|
| Status |
Public on Sep 16, 2017 |
| Title |
503 HeyA8 KO C11 pLenti 50hrs (rep 1, lg) |
| Sample type |
SRA |
| |
|
| Source name |
Derived from from Hey cells, ref: Buick, R. N., Pullano, R., and Trent, J. M. (1985). Comparative properties of five human ovarian adenocarcinoma cell lines. Cancer Res. 45: 3668 – 3676.
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: HeyA8 CD95 k.o. cells clone #11
tissue: Ovaries
treatment/infection: Cells were infected with empty pLenti-GIII-CMV-RFP-2A-Puro and selected with 3 ug/mL puromycin for 2 days. Total RNA was isolated 50hrs after puromycin selection.
|
| Treatment protocol |
Cells were infected with either empty pLenti virus or pLenti-CD95L virus overnight and then treated with 3ug/mL puromycin for selection. After selection cells were plated and total RNA harvested 50hrs after plating.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated with QIAGEN miRNeasy kit; dnase digestion was done
The quality and quantity of the RNA samples was checked using an Agilent bio-analyzer. RNA-SEQ libraries were generated using Illumina TruSEQ TotalRNA kits using the Illumina provided protocol.
sequenced on an Illumina HiSEQ4000 using Illumina provided reagents and protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Description |
chr10:89,008,920-89,009,146 deletion
HeyA8_vec_50hr_rep1_lg
|
| Data processing |
Sequenced reads were mapped to hg38 human genome using Tophat and bowtie2
raw counts were calculated by HTSeq
Genome_build: hg38
Supplementary_files_format_and_content: Excel sheet with normalized read counts for each sample comparison of interest, along with log2FoldChange values, p-values and adjusted p-values.
|
| |
|
| Submission date |
Jul 11, 2017 |
| Last update date |
Sep 08, 2022 |
| Contact name |
Marcus Peter |
| E-mail(s) |
[email protected]
|
| Organization name |
Northwestern University Feinberg School of Medicine
|
| Street address |
303 East Superior Street, Lurie 6-123
|
| City |
Chicago |
| State/province |
IL |
| ZIP/Postal code |
60611 |
| Country |
USA |
| |
|
| Platform ID |
GPL20301 |
| Series (2) |
| GSE87817 |
CD95L derived si- and shRNAs kill cancer cells through an RNAi mechanism by targeting survival genes |
| GSE101232 |
CD95L derived si- and shRNAs kill cancer cells through an RNAi mechanism by targeting survival genes [FasLRNAseq.lg] |
|
| Relations |
| BioSample |
SAMN07344354 |
| SRA |
SRX2996449 |
