Gut metagenome in T2DM patients on metformin, China
68 gut metagenome samples from newly diagnosed type 2 diabetes patients in China (Beijing), studying metformin drug therapy effects as part of an intervention design. machine-written summary
36 samples · 68 runs · CN · Age unknown · 2025 · 6.43 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 216 sample values (collection date, country, latitude, longitude, subject id, timepoint) |
| ✓ Abstract / description | 72 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
Non-antibiotic pharmaceutical given as the study intervention (metformin design single_arm_before_after · population type2_diabetes · Metformin treatment in newly diagnosed T2DM patients
“effects of metformin on the transcriptome” — bioproject.description (study level; per-sample arms are in the intervention column below)
longitudinal — not resolved
18 of 18 people sampled more than once (36 samples; median 2, up to 2 per person).
Genera, mean relative abundance over 35 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 | 36 | 100% | 36 | |||
| health_condition | 36 | 100% | 36 | |||
| subject_id | 36 | 100% | 36 | |||
| collection_date | 36 | 100% | 36 | |||
| health_condition_detail | 36 | 100% | 36 | |||
| latitude | 36 | 100% | 36 | |||
| longitude | 36 | 100% | 36 | |||
| timepoint_label | 36 | 100% | 36 |
Archive description
In this study, we investigated the effects of metformin on the transcriptome data of whole blood samples and the metagenome data of the gut microbiota in newly diagnosed type 2 diabetes mellitus (T2DM) patients. Our objective was to identify potential mechanisms by which metformin treats T2DM.
How this project entered the registry
Classified as human and non-human (mixed) gut / stool shotgun DNA metagenome of age unknown by opus_adjudicated with confidence 0.50. Assay shotgun_dna.
- host run.host_tax_id · “9606”
- host run.host_tax_id · “10090”
- body site study.description · “metagenome data of the gut microbiota”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN36699553 | collection_date | 2023-05 | R1 | 0.90 | biosample.attribute:collection_date | 2023-05 |
| SAMN36699553 | country | CN | R1 | 0.90 | sample.attr.geo_loc_name | China |
| SAMN36699553 | health_condition | type2_diabetes | R4 | 0.50 | study.description | newly diagnosed type 2 diabetes mellitus (T2DM) patients |
| SAMN36699553 | health_condition_detail | newly diagnosed type 2 diabetes mellitus | R4 | 0.50 | study.description | newly diagnosed type 2 diabetes mellitus (T2DM) |
| SAMN36699553 | latitude | 38.2500 | R1 | 0.90 | biosample.attribute:lat_lon | 38.2500001 N 114.20 E |
| SAMN36699553 | longitude | 114.2000 | R1 | 0.90 | biosample.attribute:lat_lon | 38.2500001 N 114.20 E |
| SAMN36699553 | subject_id | 2 | R1 | 0.70 | sample.name_rule:alias | MS2_1_1 |
| SAMN36699553 | timepoint_label | 1 | R1 | 0.70 | sample.name_rule:alias | MS2_1_1 |
Sequencing
68 runs over 36 samples · mean 3.87 Gbp per run (median 6.43 Gbp, total 263.29 Gbp; 68 runs with a base count) · layout PAIRED 36, SINGLE 32 · platform ILLUMINA 68 · models Illumina HiSeq X (36), Illumina HiSeq 2500 (32) · 51% of runs with a Sandpiper profile · first public 2025-12-18
Authors (0)
No author record.
Downloads
PRJNA997572.csv.gz (1.7 KB) · parquet (70.9 KB) — all 36 samples, every field with route and confidence · PRJNA997572_determinations.csv.gz (2.7 KB) — 288 evidence rows