|
| Status |
Public on Oct 06, 2019 |
| Title |
BEAS2B: E586K_1 |
| Sample type |
SRA |
| |
|
| Source name |
BEAS2B
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: BEAS2B
cell type: immortalized bronchial epitheial cells
passages: P2-P4
|
| Treatment protocol |
none
|
| Growth protocol |
BEAS2B cells were grown in advanced DMEM-F12 media (ThermoFisher, MA) supplemented with 1% fetal bovine serum and 100 U/mL Penicillin, 100 g/mL of Streptomycin, 292 g/mL L-Glutamine and 1% HEPES. All cultures were maintained at 37o C in a humidified 5% CO2 atmosphere and tested to ensure absence of Mycoplasma. Cultures were partitioned before >80% confluencey.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated using the Rneasy Plus Mini Kit.
Samples were checked using BioA and libraries were prepared using the TruSeq Stranded mRNA kit. Each library was quantified using Qubit and then pooled toether. Library pool was quantified using qPCR. Pool was then diluted to 4 nM and loaded on the HiSeq High Output Mode. Run was performed using a full flow cell (8 lanes) PE 100. 5% PhiX was spiked in to check run qaulity.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
replicate 1
|
| Data processing |
Reads were aligned to a genome assembly using STAR and aligned reads were assigned.
Gene read counts were normalized within sample, averaged for replicates and log transformed.
Genome_build: hg19
|
| |
|
| Submission date |
Jun 21, 2019 |
| Last update date |
Oct 06, 2019 |
| Contact name |
Mohamed E. Abazeed |
| Organization name |
Cleveland Clinic
|
| Department |
Radiation Oncology/Translational Hematology Oncology Research
|
| Street address |
2111 East 96th St/NE6-258
|
| City |
Clevleand |
| State/province |
OH |
| ZIP/Postal code |
44195 |
| Country |
USA |
| |
|
| Platform ID |
GPL16791 |
| Series (1) |
| GSE133151 |
Clonal selection confers distinct evolutionary trajectories in BRAF-driven cancers |
|
| Relations |
| BioSample |
SAMN12107889 |
| SRA |
SRX6175525 |
