description: Contigs were assembled de novo using Megahit and pooled from all 25 samples in the RA study Intestinal VLP reads and predicted phage contigs for at-risk RA individuals. Phages were predicted using three independent methods, whereby each contain was described as phage by each method, resulting in 660 final contigs over 5kb in length.
attributes.tag: ENA first public
attributes.value: 2021-02-03
attributes.tag: ENA last update
attributes.value: 2021-01-25
attributes.tag: External Id
attributes.value: SAMEA7856466
attributes.tag: INSDC center alias
attributes.value: UNIVERSITY OF COLORADO DENVER, SCHOOL OF MEDICINE
attributes.tag: INSDC center name
attributes.value: UNIVERSITY OF COLORADO DENVER, SCHOOL OF MEDICINE
attributes.tag: INSDC first public
attributes.value: 2021-02-03T04:09:58Z
attributes.tag: INSDC last update
attributes.value: 2021-01-25T18:15:18Z
attributes.tag: INSDC status
attributes.value: public
attributes.tag: Submitter Id
attributes.value: 660_RA_intestinal_phages
attributes.tag: assembly quality
attributes.value: Single contiguous sequence without gaps or ambiguities with a consensus error rate equivalent to Q50 or better
attributes.tag: assembly software
attributes.value: MEGAHIT;v1.2.7;meta-large: '--k-min 27 --k-max 127 --k-step 10'
attributes.tag: binning parameters
attributes.value: multi-algorithm approach
attributes.tag: binning software
attributes.value: other
attributes.tag: collection date
attributes.value: 2019
attributes.tag: completeness score
attributes.value: 63.6
attributes.tag: completeness software
attributes.value: checkv;v0.6.0
attributes.tag: contamination score
attributes.value: 3.6
attributes.tag: environment (biome)
attributes.value: Human
attributes.tag: environment (feature)
attributes.value: Intestine
attributes.tag: environment (material)
attributes.value: stool
attributes.tag: geographic location (country and/or sea)
attributes.value: USA
attributes.tag: geographic location (latitude)
attributes.value: 39.7392° N
attributes.tag: geographic location (longitude)
attributes.value: 104.9903° W
attributes.tag: investigation type
attributes.value: metagenome-assembled genome
attributes.tag: isolation source
attributes.value: stool sample VLPs
attributes.tag: metagenomic source
attributes.value: human gut metagenome
attributes.tag: project name
attributes.value: Predicted phage contigs from intestinal viromes of at-risk RA individuals
attributes.tag: sample derived from
attributes.value: ERS5593339-ERS5593363
attributes.tag: sample name
attributes.value: 660_RA_intestinal_phages
attributes.tag: sequencing method
attributes.value: Illumina NovaSeq 6000 short-read metagenomic sequencing
attributes.tag: taxonomic identity marker
attributes.value: multi-marker approach