CN116162706A - Exosome lncRNA marker group for esophageal squamous carcinoma diagnosis and application thereof - Google Patents
Exosome lncRNA marker group for esophageal squamous carcinoma diagnosis and application thereof Download PDFInfo
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Abstract
Description
技术领域technical field
本发明涉及肿瘤标志物技术领域,特别涉及一种用于食管鳞癌诊断的外泌体lncRNA标志物组及其应用。The invention relates to the technical field of tumor markers, in particular to an exosomal lncRNA marker group for diagnosis of esophageal squamous cell carcinoma and its application.
背景技术Background technique
食管鳞癌是我国第六大恶性肿瘤,其预后差,五年整体生存率低于20%。食管鳞癌是我国主要病理类型,因为早期缺乏症状,导致食管鳞癌患者确诊时大多错失最佳诊治时机。食管鳞癌的诊断主要依赖于胃镜活检,胃镜检查是一种有创操作,其舒适度低,且费用较高,对于大部分中国人来说,并未将胃镜检查作为日常体检项,因此,也容易导致食管鳞癌的早期病变被漏诊。Esophageal squamous cell carcinoma is the sixth most malignant tumor in my country, and its prognosis is poor, with a five-year overall survival rate of less than 20%. Esophageal squamous cell carcinoma is the main pathological type in my country. Due to the lack of symptoms in the early stage, most patients with esophageal squamous cell carcinoma miss the best time for diagnosis and treatment when they are diagnosed. The diagnosis of esophageal squamous cell carcinoma mainly depends on gastroscopic biopsy. Gastroscopy is an invasive operation with low comfort and high cost. For most Chinese people, gastroscopy is not used as a daily physical examination item. Therefore, It is also easy to cause the early lesions of esophageal squamous cell carcinoma to be missed.
体液肿瘤标志物的液体活检为实体肿瘤诊断提供了新的手段。传统的肿瘤标志物包括鳞状细胞抗原SCC,细胞角蛋白19片段CYFRA21-1,癌胚抗原CEA等。但这些肿瘤标志物在应用于体液活检时面临特异性及敏感度较差等问题,限制了其应用。近年来,新型肿瘤标志物的开发如火如荼地开展,如血液游离DNA(cfDNA),血液循环miRNA等。长链非编码RNA是近年来研究热点,其具有与mRNA类似的结构特征,但没有蛋白编码功能,在肿瘤发生与转移中的作用日益受到重视。研究表明,长链非编码RNA有望作为新型肿瘤标志物用于肿瘤的诊断及预后评估。但血液中RNA分子在缺乏保护的情况下,极易被RNA酶消化,导致不稳定性,不适宜于液体活检。外泌体的发现为基于血液RNA的诊断提供了一种可行性。Liquid biopsy of humoral tumor markers provides a new tool for solid tumor diagnosis. Traditional tumor markers include squamous cell antigen SCC, cytokeratin 19 fragment CYFRA21-1, carcinoembryonic antigen CEA, etc. However, these tumor markers face problems such as poor specificity and sensitivity when applied to body fluid biopsy, which limits their application. In recent years, the development of new tumor markers, such as blood cell-free DNA (cfDNA), blood circulating miRNA, etc., has been developed in full swing. Long non-coding RNA has been a research hotspot in recent years. It has similar structural characteristics to mRNA, but has no protein coding function. Its role in tumorigenesis and metastasis has been increasingly valued. Studies have shown that long non-coding RNA is expected to be used as a new tumor marker for the diagnosis and prognosis of tumors. However, in the absence of protection, RNA molecules in blood are easily digested by RNase, resulting in instability and are not suitable for liquid biopsy. The discovery of exosomes provides a possibility for blood RNA-based diagnosis.
外泌体是细胞囊泡的一种,由细胞内质网膜内陷形成,并分泌至细胞外。外泌体在形成过程中可以包裹进细胞内的核酸分子及蛋白质,并在细胞之间进行传递。由于外泌体表面蛋白的保护作用,外泌体内容物具有更好的稳定性。因此,外泌体内的lncRNA有望成为液体活检的新型标志物。前期的研究表明,外泌体lncRNA可用于非小细胞肺癌、胃癌等恶性肿瘤的无创诊断,但外泌体lncRNA用于食管鳞癌的诊断仍鲜有报道。Exosomes are a type of cell vesicles, which are formed by the invagination of the endoplasmic reticulum membrane and secreted outside the cell. During the formation of exosomes, nucleic acid molecules and proteins in cells can be packaged and transferred between cells. Due to the protective effect of exosome surface proteins, the exosome contents have better stability. Therefore, lncRNA in exosomes is expected to become a new marker for liquid biopsy. Previous studies have shown that exosomal lncRNA can be used for non-invasive diagnosis of malignant tumors such as non-small cell lung cancer and gastric cancer, but there are still few reports on the use of exosomal lncRNA in the diagnosis of esophageal squamous cell carcinoma.
发明内容Contents of the invention
本发明为了解决上述技术问题,提供了一种用于食管鳞癌诊断的外泌体lncRNA标志物组及其应用。In order to solve the above technical problems, the present invention provides an exosomal lncRNA marker group for the diagnosis of esophageal squamous cell carcinoma and its application.
本发明是采用以下技术方案得以实现的。The present invention is realized by adopting the following technical solutions.
一种用于食管鳞癌诊断的外泌体lncRNA标志物组,所述外泌体lncRNA标志物组由lncRNAAC098818.2、RASSF8-AS1、LINC00958组成。An exosomal lncRNA marker group for the diagnosis of esophageal squamous cell carcinoma, the exosomal lncRNA marker group consists of lncRNAAC098818.2, RASSF8-AS1, LINC00958.
一种基于上述外泌体lncRNA标志物组的诊断模型,所述诊断模型为EXPAC098818.2*0.74429+EXP LINC00958*1.24591+EXP RASSF8-AS1*1.27292。A diagnostic model based on the above exosome lncRNA marker group, the diagnostic model is EXPAC098818.2*0.74429+EXP LINC00958*1.24591+EXP RASSF8-AS1*1.27292.
