Cancer stem cells are a small population of tumor cells with self-renewal and differentiation capacity, and have been isolated from many types of cancers including stomach. However, the molecular mechanisms underlying the self-renewal and tumorigenic potential of cancer stem cells are poorly understood. To understand the molecular characteristics of gastric cancer stem cells (GCSC), we performed five kinds of experiments including genomic (Exome-seq and Affymetrix SNP 6.0 array), transcriptomic (RNA-seq and small RNA-seq), and epigenomic (MBD-seq) analyses on GCSC, non-gastric cancer stem cells (non-GCSC), and normal tissues from three gastric cancer patients. Among the five data sets, miRNA changes were most significant between GCSC and non-GCSC showing that 39.4% of miRNAs were down-regulated and 1.25% of miRNAs were up-regulated in GCSC compared with non-GCSC. In RNA-seq, 217 (0.93%) genes were up-regulated while 470 (2.02%) genes were down-regulated. Gene-set analysis revealed that development-associated biological processes such as epidermis development and ectoderm development were most enriched terms. In MBD-seq, there were 2.80% of hypermethylated and 2.38% of hypomethylated genes in GCSC compared with non-GCSC. Detailed lists of genes, gene-sets and biological pathways that distinguish GCSC from non-GCSC will be presented and discussed.

Citation Format: Seon-Young Kim, Su-Jin Baek, Myoung-Eun Han, Hee-Jin Kim, Jeong-Hwan Kim, Sae-Ock Oh. Genomic, transcriptomic, and epigenomic analyses of gastric cancer stem cells. [abstract]. In: Proceedings of the 105th Annual Meeting of the American Association for Cancer Research; 2014 Apr 5-9; San Diego, CA. Philadelphia (PA): AACR; Cancer Res 2014;74(19 Suppl):Abstract nr 3052. doi:10.1158/1538-7445.AM2014-3052