|
| Status |
Public on Jun 04, 2020 |
| Title |
U87OE_day_0 rep3 |
| Sample type |
SRA |
| |
|
| Source name |
U87 cell
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: glioblastoma cells
cell line: U87
genotype: U87 cells transduced with lentivirus encoding EGFRvIII
|
| Treatment protocol |
Cells were treated with 350 µM TMZ for 7 and 14 days.
|
| Growth protocol |
The cells were routinely maintained in Dulbecco’s Modified Eagle’s Medium (DMEM) with 10% heat-inactivated fetal bovine serum (FBS, HyClone, Logan, UT, USA) in a humidified 5% CO2 atmosphere at 37℃.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was harvested using Trizol reagent. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries.
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
BGISEQ-500 |
| |
|
| Data processing |
SOAPnuke(v1.5.2) software used for basecalling.
RNA-seq reads were mapped to hg19 whole genome by Hisat2 software.
DEseq2 method was used to perform differentially expressed gene analysis.
Genome_build: hg19
Supplementary_files_format_and_content: excel format files include FPKM values
|
| |
|
| Submission date |
Apr 05, 2018 |
| Last update date |
Jun 04, 2020 |
| Contact name |
Kai Huang |
| E-mail(s) |
huangkai@tijmu.edu.cn
|
| Phone |
13752390609
|
| Organization name |
tianjin medical university
|
| Street address |
anshan roud
|
| City |
tianjin |
| ZIP/Postal code |
300054 |
| Country |
China |
| |
|
| Platform ID |
GPL23227 |
| Series (2) |
| GSE112734 |
A genome-wide screen identifies E2F6 as critical factor for TMZ chemoresistance in EGFRvIII expressing GBM (CRISPR library RNA-seq) |
| GSE112736 |
A genome-wide screen identifies E2F6 as critical factor for TMZ chemoresistance in EGFRvIII expressing GBM |
|
| Relations |
| BioSample |
SAMN08868596 |
| SRA |
SRX3889253 |
