|
| Status |
Public on Mar 23, 2012 |
| Title |
plusTNFa_siGPS2 |
| Sample type |
SRA |
| |
|
| Source name |
293T cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: 293T
treatment: siRNA transfection with 5nM siGPS2
|
| Treatment protocol |
Transient siRNA transfection was performed with 5nM siCTL or siGPS2 following the protocol for Lipofectamine2000. The transfection mix was removed 4h after transfection and at this point cells were switched to DMEM with 1% FBS. Cells were harvested 2 days after transfection and were treated with 10nM TNFa for 6h.
|
| Growth protocol |
293T cells from ATCC were grown on poly-lysine coated culture dishes with DMEM medium supplemented with 10% FBS
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from 293T cells using the RNeasy Kit (QIAGEN) and reverse-transcribed with SuperScript III kit (Invitrogen).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina Genome Analyzer II |
| |
|
| Description |
RNA-seq
|
| Data processing |
The image analysis and base calling were performed by using Illumina's Genome Analysis pipeline. The RPKM values were computed by using rSeq (Jiang and Wong, 2009).
|
| |
|
| Submission date |
Jan 18, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
Valentina Perissi |
| E-mail(s) |
vperissi@acs.bu.edu
|
| Phone |
617 638 4115
|
| Fax |
617 638 5339
|
| Organization name |
Boston University School of Medicine
|
| Department |
Department of Biochemistry
|
| Street address |
72 E. Concord St
|
| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02118 |
| Country |
USA |
| |
|
| Platform ID |
GPL9115 |
| Series (1) |
| GSE35197 |
A protective strategy against hyperinflammatory responses requiring the non-transcriptional actions of GPS2 |
|
| Relations |
| SRA |
SRX116733 |
| BioSample |
SAMN00777134 |
