Gut virome in liver cirrhosis vs healthy adults, China
Case-control study of 83 adult faecal metagenome samples from China comparing liver cirrhosis patients and healthy controls, examining gut viral-bacterial ecology and virome-based biomarkers. machine-written summary
83 samples · 83 runs · CN · Adult · 2024 · 6.34 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 166 sample values (collection date, country) |
| ✓ Abstract / description | 83 sample values (health condition detail) |
| ○ Full text | read; no usable statement or table · PMC13469701 |
| ○ 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 · share metadata |
| – Human verified | not yet checked by a person · I checked this project — verify it |
Genera, mean relative abundance over 76 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 | 83 | 100% | ||||
| country | 83 | 100% | 83 | |||
| health_condition | 0 | 0% | ||||
| subject_id | 0 | 0% | ||||
| collection_date | 83 | 100% | 83 | |||
| health_condition_detail | 83 | 100% | 83 |
- Disrupted Gut Viral-Bacterial Ecology of Patients With Liver Cirrhosis. 2026 PMID 42587419 PMC13469701 unsure
Archive description
Current evidence suggests a causative link between gut microbiota dysbiosis and hepatic encephalopathy (HE), but the precise mechanism is unclear. Here we report a novel pathogenic mechanism for HE driven by microbiota dysbiosis by deeply analysis the gut microbiota metagenomic sequence of healthy control, cirrhosis and HE patients.
How this project entered the registry
Classified as human gut / stool 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 microbiota dysbiosis in”
- body site study.description · “causative link between gut microbiota dysbiosis and”
- 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 |
|---|---|---|---|---|---|---|
| SAMEA115372997 | collection_date | 2021 | R1 | 0.90 | biosample.attribute:collection_date | 2021 |
| SAMEA115372997 | country | CN | R1 | 0.90 | sample.attr.geographic_location_country_and_or_sea | China |
| SAMEA115372997 | health_condition_detail | mixed_case_control: healthy controls vs cirrhosis patients vs hepatic encephalopathy patients | R4 | 0.50 | study.description | healthy control, cirrhosis and HE patients |
Sequencing
83 runs over 83 samples · mean 6.41 Gbp per run (median 6.34 Gbp, total 532.09 Gbp; 83 runs with a base count) · layout PAIRED 83 · platform ILLUMINA 83 · models Illumina HiSeq 2500 (83) · 92% of runs with a Sandpiper profile · first public 2024-03-05 – 2024-03-09
Authors (12)
Chang H first · Yang Y · Zhang P · Lei Z · Zhang Y · Li S · Wang L · Wang Y · Jiang J · Li L · Shi H · Shi A last
Help complete this project
2 of the 4 core fields are below 50% coverage: health_condition, subject_id. Share metadata
Downloads
PRJEB65440.csv.gz (2.9 KB) · parquet (72.5 KB) — all 83 samples, every field with route and confidence · PRJEB65440_determinations.csv.gz (1.9 KB) — 249 evidence rows