Severe alcohol-related hepatitis, Amiens, France
30 gut metagenome samples from adult patients with severe alcohol-related hepatitis in Amiens, France, in a case-control study comparing 90-day survivors and non-survivors. machine-written summary
30 samples · 57 runs · FR · Adult · 2025 · 3.13 Gbp / sample
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what each source gave
| ✓ Sequence archive | 162 sample values (collection date, country, health condition, health condition detail, latitude, location locality, location region, longitude) |
| ✓ Abstract / description | 52 sample values (health condition, health condition detail) |
| – Full text | no open-access full text linked |
| – 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 30 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 | 30 | 100% | ||||
| country | 30 | 100% | 30 | |||
| health_condition | 30 | 100% | 4 | 26 | ||
| subject_id | 0 | 0% | ||||
| collection_date | 30 | 100% | 30 | |||
| detailed_location | 30 | 100% | ||||
| health_condition_detail | 30 | 100% | 4 | 26 | ||
| latitude | 30 | 100% | 30 | |||
| location_locality | 30 | 100% | 30 | |||
| longitude | 30 | 100% | 30 | |||
| location_region | 4 | 13% | 4 |
Archive description
Objectives: Severe alcohol-related hepatitis (sAH) is associated with high mortality. Identification of at-risk patients at baseline is challenging for adapting treatment. We aimed to develop baseline models predictive of 90-day survival. Methods: We retrospectively included 72 biopsy-proven sAH patients, characterized their baseline clinicobiological features and gut microbiota (GM) using shotgun metagenomics in combination with short-chain fatty acids and bile acids profiling. Univariate then bivariate logistic regression models predictive of 90-day outcome were constructed, with and without multiple imputation of missing data. Model performance was assessed through computation of discrimination and calibration metrics. Results: 19 sAH patients were deceased 90-day following presentation (D90) and 53 were alive (A90). At baseline, D90 presented altered polymorphonuclear score (PNS), with low circulating eosinophils and basophil proportions over neutrophils. The GM composition and its related metabolites was similar for both groups except for the phylum Fusobacteria, enriched in D90. Addition of the PNS to the baseline Glasgow Alcoholic Hepatitis Score (GAHS) identified 89.5 % of D90, with a specificity of 75.5% and an area under the curve (AUC) of 0.892 (0.817-0.967), a performance significantly superior to that of GAHS alone (sensitivity: 94.7%, specificity: 45.3%, AUC: 0.746 (0.633-0.860) (p = 0.004, DeLong). Conclusions: PNS may be routinely calculated to identify sAH patients at-risk of death in the following weeks. Quantification of fecal Fusobacteria load may prove an additional clinically relevant predictor. External validation is warranted.
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.description · “clinicobiological features and gut microbiota (GM) using”
- body site external_curation.infant_catalog · “body_site_call gut”
- body site study.description · “retrospectively included 72 biopsy -proven sAH patients,”
- 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 |
|---|---|---|---|---|---|---|
| SAMN44272032 | collection_date | 2019-01-10 | R1 | 0.90 | biosample.attribute:collection_date | 2019-01-10 |
| SAMN44272032 | country | FR | R1 | 0.90 | sample.attr.geo_loc_name | France: Amiens |
| SAMN55002406 | health_condition | liver_disease | R1 | 0.85 | biosample.attribute:gastrointest_disord | gastrointest_disord: Severe alcohol-related hepatitis |
| SAMN44272032 | health_condition | liver_disease | R4 | 0.50 | study.description | biopsy-proven sAH patients |
| SAMN55002406 | health_condition_detail | Severe alcohol-related hepatitis | R1 | 0.90 | sample.attr.gastrointest_disord | Severe alcohol-related hepatitis |
| SAMN44272032 | health_condition_detail | Severe alcohol-related hepatitis | R4 | 0.50 | study.description | biopsy-proven sAH patients |
| SAMN44272032 | latitude | 49.5200 | R1 | 0.90 | biosample.attribute:lat_lon | 49.52 N 2.15 E |
| SAMN44272032 | location_locality | Amiens | R1 | 0.85 | biosample.attribute:geo_loc_name | France: Amiens |
| SAMN55002406 | location_region | Picardie | R1 | 0.60 | biosample.attribute:lat_lon | 49.51 N 2.15 E |
| SAMN44272032 | longitude | 2.1500 | R1 | 0.90 | biosample.attribute:lat_lon | 49.52 N 2.15 E |
Sequencing
57 runs over 57 samples · mean 3.50 Gbp per run (median 3.13 Gbp, total 199.64 Gbp; 57 runs with a base count) · layout PAIRED 57 · platform ILLUMINA 57 · models NextSeq 550 (57) · 96% of runs with a Sandpiper profile · first public 2025-11-23 – 2026-02-22
Authors (0)
No author record.
Downloads
PRJNA1172418.csv.gz (1.8 KB) · parquet (71.2 KB) — all 30 samples, every field with route and confidence · PRJNA1172418_determinations.csv.gz (2.1 KB) — 214 evidence rows