|
| Status |
Public on Oct 16, 2014 |
| Title |
Arid3a KD replicate 2 |
| Sample type |
RNA |
| |
|
| Source name |
embryonic stem cells
|
| Organism |
Mus musculus |
| Characteristics |
treatment: Arid3a knockdown
cell line: J1 ES cells
|
| Growth protocol |
Mouse J1 ES cells were maintained in DMEM (Dulbecco’s modified Eagle’s medium) supplemented with 20% fetal bovine serum (FBS), 2mM of L-glutamine, 100uM of non-essential amino acid, 1% of nucleoside mix (100X stock, Sigma), 100uM of β-mercaptoethanol, 1000U/ml of recombinant leukemia inhibitory factor (LIF, Chemicon) and 50U/ml of penicillin/streptomycin. ES cells were cultured in 0.1% gelatin coated dishes.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from cultured cells using RNeasy plus mini kit (Qiagen).
|
| Label |
Cy3
|
| Label protocol |
cDNA synthesis was performed with qScript cDNA supermix (Qunata), followed by labelling with Cy3.
|
| |
|
| Hybridization protocol |
A hybridization mixture of the fragmented DNA and probe array control was prepared, followed by hybridization to the probe array during a 16 hour incubation.
|
| Scan protocol |
GeneChips were scanned by Affymetrix Scanner 3000
|
| Description |
Gene expression data
|
| Data processing |
Expression data were normalized using a robust multiple array (RMA).
|
| |
|
| Submission date |
Apr 16, 2014 |
| Last update date |
Oct 16, 2014 |
| Contact name |
Jonghwan Kim |
| E-mail(s) |
[email protected]
|
| Phone |
512-232-8046
|
| Organization name |
University of Texas at Austin
|
| Department |
Department of Molecular Cell and Developmental Biology, Institute for Cellular and Molecular Biology
|
| Lab |
Kim Lab
|
| Street address |
2506 Speedway NMS 4.246
|
| City |
Austin |
| State/province |
TX |
| ZIP/Postal code |
78712 |
| Country |
USA |
| |
|
| Platform ID |
GPL8321 |
| Series (2) |
| GSE56853 |
Arid3a modulates the first cell fate decision by direct regulation of both embryonic and extraembryonic gene expression (microarray) |
| GSE56877 |
Arid3a is essential to execution of the first cell fate decision via direct embryonic and extraembryonic transcriptional regulation |
|
