|
| Status |
Public on May 14, 2024 |
| Title |
TMZ-200uM-3₋1 |
| Sample type |
SRA |
| |
|
| Source name |
brain
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: brain
cell line: U251
cell type: tumor
|
| Treatment protocol |
stable sgRNA-expression U251 cells were treated with 200nM or 1500nM TMZ for 72 hours
|
| Growth protocol |
cells were cultured in DMEM medium with 10% FBS.
|
| Extracted molecule |
other |
| Extraction protocol |
DNA was harvested using DNA isolation kit, and NEB Next® Ultra™ II FS DNA PCR-free Library Prep Kit was used to build database
libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
OTHER |
| Library source |
other |
| Library selection |
other |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
The adaptor sequences were trimmed using cutadapt (v1.18) and the untrimmed reads were removed.
sgRNAs were mapped to the annotation file and read count tables were made.
MAGeCK (0.5.8) was used to normalize the count table based on median normalization and fold changes and the significance of the changes in the conditions were calculated for genes and sgRNAs.
Assembly: Homo sapiens hg19
Supplementary files format and content: tab-delimited text file includes raw counts for each Sample
|
| |
|
| Submission date |
May 10, 2024 |
| Last update date |
May 14, 2024 |
| Contact name |
Zhiqiang Liu |
| E-mail(s) |
zhiqiangliu@tmu.edu.cn
|
| Organization name |
Tianjin Medical University
|
| Department |
Pathophysiology
|
| Street address |
22 Qixiangtai Rd
|
| City |
Tianjin |
| ZIP/Postal code |
300070 |
| Country |
China |
| |
|
| Platform ID |
GPL24676 |
| Series (1) |
| GSE267207 |
FBXO5 degrades DOK6 to enhance cell mechanics and sensitivity to Temozolomide |
|
| Relations |
| BioSample |
SAMN41334723 |
| SRA |
SRX24522407 |
