|
| Status |
Public on Nov 28, 2011 |
| Title |
undifferentiated ES cells, rep 1 [MoEx[exon_level]] |
| Sample type |
RNA |
| |
|
| Source name |
undifferentiated ES cells
|
| Organism |
Mus musculus |
| Characteristics |
age: 0 days
tissue/cell type: undifferentiated ES (cell culture)
|
| Treatment protocol |
not applicable
|
| Growth protocol |
Mouse embryonic stem cells are differentiated into cardiomyocytes with DMEM based culture media supplied with 10% serum.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted from each samples with TRIzol reagent (Invitrogen). Isolated RNAs were then treated with the RiobMinus rRNA reduction kit (Invitrogen), cDNA synthesis and amplification was performed using the WT cDNA synthesis and amplification kit (Affymetrix).
|
| 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. • Transfer 200μl of hyb solution to each array, then tape holes. • Hybridize 17 hours at 45° at 60rpm• Fluidics washing is FS450_0001
|
| Scan protocol |
Affymetrix Gene ChIP Scanner 3000 7G
|
| Description |
undifferentiated ES cells
probe_group_file: MoEx-1_0-st-v1.r2.pgf
meta-probeset file: MoEx-1_0-st-v1.r2.dt1.mm9.core.mps and MoEx-1_0-st-v1.r2.dt1.mm9.core.ps
|
| Data processing |
RMA normalized, gene and exon level expression values from Affymetrix Power Tools
|
| |
|
| Submission date |
Oct 14, 2011 |
| Last update date |
Nov 29, 2011 |
| Contact name |
Pascal Gellert |
| E-mail(s) |
[email protected]
|
| Phone |
+49 6032 705 1765
|
| URL |
http://www.mpi-hlr.de
|
| Organization name |
Max Planck Institut for Heart and Lung Research
|
| Department |
Cardiac Development and Remodelling
|
| Lab |
Braun
|
| Street address |
Ludwigstr. 43
|
| City |
Bad Nauheim |
| ZIP/Postal code |
61231 |
| Country |
Germany |
| |
|
| Platform ID |
GPL6193 |
| Series (2) |
| GSE32998 |
Gene Array Analyzer (GAA): Alternative usage of gene arrays to study alternative splicing events (MoEx array) |
| GSE33183 |
Gene Array Analyzer (GAA): Alternative usage of gene arrays to study alternative splicing events |
|
| Relations |
| Alternative to |
GSM817364 (gene-level analysis) |
