|
| Status |
Public on Jul 24, 2010 |
| Title |
neurosphere P1.1 |
| Sample type |
RNA |
| |
|
| Source name |
MPSIIIB neural stem cell
|
| Organism |
Homo sapiens |
| Characteristics |
disease state: MPSIIIB
cell type: neural stem cells derived from MPSIIIB iPS cells and cultured as neurospheres
|
| Treatment protocol |
Not applicable
|
| Growth protocol |
iPSc clones were collected as small clusters after collagenase type IV treatment. Clusters were resuspended in DMEM/F12 supplemented with 2%B27, 100ng/mL FGF2, 100ng/mL EGF and 5µg/mL Heparin and cultured as neurospheres for a minimum of 2 weeks.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using Rneasy Kit according to manufacturer recommendations.
|
| Label |
biotin
|
| Label protocol |
Samples were enzymatically fragmented and biotinylated using the WT Terminal Labeling Kit (Affymetrix)
|
| |
|
| Hybridization protocol |
Samples were hybridized using Affymetrix hybridization kit materials • Heat cocktails at 99° for 5 minutes, then 42° for 5 minutes centrifuge at max speed for 1 minute (N.B. this deviates from Affy SOP). • Transfer 200μl of hyb solution to each array, then tape holes and parafilm. • Hybridize 16 hours at 45° at 60rpm• Fluidics washing is FS450_0001
|
| Scan protocol |
Affymetrix Gene ChIP Scanner 3000 7G
|
| Description |
neural stem cells derived from MPSIIIB iPS cells
|
| Data processing |
Data were processed using EASANA from GenoSplice technology. GC background correction were applied to probe intensities (core), gene level expression were summarized from the corrected intensities and then quantile normalized.
probe group file: HuEx-1_0-st-v2.r2.pgf
meta-probeset file: HuEx-1_0-st-v2.r2.dt1.hg18.core.mps
|
| |
|
| Submission date |
Jul 22, 2010 |
| Last update date |
Jul 22, 2010 |
| Contact name |
Pierre de la Grange |
| E-mail(s) |
pierre.delagrange@genosplice.com
|
| Organization name |
GenoSplice technology
|
| Department |
Paris Biotech Santé
|
| Street address |
29, rue du Faubourg Saint-Jacques
|
| City |
Paris |
| ZIP/Postal code |
75014 |
| Country |
France |
| |
|
| Platform ID |
GPL5175 |
| Series (1) |
| GSE23075 |
Gene expression profiling of neural stem cells derived from iPS cells (iPSc) of Sanfilippo syndrome type B (MPSIIIB) patient versus control |
|
