Fecal metagenome in obesity and thiamine, Nanjing, China
63 fecal samples from a case-control cohort in Nanjing, China (31 healthy controls, 32 individuals with obesity), studying gut microbial thiamine (vitamin B1) production and its link to obesity. machine-written summary
63 samples · 63 runs · CN · Age unknown · 2025 · 11.57 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 377 sample values (collection date, country, latitude, location locality, location region, longitude) |
| ✓ Abstract / description | 63 sample values (health condition detail) |
| ✓ Full text | 126 sample values (location site, subject id) · PMC12209360 |
| ○ 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 |
Genera, mean relative abundance over 63 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 | 63 | 100% | 63 | |||
| health_condition | 0 | 0% | ||||
| subject_id | 63 | 100% | 63 | |||
| collection_date | 63 | 100% | 63 | |||
| detailed_location | 63 | 100% | ||||
| health_condition_detail | 63 | 100% | 63 | |||
| latitude | 63 | 100% | 63 | |||
| location_locality | 63 | 100% | 63 | |||
| location_site | 63 | 100% | 63 | |||
| longitude | 63 | 100% | 63 | |||
| location_region | 62 | 98% | 62 |
- Multi-omics analyses reveal altered gut microbial thiamine production in obesity. 2025 PMID 40600142 PMC12209360 own_data
Archive description
to explore the vitamine metabolism of obese microbiome
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by sonnet_x2 with confidence 0.60. Assay shotgun_dna.
- host run.host_tax_id · “9606”
- body site study.title · “OB fecal sample Metagenome”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN41374219 | collection_date | 2023 | R1 | 0.90 | biosample.attribute:collection_date | 2023 |
| SAMN41374219 | country | CN | R1 | 0.90 | sample.attr.geo_loc_name | China: nanjing |
| SAMN41374219 | health_condition_detail | mixed_case_control: healthy controls vs individuals with obesity | R4 | 0.50 | paper.abstract | 31 healthy controls and 32 individuals with obesity |
| SAMN41374219 | latitude | 32.0603 | R1 | 0.90 | biosample.attribute:lat_lon | 32.0603 N 118.7969 E |
| SAMN41374219 | location_locality | Nanjing | R1 | 0.85 | biosample.attribute:geo_loc_name | China: nanjing |
| SAMN41374219 | location_region | Jiangsu Sheng | R1 | 0.60 | biosample.attribute:lat_lon | 32.0603 N 118.7969 E |
| SAMN41374219 | location_site | Nanjing Drum Tower Hospital | R3 | 0.70 | paper.fulltext.methods | recruited from The Nanjing Drum Tower Hospital |
| SAMN41374219 | longitude | 118.7969 | R1 | 0.90 | biosample.attribute:lat_lon | 32.0603 N 118.7969 E |
| SAMN41374219 | subject_id | SAMN41374219 | R3 | 0.70 | design.one_sample_per_subject:fulltext | a total of 31 healthy controls and 32 patients with obesity were recruited |
Sequencing
63 runs over 63 samples · mean 11.49 Gbp per run (median 11.57 Gbp, total 724.04 Gbp; 63 runs with a base count) · layout PAIRED 63 · platform ILLUMINA 63 · models Illumina NovaSeq 6000 (63) · 100% of runs with a Sandpiper profile · first public 2025-06-23
Help complete this project
2 of the 4 core fields are below 50% coverage: age_category, health_condition. Share metadata
Downloads
PRJNA1110638.csv.gz (2.8 KB) · parquet (73.4 KB) — all 63 samples, every field with route and confidence · PRJNA1110638_determinations.csv.gz (5.1 KB) — 566 evidence rows