|
| Status |
Public on Dec 19, 2009 |
| Title |
w9.5 ES cells, biological rep2 |
| Sample type |
RNA |
| |
|
| Source name |
WT parental ES cells
|
| Organism |
Mus musculus |
| Characteristics |
cell type: embryonic stem cell
genotype: WT
|
| Treatment protocol |
ES cells were scrapped and collected in cold PBS1x, and then treated with 500 uL of Trizol (Invitrogen)
|
| Growth protocol |
ES cells were grown in KnockOut™ DMEM (Invitrogen) supplemented with 15% of FCS- ES Cell qualified (Chemicon), 1% Glutamax (Invitrogen), 1% of MEM NEAA (Invitrogen), 1% Penicillin-Streptomycin (Invitrogen), 0.1 mM of b-mercaptoetahnol (sigma), 1% of ESGRO (Chemicon)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA was performed according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
The Affymetrix protocol was used to prepare the samples using the GeneChip Mouse Gene 1.0 ST Array kit (Cat 9011780)
|
| |
|
| Hybridization protocol |
To hybridize the sample to the array and wash and stain the arrays, an additional Hybridization wash and stain kit was used (Cat 900720). The arrays were hybridized in the Hybridization oven 640, washed and stained using the Fluidics station 450.
|
| Scan protocol |
The arrays were scanned using the GCS3000, 7G.
|
| Description |
Gene expression data from mus musculus WT ES cells
|
| Data processing |
Bioconductor. GCRMA normalized intensities (Zhijin Wu, Rafael A. Irizarry, Robert Gentleman, Francisco Martinez Murillo, and Forrest Spencer, A Model Based Background Adjustment for Oligonucleotide Expression Arrays (May 2004). Johns Hopkins University, Dept. of Biostatistics Working Papers. Working Paper 1. http://www.bepress.com/jhubiostat/paper1 )
|
| |
|
| Submission date |
Dec 17, 2009 |
| Last update date |
Mar 08, 2023 |
| Contact name |
Ariane L.A. Chapgier |
| E-mail(s) |
a.chapgier@ucl.ac.uk
|
| Organization name |
University College London
|
| Department |
Institute of Child Health
|
| Lab |
Chapgier's lab
|
| Street address |
30 guilford street
|
| City |
London |
| ZIP/Postal code |
WC1N 1EH |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL6246 |
| Series (1) |
| GSE19542 |
HIRA null vs parental mES cell line |
|
