|
| Status |
Public on Jun 18, 2018 |
| Title |
THP1 SAMHD1 KO 2 |
| Sample type |
RNA |
| |
|
| Source name |
Generated by using a CRISPR-Cas9 lentiviral vector expressing gRNA specific for SAMHD1
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: THP1
cell type: Patient-derived acute myeloid leukemia cells
genotype/variation: SAMHD1 KO
|
| Growth protocol |
Cells were grown in RPMI 1640 (ATCC) supplemented with 10% FBS, 100 U/ml penicillin, 100 μg/ml streptomycin and 1 μg/ml puromycin. 500,000 cells/well were seeded in 12-well plate in 1 ml/well, and harvested after 48 hours. Three replicates were prepared for each cell line.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using the RNeasy Mini kit (Qiagen)
|
| Label |
biotin
|
| Label protocol |
Experiment performed at: Genomic Core Facility, The Ohio State University, Columbus, Ohio, USA.
|
| |
|
| Hybridization protocol |
Experiment performed at: Genomic Core Facility, The Ohio State University, Columbus, Ohio, USA.
|
| Scan protocol |
Experiment performed at: Genomic Core Facility, The Ohio State University, Columbus, Ohio, USA.
|
| Description |
Replicate #2
|
| Data processing |
The data were normalized by RMA method with Affymetrix Expression Console software. Normalized data were filtered by keeping genes whose expression are above 6 (log2 scale) for at least 2 out of 3 samples in any condition. Linear model and moderated t-test was used for testing differentially expressed genes by using SAS and R packages.
|
| |
|
| Submission date |
Apr 24, 2018 |
| Last update date |
Jun 19, 2018 |
| Contact name |
Serena Bonifati |
| E-mail(s) |
bonifati.2@osu.edu
|
| Organization name |
Ohio State University College of Veterinary Medicine
|
| Department |
Veterinary Biosciences
|
| Lab |
Dr. Li Wu
|
| Street address |
1900 Coffey Road
|
| City |
Columbus |
| State/province |
Ohio |
| ZIP/Postal code |
43210 |
| Country |
USA |
| |
|
| Platform ID |
GPL23126 |
| Series (1) |
| GSE113610 |
Microarray analysis in acute myeloid leukemia (AML)-derived THP-1 cells expressing or not SAMHD1 |
|
