|
| Status |
Public on Jun 01, 2013 |
| Title |
C.rna |
| Sample type |
SRA |
| |
|
| Source name |
Immortalized primary fibroblasts
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: BJ cells
condition: Control sample
|
| Growth protocol |
Immortalized human BJ primary fibroblast cells (by hTERT expression) were cultured in DMEM supplemented with 10% heat-inactivated fetal calf serum (FCS) in 5% CO2 at 37 °C.
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Total RNA was isolated using Trizol Reagent (Invitrogen), following the manufacturer's instructions. Poly(A) was isolated using the Oligotex mRNA mini kit (Qiagen)
Libraries were prepared using the TruSeq RNA sample preparation kit (Illumina) following the manufacturer's instructions.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
Reads were aligned to a reference set of human transcripts using Bowtie
Number of reads mapping to each transcript was counted and normalized to FPKMs
Supplementary_files_format_and_content: wig files represent read coverage at each genomic location (hg19), normalized to 10M reads
|
| |
|
| Submission date |
Apr 04, 2013 |
| Last update date |
May 15, 2019 |
| Contact name |
Ran Elkon |
| Organization name |
Tel Aviv University
|
| Department |
Human Genetics
|
| Street address |
Ramat Aviv
|
| City |
Tel Aviv |
| ZIP/Postal code |
69494 |
| Country |
Israel |
| |
|
| Platform ID |
GPL11154 |
| Series (2) |
| GSE45785 |
Transcriptome-profiling (RNA-seq) and Ribosome-profiling (Ribo-seq) of BJ cells treated with Nutlin-3a, an MDM2 inhibitor, which induces p53. |
| GSE45833 |
p53 induces transcriptional and translational programs to supress cell proliferation and growth |
|
| Relations |
| SRA |
SRX260240 |
| BioSample |
SAMN01999137 |
