|
| Status |
Public on Oct 10, 2019 |
| Title |
SaOS2-p21_ON_3 |
| Sample type |
SRA |
| |
|
| Source name |
SaOS2-p21
|
| Organism |
Homo sapiens |
| Characteristics |
genotype/variation: Tet-inducible p21 (ON)
cell line: SaOS2
|
| Treatment protocol |
untreated or 24h 1µg/ml doxycycline
|
| Growth protocol |
DMEM, 10% FBS
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Qiagen RNAeasy Kit
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
Reads were mapped to the Hg19 genome by STAR
HTseq was used to generate count file with gene names
R package DESeq2 was used to normalize counts (mean-ratio method), calculate total reads, and determine differential gene expression
Genome_build: hg19
Supplementary_files_format_and_content: normalized read counts generated through DESeq2
|
| |
|
| Submission date |
Mar 21, 2019 |
| Last update date |
Oct 10, 2019 |
| Contact name |
Martin Fischer |
| E-mail(s) |
[email protected]
|
| Organization name |
Leibniz Institute on Aging - Fritz Lipmann Institute (FLI)
|
| Department |
Computational Biology
|
| Lab |
Steve Hoffmann
|
| Street address |
Beutenbergstraße 11
|
| City |
Jena |
| State/province |
Thuringia |
| ZIP/Postal code |
07745 |
| Country |
Germany |
| |
|
| Platform ID |
GPL16791 |
| Series (1) |
| GSE128669 |
RNA-seq (PolyA) of RNA from Tet-inducible SaOS2-p21 cells |
|
| Relations |
| BioSample |
SAMN11191329 |
| SRA |
SRX5552219 |
