201432051A
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colorectal cancer
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TWI493040B (en
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Chi-Ming Chu
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Nat Defense Medical Ct
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Abstract

The current invention provides gene markers for colorectal cancer, these gene markers include CPEB4, EIF2S3, ANXA3, TNFAIP6, IL2RB, MGC20553, and MAS4A1. These gene markers have high accuracy, sensibility, and specificity, and can be utilized as screen tool for colorectal cancer, or to predict response of certain course of the treatment or assess further course of the treatment for patients, before and after therapy.

Description

大腸直腸癌之基因標記、使用其檢測大腸直腸癌之方法及含其之套組 Gene marker for colorectal cancer, method for detecting colorectal cancer thereof, and kit containing the same

本發明關於一種大腸直腸癌相關的基因標記,特別是關於一種週邊血液內的基因標記,而可用於篩檢大腸直腸癌、或評估大腸直腸癌預後狀況。 The present invention relates to a genetic marker associated with colorectal cancer, and more particularly to a genetic marker in peripheral blood, which can be used for screening colorectal cancer or evaluating the prognosis of colorectal cancer.

大腸直腸癌(colorectal cancer,CRC)在全世界常見的癌症,在美國,預估其於2009年新增146,970個大腸直腸癌患者,且有49,920人死於該癌症。CRC的篩檢可降低癌症發生率,且可提供較好的預後及存活率的評估。傳統的CRC篩檢方式包含糞便潛血試驗、乙狀結腸鏡、鋇劑灌腸檢查或大腸鏡等等,雖然以上篩檢方式普遍常用,但皆有其侷限性,如高變性靈敏度(由37%至80%)或和飲食的交互作用導致篩檢結果的誤差,此外,對於上述一些高侵入性的檢驗,也造成篩檢意願降低,而使大腸直腸癌早期診斷率偏低。 Colorectal cancer (CRC) is a common cancer worldwide. In the United States, it is estimated that in 2009, 146,970 patients with colorectal cancer were added, and 49,920 people died of the cancer. Screening for CRC can reduce the incidence of cancer and provide a better assessment of prognosis and survival. Traditional CRC screening methods include fecal occult blood test, sigmoid colonoscopy, barium enema or colonoscopy, etc. Although the above screening methods are commonly used, they all have their limitations, such as high denaturing sensitivity (from 37% to 80%). Or the interaction with the diet leads to errors in the screening results. In addition, for some of the above-mentioned highly invasive tests, the willingness to screen is also reduced, and the early diagnosis rate of colorectal cancer is low.

腫瘤的惡性細胞由原發性腫瘤散佈或移轉是癌症惡化關鍵原因。在許多臨床案例中,甚至在原發癌症被診斷前,癌症細胞就已經轉移,而這些在人體循環系統內的癌症細胞可能是癌症轉移可最早被檢測到的形式。因此,已有報導利用聚合酶鏈鎖反應(polymerase-chain reaction,PCR)為基礎的分析,可檢測CRC患者週邊血液樣品中角質蛋白、腫瘤胚胎抗原(carcinoembryonic antigen,CEA)、表皮生長因子受器(epidermal growth factor receptor,EGFR)基因的mRNA作為分子標記,進行早期的腫瘤分子篩檢。然而,這些習知的基因亦有低靈敏性及低特異性的缺點,因此無法適當地檢測大腸直腸癌(Sergeant G,Penninckx F,Topal B:Quantitative RT-PCR detection of colorectal tumor cells in peripheral blood--a systematic review.J SuRg Res 2008,150:144-152),而最近發現的分子標記ProtM,亦存在敏感度不佳的問題(Schuster R,Max N,Mann B,Heufelder K,Thilo F,Grone J,Rokos F,Buhr HJ,Thiel E,Keilholz U:Quantitative real-time RT-PCR for detection of disseminated tumor cells in peripheral blood of patients with colorectal cancer using different mRNA markers.Int J Cancer 2004,108:219-227)The spread or migration of malignant cells of a tumor from a primary tumor is a key cause of cancer progression. In many clinical cases, cancer cells have metastasized even before the primary cancer is diagnosed, and these cancer cells in the human circulatory system may be the earliest forms of cancer metastasis. Therefore, it has been reported that polymerase chain reaction (PCR)-based analysis can detect keratin, tumor embryonic antigen (CEA), and epidermal growth factor receptor in peripheral blood samples of patients with CRC. The mRNA of the (epidermal growth factor receptor, EGFR) gene is used as a molecular marker for early tumor molecular screening. However, these conventional genes also have the disadvantages of low sensitivity and low specificity, so that it is not possible to properly detect colorectal cancer (Sergeant G, Penninckx F, Topal B: Quantitative RT-PCR detection of colorectal tumor cells in peripheral blood- -a systematic review.J SuRg Res 2008, 150:144-152) , and the recently discovered molecular marker ProtM also has problems with poor sensitivity ( Schuster R, Max N, Mann B, Heufelder K, Thilo F, Grone J, Rokos F, Buhr HJ, Thiel E, Keilholz U: Quantitative real-time RT-PCR for detection of disseminated tumor cells in peripheral blood of patients with colorectal cancer using different mRNA markers. Int J Cancer 2004, 108: 219-227 ) .

因此,目前仍有必要尋找更具有高靈敏性及高特異性的大腸直腸癌基因標記。 Therefore, it is still necessary to find a genetic marker for colorectal cancer that is more sensitive and highly specific.

本發明在於提供一種用於檢測大腸直腸癌及/或評估其預後之基因標記,該基因標記係包含下列基因:CPEB4、EIF2S3、ANXA3、TNFAIP6、IL2RB、MGC20553及MAS4A1。 The present invention provides a genetic marker for detecting colorectal cancer and/or evaluating its prognosis, which comprises the following genes: CPEB4, EIF2S3, ANXA3, TNFAIP6, IL2RB, MGC20553 and MAS4A1.

根據本發明之基因標記,其係於大腸直腸癌細胞中有上升表現量。於一較佳實施例中,該大腸直腸癌細胞係存在於個體的週邊血液內。 According to the genetic marker of the present invention, it has an increased performance in colorectal cancer cells. In a preferred embodiment, the colorectal cancer cell line is present in the peripheral blood of the individual.

