Oral-gut microbiome in advanced liver disease
73 saliva and fecal samples from a UK case-control study of advanced chronic liver disease patients versus healthy and septic controls, examining oral-to-gut bacterial translocation linked to intestinal barrier dysfunction and hepatic fibrosis. machine-written summary
73 samples · 73 runs · GB · Age unknown · 2026 · 11.21 Gbp / sample · cohort Microbial collagenase activity is linked to oral-g
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 146 sample values (country, subject id) |
| ○ Abstract / description | read; no usable statement |
| ○ Full text | read; no usable statement or table · PMC12768972 |
| ✓ Supplementary tables | 217 sample values (age, antibiotic exposure, health condition, health condition detail, sex) |
| – 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 34 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 | 1 | 1% | ||||
| country | 73 | 100% | 73 | |||
| health_condition | 73 | 100% | 73 | |||
| subject_id | 73 | 100% | 73 | |||
| health_condition_detail | 73 | 100% | 73 | |||
| sex | 69 | 95% | 69 | |||
| age_at_collection_days | 1 | 1% | 1 | |||
| antibiotic_exposure | 1 | 1% | 1 |
- Microbial collagenase activity is linked to oral-gut translocation in advanced chronic liver disease. 2026 PMID 41461922 PMC12768972 own_data
Archive description
Microbiome alterations are associated with advanced chronic liver disease (ACLD), but mechanisms remain unclear. We analyzed saliva and fecal samples from ACLD patients, healthy controls, and septic controls. ACLD patients were stratified by disease stage (cACLD, AD, ACLF)
How this project entered the registry
Classified as human oral cavity / gut / stool shotgun DNA metagenome of age unknown by sonnet_x2 with confidence 0.72. Assay shotgun_dna.
- host run.host_tax_id · “9606”
- body site study.description · “analyzed saliva and fecal samples from ACLD patients”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN53089766 | age_at_collection_days | 14610.0 | R2 | 0.75 | paper.supp.41564_2025_2223_MOESM4_ESM.xlsx[patient info!age] | patient_id=HC103; age=40 |
| SAMN53089766 | antibiotic_exposure | no | R2 | 0.75 | paper.supp.41564_2025_2223_MOESM4_ESM.xlsx[patient info!receive_antibiotic] | patient_id=HC103; receive_antibiotic=0 |
| SAMN53089721 | country | GB | R1 | 0.90 | sample.attr.geo_loc_name | United Kingdom |
| SAMN53089721 | health_condition | healthy_control | R2 | 0.75 | paper.supp.41564_2025_2223_MOESM4_ESM.xlsx[metadata table!disease_state] | sample_id=GLA-HC-103_st; disease_state=Ctrl:HC |
| SAMN53089721 | health_condition_detail | Ctrl:HC | R2 | 0.85 | paper.supp.41564_2025_2223_MOESM4_ESM.xlsx[metadata table!disease_state] | Ctrl:HC |
| SAMN53089722 | sex | male | R2 | 0.75 | paper.supp.41564_2025_2223_MOESM4_ESM.xlsx[patient info!gender] | patient_id=HC041; gender=male |
| SAMN53089721 | subject_id | HC-103 | R1 | 0.85 | sample.attr.patient_id | HC-103 |
Sequencing
73 runs over 73 samples · mean 12.49 Gbp per run (median 11.21 Gbp, total 911.81 Gbp; 73 runs with a base count) · layout PAIRED 73 · platform ILLUMINA 73 · models Illumina NovaSeq 6000 (73) · 97% of runs with a Sandpiper profile · first public 2026-01-20
Authors (17)
Jin S first · Cenier A · Wetzel D · Arefaine B · Moreno-Gonzalez M · Stamouli M · Mohamad M · Lupatsii M · Ríos E · Lee S · Zamalloa A · Chokshi S · Mardinoglu A · Shoaie S · Beraza N · Patel VC · Schirmer M last
Downloads
PRJNA1307628.csv.gz (2.9 KB) · parquet (72.7 KB) — all 73 samples, every field with route and confidence · PRJNA1307628_determinations.csv.gz (3.5 KB) — 363 evidence rows