Xiong Jie, Bing Zhitong, Guo Shengyu
Department of Epidemiology and Health Statistics, XiangYa School of Public Health, Central South University, Changsha 410078, China.
Department of Computational Physics, Institute of Modern Physics of Chinese Academy of Sciences, Lanzhou 730000, China.
Cancers (Basel). 2019 Feb 26;11(3):280. doi: 10.3390/cancers11030280.
To drive high-quality omics translational research using The Cancer Genome Atlas (TCGA) data, a TCGA Pan-Cancer Clinical Data Resource was proposed. However, there is an out-of-step issue between clinical outcomes and the omics data of TCGA for skin cutaneous melanoma (SKCM), due to the majority of metastatic samples. In clinical cases, the survival time started from the initial SKCM diagnosis, while the omics data were characterized at TCGA sampling. This study aimed to address this issue by proposing an observed survival interval (OBS), which was defined as the time interval from TCGA sampling to patient death or last follow-up. We compared the OBS with the usual recommended overall survival (OS) by associating them with both clinical data and microRNA sequencing data of TCGA-SKCM. We found that the OS of primary SKCM was significantly shorter than that of metastatic SKCM, while the opposite happened if OBS was compared. OS was associated with the pathological stage of both primary and metastatic SKCM, while OBS was associated with the pathological stage of primary SKCM but not that of metastatic SKCM. Five previously cross-validated survival-associated microRNAs were found to be associated with the OBS rather than OS in metastatic SKCM. Thus, the OBS was more appropriate for associating microRNA-omics data of TCGA-SKCM than OS, and it is a timely supplement to TCGA Pan-Cancer Clinical Data Resource.
为了利用癌症基因组图谱（TCGA）数据推动高质量的组学转化研究，人们提出了一个TCGA泛癌临床数据资源库。然而，由于大多数样本是转移性的，皮肤黑色素瘤（SKCM）的临床结局与TCGA的组学数据之间存在不同步的问题。在临床病例中，生存时间从SKCM的初始诊断开始计算，而组学数据是在TCGA采样时进行特征描述的。本研究旨在通过提出一个观察到的生存间隔（OBS）来解决这个问题，该间隔被定义为从TCGA采样到患者死亡或最后一次随访的时间间隔。我们将OBS与通常推荐的总生存期（OS）进行比较，方法是将它们与TCGA-SKCM的临床数据和微小RNA测序数据相关联。我们发现，原发性SKCM的OS明显短于转移性SKCM的OS，而如果比较OBS，则情况相反。OS与原发性和转移性SKCM的病理分期相关，而OBS仅与原发性SKCM的病理分期相关，与转移性SKCM的病理分期无关。在转移性SKCM中，发现五个先前经过交叉验证的与生存相关的微小RNA与OBS相关，而不是与OS相关。因此，与OS相比，OBS更适合于关联TCGA-SKCM的微小RNA组学数据，并且它是对TCGA泛癌临床数据资源库的及时补充。
