|
Status |
Public on Jun 04, 2020 |
Title |
U87NC_day0 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 vector
|
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 |
SAMN08868544 |
SRA |
SRX3889238 |