Gut microbiota after bariatric surgery, USA, longitudinal
135 gut metagenome samples from obese patients in the USA, collected longitudinally following Roux-en-Y Gastric Bypass surgery to study microbial shifts linked to weight loss. machine-written summary
135 samples · 135 runs · US · Age unknown · 2022 · 5.79 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 135 sample values (country) |
| ✓ Abstract / description | 135 sample values (health condition) |
| ○ Full text | read; no usable statement or table · PMC11958714, PMC12085223, PMC12342957, PMC8224199 |
| ○ 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 |
Surgical procedure studied before/after (bariatric surgery · population obesity · Roux-en-Y gastric bypass / sleeve gastrectomy, sampled pre- and post-surgery
“characterize a microbial signature following Roux-en-Y Gastric bypass” — bioproject.description (study level; per-sample arms are in the intervention column below)
Genera, mean relative abundance over 124 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 | 135 | 100% | 135 | |||
| health_condition | 135 | 100% | 135 | |||
| subject_id | 0 | 0% |
- High-dimensional biomarker identification for interpretable disease prediction via machine learning models. 2025 PMID 40286292 PMC12085223 own_data
- Decoding longitudinal microbiome trajectories: an interpretable machine learning approach for biomarker discovery and prediction. 2025 PMID 40794955 PMC12342957 own_data
- A microbial signature following bariatric surgery is robustly consistent across multiple cohorts. 2021 PMID 34159880 PMC8224199 unsure
- MAGs-based genomic comparison of gut significantly enriched microbes in obese individuals pre- and post-bariatric surgery across diverse locations. 2025 PMID 40171165 PMC11958714 unsure
Archive description
Bariatric surgery induces significant shifts in the gut microbiota which could potentially contribute to weight loss and metabolic benefits. The aim of this study was to characterize a microbial signature following Roux-en-Y Gastric bypass (RYGB) surgery.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by sonnet_x2 with confidence 0.75. Assay shotgun_dna.
- host run.host_tax_id · “9606”
- body site study.title · “gut microbiota following bariatric surgery”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN16406885 | country | US | R1 | 0.90 | sample.attr.geo_loc_name | USA |
| SAMN16406885 | health_condition | obesity | R4 | 0.30 | study.description | Bariatric surgery induces significant shifts in the gut microbiota |
Sequencing
135 runs over 135 samples · mean 6.17 Gbp per run (median 5.79 Gbp, total 833.29 Gbp; 135 runs with a base count) · layout PAIRED 135 · platform ILLUMINA 135 · models Illumina HiSeq 4000 (135) · 92% of runs with a Sandpiper profile · first public 2022-11-02
Authors (23)
Fouladi F first · Carroll IM · Sharpton TJ · Bulik-Sullivan E · Heinberg L · Steffen KJ · Fodor AA last · Shi H first · Li J last · Dai Y first · Wu D · Carroll I · Zou F · Zou B last · Qian Y · Qu Y · Guan W · Xie J · Wang D · Butler C · Dashper S · Divaris K · Liu Y
Help complete this project
2 of the 4 core fields are below 50% coverage: age_category, subject_id. Share metadata
Downloads
PRJNA668357.csv.gz (3.9 KB) · parquet (73.7 KB) — all 135 samples, every field with route and confidence · PRJNA668357_determinations.csv.gz (1.8 KB) — 270 evidence rows