Metagenomes in liver transplant recipients with MASLD, US
21 stool metagenome samples from adult liver transplant recipients with MASLD in the USA, cross-sectionally analyzed and assembled into 357 MAGs, including high-quality genomes of Akkermansia and Bacteroides species. machine-written summary
21 samples · 21 runs · US · Adult · 2023 · 3.36 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 21 sample values (country) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 105 sample values (health condition, health condition detail, location locality, location region, location site) · PMC11717916 |
| ✓ Supplementary tables | 63 sample values (age, sex, subject id) |
| – 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 |
intervention — arms not resolved
Surgical procedure studied before/after (bariatric surgery design observational_with_procedure · population liver_disease · Liver transplantation cohort, stool sampled post-transplant
“NAFLD patients gone through liver transplantation” — bioproject.description (study level; per-sample arms are in the intervention column below)
Genera, mean relative abundance over 20 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 | 21 | 100% | ||||
| country | 21 | 100% | 21 | |||
| health_condition | 21 | 100% | 21 | |||
| subject_id | 21 | 100% | 21 | |||
| age_at_collection_days | 21 | 100% | 21 | |||
| detailed_location | 21 | 100% | ||||
| health_condition_detail | 21 | 100% | 21 | |||
| location_locality | 21 | 100% | 21 | |||
| location_region | 21 | 100% | 21 | |||
| location_site | 21 | 100% | 21 | |||
| sex | 21 | 100% | 21 |
- Deep sequencing-derived Metagenome Assembled Genomes from the gut microbiome of liver transplant patients. 2025 PMID 39788961 PMC11717916 own_data
Archive description
We have constructed several MAGs from stool sample collected from NAFLD patients gone through liver transplantation.
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 · “human gut metagenome Genome sequencing”
- body site study.description · “several MAGs from stool sample collected from”
- body site study.description · “patients gone through liver transplantation.”
- 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 |
|---|---|---|---|---|---|---|
| SAMN35014950 | age_at_collection_days | 23741.2 | R2 | 0.85 | paper.supp.41597_2024_4153_MOESM1_ESM.pdf[p2t1!Age] | 65 |
| SAMN35014950 | country | US | R1 | 0.90 | sample.attr.geo_loc_name | USA |
| SAMN35014950 | health_condition | liver_disease | R3 | 0.70 | paper.fulltext.methods | recipients (age >18) with MASH as an indication |
| SAMN35014950 | health_condition_detail | MASH as an indication for LT; MASLD recurrence post-transplant | R3 | 0.70 | paper.fulltext.methods | recipients (age >18) with MASH as an indication |
| SAMN35014950 | location_locality | Memphis | R3 | 0.70 | paper.fulltext.methods | University of Tennessee Health Sciences Center, Memphis, TN |
| SAMN35014950 | location_region | Tennessee | R3 | 0.70 | paper.fulltext.methods | Methodist University Hospital, affiliated with the University of Tennessee Health Sciences Center, |
| SAMN35014950 | location_site | James D. Eason Transplant Institute of Methodist University Hospital | R3 | 0.70 | paper.fulltext.methods | James D. Eason Transplant Institute of Methodist University Hospital |
| SAMN35014950 | sex | male | R2 | 0.85 | paper.supp.41597_2024_4153_MOESM1_ESM.pdf[p2t1!Gender] | M |
| SAMN35014950 | subject_id | N1153 | R2 | 0.85 | paper.supp.41597_2024_4153_MOESM1_ESM.pdf[p2t1!Patient (sample) ID] | N1153 |
Sequencing
21 runs over 21 samples · mean 3.67 Gbp per run (median 3.36 Gbp, total 77.07 Gbp; 21 runs with a base count) · layout PAIRED 21 · platform ILLUMINA 21 · models Illumina NovaSeq 6000 (21) · 95% of runs with a Sandpiper profile · first public 2023-06-21
Authors (5)
Banerjee G first · Papri SR · Huang H · Satapathy SK · Banerjee P last
Downloads
PRJNA970820.csv.gz (1.7 KB) · parquet (71.7 KB) — all 21 samples, every field with route and confidence · PRJNA970820_determinations.csv.gz (2.1 KB) — 189 evidence rows