一种上述外泌体lncRNA标志物组在制备诊断食管鳞癌产品中的应用。An application of the above-mentioned exosome lncRNA marker group in the preparation of products for diagnosing esophageal squamous cell carcinoma.
本申请具有以下有益效果。The application has the following beneficial effects.
本发明基于三个lncRNA分子建立了食管鳞癌的联合诊断模型,具有较高的诊断价值,且诊断效能优于传统血液肿瘤标志物,为食管鳞癌的无创筛查提供了新的指标。The present invention establishes a combined diagnostic model of esophageal squamous cell carcinoma based on three lncRNA molecules, which has high diagnostic value and better diagnostic performance than traditional blood tumor markers, and provides a new index for noninvasive screening of esophageal squamous cell carcinoma.
附图说明Description of drawings
图1是5个初步候选lncRNA在血清、组织以及细胞株中的定量检测结果图;Figure 1 is a diagram of the quantitative detection results of five preliminary candidate lncRNAs in serum, tissue and cell lines;
图2是本发明正常人和食管鳞癌患者的外泌体分离鉴定结果图(其中,A:外泌体电镜下形态特征图;B:外泌体粒径-浓度曲线图);Figure 2 is a diagram of the results of exosome isolation and identification of normal people and patients with esophageal squamous cell carcinoma of the present invention (Among them, A: Exosome morphological characteristics under the electron microscope; B: Exosome particle size-concentration curve);
图3是本发明外泌体lncRNA稳定性检测结果图(其中,A:外泌体lncRNA经不同环境温度处理后稳定性检测结果图;B:外泌体lncRNA经RNA酶处理后稳定性检测结果图;C:外泌体lncRNA经反复冻融处理后稳定性检测结果图;D:外泌体lncRNA经酸/碱处理后稳定性检测结果图);Figure 3 is a diagram of the stability detection results of exosome lncRNA of the present invention (Among them, A: the stability detection result diagram of exosome lncRNA after being treated at different environmental temperatures; B: the stability detection result of exosome lncRNA after RNase treatment Figure; C: Exosomal lncRNA stability test results after repeated freezing and thawing; D: Exosomal lncRNA stability test results after acid/alkali treatment);
图4是本发明外泌体lncRNA术前术后表达水平对比图;Figure 4 is a comparison chart of the expression level of exosome lncRNA before and after operation of the present invention;
图5是本发明训练集阶段的结果图(其中,A:食管鳞癌患者和健康人的外泌体lncRNA表达量对比图;B:Index I诊断模型的ROC曲线图;C:Index II诊断模型的ROC曲线图);Fig. 5 is the result graph of the training set stage of the present invention (among them, A: a comparison chart of exosomal lncRNA expression levels between patients with esophageal squamous cell carcinoma and healthy people; B: ROC curve graph of the Index I diagnostic model; C: Index II diagnostic model ROC curve graph);
图6是本发明验证集阶段的结果图(其中,A:食管鳞癌患者和健康人的外泌体lncRNA表达量对比图;B:Index I诊断模型的ROC曲线图;C:Index II诊断模型的ROC曲线图)。Fig. 6 is the result graph of the verification set stage of the present invention (Among them, A: comparison chart of exosomal lncRNA expression levels between patients with esophageal squamous cell carcinoma and healthy people; B: ROC curve graph of Index I diagnostic model; C: Index II diagnostic model ROC curve graph).
具体实施方式Detailed ways
以下结合实施例对本专利申请进行进一步的说明。Below in conjunction with embodiment this patent application is further described.
1.本发明对食管鳞癌患者与健康对照组差异表达的血清外泌体lncRNA进行了芯片筛查,经过严格筛选标准及大样本验证,最终获得由三个lncRNA组成的分子集合,即lncRNAAC098818.2、RASSF8-AS1、LINC00958。1. The present invention screened the serum exosomal lncRNA differentially expressed between patients with esophageal squamous cell carcinoma and the healthy control group. After strict screening criteria and large sample verification, a molecular set composed of three lncRNAs was finally obtained, namely lncRNAAC098818. 2. RASSF8-AS1, LINC00958.
其筛选流程为:1、分别收集食管鳞癌患者及健康对照的血清,每组各4例,每例2ml血清。提取血清外泌体,经透射电镜鉴定外泌体形态,并采取外泌体total RNA提取试剂盒提取外泌体RNA,经nanodrop分光光度计检测RNA质量,采用Arraystar公司的LncRNA_8×60k表达谱芯片对lncRNA进行表达谱定量检测,采用非配对T检验方法对食管鳞癌患者血清中异常表达的lncRNA进行筛选(FDR<0.005,Foldchange>2.0)。2、另外分别取5对食管鳞癌及正常食管上皮组织,研磨后经Trizol试剂提取组织中total RNA,同法进行食管鳞癌组织中lncRNA筛选,并采用配对T检验方法对异常表达的lncRNA进行筛选(FDR<0.005,Foldchange>2.0);3、取食管鳞癌患者血清与组织中异常表达的lncRNA交集,并以FDR<0.005,Foldchange>5.0为筛选条件,在此条件下获得5个在患者血清及癌组织中均上调表达的lncRNA AC098818.2,RASSF8-AS1,LINC00958,GMDS-DT,AL591721.1,确定为初步候选lncRNA;4、进一步在食管鳞癌与健康对照的血清样本(n=20/组,图1A),食管鳞癌组织与配对的正常食管上皮组织(n=30,图1B),以及食管鳞癌细胞株(TE1,TE13,KYSE150,KYSE140)及正常食管上皮细胞株Het-1A进行qRT-PCR验证(图1C)。结果表明,仅AC098818.2,RASSF8-AS1,LINC00958在食管鳞癌患者血清样本,食管鳞癌组织以及食管鳞癌细胞株中同时过表达,因此被确定为最终候选lncRNA。相关RNA提取方法及qRT-PCR定量检测方法见下文。