|
| Status |
Public on Feb 13, 2019 |
| Title |
OVK18_WRN3B |
| Sample type |
SRA |
| |
|
| Source name |
OVK18
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: OVK18
sgrna transduction: sgWRN3
replicate: B
|
| Treatment protocol |
Cas9 expressing SW48 and OVK18 cells were transduced with indicated sgRNA 72 hours before harvesting
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was purified according to the Qiagen RNeasy Mini Kit protocol
Libraries were prepared using Roche Kapa mRNA Hyper sample preparation kits from 100ng of purified total RNA according to the manufacturer’s protocol
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
Data was processed using Illumina Bcl2fastq v2.18
Sequencing reads were aligned to hg19 reference genome using STAR (v2.5)
Raw gene counts were generated from STAR output and normalized RPKM counts were generated using cufflinks v2.2.1
Genome_build: hg19
Supplementary_files_format_and_content: comma seperated value (CSV) files for all samples. STAR_Gene_Counts.csv reports raw counts. Cuff_Gene_Counts.csv reports FPKM.
|
| |
|
| Submission date |
Feb 12, 2019 |
| Last update date |
Feb 13, 2019 |
| Contact name |
Edmond Chan |
| E-mail(s) |
Edmond_Chan@dfci.harvard.edu
|
| Phone |
6262789224
|
| Organization name |
Dana Farber Cancer Institute
|
| Street address |
450 Brookline Ave
|
| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02215 |
| Country |
USA |
| |
|
| Platform ID |
GPL18573 |
| Series (1) |
| GSE126464 |
WRN knockout effects upon gene expression in SW48 and OVK18 |
|
| Relations |
| BioSample |
SAMN10921933 |
| SRA |
SRX5369700 |