本發明另一方面係提供一種用於檢測個體是否患大腸直腸癌之方法,其步驟包含:(a)由一個體取得一包含核酸之檢測樣本;(b)量測該樣本內的基因標記表現量,其中該基因標記係包含下列基因:CPEB4、EIF2S3、ANXA3、TNFAIP6、IL2RB、MGC20553及MAS4A1;(c)以該個體的管家基因(housekeeping gene)表現量對該基因標記表現量標準化;及(d)將該標準化後的基因標記表現量與一健康控制組的基因標記表現量相比,若該基因標記表現量增加,代表該個體具大腸直腸癌風險。 Another aspect of the present invention provides a method for detecting whether an individual has colorectal cancer, the steps comprising: (a) obtaining a test sample comprising a nucleic acid from a body; and (b) measuring a gene marker expression in the sample. And the gene marker comprises the following genes: CPEB4, EIF2S3, ANXA3, TNFAIP6, IL2RB, MGC20553, and MAS4A1; (c) normalizing the expression level of the gene marker by the housekeeping gene expression amount of the individual; d) comparing the normalized gene marker expression amount with the gene marker expression amount of a health control group, if the gene marker expression amount is increased, it indicates that the individual has a colorectal cancer risk.

本發明又一方係提供一種監測及/評估一大腸直腸癌患者對於治療的預後反應之方法,其步驟包含:(a)由該患者接受治療前,自該患者取得 一包含核酸之治療前樣本;(b)於該患者接受治療後,自該患者取得一包含核酸之治療後樣本;(c)量測該治療前樣本和治療後樣本的基因標記表現量,其中該基因標記係包含下列基因:CPEB4、EIF2S3、ANXA3、TNFAIP6、IL2RB、MGC20553及MAS4A1;(d)將該治療前樣本與治療後樣本的基因標記表現量相比,若該治療後基因標記表現量增加,代表該個體預後不良。 Yet another aspect of the present invention provides a method of monitoring and/or evaluating a prognostic response to a treatment of a colorectal cancer patient, the steps comprising: (a) obtaining a patient from the patient prior to receiving treatment a pre-treatment sample comprising a nucleic acid; (b) obtaining a post-treatment sample comprising the nucleic acid from the patient after receiving the treatment; (c) measuring a gene marker expression of the pre-treatment sample and the post-treatment sample, wherein The gene marker comprises the following genes: CPEB4, EIF2S3, ANXA3, TNFAIP6, IL2RB, MGC20553 and MAS4A1; (d) comparing the pre-treatment sample with the gene marker expression of the post-treatment sample, if the post-treatment gene marker expression amount Increased, representing the poor prognosis of the individual.

根據本發明之方法,其中該檢測樣本為體液,而一較佳實施例中,該體液為週邊血液。又根據本發明之方法,其中步驟(b)之基因表現量係mRNA或蛋白質。 According to the method of the present invention, wherein the test sample is a body fluid, and in a preferred embodiment, the body fluid is peripheral blood. Further in accordance with the method of the present invention, wherein the gene expressed in step (b) is mRNA or protein.

本發明再一方面係提供一種檢測大腸直腸癌及/或評估其預後之套組,該套組包含:CPEB4、EIF2S3、ANXA3、TNFAIP6、IL2RB、MGC20553及MAS4A1基因之專一性引子對。 In a further aspect of the invention, a kit for detecting colorectal cancer and/or assessing its prognosis is provided, the kit comprising: a specific primer pair of CPEB4, EIF2S3, ANXA3, TNFAIP6, IL2RB, MGC20553 and MAS4A1 genes.

本發明之又一方面係提供一種檢測大腸直腸癌及/或評估其預後之套組,該套組包含:抗CPEB4、EIF2S3、ANXA3、TNFAIP6、IL2RB、MGC20553及MAS4A1基因蛋白質之專一性抗體。 In another aspect of the invention, a kit for detecting colorectal cancer and/or assessing its prognosis is provided, the kit comprising: a specific antibody against the anti-CPEB4, EIF2S3, ANXA3, TNFAIP6, IL2RB, MGC20553 and MAS4A1 gene proteins.

定義definition

術語「一」或「一種」當與「包含」連用於申請專利範圍或說明書中,可能代表有一個,但也符合「一或多個」或「至少一個」。 The term "a" or "an", when used in conjunction with "including", is used in the scope of the application or the specification, which may be one, but also one or more or at least one.

術語「過度表現」或「上升表現量」意指在細胞或生物體中的基因表現量高於正常細胞或生物體之表現量。 The term "overexpression" or "rising performance" means that the amount of gene expression in a cell or organism is higher than that of a normal cell or organism.

術語「治療」意指利用任何手段(如開刀、化學治療或藥物控制)來降低大腸直腸癌病人經歷之症狀之頻率、程度、嚴重性及/或持續時間。 The term "treatment" means the use of any means, such as surgery, chemotherapy or drug control, to reduce the frequency, extent, severity and/or duration of symptoms experienced by patients with colorectal cancer.

術語「緩和」、「減輕」或「改善」意指減少一或多個疾病、失調或病狀之症狀。 The term "alleviation", "alleviation" or "improvement" means reducing the symptoms of one or more diseases, disorders or conditions.

術語「基因標記(gene marker)」意指一種在個體內的DNA因特定疾病而發生表現量的改變(上升或下降),而可作為用於指引特定疾病存在與否或異常風險之增加,「基因標記」或「分子標記(molecule marker)」等用語可交替地使用。 The term "gene marker" means a change (up or down) in the amount of expression of a DNA in an individual due to a particular disease, and can be used to guide the presence or absence of a particular disease or an increase in the risk of abnormality," Terms such as "gene marker" or "molecular marker" can be used interchangeably.

術語「預後」係指預測疾病可能的發展及結果,特別是復原的可能性。 The term "prognosis" refers to the prediction of the possible development and outcome of a disease, especially the possibility of recovery.

術語「復發」係指個體經治療後,疾病又回到治療前狀態者,如癌症細胞的重新出現。 The term "relapse" refers to the re-emergence of a cancer cell after the individual has been treated and returned to the pre-treatment state.

本文中,「個體」係指一哺乳類,其包含但不限於人類、靈長類、鼠類、貓類、狗類、牛類等。 As used herein, "individual" refers to a mammal, including but not limited to humans, primates, rodents, cats, dogs, cattle, and the like.