The screening process is as follows: 1. Collect serum from patients with esophageal squamous cell carcinoma and healthy controls, 4 cases in each group, 2ml of serum in each case. Serum exosomes were extracted, the shape of exosomes was identified by transmission electron microscopy, and exosome RNA was extracted with an exosome total RNA extraction kit, and the quality of RNA was detected by a nanodrop spectrophotometer, and the LncRNA_8×60k expression profile chip of Arraystar Company was used The expression profile of lncRNA was quantitatively detected, and the abnormally expressed lncRNA in the serum of patients with esophageal squamous cell carcinoma was screened by unpaired T test (FDR<0.005, Foldchange>2.0). 2. In addition, 5 pairs of esophageal squamous cell carcinoma and normal esophageal epithelial tissues were taken respectively, and the total RNA in the tissues was extracted with Trizol reagent after grinding, and the lncRNA in the esophageal squamous cell carcinoma tissue was screened in the same way, and the abnormally expressed lncRNA was detected by the paired T test method. Screening (FDR<0.005, Foldchange>2.0); 3. Take the intersection of the abnormally expressed lncRNA in the serum and tissue of patients with esophageal squamous cell carcinoma, and use FDR<0.005, Foldchange>5.0 as the screening conditions, and obtain 5 lncRNAs in patients under this condition The up-regulated lncRNAs AC098818.2, RASSF8-AS1, LINC00958, GMDS-DT, AL591721.1 in both serum and cancer tissues were identified as preliminary candidate lncRNAs; 4. Further serum samples (n= 20/group, Figure 1A), esophageal squamous cell carcinoma tissue and paired normal esophageal epithelial tissue (n=30, Figure 1B), as well as esophageal squamous cell carcinoma cell lines (TE1, TE13, KYSE150, KYSE140) and normal esophageal epithelial cell line Het -1A was validated by qRT-PCR (Figure 1C). The results showed that only AC098818.2, RASSF8-AS1, and LINC00958 were overexpressed in the serum samples of esophageal squamous cell carcinoma patients, esophageal squamous cell carcinoma tissues and esophageal squamous cell carcinoma cell lines, so they were identified as the final candidate lncRNAs. See below for relevant RNA extraction methods and qRT-PCR quantitative detection methods.
候选lncRNA序列信息如下:Candidate lncRNA sequence information is as follows:
ENST00000564925.1(AC098818.2)(SEQ ID NO.1)ENST00000564925.1 (AC098818.2) (SEQ ID NO.1)
gacggttccggctcttgtcacgtggagggggaccaagggaggtgattgtggacggttccggctcttgtcacgtggagggggaccaagggaggtgattgtg
ggggttggggactagggcaaagtcgggggtcccgggtccggggttgcgccggggttggggactagggcaaagtcgggggtcccgggtccggggttgcgcc
gggagggtactggccaggcccgacttcaagcagggaggtggcccgggactgggagggtactggccaggcccgacttcaagcagggaggtggcccgggact
ggctcccgcgctggtcacgcaccggggtccgtcatctcgaccgggagtcgggctcccgcgctggtcacgcaccggggtccgtcatctcgaccgggagtcg
ctgtgccactctaggggcttaaaaatgccgccaacaactttacccctgctctgtgccactctaggggcttaaaaatgccgccaacaactttacccctgct
gaggaacttctcgcttcgtttcttagccagttttccaggccttctcccttgaggaacttctcgcttcgtttcttagccagttttccaggccttctccctt
gagagtctccttccgctcgcccaccctgagcgtaggaggtgggagcaggagagagtctccttccgctcgcccaccctgagcgtagggaggtgggagcagga
cggaactggagtggattccagtaactggacttctaaaccggctcggtgtccggaactggagtggattccagtaactggacttctaaaccggctcggtgtc
gtcgcgctctgtagcggacgcttgtgctgggaagcgttttgcagtttatagtcgcgctctgtagcggacgcttgtgctgggaagcgttttgcagtttata
aattacttaggagtactttaaacatctcacgcctgctgtaccacagccataattacttaggagtactttaaacatctcacgcctgctgtaccacagccat
gtgggggtattcagaacaggtattaaggtcgttttgcagaccattcatcagtgggggtattcagaacaggtattaaggtcgttttgcagaccattcatca
ctcttggctaaaagaacttaacggagtcgcccaaggtcacacagctggctctcttggctaaaagaacttaacggagtcgcccaaggtcacacagctggct
cgtggtaattggggaccattctttgattcataattttgtgcttttggccacgtggtaattggggaccattctttgattcataattttgtgcttttggcca
ccctgaaaaagtaaggtcagatcgttgaaaaacgggcagatttaaggctgccctgaaaaagtaaggtcagatcgttgaaaaacgggcagatttaaggctg
tttggaagcaaaagcgaccactgcgttcccctcaaatcaaagagatttgctttggaagcaaaagcgaccactgcgttcccctcaaatcaaagagatttgc
accccctaccaaaaaaaaaaaaaaaaaaaaaagccctgttgtatcaatttaccccctaccaaaaaaaaaaaaaaaaaaaaaagccctgttgtatcaattt
cataaactgcaggagtctcccgactgcagggtgaagcaacaaaataaatacataaactgcaggagtctcccgactgcagggtgaagcaacaaaataaata
tgggtgtaaaacattcaggagtggtagggaatggcaaactgtagagcctgtgggtgtaaaacattcaggagtggtagggaatggcaaactgtagagcctg
