Gut virome in alcoholic liver disease vs healthy, Denmark
104 fecal viral metagenome samples from Danish patients with alcoholic liver disease and healthy individuals, analyzed in a case-control design. machine-written summary
104 samples · 104 runs · DK · Adult · 2021 · 1.73 Gbp / sample · cohort A Previously Undescribed Highly Prevalent Phage Id
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 832 sample values (collection date, country, health condition, health condition detail, latitude, location region, longitude, subject id) |
| ○ Abstract / description | read; no usable statement |
| ○ Full text | read; no usable statement or table · PMC11792537, PMC11986028, PMC8525569 |
| – Supplementary tables | no supplementary tables available (or none open access) |
| – External resources | not covered by the external resources we ingest |
| – User contribution | nothing uploaded yet |
| – Human verified | not yet checked by a person · I checked this project — verify it |
Genera, mean relative abundance over 74 profiled gut samples of this project (Sandpiper SingleM profiles, GTDB R232; low-depth and non-metagenome profiles left out).
| field | samples | coverage | R1 | R2 | R3 | R4 |
|---|---|---|---|---|---|---|
| age_category | 104 | 100% | ||||
| country | 104 | 100% | 104 | |||
| health_condition | 104 | 100% | 104 | |||
| subject_id | 104 | 100% | 104 | |||
| collection_date | 104 | 100% | 104 | |||
| detailed_location | 104 | 100% | ||||
| health_condition_detail | 104 | 100% | 104 | |||
| latitude | 104 | 100% | 104 | |||
| location_region | 104 | 100% | 104 | |||
| longitude | 104 | 100% | 104 |
- A Previously Undescribed Highly Prevalent Phage Identified in a Danish Enteric Virome Catalog. 2021 PMID 34665009 PMC8525569 unsure
- Identification and characterization of <i>Faecalibacterium</i> prophages rich in diversity-generating retroelements. 2025 PMID 39745426 PMC11792537 unsure
- Characterization of the phyllosphere virome of fresh vegetables and potential transfer to the human gut. 2025 PMID 40210629 PMC11986028 unsure
Archive description
Fecal viral metagenomes from Danish patients with alcoholic liver disease and healthy individuals.
How this project entered the registry
Classified as human gut / stool / blood / tissue / internal fluids shotgun DNA metagenome of adult by deterministic_prior with confidence 0.90. Assay shotgun_dna.
- host external_curation.infant_catalog · “infant triage reason_code age_adult_only”
- body site study.title · “Gut virome of patients”
- body site study.description · “Fecal viral metagenomes from”
- body site study.title · “patients with alcoholic liver disease and healthy”
- body site study.description · “patients with alcoholic liver disease and healthy”
- life stage external_curation.infant_catalog · “infant triage reason_code age_adult_only”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN18794141 | collection_date | 2021-04-12 | R1 | 0.90 | biosample.attribute:collection_date | 2021-04-12 |
| SAMN18794141 | country | DK | R1 | 0.90 | sample.attr.geo_loc_name | Denmark |
| SAMN18794141 | health_condition | liver_disease | R1 | 0.70 | sample.name_rule:alias | CLD001 |
| SAMN18794141 | health_condition_detail | CLD | R1 | 0.70 | sample.name_rule:alias | CLD001 |
| SAMN18794141 | latitude | 55.3900 | R1 | 0.90 | biosample.attribute:lat_lon | 55.39 N 10.37 E |
| SAMN18794141 | location_region | South Denmark | R1 | 0.60 | biosample.attribute:lat_lon | 55.39 N 10.37 E |
| SAMN18794141 | longitude | 10.3700 | R1 | 0.90 | biosample.attribute:lat_lon | 55.39 N 10.37 E |
| SAMN18794141 | subject_id | CLD001 | R1 | 0.85 | sample.attr.subject | CLD001 |
Sequencing
104 runs over 104 samples · mean 2.20 Gbp per run (median 1.73 Gbp, total 228.29 Gbp; 104 runs with a base count) · layout PAIRED 104 · platform ILLUMINA 104 · models NextSeq 500 (104) · 74% of runs with a Sandpiper profile · first public 2021-09-03
Authors (36)
Van Espen L first · Bak EG · Beller L · Close L · Deboutte W · Juel HB · Nielsen T · Sinar D · De Coninck L · Frithioff-Bøjsøe C · Fonvig CE · Jacobsen S · Kjærgaard M · Thiele M · Fullam A · Kuhn M · Holm JC · Bork P · Krag A · Hansen T · Arumugam M · Matthijnssens J last · Gulyaeva A first · Liu L · Garmaeva S · Kruk M · Weersma RK · Harmsen HJM · Zhernakova A last · Park JW first · Yun YE · Cho JA · Yoon SI · In SA · Park EJ · Kim MS last
Downloads
PRJNA722819.csv.gz (3.5 KB) · parquet (74.3 KB) — all 104 samples, every field with route and confidence · PRJNA722819_determinations.csv.gz (6.0 KB) — 832 evidence rows