本文中術語「樣本」係指一種生物樣本,例如由個體中所分離出之組織或液體(包含但不限於血漿、血清、腦脊液、淋巴液、眼淚、唾液或組織切片)或在體外細胞培養組成物。 The term "sample" as used herein refers to a biological sample, such as tissue or fluid isolated from an individual (including but not limited to plasma, serum, cerebrospinal fluid, lymph, tears, saliva, or tissue sections) or in vitro cell culture. Things.

本發明之大腸直腸癌基因標記Colorectal cancer gene marker of the present invention

本發明提供一種用於檢測大腸直腸癌及/或評估其預後之基因標記,該基因標記係包含下列基因:CPEB4、EIF2S3、ANXA3、TNFAIP6、IL2RB、MGC20553及MAS4A1(以下簡稱為本發明之7基因標記)。 The present invention provides a gene marker for detecting colorectal cancer and/or evaluating its prognosis, and the gene marker comprises the following genes: CPEB4, EIF2S3, ANXA3, TNFAIP6, IL2RB, MGC20553 and MAS4A1 (hereinafter referred to as the 7 gene of the present invention) mark).

於一較佳實施例中,本發明係利用週邊血液樣本,使用即時聚合酶鏈鎖反應技術檢測大腸直腸癌的基因標記。詳言之,將收集的血液樣本抽取出總RNA後,進行反轉錄產生cDNA,並利用預先選定之專一性引子對進行即時聚合酶鏈鎖反應,比較正常個體與大腸直腸癌患者之有差異的 基因表現,從中選出基因標記,並利用邏輯迴歸統計方式評估基因標記預測模型,並由公開的網路資訊中獲得12組微陣列數據集,分別為GSE 4107、4183、8671、9438、10961、13067、13294、13471、14333、15960、17538及18105,包含了519例腺癌及88例正常黏膜控制組,將此12個公開的微陣列資料作為外部驗證,用以檢測候選基因作為癌症分子標記之可行性。根據EP201987A2揭示的5基因模型與先前技術已公開的Marshall等人的7基因模型(Marshall KW,et al.:A blooa-based biomarker panel for stratifying current risk for colorectal cancer.Int J Cancer 2010,126:1177-1186)及Han等人的5基因模型(Han M,et al.:Novel blood-basea,five-gene biomarker set for the detection of colorectal cancer.Clin Cancer Res 2008,14:455-460),使用匯集的12個公開微陣列數據集為外部驗證,執行多變數邏輯迴歸分析,得到具有更佳的準確性、敏感性及特異性的本發明之7基因標記:CPEB4、EIF2S3、ANXA3、TNFAIP6、IL2RB、MGC20553及MAS4A1,而可用於作為CRC之篩檢、於治療前或進行後,預測特定療程的反應,或用以評估病患後續的療程方法。 In a preferred embodiment, the present invention utilizes a peripheral blood sample to detect genetic markers of colorectal cancer using an instant polymerase chain reaction reaction technique. In detail, after the collected blood samples are extracted from total RNA, reverse transcription is performed to generate cDNA, and the polymerase chain reaction is performed by using a pre-selected specific primer pair to compare the difference between the normal individual and the colorectal cancer patient. Gene expression, select the gene markers, and use the logistic regression statistical method to evaluate the gene marker prediction model, and obtain 12 sets of microarray data sets from the public network information, namely GSE 4107, 4183, 8671, 9438, 10961, 13067 13,294, 13471, 14333, 15960, 17538, and 18105, including 519 adenocarcinomas and 88 normal mucosal control groups, and the 12 published microarray data were used as external validation to detect candidate genes as cancer molecular markers. feasibility. The 5 gene model disclosed in EP201987A2 and the 7 gene model of Marshall et al. ( Marshall KW, et al.: A blooa-based biomarker panel for stratifying current risk for colorectal cancer. Int J Cancer 2010, 126:1177) -1186 ) and Han et al. 5 gene model ( Han et al.: Novel blood-basea, five-gene biomarker set for the detection of colorectal cancer. Clin Cancer Res 2008 , 14 : 455-460 ) The 12 published microarray datasets were externally validated and subjected to multivariate logistic regression analysis to obtain the 7 gene markers of the present invention with better accuracy, sensitivity and specificity: CPEB4, EIF2S3, ANXA3, TNFAIP6, IL2RB, MGC20553 and MAS4A1 can be used as screening for CRC, before or after treatment, to predict response to a specific course of treatment, or to assess subsequent course of treatment for a patient.

邏輯迴歸係藉由擬合資料於邏輯曲線,用於預測一事件的發生機率。邏輯迴歸模型得出發生的反應作為自變量指數函數之機率。該模型以機率(P)表示,其範圍由0到1。邏輯迴歸以邏輯方程式表示: Logistic regression is used to predict the probability of an event by fitting data to a logical curve. The logistic regression model yields the probability of the reaction occurring as an independent variable exponential function. The model is expressed in probability (P) and ranges from 0 to 1. Logistic regression is represented by a logical equation:

輸入值為Y而輸出值為f(Y),即是P。輸出值限於0到1之間。變數Y代表曝露於某些風險因子,而f(Y)代表由該些風險因子所得出之特定結果的機率。該變數Y是模型中所使用的所有風險因子的總體衡量,也被稱為對 數優劣比(logit)。 The input value is Y and the output value is f(Y), which is P. The output value is limited to between 0 and 1. The variable Y represents exposure to certain risk factors, while f(Y) represents the probability of a particular result derived from the risk factors. This variable Y is an overall measure of all the risk factors used in the model, also known as the pair Number of advantages and disadvantages (logit).

