Profiling miRNAs in nasopharyngeal carcinoma FFPE tissue by microarray and Next Generation Sequencing.
Profiling miRNAs in nasopharyngeal carcinoma FFPE tissue by microarray and Next Generation Sequencing.
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通过微阵列和下一代测序分析鼻咽癌 FFPE 组织中的 miRNA。
DOI：
10.1016/j.gdata.2014.08.005
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发表时间：
2014
期刊：
影响因子：
--
通讯作者：
Plieskatt,JordanL
中科院分区：
文献类型：
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作者：
Peng,Jin;Feng,Yanjun;Rinaldi,Gabriel;Levine,Paul;Easley,Samantha;Martinez,Elizabeth;Hashmi,Salman;Sadeghi,Nader;Brindley,PaulJ;Mulvenna,JasonP;Bethony,JeffreyM;Plieskatt,JordanL
鼻咽癌（NPC）是一种非淋巴瘤性鳞状细胞癌，发生在鼻咽上皮衬里。鼻咽癌在世界范围内有明确的地理分布，中国、东南亚和北方非洲的患病率最高。新生NPC的症状可能不明显或轻微，诊断基于鼻咽内窥镜检查后活检组织的组织病理学。肿瘤淋巴结转移（TNM）分期系统是判断鼻咽癌预后和指导治疗策略的基准。然而，有一个共识，即TNM系统对NPC的预后没有足够的特异性，因为它不能反映这种肿瘤的生物异质性，使另一种用于检测NPC的生物标志物成为优先事项。我们之前已经报道了通过靶向（微阵列）和非靶向（小RNA-Seq）发现平台发现福尔马林固定石蜡包埋（FFPE）NPC组织样本的microRNA（miRNA）生物标志物的不同方法。两个miRNA发现平台产生了类似的结果，将miRNA特征缩小到已知成熟人类miRNA的1-5%，其中非靶向（小RNA-Seq方法）具有指示与NPC相关的“未知”miRNA的优势。这两种miRNA谱与NPC密切相关，为NPC生物标志物签名提供了两个潜在的发现平台。在此，我们提供了我们用于询问FFPE样品以发现NPC生物标志物的方法的详细描述。
Nasopharyngeal carcinoma (NPC) is a non-lymphomatous, squamous-cell carcinoma that occurs in the epithelial lining of the nasopharynx. Nasopharyngeal carcinoma has a geographically well-defined distribution worldwide, with the highest prevalence in China, Southeast Asia, and Northern Africa. Symptoms of nascent NPC may be unapparent or trivial, with diagnosis based on the histopathology of biopsied tissue following endoscopy of the nasopharynx. The tumor node metastasis (TNM) staging system is the benchmark for the prognosis of NPC and guides treatment strategy. However, there is a consensus that the TNM system is not sufficiently specific for the prognosis of NPC, as it does not reflect the biological heterogeneity of this tumor, making another biomarker for the detection of NPC a priority. We have previously reported on different approaches for microRNA (miRNA) biomarker discovery for Formalin Fixed Paraffin Embedded (FFPE) NPC tissue samples by both a targeted (microarray) and an untargeted (small RNA-Seq) discovery platform. Both miRNA discovery platforms produced similar results, narrowing the miRNA signature to 1–5% of the known mature human miRNAs, with untargeted (small RNA-Seq approach) having the advantage of indicating “unknown” miRNAs associated with NPC. Both miRNA profiles strongly associated with NPC, providing two potential discovery platforms for biomarker signatures for NPC. Herein, we provide a detailed description of the methods that we used to interrogate FFPE samples to discover biomarkers for NPC.