Fecal virome in NAFLD severity, Cologne (case-control)
91 fecal virus-like-particle samples from NAFLD patients and controls in Cologne, Germany, profiled by shotgun metagenomic sequencing in a case-control study of viral diversity and disease severity. machine-written summary
91 samples · 91 runs · DE · Age unknown · 2020 · 0.28 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 728 sample values (collection date, country, health condition, health condition detail, latitude, location locality, location region, longitude) |
| ✓ Abstract / description | 91 sample values (subject id) |
| ○ Full text | read; no usable statement or table · PMC11986028, PMC8404510 |
| ○ Supplementary tables | files read; no table could be matched to the samples |
| – 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 58 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 | 0 | 0% | ||||
| country | 91 | 100% | 91 | |||
| health_condition | 91 | 100% | 91 | |||
| subject_id | 91 | 100% | 91 | |||
| collection_date | 91 | 100% | 91 | |||
| detailed_location | 91 | 100% | ||||
| health_condition_detail | 91 | 100% | 91 | |||
| latitude | 91 | 100% | 91 | |||
| location_locality | 91 | 100% | 91 | |||
| location_region | 91 | 100% | 91 | |||
| longitude | 91 | 100% | 91 |
- Intestinal Virome Signature Associated With Severity of Nonalcoholic Fatty Liver Disease. 2020 PMID 32652145 PMC8404510 own_data
- Characterization of the phyllosphere virome of fresh vegetables and potential transfer to the human gut. 2025 PMID 40210629 PMC11986028 unsure
Archive description
Shotgun sequencing of 0.8 micron filtered and nuclease-digested viral fraction from human feces with and without NAFLD. Both viral DNA and RNA (via cDNA) was sequenced on Illumina platforms. Human reads were removed using Kneaddata and Pathseqs.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by sonnet_x2 with confidence 0.70. Assay shotgun_dna.
- host study.title · “Human feces viral metagenome”
- body site run.scientific_name · “human gut metagenome”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN11554383 | collection_date | 2016-09 | R1 | 0.90 | biosample.attribute:collection_date | 2016-09 |
| SAMN11554383 | country | DE | R1 | 0.90 | sample.attr.geo_loc_name | Germany: Cologne |
| SAMN11554383 | health_condition | healthy_control | R1 | 0.85 | biosample.attribute:liver_disord | healthy control |
| SAMN15594608 | health_condition | liver_disease | R1 | 0.70 | biosample_attr | Cholestasis |
| SAMN11554383 | health_condition_detail | healthy control | R1 | 0.90 | sample.attr.liver_disord | healthy control |
| SAMN11554383 | latitude | 50.9200 | R1 | 0.90 | biosample.attribute:lat_lon | 50.92 N 6.92 E |
| SAMN11554383 | location_locality | Cologne | R1 | 0.85 | biosample.attribute:geo_loc_name | Germany: Cologne |
| SAMN11554383 | location_region | North Rhine-Westphalia | R1 | 0.60 | biosample.attribute:lat_lon | 50.92 N 6.92 E |
| SAMN11554383 | longitude | 6.9200 | R1 | 0.90 | biosample.attribute:lat_lon | 50.92 N 6.92 E |
| SAMN11554383 | subject_id | SAMN11554383 | R4 | 0.65 | design.one_sample_per_subject:abstract | prospective, cross-sectional, observational study |
Sequencing
91 runs over 91 samples · mean 0.36 Gbp per run (median 0.28 Gbp, total 32.34 Gbp; 91 runs with a base count) · layout PAIRED 91 · platform ILLUMINA 91 · models Illumina HiSeq 2500 (91) · 81% of runs with a Sandpiper profile · first public 2020-05-13 – 2020-07-29
Authors (27)
Lang S first · Demir M · Martin A · Jiang L · Zhang X · Duan Y · Gao B · Wisplinghoff H · Kasper P · Roderburg C · Tacke F · Steffen HM · Goeser T · Abraldes JG · Tu XM · Loomba R · Stärkel P · Pride D · Fouts DE · Schnabl B last · Park JW first · Yun YE · Cho JA · Yoon SI · In SA · Park EJ · Kim MS last
Downloads
PRJNA622386.csv.gz (3.4 KB) · parquet (74.6 KB) — all 91 samples, every field with route and confidence · PRJNA622386_determinations.csv.gz (6.2 KB) — 819 evidence rows