|
| Status |
Public on Feb 16, 2012 |
| Title |
Tumor ID 18 |
| Sample type |
genomic |
| |
|
| Source name |
glioma
|
| Organism |
Homo sapiens |
| Characteristics |
tissue type: frozen tissue for primary tumor
cell type: glioma
status: CIMP-
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
The genomic DNA was extracted from snap-frozen sections from the breast cancer patients by using a DNeasy Tissue kit (Qiagen)
|
| Label |
Biotin
|
| Label protocol |
Standard Illumina protocol for Human Methylation27 DNA Analysis bead chip
|
| |
|
| Hybridization protocol |
bisulphite converted DNA was amplified, fragmented and hybridised to Illumina Infinium Human Methylation27 Beadchip using standard Illumina protocol
|
| Scan protocol |
Arrays were imaged using BeadArray Reader using standard recommended Illumina scanner setting
|
| Description |
mskcc bank number s4
|
| Data processing |
data was normalized and analyzed using partek software and R packages. Specifically centered logit transformation was used for data normalization.
|
| |
|
| Submission date |
Jun 30, 2011 |
| Last update date |
Mar 05, 2012 |
| Contact name |
FANG FANG |
| E-mail(s) |
fangf100088@gmail.com
|
| Phone |
646-8882783
|
| Fax |
646-8882595
|
| Organization name |
Memorial Sloan-Kettering Cancer Center
|
| Department |
The Human Oncology and Pathogenesis Program
|
| Lab |
Timothy Chan
|
| Street address |
1275 York Avenue
|
| City |
New York |
| State/province |
NY |
| ZIP/Postal code |
10065 |
| Country |
USA |
| |
|
| Platform ID |
GPL13534 |
| Series (2) |
| GSE30338 |
Methylation analysis of 81 glioma clinical samples (49 CIMP+ and 32 CIMP-) and 53 cell line samples |
| GSE30339 |
IDH1 Mutation is a Master Regulator of Epigenomic Remodeling and is Sufficient to Establish the Glioma Hypermethylator Phenotype |
|