變數Y通常定義為Y=β01x12x2+...+βkxk,β0即稱為截距(intercept),β1、β2、β3等分別稱為x1、x2、x3之迴歸係數(regression coefficients)。當所有風險因子為0時(即在某個不具任何風險因子之個體的z值),Y值即等於截距。各個迴歸係數描述了該風險因子之貢獻度大小。一個正迴歸係數表示該風險因子增加了結果的機率,而一個負迴歸係數表示該風險因子降低了結果的機率;一個較大的迴歸係數表示該風險因子大幅影響了結果的機率;而一個接近0的迴歸係數表示該風險因子只會微幅影響結果的機率。 The variable Y is usually defined as Y = β 0 + β 1 x 1 + β 2 x 2 + ... + β k x k , β 0 is called intercept, β 1 , β 2 , β 3 etc. They are called regression coefficients of x 1 , x 2 , and x 3 . When all risk factors are zero (ie, the z value of an individual without any risk factor), the Y value is equal to the intercept. Each regression coefficient describes the contribution of the risk factor. A positive regression coefficient indicates that the risk factor increases the probability of the result, while a negative regression coefficient indicates that the risk factor reduces the probability of the result; a larger regression coefficient indicates that the risk factor significantly affects the probability of the result; The regression coefficient indicates that the risk factor will only slightly affect the probability of the outcome.

因此,基因標記表現量的統計分析可用於預測個體具有大腸直腸癌的風險。而勝算比(Odds Ratio,OR)可估算大腸直腸癌的相對風險。勝算比(OR)是一種效應值的量測,說明關聯性的強度或兩個二元資料值之間的非獨立性(non-independence),用以作為一種描述性統計以及在邏輯迴歸中扮演一重要角色。勝算比(OR)之定義為,一個事件發生在一群體中相對於發生於另一群體中的成功率。統計學上,成功率是發生某一事件的機率除以不發生該事件的機率。勝算比是一種對於兩群體,比較某一特定事件發生機率是否相同的方法。勝算比等於1時,顯示該事件發生於二個群體中的傾向相同。勝算比大於1時,顯示該事件較傾向於發生於第一群體中。勝算比小於1時,顯示該事件較不傾向於發生於第一群體中。若某事件在各個群體中發生之機率分別為p1(第一群體)及p2(第二群體),則其勝算比係為: Therefore, statistical analysis of the amount of gene marker expression can be used to predict an individual's risk of colorectal cancer. The Odds Ratio (OR) estimates the relative risk of colorectal cancer. The odds ratio (OR) is a measure of the effect value, indicating the strength of the association or the non-independence between two binary data values, used as a descriptive statistic and as a logical regression. An important role. The odds ratio (OR) is defined as the success rate of one event occurring in one group relative to occurring in another group. Statistically, the success rate is the probability of an event occurring divided by the probability that the event will not occur. The odds ratio is a method for comparing the probability of occurrence of a particular event for two groups. When the odds ratio is equal to 1, it shows that the event has the same tendency to occur in the two groups. When the odds ratio is greater than 1, it shows that the event is more likely to occur in the first group. When the odds ratio is less than 1, it is shown that the event is less prone to occur in the first group. If the probability of an event occurring in each group is p 1 (first group) and p 2 (second group), then the odds ratio is:

根據本發明之7基因標記,其中CPEB4結合細胞質多聚腺苷酸化蛋白(cytoplasmic polyadenylation element,CPE)的標靶mRNAs並於成長發育時控制細胞質的多聚腺苷酸化及活化轉譯(Huang YS,Kan MC,Lin CL,Richter JD:CPEB3 and CPEB4 in neurons:analysis of RNA-binding specificity and translational control of AMPA receptor GluR2 mRNA.EMBO J 2006,25:4865-4876);EIF2S3是真核細胞轉錄起始因子2(eukaryotic translation initiation factor 2,EIF2)的最大次單元,可能透過N-myc途徑下游調節基因1而間接參與抑制前列腺癌轉移(Tu LC,Yan X,Hood L,Lin B:Proteomics analysis of the interactome of N-myc downstream regulated gene 1 and its interactions with the androgen response program in prostate cancer cells.Mol Cell Proteomics 2007,6:575-588)。本發明第一個發現此7個基因於大腸直腸癌中的相關性,並合併用於作為大腸直腸癌的基因標記。該等基因標記具有準確性為96.8%、敏感性為99.4%及96.6%的特異性,可用於作為CRC之篩檢、於治療前或進行後,預測特定療程的反應,或用以評估病患後續的療程方法。 According to the 7 gene marker of the present invention, CPEB4 binds to target mRNAs of cytoplasmic polyadenylation elements (CPE) and controls cytoplasmic polyadenylation and activation translation during growth and development ( Huang YS, Kan) MC, Lin CL, Richter JD: CPEB3 and CPEB4 in neurons: analysis of RNA-binding specificity and translational control of AMPA receptor GluR2 mRNA. EMBO J 2006, 25: 4865-4876 ); EIF2S3 is a eukaryotic transcription initiation factor 2 The largest subunit of eukaryotic translation initiation factor 2 (EIF2) may be involved in the inhibition of prostate cancer metastasis through the downstream regulatory gene 1 of the N-myc pathway ( Tu LC, Yan X, Hood L, Lin B: Proteomics analysis of the interactome of N-myc downstream regulated gene 1 and its interactions with the androgen response program in prostate cancer cells. Mol Cell Proteomics 2007 , 6 : 575-588 ). The first of the present invention found the correlation of these seven genes in colorectal cancer and was combined for use as a genetic marker for colorectal cancer. These gene markers have a specificity of 96.8% accuracy, sensitivity of 99.4%, and 96.6%, and can be used as a screening for CRC, before or after treatment, to predict a specific course of treatment, or to assess a patient's response. Follow-up treatment methods.

根據本發明之基因標記,其係於大腸直腸癌細胞中有上升表現量。於一較佳實施例中,該大腸直腸癌細胞係存在於個體的週邊血液內。 According to the genetic marker of the present invention, it has an increased performance in colorectal cancer cells. In a preferred embodiment, the colorectal cancer cell line is present in the peripheral blood of the individual.

本發明之監測及/評估一大腸直腸癌之方法Method for monitoring and/or evaluating colorectal cancer of the present invention

本發明另一方面係提供一種用於檢測個體是否患大腸直腸癌之方法,其步驟包含:(a)由一個體取得一包含核酸之檢測樣本;(b)量測該樣本內的基因標記表現量,其中該基因標記係包含下列基因:CPEB4、EIF2S3、ANXA3、TNFAIP6、IL2RB、MGC20553及MAS4A1;(c)以該個體的管家基因(housekeeping gene)表現量對該基因標記表現量標準化; 及(d)將該標準化後的基因標記表現量與一健康控制組的基因標記表現量相比,若該基因標記表現量增加,代表該個體具大腸直腸癌風險。 Another aspect of the present invention provides a method for detecting whether an individual has colorectal cancer, the steps comprising: (a) obtaining a test sample comprising a nucleic acid from a body; and (b) measuring a gene marker expression in the sample. And the gene marker comprises the following genes: CPEB4, EIF2S3, ANXA3, TNFAIP6, IL2RB, MGC20553, and MAS4A1; (c) normalizing the expression amount of the gene marker by the housekeeping gene expression amount of the individual; And (d) comparing the normalized gene marker expression amount with the gene marker expression amount of a health control group, and if the gene marker expression amount is increased, it indicates that the individual has a colorectal cancer risk.

