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| Status |
Public on Jul 01, 2014 |
| Title |
Promoter methylome and integrative transcriptome profiling identify key epigenetics-regulated genes in human HCCs [expression] |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Hepatocellular carcinoma (HCC) is one of the most common and lethal cancers worldwide and has a poor prognosis. Promoters represent an essential regulatory element of gene transcription in human genome. In order to understand the promoter methylation in relation with gene transcription in HCCs, We applied a liquid hybridization capture-based bisulfite sequencing (LHC-BS) approach to examine the promoter methylome of HCCs, for which we customized 150,407 capture probes and enabled coverage of 91.8% of the RefSeq gene promoters within human genome. We found the differential promoter DNA methylation between HCCs and peripheral normal tissues. Then we integrated promoter methylomic and transcriptomic profiling and described gene expression and regulation in HCCs. Lastly, We validated the key genes in larger number of samples and screened candidate genes aberrantly regulated by DNA methylation in human HCCs.
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| |
|
| Overall design |
RNA-seq for 8 pairs of HCC tumor and non-tumor liver (NTL) samples.
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| |
|
| Contributor(s) |
Gao F, Lu H |
| Citation(s) |
26300991 |
| Submission date |
Mar 10, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Desheng Gong |
| E-mail(s) |
gds19870718@163.com
|
| Organization name |
Agricultural Genomes Institute at Shenzhen
|
| Street address |
No.7 PengFei road
|
| City |
Shenzhen |
| ZIP/Postal code |
518120 |
| Country |
China |
| |
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| Platforms (1) |
| GPL9052 |
Illumina Genome Analyzer (Homo sapiens) |
|
| Samples (16)
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| This SubSeries is part of SuperSeries: |
| GSE55759 |
Promoter methylome and integrative transcriptome profiling identify key epigenetics-regulated genes in human HCCs |
|
| Relations |
| BioProject |
PRJNA240900 |
| SRA |
SRP039694 |
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