Research Project
Grant-in-Aid for Scientific Research (C)
Here, we performed the high-resolution study of 5'-end transcriptome and DNA methylation state of genome in a human colon cancer cell line, HT-29 treated with a HDACi, trichostatin A(TSA) by using next-generation sequencer. More than 20 million 25 base 5'-end tags were obtained from two libraries and matched to the human genome. The expression of 2, 426 genes, which corresponded to 16% of all expressed genes in a single cell type, differed significantly between the control and TSA-treated cells. Next, when we analyzed the functional relationship between their differential expression and the DNA methylation of associated genes by using newly developed MSDS, change of gene expression by TSA did not correlate with genome-wide of DNA methylation status, suggesting that demethylation limited sites may be specifically regulated by TSA leading to be change of particular genes.
All 2011 2010 2009
All Journal Article (11 results) (of which Peer Reviewed: 11 results) Presentation (4 results)
Genomics
Volume: 98 Pages: 280-287
Genome Res
Volume: 21 Pages: 775-789
Genome Research
Volume: 95 Pages: 217-223
120002086414
Nucleic Acids Res
Volume: 37 Pages: 2249-2263
Science
Volume: 323 Pages: 401-404
Genome Res 19
Pages: 1309-1315
PLoS One 4
PLoS ONE 4
Science 323
Pages: 401-404
Nucleic Acids Res 37
Pages: 2249-2263