本發明又一方係提供一種監測及/評估一大腸直腸癌患者對於治療的預後反應之方法,其步驟包含:(a)由該患者接受治療前,自該患者取得一包含核酸之治療前樣本;(b)於該患者接受治療後,自該患者取得一包含核酸之治療後樣本;(c)量測該治療前樣本和治療後樣本的基因標記表現量,其中該基因標記係包含下列基因:CPEB4、EIF2S3、ANXA3、TNFAIP6、IL2RB、MGC20553及MAS4A1;(d)將該治療前樣本與治療後樣本的基因標記表現量相比,若該治療後基因標記表現量增加,代表該個體預後不良。 Yet another aspect of the present invention provides a method of monitoring and/or evaluating a prognostic response of a colorectal cancer patient to a treatment comprising the steps of: (a) obtaining a pre-treatment sample comprising nucleic acid from the patient prior to receiving the treatment; (b) after the patient is treated, obtaining a post-treatment sample containing the nucleic acid from the patient; (c) measuring the gene marker expression of the pre-treatment sample and the post-treatment sample, wherein the gene marker comprises the following genes: CPEB4, EIF2S3, ANXA3, TNFAIP6, IL2RB, MGC20553 and MAS4A1; (d) Comparing the pre-treatment sample with the gene marker expression amount of the post-treatment sample, if the post-treatment gene marker expression amount is increased, it means that the individual has a poor prognosis.

根據本發明之方法,其中該檢測樣本為體液,而一較佳實施例中,該體液為週邊血液。 According to the method of the present invention, wherein the test sample is a body fluid, and in a preferred embodiment, the body fluid is peripheral blood.

前述CPEB4、EIF2S3、ANXA3、TNFAIP6、IL2RB、MGC20553及MAS4A1基因標記的表現量可為mRNA表現量,本發明的基因標記在癌症檢體樣本與非癌症的檢體樣本中(或同一病患在治療前後所取得的檢體樣本)mRNA表現量的改變,任何熟習此技藝者可輕易地使用任何習知方法,包括但不限於北方墨點法(northern blotting)、反轉錄聚合酶連鎖反應(Reverse Transcription Polymerase Chain Reaction,RT-PCR)或即時聚合酶連鎖反應(real time quantitative PCR,Q-RT-PCR)等習知相關mRNA分析技術測定而得。 The expression levels of the aforementioned CPEB4, EIF2S3, ANXA3, TNFAIP6, IL2RB, MGC20553 and MAS4A1 gene markers may be mRNA expression levels, and the gene markers of the present invention are in cancer sample samples and non-cancer sample samples (or the same patient is being treated) Any change in the amount of mRNA expression of the sample obtained before and after, any skilled person can easily use any conventional method including, but not limited to, northern blotting, reverse transcription polymerase chain reaction (Reverse Transcription) Polymerase Chain Reaction (RT-PCR) or real-time polymerase chain reaction (Q-RT-PCR) and other known correlation mRNA analysis techniques.

此外,前述CPEB4、EIF2S3、ANXA3、TNFAIP6、IL2RB、MGC20553及MAS4A1基因標記的表現量亦可為蛋白質表現量,而本發明之CPEB4、EIF2S3、ANXA3、TNFAIP6、IL2RB、MGC20553及MAS4A1 基因標記在癌症檢體樣本與非癌症的檢體樣本中(或同一病患在治療前後所取得的檢體樣本)蛋白質表現的改變,任何熟習此技藝者,可輕易的使用任何習知方法,包括但不限於酵素連結免疫吸附分析法(enzyme linked immunosorbent assay,ELISA)、免疫螢光染色(immunofluorescence)、免疫組織化學法(immunohistochemistry)、酵素免疫分析法(enzyme immunoassay,EIA)、放射免疫分析(radioimmunoassay,RIA)或西方墨點法(Western blotting)等習知相關蛋白質分析技術測定而得。 In addition, the expression levels of the aforementioned CPEB4, EIF2S3, ANXA3, TNFAIP6, IL2RB, MGC20553 and MAS4A1 gene markers may also be protein expression, whereas the CPEB4, EIF2S3, ANXA3, TNFAIP6, IL2RB, MGC20553 and MAS4A1 of the present invention. Gene labeling changes in the protein expression of a sample of a cancer sample and a sample of a non-cancer sample (or a sample sample obtained by the same patient before and after treatment), and any skilled person can easily use any conventional method. Including but not limited to enzyme-linked immunosorbent assay (ELISA), immunofluorescence, immunohistochemistry, enzyme immunoassay (EIA), radioimmunoassay ( Radioimmunoassay (RIA) or Western blotting (Western blotting) and other known protein analysis techniques.

熟習此技藝者,可經由鑑定CPEB4、EIF2S3、ANXA3、TNFAIP6、IL2RB、MGC20553及MAS4A1基因標記的表現是否被促進或抑制,進而篩選出治療大腸直腸癌症的藥物。舉例而言,可利用CPEB4、EIF2S3、ANXA3、TNFAIP6、IL2RB、MGC20553及MAS4A1基因標記的啟動子區域連接一段綠螢光蛋白基因,再由細胞中觀察所測試之藥物處理後的螢光強度。 Those skilled in the art can screen for drugs for the treatment of colorectal cancer by identifying whether the expression of the CPEB4, EIF2S3, ANXA3, TNFAIP6, IL2RB, MGC20553, and MAS4A1 gene markers is promoted or inhibited. For example, a green fluorescent protein gene can be ligated using the promoter regions labeled with CPEB4, EIF2S3, ANXA3, TNFAIP6, IL2RB, MGC20553, and MAS4A1 genes, and the fluorescence intensity of the tested drug is observed from the cells.

