|
| Status |
Public on Dec 23, 2015 |
| Title |
Patient D098 |
| Sample type |
RNA |
| |
|
| Source name |
Peripheral blood
|
| Organism |
Homo sapiens |
| Characteristics |
diagnosis: Juvenile myelomonocytic leukemia (JMML)
lin28b: low
|
| Treatment protocol |
No treatment protocol
|
| Growth protocol |
No growth protocol
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Mononuclear cells and RNA were isolated with slightly different methods in distinct labs. Overall, RNA was extracted from stored, frozen cells using Trizol.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 100ng of Total RNA.
|
| |
|
| Hybridization protocol |
Following fragmentation, 11 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
|
| Scan protocol |
GeneChips were scanned using the Scan GCS3000.
|
| Description |
Gene expression data from juvenile myelomonocytic leukemia samples at diagnosis
|
| Data processing |
The data were normalized using R software [www.r-ptoject.org] with BioConductor package [www.bioconductor.org] using RMA and removal batch effect were applied using ComBat in the sva package
|
| |
|
| Submission date |
Aug 11, 2015 |
| Last update date |
Dec 24, 2015 |
| Contact name |
silvia bresolin |
| E-mail(s) |
silvia.bresolin@unipd.it
|
| Phone |
+390498215487
|
| Organization name |
università di padova
|
| Department |
department of women's and children's health
|
| Lab |
SSD ematologia-clinica sperimentale
|
| Street address |
via giustiniani 3
|
| City |
padova |
| State/province |
padova |
| ZIP/Postal code |
35128 |
| Country |
Italy |
| |
|
| Platform ID |
GPL570 |
| Series (1) |
| GSE71935 |
Gene expression profiling in 38 JMML patients and 9 healthy donors (Validation cohort) |
|
| Relations |
| Reanalysis of |
GSM371815 |