tgtaaagagagcagccaattctcagctccagcctacttttccacaaaagatgtaaagagagcagccaattctcagctccagcctacttttccacaaaaga
agataggcacacacactgtgcccagaggttccagtttcttaagagaaccaagataggcacacacactgtgcccagaggttccagtttcttaagagaacca
aaaacctggaactgttttctaatgtggcatttccctaatttttaaaatataaaacctggaactgttttctaatgtggcatttccctaatttttaaaatat
agatcaaataaattgtatctgcaggactccagtatgcaccttctatgaaaagatcaaataaattgtatctgcaggactccagtatgcaccttctatgaaa
gtagatgaatgtggttctatccccacccctatttctttattctttttaatgtagatgaatgtggttctatccccaccccctatttctttattctttttaat
gagataacgggtagaaacattagaaaatgtgcttagacaaaaactttgaagagataacgggtagaaacattagaaaatgtgcttagacaaaaactttgaa
cttaaaatccttgttctttcttccctgctatttgaagagaagctatttctcttaaaatccttgttctttcttccctgctatttgaagagaagctatttct
gccaacactaaaatagtgctctggatttaggcatttctgctacataacccgccaacactaaaatagtgctctggatttaggcattctgctacataaccc
actaaactaaaattcttcatccagagacctgacgtttaaagtagattccaactaaactaaaattcttcatccagagacctgacgtttaaagtagattcca
gcttagtggaagtgagattatatgtcagatgattgatgtggtgtggcagtgcttagtggaagtgagattatatgtcagatgattgatgtggtgtggcagt
tggggatttccatttagaaacaagctgaccactttcgttgctgtggggcttggggatttccattattagaaacaagctgaccactttcgttgctgtggggct
tcattgtggagtctcattcctaaatttgaattgttttttaagcagaataatcattgtggagtctcattcctaaatttgaattgttttttaagcagaataa
tggaaagattaagtcatttcatgcaattcaaaactggagtcagacaaacatggaaagattaagtcatttcatgcaattcaaaactggagtcagacaaaca
tacaaagtttgggcctgatataacttcacctgatcacaacaagcctgctatacaaagtttgggcctgatataacttcacctgatcacaacaagcctgcta
taataagtttcaaagttagtttacgaggatcacttgaggccaggagttcataataagtttcaaagttagtttacgaggatcacttgaggccaggaggttca
aaaccagcatggtcaacataacaagacctcatctctttaaaaaaaaaaaaaaaccagcatggtcaacataacaagacctcatctctttaaaaaaaaaaaaa
aaaaaaaattaaaaattagccaggtatggtggtggtgcacctgtaatcccaaaaaaaattaaaaattagccaggtatggtggtggtgcacctgtaatccc
agctactcaggaggctgaggcaggaggatcgcttgaaccaaggagttcaaagctactcaggaggctgaggcaggaggatcgcttgaaccaaggagttcaa
ggctgcagtgcgctatgatggcactggtgcactccaggctgggtgtctctggctgcagtgcgctatgatggcactggtgcactccaggctgggtgtctct
taaaaacaaacaaaagtttgaccagtcaaagtggcttgcacctataatcctaaaaacaaacaaaagtttgaccagtcaaagtggcttgcacctataatcc
cagcactttgggaagccgaggtgggtggattgcttgaactcaggagttcacagcactttgggaagccgaggtgggtggattgcttgaactcaggagttca
agaccaacctgggcaatatggtgagaccttccatctctatcaaaaatacaagaccaacctgggcaatatggtgagaccttccatctctatcaaaaataca
aaaattagctgggcttggtggggtggcgcaggcctgtggtccctgctactaaaattagctgggcttggtggggtggcgcaggcctgtggtccctgctact
tgggaagctgaggtgcgtggatcactggagccaaggaagtcgaggctgcatgggaagctgaggtgcgtggatcactggagccaaggaagtcgaggctgca
gtgagccatgatagcatcagctgcactccagcctggacaacagaggaagagtgagccatgatagcatcagctgcactccagcctggacaacagaggaaga
cactgtctctaagtaaataaataagtcaatttacaattaatgtggtaaagcactgtctctaagtaaataaataagtcaatttacaattaatgtggtaaag
attacttgtatgtaccaatgtaacttgacttttgatattgaaatgtataaattacktgtatgtaccaatgtaacttgacttttgatattgaaatgtataa
ttataataaatgtataattaaatgtgtaataatgtatagaccccctctgattataataaatgtataattaaatgtgtaataatgtatagaccccctctga
aagacgagggtaacaccaagENST00000545729.6(RASSF8-AS1)length=3188(SEQ IDNO.2)aaactcccttgccaaggacactgggaggaagcagaaaagcaaagaccaagctcgtacttttcagtccgcggcttgtgtgccgcgaggagaggcgcaaagggtgacacaccaggaaagcaggtagcaggcaagagtgtggttatcgttggaccaggattcaggatctgactgagtagctgactcttaatccagtttgtgttgatcaccaggaggatctggacctcagtattaccacatctagagctataatcacatccctgttaagccttcctgagatcacaccaaatgtccttgatgggaattgtaaacaacccttacttctggtttctaatgatattccaggaaaggagcctaactagagtcagtagaaggccatcctaggaaacaatcccatgagtgatgtttcatgaattatcttcgtgaaccggagcaagtcgctttgccttcctgaaccttctctgagatggaagggtgatctgaaaatatgcctcccgggtaaacctcagccctggctggcagatctggctggctaatgggactccccttttcctctccatggctcctgtgcctccccctcaagactgtgtgtattccaagaggactacattcccaggtggggtcgtattgttcttataatgaaggcttacagaatttcctcgaatgttgcatctagttttagcgttctgaatctgtgaatcacaaattagaattggtgcctttggaagaggagatgggacatgaagcctgctccaccttctgataatgccctaaagagcagctcaaaatacagctaaaagaacccagaaaacaaaataggtaagtcttgaagagagatcaacattaggaacacaatattcactgaatataattctgtggtctgttttatactttattttatgcattcactcctagtatttaatttatgtatcaatttctgagaattggtttccaaaaaagtcattatccagtgaactctattagtcactaaagctttataacaaataaattaacaaaacattgttaccctaagaaggaatagcctcttgtcacttgttgccccttggctctcaaaactggaaagtccacatgcttatagtggttatgatagtttatcaaactgaagaagaagcctgaacaacactccagtgattccagacacaagtagataatctattcagccccatgtagtttcagagagtaaacgaagataaggaaatttttttcttctcctcagggcagagatgtttttcagttcttcttcttttttttttttaatcttagcacttgatattcccttgggaagtgttggttacaacaaaacactatttattagaatccaagtatctgaaattaatcaaagatagattagcatgccagtgtcccctttcctcttttgttataaaagagcaatagtcattttactattgctaaatgtcatttacatttagtcatttactaaaaattagtaaaaaatttcttaatataagcataaagttacaaaggcaaagagaagatgtactggaaggtaaataggcgtggcagaggtttgaaaggctgttaggcactggattataatccttctagggtatggacaacatctgggtgttattttctctttcatagtcagttcagtactcactgtgcatgagaggtgcttgagtgagtctttgttagataaatgaaaagcaaattaatccacttttcagagctctcttcggagacctgagcctgaacaagacaattctctaaaagacagaatatttgggaatgaaaaataggacattagaagatgctgtttgttactttttaaatcccttttcatcctggctacgctaactctaccctcaagggcaggagaacagaggaccagagatggctccaggcaagttgtgagctgtgtggcatcagcatctgtctatagtggtgatgctggtgctgacatgtggtggtttatttaatctatttgggccccaatatctgcatgtgtaaaagggaatgatgataatgagtattttccaaaaaatatggttgaaggattaactgtatttgagatagagtaggcctcagttcgtgtcagctattagccttagtctgtctacaggaaccagaagtttcaggttgggagaagcctggccttttagtgagaagctttcttgtggtgggacaagatgttggtgtgagaccagaaactcagcctctcaggagcagaaaaagaggggactcgatgttctgctggtgattctgagatgagtgttaacatcagatgtggctgttagtccccagaaggacaaatataaatgtttccttcatgctcttctttgtttttgtttttggtttttgttccttctgctgataaatattcttactcagaggttattactgcaaataataataaaaaatactggtaaaccaggcctctgatgtgttattgttaaaaaaaaatcaatgttttattcacagtctgagtacagacttggctttattgttctgaaagaattctgcatggcagggcaggggctgagcaaaagattaatgttcaaaggatttattagtgttgactgtgagtatctgtttgtgtttgtctgtaaagttggcttggtagtcagaatgtatgggaaaaccttctaagagtcatatggcagcttttcaaaaactctgtagagctgggtacacaatttccctggactcactcccatctaagcagcctctatcagagggaccagagcagctgtaagatacctgttcaggacagatgtgcataggcctgaagcaggatactgcatcccaagcaaccacagactgccaagaaagtttcctgtcatggcacaacttaagctgaaaaaatagcatcacagcctgagctggaaggggtccgagagctgctatcatccaatcatccaatcccttcattttctagttgaggaatcaaatctacacatctctagcgacctgcccaagataatgcagctaattagggtcagagttaagatttgagacagaatacagaaatttttttttaaagccttctgtactgacatttgttttcattaaatttgataccacttctatcctttgtcaacttttatcgctgagaaataattaatgttgcaataagctggaatcaaagaaattggtgagagaaattgtgctgacatgtttggggttgtctttgtattctctgaaaccacENST00000658243.1(LINC00958)length=1814(SEQ ID NO.3)aagacgagggtaacaccaagENST00000545729.6 (RASSF8-AS1) length = 3188 (SEQ ID NO. 2) aaactcccttgccaaggacactggggaggaagcagaaaagcaaagaccaagctcgtacttttcagtccgcggcttgtgtgccgcgaggagaggcgcaaaggggtgacacaccag gaaagcaggtagcaggcaagagtgtggttatcgttggaccaggattcaggatctgactgagtagctgactcttaatccagtttgtgttgatcaccaggaggatctggacctcagtatttaccacatctagagctataatcacatccctgttaagccttcctgagatcacaccaaatgtccttgatgggaattgtaaacaacccttacttcttct ggtttctaatgatattccaggaaaggagcctaactagagtcagtagaaggccatcctaggaaacaatcccatgagtgatgtttcatgaattatcttcgtgaaccggagcaagtcgctttgccttcctgaaccttctctgagatggaagggtgatctgaaaatatgcctcccgggtaaacctcagccctggctggcagatctgg ctggctaatgggactccccttttcctctccatggctcctgtgcctccccctcaagactgtgtgtattccaagaggactacattcccaggtggggtcgtattgttcttataatgaaggcttacagaatttcctcgaatgttgcatctagttttagcgttctgaatctgtgaatcacaaattagaattggtgcctttggaagag gagatgggacatgaagcctgctccaccttctgataatgccctaaagagcagctcaaaatacagctaaaagaacccagaaaacaaaataggtaagtcttgaagagagatcaacattaggaacacaatattcactgaatataattctgtggtctgttttatactttatttttgcattcactcctagtatttaatttatgtatcaatttctgagaatt ggtttccaaaaaagtcattatccagtgaactctattagtcactaaagctttataacaaataaattaacaaaacattgttaccctaagaaggaatagcctcttgtcacttgttgccccttggctctcaaaactggaaagtccacatgcttatagtggttatgatagtttatcaaactgaagaagaagcctgaacaacact ccagtgattccagacacaagtagataatctattcagccccatgtagtttcagagagtaaacgaagataaggaaatttttttcttctcctcagggcagagatgtttttcagttcttcttcttttttttttttaatcttagcacttgatattcccttgggaagtgttggttacaacaaaacactatttttagaatcca agtatctgaaattaatcaaagatagattagcatgccagtgtcccctttcctcttttgttataaaagagcaatagtcattttactattgctaaatgtcatttacatttagtcatttactaaaaattagtaaaaaatttcttaatataagcataaagttacaaaggcaaagagaagatgtactggaaggtaaataggcgtggcaga ggtttgaaaggctgttaggcactggattataatccttctagggtatggacaacatctgggtgttattttctctttcatagtcagttcagtactcactgtgcatgagaggtgcttgagtgagtctttgttagataaatgaaaagcaaattaatccacttttcagagctctcttcggagacctgagcctgaacaagacaatt ctctaaaagacagaatatttgggaatgaaaaaataggacattagaagatgctgtttgttactttttaaatcccttttcatcctggctacgctaactctacccctcaagggcaggagaacagaggacgagatggctccaggcaagttgtgagctgtgtggcatcagcatctgtctatagtggtgatgctggtgctgacatgtggt ggtttattaatctatttgggccccaatatctgcatgtgtaaaagggaatgatgataatgagtattttccaaaaatatggttgaaggattaactgtatttgagatagagtaggcctcagttcgtgtcagctattagccttagtctgtctacaggaaccagaagtttcaggttgggagaagcctggccttttagtga gaagctttcttgtggtgggacaagatgttggtgtgagaccagaaactcagcctctcaggagcagaaaaagaggggactcgatgttctgctggtgattctgagatgagtgttaacatcagatgtggctgttagtccccagaaggacaaatataaatgtttccttcatgctcttctttgtttttgtttt