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Sample GSM951481 Query DataSets for GSM951481
Status Public on Jun 26, 2012
Title HepG2
Sample type SRA
 
Source name Liver carcinoma cells
Organism Homo sapiens
Characteristics cell line: HepG2
cell type: transformed cells
cell type: Liver carcinoma cells
Growth protocol Cells are grown according to ENCODE standards
Extracted molecule polyA RNA
Extraction protocol Oligo-dT was used to prime batch RNA. 96-well PCR was then conducted using junction-specific primers on the resulting cDNA. The resultant RT-PCR products were pooled according to cell line and sequenced on the Roche 454 FLX.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model 454 GS FLX
 
Description pooled RT-PCR products
Data processing The reads were mapped with BLAT v.34 with defaults parameters = blat.out.psl
Genome_build: hg19
Supplementary_files_format_and_content: PSL files contain the BLAT mapping of the 454 reads on the human genome (hg19 build)
 
Submission date Jun 22, 2012
Last update date May 15, 2019
Contact name Julien Lagarde
E-mail(s) julienlag@gmail.com
Organization name CRG
Department Bioinformatics and Genomics
Lab Computational Biology of RNA Processing
Street address Dr. Aiguader 88
City Barcelona
ZIP/Postal code 08003
Country Spain
 
Platform ID GPL9186
Series (1)
GSE38886 Targeted RT-PCR assays spanning unannotated splice junctions sequenced by Roche 454.
Relations
SRA SRX155656
BioSample SAMN01057248

Supplementary file Size Download File type/resource
GSM951481_HepG2.blat.out.psl.gz 1.1 Gb (ftp)(http) PSL
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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