本發明之檢測大腸直腸癌及/或評估其預後之套組The kit for detecting colorectal cancer and/or evaluating its prognosis of the present invention

本發明再一方面係提供一種檢測大腸直腸癌及/或評估其預後之套組,該套組包含:CPEB4、EIF2S3、ANXA3、TNFAIP6、IL2RB、MGC20553及MAS4A1基因之專一性引子對。 In a further aspect of the invention, a kit for detecting colorectal cancer and/or assessing its prognosis is provided, the kit comprising: a specific primer pair of CPEB4, EIF2S3, ANXA3, TNFAIP6, IL2RB, MGC20553 and MAS4A1 genes.

本文中術語「引子」係指用於PCR反應中,作為特定基因一端複製起始點中之DNA的一股,而該特定基因另一端複製起始點之DNA的另一股合稱為引子對,其可夾出所欲擴增之特定基因。 The term "primer" as used herein refers to a strand of DNA used in a PCR reaction as a starting point for replication of a particular gene, and another strand of DNA that replicates the starting point at the other end of the particular gene is collectively referred to as a primer pair. It can pinch out the specific gene to be amplified.

利用本發明之套組內的引子對,可偵測前述CPEB4、EIF2S3、ANXA3、TNFAIP6、IL2RB、MGC20553及MAS4A1基因標記的表現量,而可使用反轉錄聚合酶連鎖反應(Reverse Transcription Polymerase Chain Reaction,RT-PCR)或即時聚合酶連鎖反應(real time quantitative PCR,Q-RT-PCR)等習知相關mRNA分析技術測定,得到個體是否罹患大腸直腸癌及/或評估其預後是否良好。 Using the primer pair in the kit of the present invention, the expression levels of the aforementioned CPEB4, EIF2S3, ANXA3, TNFAIP6, IL2RB, MGC20553, and MAS4A1 gene markers can be detected, and a reverse transcription polymerase chain reaction (Reverse Transcription Polymerase Chain) can be used. Reaction, RT-PCR or real-time PCR (Q-RT-PCR) and other known related mRNA analysis techniques determine whether an individual has colorectal cancer and/or whether the prognosis is good.

本發明之又一方面係提供一種檢測大腸直腸癌及/或評估其預後之套組,該套組包含:抗CPEB4、EIF2S3、ANXA3、TNFAIP6、IL2RB、MGC20553及MAS4A1基因蛋白質之專一性抗體。 In another aspect of the invention, a kit for detecting colorectal cancer and/or assessing its prognosis is provided, the kit comprising: a specific antibody against the anti-CPEB4, EIF2S3, ANXA3, TNFAIP6, IL2RB, MGC20553 and MAS4A1 gene proteins.

該專一性抗體可進一步帶有化學探針、螢光蛋白、放射性物質或酵素等,使該套組可直接進一步進行ELISA、免疫螢光染色、免疫組織化學法、酵素免疫分析法或放射免疫分析,或得基因標記之表現量。 The specific antibody can further be provided with a chemical probe, a fluorescent protein, a radioactive substance or an enzyme, and the kit can be directly subjected to ELISA, immunofluorescence staining, immunohistochemistry, enzyme immunoassay or radioimmunoassay. Or the amount of expression of the genetic marker.

實施例Example

下文中,將進一步以詳細說明與實施例描述本發明。然而,應理解這些實施例僅用於幫助可更加好理解本發明,而非用於限制本發明之範圍。 Hereinafter, the present invention will be further described in detail with reference to the embodiments. However, it is to be understood that these examples are only intended to aid in the understanding of the invention and are not intended to limit the scope of the invention.

實施例1Example 1

將EP2019871A2揭示的5基因模型(模型1)與先前技術所揭示的7基因模型(模型2,詳見Marshall KW,et al.:A blood-based biomarker panel for stratifying current risk for colorectal cancer.Int J Cancer 2010,126:1177-1186,以下簡稱Marshall等之7基因模型)及5基因模型(模型3,詳見Han M,et al.:Novel blood-based,five-gene biomarker set for the detection of colorectal cancer.Clin Cancer Res 2008,14:455-460,以下簡稱Han等之5基因模型),使用匯集的12個公開微陣列數據集為外部驗證,執行多變數邏輯迴歸分析。結果如下表1所示。 The 5-gene model (model 1) disclosed in EP2019871A2 and the 7-gene model disclosed in the prior art (model 2, see Marshall KW, et al.: A blood-based biomarker panel for stratifying current risk for colorectal cancer. Int J Cancer 2010, 126: 1177-1186 , hereinafter referred to as Marshall et al. 7 gene model) and 5 gene model (Model 3, see Han M, et al.: Novel blood-based, five-gene biomarker set for the detection of colorectal cancer .Clin Cancer Res 2008 , 14 : 455-460 , hereinafter referred to as Han et al. 5 gene model), using a collection of 12 public microarray data sets for external validation, performing multivariate logistic regression analysis. The results are shown in Table 1 below.

由上表1中,可見模型2的Marshall等之7基因模型H-L檢定結果為顯著(p值為0.044),代表了模型資料不擬合,適合度不良。而適合度良好者則為模型1、3及4。該模型4係由模型1、2及3中,利用配對比較法(pairwise)選擇的結果而得到的7基因模型,而該模型4相較於模型1、2及3,展現了最佳的邏輯迴歸分析結果(H-L p=1.000,R2=0.951,AUC=0.999,準確性=0.968,特異性=0.966且敏感性=0.994),符合優異的診斷檢測標準。 From the above Table 1, it can be seen that the HL test results of the 7 gene model of Marshall et al. of Model 2 are significant (p value is 0.044), which represents that the model data is not fitted and the fitness is poor. Those with good fitness are models 1, 3 and 4. The model 4 is a 7-gene model obtained from the results of pairwise comparison in models 1, 2, and 3, and the model 4 exhibits the best logic compared to models 1, 2, and 3. The results of the regression analysis (HL p=1.000, R 2 =0.951, AUC=0.999, accuracy=0.968, specificity=0.966 and sensitivity=0.994) met the excellent diagnostic test criteria.

