The evolving transcriptome of head and neck squamous cell carcinoma: a systematic review.
The evolving transcriptome of head and neck squamous cell carcinoma: a systematic review.
复制标题
DOI：
10.1371/journal.pone.0003215
复制
发表时间：
2008-09-15
期刊：
影响因子：
3.7
通讯作者：
Chang, Kuo-Wei
中科院分区：
文献类型：
--
作者：
Yu, Yau-Hua;Kuo, Hsu-Ko;Chang, Kuo-Wei
许多研究从头颈部鳞状细胞癌（HNSCC）的基因表达谱中阐明了肿瘤发生和转移的机制。本综述的目的是进行基于网络的荟萃分析，以确定HNSCC转录组的潜在生物学特征。我们纳入了63项HNSCC转录组学研究，分为三大类：癌前、癌前病变与正常；TvN，原发肿瘤vs .正常；转移性或侵袭性肿瘤与原发肿瘤的对比。从文献中提取已报道的基因进行系统分析。参与三个进展阶段的差异基因活动解释了HNSCC的进化性质。总共有1442个基因被验证，即至少报告了两次，其中ECM1、EMP1、CXCL10和POSTN在所有三个阶段都被高度报道。构建了基于知识的HNSCC转录组网络，显示整合素信号通路和抗原递呈通路高度富集。值得注意的是，从整合素信号网络的拓扑特征中得出的功能估计确定了ITGA3和ITGA5等重要基因，这得到了体外侵袭性研究结果的支持。此外，我们分别计算了Pre、TvN和Meta阶段报告差异基因活动的全基因组概率。结果突出了6p21、19p13和19q13的染色体区域，这些区域的基因组改变被证明与HNSCC的淋巴结状态相关。通过基于网络的meta分析的系统生物学方法，我们对HNSCC转录组的进化性质有了更深入的了解。丰富的典型信号通路，基因组转录谱的热点，以及从网络分析中得到的拓扑上重要的基因，分别在三个进展阶段，Pre， TvN和Meta中得到突出显示。
Numerous studies were performed to illuminate mechanisms of tumorigenesis and metastases from gene expression profiles of Head and Neck Squamous Cell Carcinoma (HNSCC). The objective of this review is to conduct a network-based meta-analysis to identify the underlying biological signatures of the HNSCC transcriptome. We included 63 HNSCC transcriptomic studies into three specific categories of comparisons: Pre, premalignant lesions v.s. normal; TvN, primary tumors v.s. normal; and Meta, metastatic or invasive v.s. primary tumors. Reported genes extracted from the literature were systematically analyzed. Participation of differential gene activities across three progressive stages deciphered the evolving nature of HNSCC. In total, 1442 genes were verified, i.e. reported at least twice, with ECM1, EMP1, CXCL10 and POSTN shown to be highly reported across all three stages. Knowledge-based networks of the HNSCC transcriptome were constructed, demonstrating integrin signaling and antigen presentation pathways as highly enriched. Notably, functional estimates derived from topological characteristics of integrin signaling networks identified such important genes as ITGA3 and ITGA5, which were supported by findings of invasiveness in vitro . Moreover, we computed genome-wide probabilities of reporting differential gene activities for the Pre, TvN, and Meta stages, respectively. Results highlighted chromosomal regions of 6p21, 19p13 and 19q13, where genomic alterations were shown to be correlated with the nodal status of HNSCC. By means of a systems-biology approach via network-based meta-analyses, we provided a deeper insight into the evolving nature of the HNSCC transcriptome. Enriched canonical signaling pathways, hot-spots of transcriptional profiles across the genome, as well as topologically significant genes derived from network analyses were highlighted for each of the three progressive stages, Pre, TvN, and Meta, respectively.
登录
查看更多内容
影响因子：
11.5
作者：
Vachani, Anil;Nebozhyn, Michael;Showe, Louise C.
通讯作者：
Showe, Louise C.
影响因子：
254.7
作者：
Parkin, DM;Bray, F;Pisani, P
通讯作者：
Pisani, P
网络建模将乳腺癌易感性与中心体功能障碍联系起来
影响因子：
30.8
作者：
Pujana, Miguel Angel;Han, Jing-Dong J.;Vidal, Marc
通讯作者：
Vidal, Marc
影响因子：
30.8
作者：
Segal, E;Friedman, N;Koller, D
通讯作者：
Koller, D
影响因子：
64.8
作者：
Koebel, Catherine M.;Vermi, William;Schreiber, Robert D.
通讯作者：
Schreiber, Robert D.