2024-09-19
ENA first public
ERC000050
ENA-CHECKLIST
EMBL Heidelberg
INSDC center name
public
INSDC status
ERS21056516
SRA accession
spire_mag_00344204
Submitter Id
Many fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly quality
megahit 1.2.9
assembly software
default
binning parameters
metabat 2.12.1
binning software
human digestive system
broad-scale environmental context
EBI-EMG
broker name
2011
collection date
77.68
%
completeness score
checkm2 0.1.3
completeness software
0.61
%
contamination score
This sample represents a Third Party Annotation (TPA) binned metagenome assembled from the metagenomic run ERR527135 of study ERP005860.
description
stool
environmental medium
China
geographic location (country and/or sea)
30.00000000
DD
geographic location (latitude)
120.00000000
DD
geographic location (longitude)
metagenome-assembled genome
investigation type
human gut metagenome
isolation_source
human gut
local environmental context
human gut metagenome
metagenomic source
Phocaeicola vulgatus
organism
Liver cirrhosis occurs as a consequence of many chronic liver diseases that are prevalent worldwide. Previous studies have shown an association between the gut microbiota and liver complications such as cirrhosis and other liver injuries. We therefore undertook a whole gut microbiome wide association study of stool samples from 98 liver cirrhosis patients and 83 healthy controls to characterise the faecal microbial communities and their functional composition. In total, we generated 860 Gb of high-quality sequence data and built a reference gene set for the liver cirrhosis cohort containing 2.69 million genes, 36.1% of which was not covered by previously published gene catalogues.
project name
SAMEA2581966
sample derived from
Phocaeicola vulgatus
scientific_name
Illumina HiSeq 2000
sequencing method
multi-marker approach
taxonomic identity marker
binned metagenome: spire_mag_00344204
title