Shotgun metagenomics of T2DM gut microbes in FMT, Xiamen
71 adult gut metagenome samples from Xiamen, China, from people with type 2 diabetes, studied in association with fecal microbiota transplantation (FMT). machine-written summary
71 samples · 71 runs · CN · Adult · 2021 · 7.25 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 421 sample values (country, latitude, location locality, longitude, subject id, timepoint) |
| ✓ Abstract / description | 142 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 |
intervention — arms not resolved
Faecal microbiota transplantation design single_arm_before_after · population type2_diabetes · Fecal microbiota transplantation in T2DM patients
“T2DM human gut microbes associated with FMT” — study.title (study level; per-sample arms are in the intervention column below)
longitudinal — not resolved
33 of 38 people sampled more than once (66 samples; median 2, up to 2 per person).
Genera, mean relative abundance over 65 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 | 71 | 100% | ||||
| country | 71 | 100% | 71 | |||
| health_condition | 71 | 100% | 71 | |||
| subject_id | 71 | 100% | 71 | |||
| detailed_location | 71 | 100% | ||||
| health_condition_detail | 71 | 100% | 71 | |||
| latitude | 71 | 100% | 71 | |||
| location_locality | 71 | 100% | 71 | |||
| longitude | 71 | 100% | 71 | |||
| timepoint_label | 66 | 93% | 66 |
Archive description
Shorgun metagenomics of T2DM human gut microbes associated with FMT
How this project entered the registry
Classified as human gut / stool 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 · “of T2DM human gut microbes associated with”
- body site study.description · “of T2DM human gut microbes associated with”
- 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 |
|---|---|---|---|---|---|---|
| SAMN16630081 | country | CN | R1 | 0.90 | sample.attr.geo_loc_name | China: Xiamen |
| SAMN16630081 | health_condition | type2_diabetes | R4 | 0.50 | study.title | T2DM human gut microbes |
| SAMN16630081 | health_condition_detail | Type 2 diabetes mellitus patients | R4 | 0.50 | study.title | T2DM human gut microbes |
| SAMN16630081 | latitude | 24.3800 | R1 | 0.90 | biosample.attribute:lat_lon | 24.38 N 117.38 E |
| SAMN16630081 | location_locality | Xiamen | R1 | 0.85 | biosample.attribute:geo_loc_name | China: Xiamen |
| SAMN16630081 | longitude | 117.3800 | R1 | 0.90 | biosample.attribute:lat_lon | 24.38 N 117.38 E |
| SAMN16630081 | subject_id | CCZ | R1 | 0.70 | sample.name_rule:alias | CCZ-0 |
| SAMN16630081 | timepoint_label | 0 | R1 | 0.70 | sample.name_rule:alias | CCZ-0 |
Sequencing
71 runs over 71 samples · mean 7.20 Gbp per run (median 7.25 Gbp, total 510.98 Gbp; 71 runs with a base count) · layout PAIRED 71 · platform ILLUMINA 71 · models Illumina NovaSeq 6000 (66), Illumina HiSeq 2000 (5) · 92% of runs with a Sandpiper profile · first public 2021-12-03 – 2023-02-27
Authors (0)
No author record.
Downloads
PRJNA673918.csv.gz (2.7 KB) · parquet (72.9 KB) — all 71 samples, every field with route and confidence · PRJNA673918_determinations.csv.gz (4.3 KB) — 563 evidence rows