|
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 |