|
| Status |
Public on Jan 25, 2018 |
| Title |
keratinocytes with Ctrl shRNA-1 (CSNK1a) |
| Sample type |
RNA |
| |
|
| Source name |
primary human keratinocytes
|
| Organism |
Homo sapiens |
| Characteristics |
treatment: control shRNA
|
| Treatment protocol |
shRNA using pSMP retroviral expression vector.
|
| Growth protocol |
Primary human keratinocytes grow in differentiated culture condition (1.2mM Ca2+)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
qiagen RNeasyPlus kit was used to isolate total RNA.
|
| Label |
biotin
|
| Label protocol |
Ambion WT Expression kit was used to generate ssDNA targets. Fragmentation and biotin-labeling were performed using Afymetrix WT Terminal Labeling and Hybridization kit.
|
| |
|
| Hybridization protocol |
The fragmented and labeled targets were hybridized to the arrays per standard Affymetrix protocol, which includes 16hr (overnight) hybridization at 45degC at 60rpm in an Affymetrix GeneChip Hybridization Oven 645. The arrays were then washed and stained in an Affymetrix GeneChip Fluidics Station 450.
|
| Scan protocol |
Affymetrix GeneChip Scanner 3000 7G
|
| Description |
CTRL knockdown
|
| Data processing |
RMA normalization using justRMA package in R 2.11.1
|
| |
|
| Submission date |
May 26, 2016 |
| Last update date |
Oct 11, 2022 |
| Contact name |
Douglas Porter |
| Organization name |
Stanford
|
| Department |
Dermatology
|
| Lab |
Khavari
|
| Street address |
269 Campus Drive
|
| City |
Stanford |
| State/province |
CA |
| ZIP/Postal code |
94305 |
| Country |
USA |
| |
|
| Platform ID |
GPL570 |
| Series (2) |
| GSE81942 |
PRMT1 and CSNK1a1 control epidermal progenitor maintenance |
| GSE110049 |
PRMT1 and CSNK1a1 control epidermal progenitor maintenance (PRMT1/CSNK1a1 transcriptome profiling data sets) |
|