tggtttttgttccttctgctgataaatattcttactcagaggttattactgcaaataataataaaaaatactggtaaaccaggcctctgatgtgttattgttaaaaaaaatcaatgttttatcacagtctgagtacagacttggcttattgttctgaaagaattctgcatggcagggcaggggctgagcaaaagat taatgttcaaaggatttattagtgttgactgtgagtatctgtttgtgtttgtctgtaaagttggcttggtagtcagaatgtatgggaaaaccttctaagagtcatatggcagcttttcaaaaactctgtagagctgggtacacaatttccctggactcactcccatctaagcagcctctatcagagggaccagagcag ctgtaagatacctgttcaggacagatgtgcataggcctgaagcaggatactgcatcccaagcaaccacagactgccaagaaagtttcctgtcatggcacaacttaagctgaaaaaaaagcatcacagcctgagctggaaggggtccgagagctgctatcatccaatcatccaatcccttcattttctagttgaggaatcaaatctacacatct ctagcgacctgcccaagataatgcagctaattagggtcagagttaagatttgagacagaatacagaaatttttttttaaagccttctgtactgacatttgttttcattaaatttgataccacttctatcctttgtcaacttttatcgctgagaaataattaatgttgcaataagctggaatcaaagaaattggtgagagaaattgt gctgacatgtttggggttgtctttgtattctctgaaaccacENST00000658243.1 (LINC00958) length = 1814 (SEQ ID NO. 3)
ctctctctctctcctgctgcattgtgaagaaactgcttgcttccctctcaccctctgcagctctctctctctcctgctgcattgtgaagaaactgcttgcttccctctcaccctctgcag
tttcctgaggcctccccagccatgcggaacgggagaaagtttaagctctcctcactatgatttcctgaggcctccccagccatgcggaacgggagaaagtttaagctctcctcactatga
gttttcaagtataaaagactttttcttccacgattttgagaacaactgaggactcttgtggttttcaagtataaaagactttttcttccacgattttgagaacaactgaggactcttgtg
accaggacaacagggaagcttgcagcaagatagctccaggttggattcatgcttcgcaccaccaggacaacagggaagcttgcagcaagatagctccaggttggattcatgcttcgcacc
ccaagggctgccagccagagaggaggagaagcaatcactcctgcagtttctgaacactacccaagggctgccagccagagaggggagaagcaatcactcctgcagtttctgaacactac
acagacgccaggtagcttcttcaggagaacagccctctgaggaggcaggaagaggaggctacagacgccaggtagcttcttcaggagaacagccctctgaggaggcaggaagaggaggct
tatctttcagcagccggagctgctgagatctctgggcagattaagctctctctaatggattatctttcagcagccggagctgctgagatctctgggcagattaagctctctctaatggat
gggctccagcctggcacattcagtggagagggatccactcatccatcatcaacataatatgggctccagcctggcacattcagtggagagggatccactcatccatcatcaacataatat
ggtcctccctgcacttcacagtgtcctcttgctattgaaaaggcttttttgccttctcaaggtcctccctgcacttcacagtgtcctcttgctattgaaaaggcttttttgccttctcaa
gtttctttgtcaacagtctacaggaagaagctcaggccgccaccggcagagaaccttccagtttctttgtcaacagtctacaggaagaagctcaggccgccaccggcagagaaccttcca
ctggccactcagcgaaaggcagctgattcagcacctggagaagaccggcaacagggctgactggccactcagcgaaaggcagctgattcagcacctggagaagaccggcaacagggctga
gtttccttgcactgcagaggaggggagaggcaaggagtggacatgagcacggaggatccagtttccttgcactgcagaggagggggagaggcaaggagtggacatgagcacggaggatcca
gggcactcccttgatggtgatgccctcgaagggctgccccgtgcccattgtacagaatgtgggcactcccttgatggtgatgccctcgaagggctgccccgtgcccattgtacagaatgt
ggattccaccccacgccatgagagctctcgcgcaggcccagaccactttataagccatatggattccaccccacgccatgagagctctcgcgcaggcccagaccactttataagccatat
ttcccaccaattcctgtttctggatctgtcaggttatttcatatttctaggcccttagctttcccaccaattcctgtttctggatctgtcaggttatttcatatttctaggcccttagct
ttgcttcctcttccctgaacgccctttgcccacatcatcccagctctccttctcctcctgttgcttcctcttccctgaacgccctttgcccacatcatccccagctctccttctccctcctg
ccttctgtcttctcttcctctcatttcttgtcacccaggctggagtccagtggcgtgatcccttctgtcttctcttcctctcatttcttgtcacccaggctggagtccagtggcgtgatc
acggctcactacagccttgaactcccgggctcaggtgatcctcccacctgagcctcccgaacggctcactacagccttgaactcccgggctcaggtgatcctcccacctgagcctcccga
gtagctgggactacagatgcacaccaccatgccagctaatttttaaaactgtttttaggggtagctgggactacagatgcacaccaccatgccagctaatttttaaaactgtttttaggg
atggggtcatcttcctgtgttgcccaggcttgtctcaaactcctgggctcaagtgatcctatggggtcatcttcctgtgttgcccaggcttgtctcaaactcctgggctcaagtgatcct
ctcacctcagccttccaaagtgctgggattacaggcatgagccacaacatccagccccttctcacctcagccttccaaagtgctgggattacaggcatgagccacaacatccagcccctt
ttctcttttcttacccttctttcctattttcttttccattttctttccctcccttcttctttctcttttcttacccttctttcctattttcttttccattttctttccctcccttcttct
ttctttcctaactattaaggagtagattgaattcaaggtctttatgtgtgtcagtttttgttctttcctaactattaaggagtagattgaattcaaggtctttatgtgtgtcagtttttg
ttttccaacaaatatttcttaaaaaccaaccattgaaacgtaatggtaaccactggccccttttccaacaaatatttcttaaaaaccaaccattgaaacgtaatggtaaccactggcccc
tgtctccacctccacacctaagaagccccaaatccagatgtgtccattaaaatcagtccatgtctccacctccaccacctaagaagccccaaatccagatgtgtccattaaaatcagtcca
gatcttctttaccaagccactagatgtcatattaatttcacagcagaatagggaagcccagatcttctttaccaagccactagatgtcatattaatttcacagcagaatagggaagccca
tgccggagctgaaaacctgcaacaacaaaaaagcatctaaatactgcaaaaaaaaaaaaatgccggagctgaaaacctgcaacaacaaaaaagcatctaaatactgcaaaaaaaaaaaaaa
