NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM1885099 Query DataSets for GSM1885099
Status Public on Feb 17, 2016
Title RNAseq_IMR-32_mock_noUV_3
Sample type SRA
 
Source name RNAseq_IMR-32_mock_noUV
Organism Homo sapiens
Characteristics cell line: IMR-32
cell type: neuroblastoma cells
treated with: mock RNAi for 96hrs
sample group: non-stressed
RNAi: mock
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 mock noUV_3
non-stressed mock 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 SAMN04090381
SRA SRX1250591

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap