|
Status |
Public on Feb 17, 2016 |
Title |
RNAseq_IMR-32_nELAVL_noUV_2 |
Sample type |
SRA |
|
|
Source name |
RNAseq_IMR-32_nELAVL_noUV
|
Organism |
Homo sapiens |
Characteristics |
cell line: IMR-32 cell type: neuroblastoma cells treated with: nELAVL RNAi for 96hrs sample group: non-stressed RNAi: nELAVL
|
Treatment protocol |
For UV treatment, cells were washed in PBS exposed to 0.5 mJ/cm2 UVC and allowed to recover for 24h before being harvested RNAi protocol: Cells were treated with mock or nELAVL RNAi for 96 hours before being harvested Lentiviral infection protocol: Cells were infected with lentivirus 72 hours before being harvested
|
Growth protocol |
IMR-32 neuroblastoma cells were grown under standard conditions.
|
Extracted molecule |
total RNA |
Extraction protocol |
Trizol extraction Illumina High-throughput TruSeq RNA Sample preparation: ribominus selection (Invitrogen)
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 2500 |
|
|
Description |
nElavl noUV_2 non-stressed nELAVL RNAi
|
Data processing |
alignment with Tophat (unambigous mapping; mean inner distance: 20; st.dev.: 20) inference of exon junctions (Bayesian method) Genome_build: hg18 Supplementary_files_format_and_content: txt file containing geneID (Entrez) and symbol, raw reads and rpkm values
|
|
|
Submission date |
Sep 16, 2015 |
Last update date |
May 15, 2019 |
Contact name |
Claudia Scheckel |
E-mail(s) |
claudia.scheckel@gmail.com
|
Organization name |
University Hospital Zurich
|
Department |
Institute of Neuropathology
|
Street address |
Schmelzbergstrasse 12
|
City |
Zurich |
State/province |
NY |
ZIP/Postal code |
8091 |
Country |
Switzerland |
|
|
Platform ID |
GPL16791 |
Series (2) |
GSE53698 |
RNAseq in IMR-32 neuroblastoma cells |
GSE53699 |
nELAVL HITS-CLIP and RNA-seq in Alzheimer's Disease patients and IMR-32 neuroblastoma cells |
|
Relations |
BioSample |
SAMN04090383 |
SRA |
SRX1250593 |