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Sample GSM2585822 Query DataSets for GSM2585822
Status Public on Jul 12, 2017
Title control_hepatocytes_3
Sample type SRA
 
Source name Control mouse hepatocytes
Organism Mus musculus
Characteristics strain background: C57BL/6
gender: Male
genotype/variation: Wild type Hepatocytes
Extracted molecule total RNA
Extraction protocol NA extracted using the mirVana™ total RNA isolation protocols (Ambion, Austin, USA). For RNA quantification, samples were treated with DNase (Ambion) and random hexamer cDNA synthesized by reverse transcription. Assays-on-demand gene expression TaqMan® MGB 6FAM dye-labeled products (Applied Biosystems) were used for relative quantification of cDNA.
Illumina Tru-seq paired end strand specific sequencing (Illumina, USA) was carried out on a NextSeq-550 sequencer
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model NextSeq 550
 
Data processing Paired ends aligned using FASTQ paired-end parser
Quality control and Tophat 2 Alignment
General sequence statistics calculated
Genome_build: mm9
Supplementary_files_format_and_content: .bw
 
Submission date Apr 20, 2017
Last update date May 15, 2019
Contact name John Paterson Thomson
E-mail(s) john.thomson@igmm.ed.ac.uk
Organization name University of Edinburgh
Department MRC Human Genetics Unit
Lab Meehan
Street address Crewe Road
City Edinburgh
ZIP/Postal code EH4 2XU
Country United Kingdom
 
Platform ID GPL21626
Series (1)
GSE98034 RNAseq analysis between hepatocytes isolated from control livers, β1-integrin mutant livers, P21 over-expressed livers and ductal cells.
Relations
BioSample SAMN06806177
SRA SRX2750242

Supplementary file Size Download File type/resource
GSM2585822_ctrl_3.coverage.bw 233.6 Mb (ftp)(http) BW
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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