綜上實施例之結果,由於任何種類的癌症之癌症細胞皆有可能由腫瘤組織中散佈,穿透並侵襲血管,而於週邊血液中在人體循環,因此,這些循環的癌症細胞可被用來預測癌症病人臨床的結果(Cristofanilli M,Budd GT,Ellis MJ,Stopeck A,Matera J,Miller MC,Reuben JM,Doyle GV,Allard WJ,Terstappen LW,Hayes DF:Circulating tumor cells,disease progression,and survival in metastatic breast cancer.N Engl J Med 2004,351:781-791),其在健康控制組與CRC病患中的表現量有差異,進一步將EP2019871A2之5基因模型與先前技術中的Marshall等之7基因模型及Han等之5基因模型共17個基因,利用匯集的12個公開微陣列數據集作為外部驗證,執行多變數邏輯迴歸分析,找到了一組7基因模型(CPEB4、EIF2S3、ANXA3、TNFAIP6、IL2RB、MGC20553及MAS4A1),該組7基因模型具有極佳的準確性、敏感性及特異性,因此也可用於大腸直腸癌的早期偵測、診斷,或可用於治療前或進行後,預測特定療程的反應,或用以評估病患後續的療程方法。 As a result of the above examples, since cancer cells of any kind of cancer are likely to be scattered by tumor tissues, penetrate and invade blood vessels, and circulate in the peripheral blood, the circulating cancer cells can be used. Predicting clinical outcomes in cancer patients (Cristofanilli M, Budd GT, Ellis MJ, Stopeck A, Matera J, Miller MC, Reuben JM, Doyle GV, Allard WJ, Terstappen LW, Hayes DF: Circulating tumor cells, disease progression, and survival in Metastatic breast cancer. N Engl J Med 2004, 351:781-791) , which differs in the performance of the health control group and CRC patients, further the 5 gene model of EP2019871A2 and the 7 gene of Marshall et al. A total of 17 genes were used in the model and Han et al., and 12 public microarray datasets were used as external validation. Multivariate logistic regression analysis was performed to find a set of 7 gene models (CPEB4, EIF2S3, ANXA3, TNFAIP6, IL2RB, MGC20553 and MAS4A1), this group of 7 gene models have excellent accuracy, sensitivity and specificity, so they can also be used for early detection and diagnosis of colorectal cancer. , or can be used to predict the response of a specific course of treatment before or after treatment, or to assess the subsequent course of treatment of the patient.

本發明7基因模型又可以依照成本,調整檢測基因數量,其檢測順序為(1)僅檢測MGC20553;(2)檢測(1)外,增加EIF2S3;(3)檢測(2)外,增加TNFAIP6;(4)檢測(3)外,增加CPEB4;(5)檢測(4)外,增加ANXA3;(6)檢測(5)外,增加MAS4A1;或(7)檢測(6)外,增加IL2RB。檢測準確率與計 算參數如下表2所示。 The 7 gene model of the invention can adjust the number of detection genes according to cost, and the detection sequence is (1) detecting only MGC20553; (2) detecting (1), increasing EIF2S3; (3) detecting (2), increasing TNFAIP6; (4) In addition to the detection (3), increase the CPEB4; (5) increase the ANXA3 in addition to the detection (4); (6) increase the MAS4A1 in addition to the detection (5); or increase the IL2RB in addition to the (7) detection (6). Detection accuracy and calculation The calculation parameters are shown in Table 2 below.

實施例2Example 2

進一步地,根據由公開的網路資訊中獲得12組微陣列數據集,再分析得5基因組CA7、SPIB、GUCA2B、IL6R及SPP1配合本發明7基因模型MGC20553、EIF2S3、TNFAIP6、CPEB4、ANXA3、MAS4A1及IL2RB,可以依照成本調整檢測基因數量,其檢測順序為(1)僅檢測CA7、(2)檢測(1)外,增加IL6R;(3)檢測(2)外,增加IL2RB;(4)檢測(3)外,增加TNFAIP6;或(5)檢測(4)外,增加CPEB4。其準確率與計算參數如下表3所示。 Further, according to the 12 sets of microarray data sets obtained from the disclosed network information, the 5 genomes CA7, SPIB, GUCA2B, IL6R and SPP1 are further analyzed to cooperate with the 7 gene models of the present invention, MGC20553, EIF2S3, TNFAIP6, CPEB4, ANXA3, MAS4A1. And IL2RB, the number of detection genes can be adjusted according to the cost, the detection sequence is (1) detection only CA7, (2) detection (1), increase IL6R; (3) detection (2), increase IL2RB; (4) detection (3) In addition, increase TNFAIP6; or (5) test (4), increase CPEB4. The accuracy and calculation parameters are shown in Table 3 below.

雖然本文中揭示了實施例,但應理解其包含其他變化的可能性,這些變化並不視為背離本發明之實施例的精神及範圍,且對技藝人士而言,所有這些明顯的修飾仍視為下方申請專利範圍之範疇內。 Although the embodiments are disclosed herein, it is to be understood that the scope of the present invention is not to be construed as a For the scope of the patent application below.

Claims (14)