aaaaagagggagagaggcatcttaatatttgtccttaacacatcataccagacttctgctaaaaagaggggagagaggcatcttaatatttgtccttaacacatcataccagacttctgct
tccaggaatgactggatgtggtttttctaggtggacataatacaaaatgcagctacctgatccaggaatgactggatgtggtttttctaggtggacataatacaaaatgcagctacctga
aaacaatggaaagtggacagagcaggcagattctggtgggaagtccacgcaataaagaaaaaacaatggaaagtggacagagcaggcagattctggtgggaagtccacgcaataaagaaa
agatgttacaggaaagatgttacaggaa
2.外泌体分离鉴定:取食管鳞癌患者及健康对照血清1.5ml,2000×g,4℃离心30min,上清液进一步10000×g,4℃离心45min。然后收集上清液并通过孔径为0.22μm的膜过滤。收集滤液,10000×g,4℃超速离心70min。将沉淀重悬于10ml预冷的1×PBS中,然后重复超速离心。最后,将沉淀物重新悬浮在1.5ml预冷的1×PBS中。使用透射电子显微镜(TEM)表征分离的外泌体。外泌体浓度-粒径测试(NTA)由Zeta View(Particle MetrixLtd.Germany)进行。2. Isolation and identification of exosomes: Take 1.5ml of serum from patients with esophageal squamous cell carcinoma and healthy controls, centrifuge at 2000×g, 4°C for 30 minutes, and then centrifuge the supernatant at 10,000×g, 4°C for 45 minutes. The supernatant was then collected and filtered through a membrane with a pore size of 0.22 μm. The filtrate was collected and ultracentrifuged at 10000×g for 70 min at 4°C. Resuspend the pellet in 10 ml of pre-chilled 1× PBS and repeat the ultracentrifugation. Finally, resuspend the pellet in 1.5 ml of pre-chilled 1× PBS. Isolated exosomes were characterized using transmission electron microscopy (TEM). Exosome concentration-size assay (NTA) was performed by Zeta View (Particle Metrix Ltd. Germany).
3.外泌体RNA提取:采用invitrogen公司的total exosome RNA isolation kit(货号:4478545),根据试剂盒提供的方案提取外泌体RNA,采用TAKARA公司的PrimeScriptRT Master Mix试剂盒合成cDNA,合成方案按照试剂盒的指示进行。目标lncRNA的定量采用TAKARA SYBRgreen试剂盒,结果计算公式:2-△t(t代表目标基因与参考基因到达阈值所需循环数之差,使用β-actin作为内参基因)。3. Exosome RNA extraction: use the total exosome RNA isolation kit from Invitrogen (Cat. No.: 4478545), extract exosome RNA according to the protocol provided by the kit, and synthesize cDNA using the PrimeScriptRT Master Mix kit from TAKARA. The synthesis protocol follows Kit instructions were carried out. The target lncRNA was quantified using the TAKARA SYBRgreen kit, and the calculation formula of the result was: 2 -△t (t represents the difference between the number of cycles required for the target gene and the reference gene to reach the threshold, using β-actin as the internal reference gene).
定量检测引物序列如下:Quantitative detection primer sequences are as follows:
AC098818.2F:GCAGGACGGAACTGGAGTGGAT(SEQ ID NO.4)AC098818.2F:GCAGGACGGAACTGGAGTGGAT (SEQ ID NO.4)
R:GTGGTACAGCAGGCGTGAGATG(SEQ ID NO.5)R: GTGGTACAGCAGGCGTGAGATG (SEQ ID NO. 5)
LINC00958 F:CTACACAGACGCCAGGTAGC(SEQ ID NO.6)LINC00958 F: CTACACAGACGCCAGGTAGC (SEQ ID NO. 6)
R:GCTCCGGCTGCTGAAAGATA(SEQ ID NO.7)R: GCTCCGGCTGCTGAAAGATA (SEQ ID NO. 7)
RASSF8-AS1 F:CTCCACCTTTGCCTTCCACCAT(SEQ ID NO.8)RASSF8-AS1 F:CTCCACCTTTGCCTTCCACCAT (SEQ ID NO.8)
R:GCCTCAAGCAATCCTTCCACCT(SEQ ID NO.9)R: GCCTCAAGCAATCCTTCCACCT (SEQ ID NO. 9)
β-ACTINF:GTCATTCCAAATATGAGATGCGT(SEQ ID NO.10)β-ACTINF:GTCATTCCAAATATGAGATGCGT (SEQ ID NO.10)
R:GCATTACATAATTTACACGAAAGCA(SEQ ID NO.11)R: GCATTACATAATTTACACGAAAGCA (SEQ ID NO. 11)
(1)逆转录反应(1) Reverse transcription reaction
1)去基因组DNA1) Remove genomic DNA
反应体系reaction system
反应条件:37℃,4minReaction conditions: 37°C, 4min
2)逆转录生成cDNA模板反应体系2) Reverse transcription to generate cDNA template reaction system
反应条件:37℃15分钟,85℃5秒Reaction conditions: 37°C for 15 minutes, 85°C for 5 seconds
(2)qPCR(2) qPCR
qPCR反应以β-actin作为内参基因qPCR reaction uses β-actin as an internal reference gene
反应体系reaction system
qRT-PCR程序设置qRT-PCR program settings
4.外泌体lncRNA稳定性检测:将15例食管鳞癌患者血清外泌体标本,分别经不同条件处理后,比较不同处理方式条件下,候选lncRNAs表达水平有无明显改变。处理条件包括:1)经不同环境温度处理(图3A),2)经RNA酶处理(图3B);3)样本经反复冻融处理(图3C);3)样本经酸/碱(HCl/NaOH)处理(图3D)。4. Stability detection of exosomal lncRNAs: Serum exosomes samples from 15 patients with esophageal squamous cell carcinoma were treated under different conditions to compare whether the expression levels of candidate lncRNAs changed significantly under different treatment conditions. Treatment conditions include: 1) treatment at different ambient temperatures (Fig. 3A), 2) treatment with RNase (Fig. 3B); 3) samples subjected to repeated freezing and thawing (Fig. 3C); 3) samples treated with acid/alkali (HCl/ NaOH) treatment (Figure 3D).
