common altered epigenomic domains in cancer cells characterization and subtle variations常见的外遗传性改变域癌细胞特征和微妙的变化.pdfVIP

Cancers 2011, 3, 1996-2013; doi:10.3390/cancers3021996 OPEN ACCESS cancers ISSN 2072-6694 /journal/cancers Article Common Altered Epigenomic Domains in Cancer Cells: Characterization and Subtle Variations Yi-Chien Tsai 1,†, Chun-Hui Chiao 1,†, Ian Yi-Feng Chang 3, Dow-Tien Chen 2, Tze-Tze Liu 2, Kate Hua 2, Chuan-Hsiung Chang 3 and Ming-Ta Hsu 1,2,* 1 Institute of Molecular Biology and Biochemistry, National Yang Ming University, No.155, Sec.2, Linong Street, Taipei, 112 Taiwan; E-Mails: eva@.tw (Y.C.T.); ann.tw (C.H.C.) 2 VGH-YM Genome Center, National Yang Ming University, No.155, Sec.2, Linong Street, Taipei, 112 Taiwan; E-Mails: dtchen@.tw (D.T.C.); ttliu@.tw (T.T.L.); katherine_hua@ (K.H.) 3 Institute of Biomedical Informatics, National Yang Ming University, No.155, Sec.2, Linong Street, Taipei, 112 Taiwan; E-Mails: cif077@.tw (I.Y.F.C.); cchang@.tw (C.H.C.) † These authors contribute equally to this work. * Author to whom correspondence should be addressed; E-Mail: mth@.tw; Tel.: +886-2-2827-5657 ext. 5663. Received: 9 February 2011; in revised form: 22 March 2011 / Accepted: 1 April 2011 / Published: 18 April 2011 Abstract: We have previously identified large megabase-sized hypomethylated zones in the genome of the breast cancer cell line MCF-7 using the TspRI-ExoIII technique. In this report, we used a more convenient high throughput method for mapping the hypomethylated zones in a number of human tumor genomes simultaneously. The method was validated by the bisulfite sequencing of 39 r