|
| Status |
Public on Jun 30, 2011 |
| Title |
HeLa ELAVL1/HuR siRNA1 5d |
| Sample type |
SRA |
| |
|
| Source name |
HeLa ELAVL1/HuR siRNA1 5d
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: HeLa
knockdown: ELAVL1/HuR siRNA1 (see Lebedeva et. Al 2011)
time post transfection: 120h
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Illumina paired end polyA standard protocol, fragment length ~250nt, stddev ~50nt.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
other |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
120h post transfection with anti HuR siRNA1
|
| Data processing |
No adapter removal was performed. Raw reads were converted to fastq and mapped with TopHat, supplying ENSEMBL splice junctions. Resulting alignments were analyzed by cuffdiff to estimate changes in RefSeq gene model expression.
|
| |
|
| Submission date |
Jun 13, 2011 |
| Last update date |
May 15, 2019 |
| Contact name |
Marvin Jens |
| E-mail(s) |
marvin.jens@mdc-berlin.de
|
| Phone |
+493094062989
|
| Organization name |
Max Delbrueck Center for Molecular Medicine
|
| Department |
Systems Biology of Gene Regulatory Elements
|
| Lab |
Rajewsky lab
|
| Street address |
Robert Rössle Str. 10 (H. 87)
|
| City |
Berlin |
| ZIP/Postal code |
13092 |
| Country |
Germany |
| |
|
| Platform ID |
GPL11154 |
| Series (1) |
| GSE29943 |
Unstressed HeLa cells and ELAVL1/HuR knock down conditions: polyA RNA-Seq, small RNA-Seq, and PAR-CLIP |
|
| Relations |
| SRA |
SRX083304 |
| BioSample |
SAMN00668441 |