5.外泌体lncRNA术前术后表达水平对比:选择20例食管鳞癌患者,分别于术前及术后1月提取患者血清,遵照上述流程提取外泌体RNA,定量候选lncRNAs表达水平,比较患者术前与术后表达水平差异。结果如图4所示,三个候选lncRNAs在术后均出现了不同程度的表达水平下调。5. Comparison of expression levels of exosomal lncRNAs before and after surgery: 20 patients with esophageal squamous cell carcinoma were selected, and their serum was extracted before surgery and 1 month after surgery. Exosomal RNA was extracted according to the above procedure, and the expression levels of candidate lncRNAs were quantified The differences in the expression levels of patients before and after surgery were compared. The results are shown in Figure 4, the expression levels of the three candidate lncRNAs were down-regulated to varying degrees after surgery.
6.建立诊断模型(训练集阶段):在40例食管鳞癌患者及40例健康对照血清中,采用上述方法分离血清外泌体,提取外泌体RNA,逆转录生成cDNA,并经qRT-PCR法定量检测各lncRNA表达量,采用ROC曲线分析分别建立各个标志物的诊断模型,以及多个标志物的联合诊断模型。另根据检测的各个患者的血清肿瘤标志物数据,分别采用ROC分析计算每个肿瘤标志物独立用于食管鳞癌诊断的AUC值,以及多个肿瘤标志物联合应用后诊断食管鳞癌的AUC值。通过logistic回归分析赋予单个指标权重系数,并构建诊断模型公示。计算得到的诊断模型分别为Index I=EXP AC098818.2*0.74429+EXP LINC00958*1.24591+EXPRASSF8-AS1*1.272926. Establish a diagnostic model (training set stage): In the serum of 40 patients with esophageal squamous cell carcinoma and 40 healthy controls, the above method was used to isolate serum exosomes, extract exosomal RNA, reverse transcribe to generate cDNA, and perform qRT- PCR method was used to quantitatively detect the expression of each lncRNA, and ROC curve analysis was used to establish a diagnostic model for each marker and a combined diagnostic model for multiple markers. In addition, according to the detected serum tumor marker data of each patient, ROC analysis was used to calculate the AUC value of each tumor marker independently for the diagnosis of esophageal squamous cell carcinoma, and the AUC value of the combined application of multiple tumor markers for the diagnosis of esophageal squamous cell carcinoma . A single index weight coefficient is given through logistic regression analysis, and a diagnostic model is constructed for publicity. The calculated diagnostic models are Index I=EXP AC098818.2*0.74429+EXP LINC00958*1.24591+EXPRASSF8-AS1*1.27292
Index II=EXP CA125*9.66194+EXP CA153*0.047267+EXP CA199*0.033176+EXPCY211*0.0032795+EXP NSE*0.025847+EXP SCC*(-112.09409)Index II=EXP CA125*9.66194+EXP CA153*0.047267+EXP CA199*0.033176+EXPCY211*0.0032795+EXP NSE*0.025847+EXP SCC*(-112.09409)
其中Index I为基于外泌体lncRNA计算得到的诊断模型,Index II为基于肿瘤标志物得到的诊断模型。EXP:EXPRESSION,表达水平。Among them, Index I is a diagnostic model based on exosomal lncRNA calculations, and Index II is a diagnostic model based on tumor markers. EXP: EXPRESSION, expression level.
根据单个指标以及联合指标,计算得到两个诊断模型的AUC值分别为0.84和0.63,cut-off值分别为22.84和2.628。以上实验结果表明,lncRNA标志物联合诊断模型的诊断价值优于传统肿瘤标志物的诊断模型。According to single index and combined index, the AUC values of the two diagnostic models were calculated to be 0.84 and 0.63, and the cut-off values were 22.84 and 2.628, respectively. The above experimental results show that the diagnostic value of the combined diagnosis model of lncRNA markers is better than that of traditional tumor markers.
6.验证诊断模型(验证集阶段):6. Verify the diagnostic model (validation set stage):
在140例食管鳞癌患者及140例健康对照中,分别提取血清外泌体total RNA,分别进行定量检测目标lncRNA表达水平,利用训练集阶段建立的诊断模型Index I和Index II分别计算lncRNA联合以及传统肿瘤标志物联合诊断食管鳞癌的AUC值和95%CI,比较IndexI与Index II的优劣。实验结果显示,在验证集中,Index I仍然表现出了优于Index II的诊断价值。In 140 patients with esophageal squamous cell carcinoma and 140 healthy controls, the total RNA of serum exosomes was extracted, and the expression level of the target lncRNA was quantitatively detected. The AUC value and 95%CI of traditional tumor markers combined diagnosis of esophageal squamous cell carcinoma, and compared the advantages and disadvantages of Index I and Index II. The experimental results show that in the validation set, Index I still shows better diagnostic value than Index II.
本具体实施方式的实施例均为本发明的较佳实施例,并非依此限制本发明的保护范围,故:凡依本发明的结构、形状、原理所做的等效变化,均应涵盖于本发明的保护范围之内。The embodiments of this specific implementation mode are all preferred embodiments of the present invention, and are not intended to limit the protection scope of the present invention, so: all equivalent changes made according to the structure, shape and principle of the present invention should be covered by within the protection scope of the present invention.
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