title: Sample 61
organism: Homo sapiens
description: Protocols: Liver tissue and serum were collected at the time of liver biopsy following an overnight fast for 8-10 hours and stored at -80˚C. Diagnosis of liver disease was based on standard biochemical and serological assays and consensus histological assessment of the liver biopsy by 2 blinded, experienced pathologists. Fibrosis is measured using the modified METAVIR scoring system, where 0 is no fibrosis, 1 is portal fibrosis without septa, 2 is portal fibrosis with few septa, 3 is portal fibrosis with numerous septa without cirrhosis and 4 is cirrhosis. Alcohol code is based on the following code (from in house lab classifications): 0 = NONE; 1 = >0 - RWA (recommended weekly allowance) (140g/wk women, 210g/wk Men); 2 = > RWA for sex to <350g/wk women, <420g/wk Men; 3 = ≥350g/wk women, ≥420g/wk Men; Total RNA was isolated from human liver biopsy tissue using TRI Reagent (Sigma Aldrich), as per the manufacturer's instructions. RNA quality was assessed using the Agilent 2100 BioAnalyser and samples with an RNA integrity number ≥ 6.0 were included for RNA-sequencing. Up to 1 µg of RNA was used to synthesize mRNA libraries using the TruSeq Stranded Total RNA (Ribo-Zero GOLD) library preparation kit (Illumina), as per the manufacturer's instructions.
attributes.tag: ENA-FIRST-PUBLIC
attributes.value: 2018-07-28T17:03:06Z
attributes.tag: ENA-LAST-UPDATE
attributes.value: 2018-06-08T11:35:25Z
attributes.tag: External Id
attributes.value: SAMEA4717177
attributes.tag: INSDC center name
attributes.value: Institute for Molecular Bioscience (IMB) and IMB Centre for Inflammation and Disease Research, The University of Queensland
attributes.tag: INSDC first public
attributes.value: 2018-07-28T17:03:06Z
attributes.tag: INSDC last update
attributes.value: 2018-06-08T11:35:25Z
attributes.tag: INSDC status
attributes.value: public
attributes.tag: Submitter Id
attributes.value: E-MTAB-6863:Sample 61
attributes.tag: age
attributes.value: 50
attributes.tag: alcohol consumption
attributes.value: 0
attributes.tag: alcohol consumption measurement
attributes.value: 0
attributes.tag: bmi code
attributes.value: 1
attributes.tag: body mass index
attributes.value: 26.19
attributes.tag: broker name
attributes.value: ArrayExpress
attributes.tag: cigarette packs per year
attributes.value: not available
attributes.tag: common name
attributes.value: human
attributes.tag: diabetes
attributes.value: not available
attributes.tag: disease
attributes.value: liver disease
attributes.tag: disease staging
attributes.value: advanced
attributes.tag: elf score
attributes.value: not available
attributes.tag: ethnic group
attributes.value: not available
attributes.tag: fibrosis stage
attributes.value: METAVIR fibrosis score 3
attributes.tag: infect
attributes.value: Hepatitis C virus genotype 1
attributes.tag: organism part
attributes.value: liver
attributes.tag: sample name
attributes.value: E-MTAB-6863:Sample 61
attributes.tag: scientific_name
attributes.value: Homo sapiens
attributes.tag: sex
attributes.value: female
attributes.tag: smoker
attributes.value: not available
attributes.tag: steatosis
attributes.value: steatosis