|
| Status |
Public on Sep 21, 2011 |
| Title |
UPN9 |
| Sample type |
genomic |
| |
|
| Source name |
UPN9
|
| Organism |
Homo sapiens |
| Characteristics |
age: 45
aml type: de novo AML
2 year overall survival: n
2 year progression free survival: n
complete remission (cr): y
npm1 status: Mut
|
| Treatment protocol |
EZ methylation kit
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Ficoll separated fresh AML cells from diagnostic bone marrow samples were collected. DNA was extracted with the Dneasy kit(Qiagen)
|
| Label |
biotin
|
| Label protocol |
Standard Illumina Protocol
|
| |
|
| 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.
|
| Data processing |
The beta values are formatted for use with BeadStudio software v3.2 and Genesis (TU Graz), meaning that -0.5 equals no methylation and +0.5 full methylation on a linear scale. Samples are mean normalized using Genesis.
|
| |
|
| Submission date |
Sep 20, 2011 |
| Last update date |
Sep 21, 2011 |
| Contact name |
Stefan Deneberg |
| Phone |
+46858580000
|
| Organization name |
Karolinska Institutet
|
| Department |
Internal medicine/Huddinge
|
| Lab |
Hematology
|
| Street address |
M54
|
| City |
Stockholm |
| ZIP/Postal code |
14186 |
| Country |
Sweden |
| |
|
| Platform ID |
GPL8490 |
| Series (2) |
| GSE32251 |
Prognostic DNA Methylation Patterns in Cytogenetically Normal Acute Myeloid Leukemia are predefined by Stem Cell Chromatin Marks [methylation] |
| GSE32252 |
Prognostic DNA Methylation Patterns in CN-AML; a genome wide methylation and gene expression study |
|
