|
| Status |
Public on Jan 24, 2024 |
| Title |
ROS-co-cutured cells 3 |
| Sample type |
SRA |
| |
|
| Source name |
HEK293
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: HEK293
genotype: GFP+
treatment: ROS-co-cultured
|
| Treatment protocol |
Cells are co-ciltured with ROS producing HEK293 (+DAAO) cells grow with 25uM D-alanine for 10 hrs. Samples were then FACS sorted for GFP+ cells.
|
| Growth protocol |
Cell are grown in high-glucose DMEM +10%FBS
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Tripure RNA extraction
illumina stranded mRNA library kit.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
NextSeq 2000 |
| |
|
| Data processing |
fastq files were quality chekced using fastqc
Reads from each sample we maped using STAR(v2.53a)
Edge R is used to conduct differmetial expression analysis and to output normalized TPM values.
Assembly: Hg18
Supplementary files format and content: tab-delimited files with normalized TPM values
|
| |
|
| Submission date |
Jan 25, 2023 |
| Last update date |
Jan 24, 2024 |
| Contact name |
Matt Sieber |
| E-mail(s) |
matthew.sieber@utsouthwestern.edu
|
| Phone |
2146456036
|
| Organization name |
UT Southwestern Medical Center
|
| Street address |
5323 Harry Hines blvd, MC 9040 ND12.214
|
| City |
Dallas |
| State/province |
Texas |
| ZIP/Postal code |
75390 |
| Country |
USA |
| |
|
| Platform ID |
GPL30173 |
| Series (1) |
| GSE223669 |
RNA -seq analysis of cells co-culture with ROS producing cells |
|
| Relations |
| BioSample |
SAMN32903854 |
| SRA |
SRX19163789 |