一種用於檢測大腸直腸癌及/或評估其預後之基因標記,該基因標記係包含下列基因:CPEB4、EIF2S3、ANXA3、TNFAIP6、IL2RB、MGC20553及MAS4A1。 A genetic marker for detecting colorectal cancer and/or assessing its prognosis, the gene marker comprising the following genes: CPEB4, EIF2S3, ANXA3, TNFAIP6, IL2RB, MGC20553, and MAS4A1. 如請求項1之基因標記,其中該基因標記係於大腸直腸癌細胞中有上升表現量。 The gene marker of claim 1, wherein the gene marker has an increased amount of expression in colorectal cancer cells. 如請求項2之基因標記,其中該大腸直腸癌細胞係存在於個體的週邊血液內。 The gene marker of claim 2, wherein the colorectal cancer cell line is present in the peripheral blood of the individual. 一種用於檢測個體是否患大腸直腸癌之方法,其步驟包含:(a)由一個體取得一包含核酸之檢測樣本;(b)量測該樣本內的基因標記表現量,其中該基因標記係包含下列基因:CPEB4、EIF2S3、ANXA3、TNFAIP6、IL2RB、MGC20553及MAS4A1;(c)以該個體的管家基因(housekeeping gene)表現量對該基因標記表現量標準化;及(d)將該標準化後的基因標記表現量與一健康控制組的基因標記表現量相比,若該基因標記表現量增加,代表該個體具大腸直腸癌風險。 A method for detecting whether an individual has colorectal cancer comprises the steps of: (a) obtaining a test sample containing nucleic acid from a body; and (b) measuring a gene marker expression amount in the sample, wherein the gene marker system The following genes are included: CPEB4, EIF2S3, ANXA3, TNFAIP6, IL2RB, MGC20553, and MAS4A1; (c) normalizing the expression level of the gene marker with the housekeeping gene expression amount of the individual; and (d) normalizing the gene The gene marker expression amount is compared with the gene marker expression amount of a health control group, and if the gene marker expression amount is increased, it indicates that the individual has a colorectal cancer risk. 一種監測及/評估一大腸直腸癌患者對於治療的預後反應之方法,其步驟包含:(a)由該患者接受治療前,自該患者取得一包含核酸之治療前樣本;(b)於該患者接受治療後,自該患者取得一包含核酸之治療後樣本;(c)量測該治療前樣本和治療後樣本的基因標記表現量,其中該基因標記係包含下列基因: CPEB4、EIF2S3、ANXA3、TNFAIP6、IL2RB、MGC20553及MAS4A1;(d)將該治療前樣本與治療後樣本的基因標記表現量相比,若該治療後基因標記表現量增加,代表該個體預後不良。 A method of monitoring and/or evaluating a prognostic response to a treatment of a colorectal cancer patient, the steps comprising: (a) obtaining a pre-treatment sample comprising nucleic acid from the patient prior to receiving the treatment; (b) administering to the patient After receiving the treatment, a post-treatment sample containing the nucleic acid is obtained from the patient; (c) measuring the gene marker expression amount of the pre-treatment sample and the post-treatment sample, wherein the gene marker comprises the following genes: CPEB4, EIF2S3, ANXA3, TNFAIP6, IL2RB, MGC20553 and MAS4A1; (d) Comparing the pre-treatment sample with the gene marker expression amount of the post-treatment sample, if the post-treatment gene marker expression amount is increased, it means that the individual has a poor prognosis. 如請求項4或5之方法,其中該樣本為體液。 The method of claim 4 or 5, wherein the sample is a body fluid. 如請求項6之方法,其中該體液為週邊血液。 The method of claim 6, wherein the body fluid is peripheral blood. 如請求項4或5之方法,其中量測該基因表現量可依需求,使檢測順序為:(1)僅檢測MGC20553;(2)檢測(1)外,增加EIF2S3;(3)檢測(2)外,增加TNFAIP6;(4)檢測(3)外,增加CPEB4;(5)檢測(4)外,增加ANXA3;(6)檢測(5)外,增加MAS4A1;或(7)檢測(6)外,增加IL2RB。 The method of claim 4 or 5, wherein measuring the gene expression amount according to requirements, the detection order is: (1) detecting only MGC 20553; (2) detecting (1), adding EIF2S3; (3) detecting (2) In addition, increase TNFAIP6; (4) test (3), increase CPEB4; (5) test (4), increase ANXA3; (6) test (5), increase MAS4A1; or (7) test (6) In addition, increase IL2RB. 如請求項4或5之方法,其中該基因表現量係mRNA或蛋白質。 The method of claim 4 or 5, wherein the gene expresses an amount of mRNA or protein. 如請求項9之方法,其中該mRNA係利用北方墨點法、反轉錄聚合酶鏈鎖反應、即時聚合酶鏈鎖反應量測。 The method of claim 9, wherein the mRNA is measured by Northern blotting, reverse transcriptase polymerase chain reaction, and real-time polymerase chain reaction. 如請求項9之方法,其中該蛋白質係利用免疫螢光染色、酵素連結免疫吸附法、酵素免疫分析法、放射免疫分析法或西方墨點法量測。 The method of claim 9, wherein the protein is measured by immunofluorescence staining, enzyme-linked immunosorbent assay, enzyme immunoassay, radioimmunoassay or Western blotting. 一種檢測大腸直腸癌及/或評估其預後之套組,該套組包含:CPEB4、EIF2S3、ANXA3、TNFAIP6、IL2RB、MGC20553及MAS4A1基因之專一性引子對。 A kit for detecting colorectal cancer and/or assessing its prognosis. The kit includes: specific primer pairs for CPEB4, EIF2S3, ANXA3, TNFAIP6, IL2RB, MGC20553, and MAS4A1 genes. 一種檢測大腸直腸癌及/或評估其預後之套組,該套組包含: 抗CPEB4、EIF2S3、ANXA3、TNFAIP6、IL2RB、MGC20553及MAS4A1基因蛋白質之專一性抗體。 A kit for detecting colorectal cancer and/or assessing its prognosis, the kit includes: Specific antibodies against the proteins of CPEB4, EIF2S3, ANXA3, TNFAIP6, IL2RB, MGC20553 and MAS4A1. 一種用於檢測個體是否患大腸直腸癌之方法,其步驟包含:(a)由一個體取得一包含核酸之檢測樣本;(b)量測該樣本內的基因標記表現量;(c)以該個體的管家基因(housekeeping gene)表現量對該基因標記表現量標準化;及(d)將該標準化後的基因標記表現量與一健康控制組的基因標記表現量相比,若該基因標記表現量增加,代表該個體具大腸直腸癌風險;其中,該步驟(b)中之量測該基因表現量可依需求,使檢測順序為:(1)僅檢測CA7;(2)檢測(1)外,增加IL6R;(3)檢測(2)外,增加IL2RB;(4)檢測(3)外,增加TNFAIP6;或(5)檢測(4)外,增加CPEB4。 A method for detecting whether an individual has colorectal cancer, the steps comprising: (a) obtaining a test sample containing nucleic acid from a body; (b) measuring a gene marker expression amount in the sample; (c) The amount of housekeeping gene expression of the individual normalizes the amount of expression of the gene marker; and (d) comparing the normalized gene marker expression amount with the gene marker expression amount of a health control group, if the gene marker expression amount The increase indicates that the individual has a colorectal cancer risk; wherein the amount of the gene measured in the step (b) can be determined according to requirements, and the detection order is: (1) detecting only CA7; (2) detecting (1) outside , increase IL6R; (3) detect (2), increase IL2RB; (4) detect (3), increase TNFAIP6; or (5) detect (4), increase CPEB4.
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