|
| Status |
Public on Jul 31, 2015 |
| Title |
VDR knockout (KO) keratinocytes |
| Sample type |
RNA |
| |
|
| Source name |
keratinocyte
|
| Organism |
Mus musculus |
| Characteristics |
age: 3 month
genotype: VDR fl/fl K14 driven Cre
tissue: skin
cell type: keratinocyte
|
| Treatment protocol |
Keratinocytes were isolated from the skin accoding to the method previously described (Section 3.3 Nowarks JA Fuchs E Mol Biol. 2009 ; 482: 215–232). Briefly, excised skin was incubated with 0.25% trypsin and epidermis was separated from dermis. Keratinocytes were then isolated from the epidermis.
|
| Growth protocol |
VDR is removed from keratin 14 (K14) expressing keratinocytes by using Crelox stragety and maintained in low calcium diet to suppress compensation pathways
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from keratinocytes using Pico Pure RNA purification kit (ABI).
|
| Label |
Biotin
|
| Label protocol |
Standard Illumina hybridization protocol cDNA labeled by Biotin and detected by Cy3-streptoavidin
|
| |
|
| Hybridization protocol |
Standard Illumina hybridization protocol done by UCLA neuroscience genomics core
|
| Scan protocol |
Standard Illumina scanning protocol
|
| Description |
low calcium diet
|
| Data processing |
data were normalized by using quantile method in Genome studio V2011.1
|
| |
|
| Submission date |
May 11, 2015 |
| Last update date |
Jul 31, 2015 |
| Contact name |
Yuko Oda |
| E-mail(s) |
yuko.oda@ucsf.edu
|
| Phone |
4152692370
|
| Organization name |
VA Medical Center UCSF
|
| Department |
Endocrine Research
|
| Street address |
111N-MB 360 1700 Owens St, Suite 360
|
| City |
San Francisco |
| State/province |
CA |
| ZIP/Postal code |
94158 |
| Country |
USA |
| |
|
| Platform ID |
GPL6885 |
| Series (2) |
| GSE68729 |
Vitamin D receptor (VDR) regulates epidermal stem cells and cutanous wound healing [keratinocytes] |
| GSE68730 |
Vitamin D receptor (VDR) regulates epidermal stem cells and cutanous wound healing |
|
