|
| Status |
Public on Nov 19, 2014 |
| Title |
HeLa shRNA Control |
| Sample type |
SRA |
| |
|
| Source name |
HeLa cell line, control shRNA
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: HeLa
construct: empty
|
| Growth protocol |
Adherent HeLa cell lines expressing stably empty (control) or TIA1 and/or TIAR shRNA-pSUPER constructs were cultured under standard conditions as previously reported (Izquierdo JM, Alcalde J, Carrascoso I, Reyes R, Ludeña MD: Knockdown of T-cell intracellular antigens triggers cell proliferation, invasión and tumor growth. Biochem J 2011, 435:337-344).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA from above HeLa cell lines was purified by TRIZOL method (Invitrogen). The quality of the total RNA was tested using the Agilent 2100 Bioanalyzer RNA Nano Chip.
For the mRNA-Seq sample preparation, the Illumina standard kit was used according to the manufacturer's protocol.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina Genome Analyzer IIx |
| |
|
| Description |
short hairpin RNA (shRNA)
|
| Data processing |
Short reads were aligned against human genome hg19 with Tophat.
Transcript abundances were calculated with cufflinks.
Genome_build: GRCh37
Supplementary_files_format_and_content: Tab-delimited text files include FPKM values for each sample.
|
| |
|
| Submission date |
Apr 30, 2013 |
| Last update date |
May 15, 2019 |
| Contact name |
Juan Carlos Oliveros |
| Organization name |
CNB, CSIC
|
| Street address |
Darwin 3
|
| City |
Cantoblanco |
| State/province |
Madrid |
| ZIP/Postal code |
28049 |
| Country |
Spain |
| |
|
| Platform ID |
GPL10999 |
| Series (1) |
| GSE46516 |
The permanent reduction of TIA proteins molds expression transcriptome in HeLa cells |
|
| Relations |
| BioSample |
SAMN02087585 |
| SRA |
SRX272912 |
