|
| Status |
Public on Jun 01, 2016 |
| Title |
Lockd knockout, rep 1 |
| Sample type |
RNA |
| |
|
| Source name |
G1E_Lockd deletion
|
| Organism |
Mus musculus |
| Characteristics |
cell line background: G1E
cell type: erythroid cell line
genotype/variation: Lockd deletion
|
| Treatment protocol |
CRISPR/Cas9 was used to delete Lockd
|
| Growth protocol |
Cells were grown in G1E media as described previously (Weiss et al, MCB 1997)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated from cultured cells using the Qiagen Rneasy kit
|
| Label |
biotin
|
| Label protocol |
Single-stranded cDNA was generated from the amplified cRNA with the WT cDNA Synthesis Kit (Affymetrix) and then fragmented and labeled with the WT Terminal Labeling Kit (Affymetrix).
|
| |
|
| Hybridization protocol |
Samples were hybridized with GeneChip Mogene 2.0 ST Arrays (Affymetrix) and scanned at the University of Pennsylvania Molecular Profiling Facility
|
| Scan protocol |
Array scanning was performed according to the manufacturer's instruction (Affymetrix)
|
| Description |
KO.U.2
|
| Data processing |
Raw data were normalized useing RMA algorithm (rma-gene-full option). Data analysis and statistical evaluations were performed with customized Matlab scripts (R2012b)
affymetrix-algorithm-name = rma-gene-full
affymetrix-algorithm-version = 1.0
program-name = Expression Console
program-version = 1.3.1.187
|
| |
|
| Submission date |
Nov 27, 2015 |
| Last update date |
Jun 01, 2016 |
| Contact name |
Vikram Paralkar |
| E-mail(s) |
vikram.paralkar@uphs.upenn.edu
|
| Phone |
215-590-0558
|
| Organization name |
University of Pennsylvania
|
| Street address |
3400 Civic Center Boulevard, Perelman Center, 7th Floor, South Pavilion Extension
|
| City |
Philadelphia |
| State/province |
PA |
| ZIP/Postal code |
19104 |
| Country |
USA |
| |
|
| Platform ID |
GPL16570 |
| Series (2) |
| GSE75449 |
Unlinking a lncRNA from its associated cis element [gene expression] |
| GSE75881 |
Unlinking a lncRNA from its associated cis element |
|
