|
| Status |
Public on Sep 16, 2017 |
| Title |
HeyA8 R6 KO C11 pLKO-R6 50hrs (duplicate 2, lg) |
| Sample type |
SRA |
| |
|
| Source name |
Derived from from HEY-T30 ATCC CRL-3252
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: HeyA8 (single Fas KO clone #11)
tissue: Ovaries
infection: Infected with pLKO-shR6
time point: harvested at 50hrs
genotype: Fas KO -/-
|
| Treatment protocol |
HeyA8 ΔshR6 clone #11 was infected with pLKO-shScr or pLKO-shR6. A pool of three 293T ΔshL3 clones was infected with either pTIP-shScr or pTIP-shL3. After selection with puromycin, the pTIP-infected 293T cells were plated with Doxycycline (100ng/uL) in duplicate at 500,000 cells per T175 flask. The pLKO-infected HeyA8 cells were plated in duplicate at 500,000 cells per flask. Total RNA was harvested 50 hours and 100 hours 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 |
chr10:89,008,920-89,009,149
HeyA8_shR6_50hr_rep2_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 |
| GSE101234 |
CD95L derived si- and shRNAs kill cancer cells through an RNAi mechanism by targeting survival genes [shL3.shR6.RNAseq.lg] |
|
| Relations |
| BioSample |
SAMN07344968 |
| SRA |
SRX2997073 |
