2024-09-19
ENA first public
ERC000050
ENA-CHECKLIST
EMBL Heidelberg
INSDC center name
public
INSDC status
ERS21060407
SRA accession
spire_mag_01017682
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
missing: third party data
collection date
99.83
%
completeness score
checkm2 0.1.3
completeness software
0.05
%
contamination score
This sample represents a Third Party Annotation (TPA) binned metagenome assembled from the metagenomic runs SRR1980382,SRR1910135,SRR1980365,SRR1915604,SRR1980395 of study SRP056054.
description
not specified
environmental medium
not provided
geographic location (country and/or sea)
not provided
DD
geographic location (latitude)
not provided
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
This is a prospective, longitudinal collection of stool samples from infants at risk for disease. Infants from Finland and Estonia were recruited at birth based on HLA risk genotyping. Parents collected their infants’ stool at approximately monthly intervals and promptly stored the sample in the freezer prior to shipment for sample processing and sequencing. The cohort comprised of 33 infants, 11 of which seroconverted to serum autoantibody positivity and of those, four developed T1D within the three year time-frame of this study.
project name
SAMN03399937
sample derived from
Phocaeicola vulgatus
scientific_name
Illumina HiSeq 2000
sequencing method
multi-marker approach
taxonomic identity marker
binned metagenome: spire_mag_01017682
title