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| Status |
Public on Jul 03, 2017 |
| Title |
2b: PC9DTP RNA-seq |
| Sample type |
SRA |
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| Source name |
NSCLC
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| Organism |
Homo sapiens |
| Characteristics |
cell line: PC9
treatment: PC9DTP
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| Treatment protocol |
To generate DTPs, PC9 cells were treated with 1 μM erlotinib for 8 days. Media was replaced with fresh media supplemented with erlotinib every 3 days. Cells that survive the 8 day-treatment were considered DTPs. ALDH_High and ALDH_Low samples were obtained from PC9 cells treated with DMSO or 1 μM erlotinib erlotinib for 12 hours as indicated prior to aldefluor sorting by FACS.
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| Growth protocol |
PC9 cells were cultured at 37 °C with 5% CO2 in RPMI-1640 (Invitrogen) supplemented with 10% FBS (HyClone).
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| Extracted molecule |
polyA RNA |
| Extraction protocol |
Total RNA was isolated from above samples using Qiagen RNAeasy extraction kit. RNA was treated with DNAse. ERCC spike-in control was added based on cell number according to manufacturers recommendations.
Libraries were generated from poly-A-selected RNA
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
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| Data processing |
The expression quantification was done using the Salmon method (Patro, R., Duggal, G., Love, M. I., Irizarry, R. A. & Kingsford, C. Nat Meth (2017))
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| Submission date |
Jul 03, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Suchit Jhunjhunwala |
| E-mail(s) |
suchitj@gene.com
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| Organization name |
Genentech
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| Street address |
1 DNA Way, MS-444A
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| City |
South San Francisco |
| State/province |
CA |
| ZIP/Postal code |
94080 |
| Country |
USA |
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| Platform ID |
GPL18573 |
| Series (2) |
| GSE74180 |
Repression of stress-induced LINE-1 expression protects cancer cell populations from lethal drug-exposures |
| GSE100751 |
Repression of stress-induced LINE-1 expression protects cancer cell populations from lethal drug-exposures [RNA-Seq] |
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| Relations |
| BioSample |
SAMN07312211 |
| SRA |
SRX2980146 |
| Supplementary data files not provided |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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