|
| Status |
Public on Nov 07, 2017 |
| Title |
Day 7 wild type mouse ES cells, replicate 2 |
| Sample type |
RNA |
| |
|
| Source name |
Day 7 retinal aggregate from embryonic stem cell line EB5, mouse strain 129/Ola in which GFP is knocked-in under Rx promoter
|
| Organism |
Mus musculus |
| Characteristics |
tissue: retinal ESC-derived aggregates
differentiation day: 7
|
| Treatment protocol |
Corresponding aggregates from WT ESC were harvested at Day 4 and 7 of differentiation.
|
| Growth protocol |
ESC were cultured in 3% matrigel containing retinal differentiation medium as described by Eiraku and Sasai (Nat Protocols 7:69-79, 2012).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction followed by column purification (Ambion) of total RNA was performed according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Sense target cDNA was prepared from 100ng of total RNA using the Ambion® WT Expression Kit (Life Technologies P/N 4411973). cDNA was fragmented and biotin-labeled using the Affymetrix® GeneChip® WT Terminal Labeling Kit (Affymetrix P/N 900671).
|
| |
|
| Hybridization protocol |
Five micrograms of cDNA was hybridized for 16h at 45C on a Mouse Gene 2.0 ST GeneChip array.
|
| Scan protocol |
GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G.
|
| Description |
Gene expression data from D7 retinal differentiated WT Rx-GFP aggregates
|
| Data processing |
Probe signals were quantile normalized and summarized by the RMA algorithm using Partek Genomics Suite software v6.5
|
| |
|
| Submission date |
Mar 29, 2017 |
| Last update date |
Nov 07, 2017 |
| Contact name |
Geoffrey Neale |
| E-mail(s) |
geoffrey.neale@stjude.org
|
| Organization name |
St Jude Childrens Research Hospital
|
| Department |
Hartwell Center
|
| Street address |
262 Danny Thomas Place
|
| City |
Memphis |
| State/province |
TN |
| ZIP/Postal code |
38105 |
| Country |
USA |
| |
|
| Platform ID |
GPL16570 |
| Series (1) |
| GSE97209 |
R-spondin 2 is required for optic vesicle morphogenesis and neuroretina specification in vivo and in vitro |
|
