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Sample GSM2027309 Query DataSets for GSM2027309
Status Public on Feb 17, 2016
Title RNAseq_IMR-32_Y3mut-infected_3
Sample type SRA
Source name IMR-32 neuroblastoma cells
Organism Homo sapiens
Characteristics cell line: IMR-32
cell type: neuroblastoma cells
lentiviral infection: infected with Y3 mut RNA
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 overexpression of Y3 mut RNA
Data processing alignment with Tophat (unambigous mapping; mean inner distance: 20; 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 Jan 04, 2016
Last update date May 15, 2019
Contact name Claudia Scheckel
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
BioSample SAMN04383703
SRA SRX1515445

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

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