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| Status |
Public on Feb 29, 2016 |
| Title |
Loss of 5-hydroxymethylcytosine is linked to gene body hypermethylation in kidney cancer |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
Methylation profiling by high throughput sequencing
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| Summary |
Aberrant DNA methylation is common in cancer.
To associate DNA methylation with gene function, we performed RNAseq upon tumor tissue and matched normal tissues of two ccRCC (clear cell renal cell carcinoma) patients.
To quantify 5mC and 5hmC level in each CG site at genome-wide level, we performed BS-seq and TAB-seq upon tumor tissue and matched normal tissues of two ccRCC (clear cell renal cell carcinoma) patients, respectively.
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| Overall design |
mRNA profiles of tumor and matched normal tissues from two ccRCC patients were generated by deep sequencing, using Hiseq 2000.
Single-nucleotide-resolution, whole-genome, 5mC and 5hmC profiles of tumor and matched normal tissues from two ccRCC (clear cell renal cell carcinoma) patients were generated by deep sequencing, using Hiseq 2000.
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| |
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| Contributor(s) |
Zhang J, Chen K |
| Citation(s) |
26680004 |
| |
| Submission date |
Nov 12, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Jing Zhang |
| E-mail(s) |
henry.jingzhang@gmail.com
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| Organization name |
Columbia University Medical Center
|
| Street address |
1130 St Nicholas Ave ICRC, room403
|
| City |
Beijing |
| ZIP/Postal code |
10032 |
| Country |
USA |
| |
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| Platforms (1) |
| GPL11154 |
Illumina HiSeq 2000 (Homo sapiens) |
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| Samples (12)
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| Relations |
| BioProject |
PRJNA266915 |
| SRA |
SRP049710 |
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