Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100029, China.
World J Gastroenterol. 2011 Apr 7;17(13):1710-7. doi: 10.3748/wjg.v17.i13.1710.
To develop a prognostic gene set that can predict patient overall survival status based on the whole genome expression analysis.
Using Illumina HumanWG-6 BeadChip followed by semi-supervised analysis, we analyzed the expression of 47,296 transcripts in two batches of gastric cancer patients who underwent surgical resection. Thirty-nine samples in the first batch were used as the training set to discover candidate markers correlated to overall survival, and thirty-three samples in the second batch were used for validation.
A panel of ten genes were identified as prognostic marker in the first batch samples and classified patients into a low- and a high-risk group with significantly different survival times (P = 0.000047). This prognostic marker was then verified in an independent validation sample batch (P = 0.0009). By comparing with the traditional Tumor-node-metastasis (TNM) staging system, this ten-gene prognostic marker showed consistent prognosis results. It was the only independent prognostic value by multivariate Cox regression analysis (P = 0.007). Interestingly, six of these ten genes are ribosomal proteins, suggesting a possible association between the deregulation of ribosome related gene expression and the poor prognosis.
A ten-gene marker correlated with overall prognosis, including 6 ribosomal proteins, was identified and verified, which may complement the predictive value of TNM staging system.
基于全基因组表达分析，开发一种能够预测患者总生存状态的预后基因集。
使用 Illumina HumanWG-6 BeadChip 并进行半监督分析，我们分析了两批接受手术切除的胃癌患者的 47296 个转录本的表达。第一批中的 39 个样本被用作训练集，以发现与总生存相关的候选标记物，第二批中的 33 个样本用于验证。
在第一批样本中，一组十个基因被确定为预后标记物，并将患者分为低风险和高风险组，生存时间有显著差异（P = 0.000047）。该预后标记物随后在独立的验证样本批次中得到验证（P = 0.0009）。与传统的肿瘤-淋巴结-转移（TNM）分期系统相比，该十基因预后标记物显示出一致的预后结果。它是多变量 Cox 回归分析的唯一独立预后价值（P = 0.007）。有趣的是，这十个基因中有六个是核糖体蛋白，这表明核糖体相关基因表达的失调与预后不良之间可能存在关联。
鉴定并验证了与总预后相关的十个基因标记物，其中包括 6 个核糖体蛋白，这可能补充了 TNM 分期系统的预测价值。
