Fecal metagenomes before/after cholecystectomy, longitudinal
51 fecal metagenome samples from patients undergoing cholecystectomy (gallbladder removal surgery), collected before and after the procedure in a longitudinal design. Country and age data are not reported. machine-written summary
51 samples · 51 runs · Age unknown · 2025 · 11.58 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 153 sample values (health condition, health condition detail, intervention, subject id, timepoint) |
| – Abstract / description | no abstract or project description |
| – 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 · share metadata |
| – 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 single_arm_before_after · population other_disease · Cholecystectomy, stool sampled before and after surgery
“before and after cholecystectomy” — bioproject.description (study level; per-sample arms are in the intervention column below)
longitudinal — not resolved
17 of 34 people sampled more than once (34 samples; median 2, up to 2 per person). Schedule stated by the source: “before and after cholecystectomy (pre/post timepoints), 34 subjects with up to 2 samples each” (time origin: surgery).
Genera, mean relative abundance over 50 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 | 0 | 0% | ||||
| health_condition | 17 | 33% | 17 | |||
| subject_id | 51 | 100% | 51 | |||
| intervention | 34 | 67% | 34 | |||
| timepoint_label | 34 | 67% | 34 | |||
| health_condition_detail | 17 | 33% | 17 |
Archive description
Fecal metagenomic data of 51 patients before and after cholecystectomy
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by sonnet_x2 with confidence 0.72. Assay shotgun_dna.
- host study.title · “Homo sapiens Raw sequence reads”
- body site study.description · “Fecal metagenomic data of 51 patients”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN54181574 | health_condition | healthy_control | R1 | 0.70 | sample.name_rule:alias | HHCC1 |
| SAMN54181574 | health_condition_detail | Healthy / control (name token 'HHCC') | R1 | 0.70 | sample.name_rule:alias | HHCC1 |
| SAMN54181591 | intervention | no_intervention | R1 | 0.70 | sample.name_rule:alias | BLC1 |
| SAMN54181574 | subject_id | HHCC1 | R1 | 0.70 | sample.name_rule:alias | HHCC1 |
| SAMN54181591 | timepoint_label | pre | R1 | 0.70 | sample.name_rule:alias | BLC1 |
Sequencing
51 runs over 51 samples · mean 11.56 Gbp per run (median 11.58 Gbp, total 589.72 Gbp; 51 runs with a base count) · layout PAIRED 51 · platform ILLUMINA 51 · models Illumina NovaSeq 6000 (51) · 98% of runs with a Sandpiper profile · first public 2025-12-26 – 2025-12-27
Authors (0)
No author record.
Help complete this project
3 of the 4 core fields are below 50% coverage: age_category, country, health_condition. Share metadata
Downloads
PRJNA1390426.csv.gz (2.2 KB) · parquet (71.0 KB) — all 51 samples, every field with route and confidence · PRJNA1390426_determinations.csv.gz (1.8 KB) — 153 evidence rows