Gut metagenomics in Chinese peri/post-menopausal women, Guangdong
499 fecal metagenome samples from healthy peri/post-menopausal women in Guangdong, China, cross-sectional, studying gut microbiota links to bone mineral density and osteoporosis risk. machine-written summary
499 samples · 499 runs · CN · Adult · 2023 · 7.01 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 2,495 sample values (collection date, country, latitude, location region, longitude) |
| ✓ Abstract / description | 998 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 |
Genera, mean relative abundance over 455 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 | 499 | 100% | ||||
| country | 499 | 100% | 499 | |||
| health_condition | 499 | 100% | 499 | |||
| subject_id | 0 | 0% | ||||
| collection_date | 499 | 100% | 499 | |||
| detailed_location | 499 | 100% | ||||
| health_condition_detail | 499 | 100% | 499 | |||
| latitude | 499 | 100% | 499 | |||
| location_region | 499 | 100% | 499 | |||
| longitude | 499 | 100% | 499 |
- Gut microbiota impacts bone via Bacteroides vulgatus-valeric acid-related pathways. 2023 PMID 37891329 PMC10611739 unsure
Archive description
Fecal samples from Chinese healthy peri/post-menopausal women and measured by metagenomics
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.description · “Fecal samples from Chinese”
- body site external_curation.infant_catalog · “body_site_call gut”
- life stage external_curation.infant_catalog · “infant triage reason_code age_adult_only”
- life stage study.title · “of Chinese peri/post-menopausal women”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN37275017 | collection_date | 2014-06-16 | R1 | 0.90 | biosample.attribute:collection_date | 2014-06-16 |
| SAMN37275017 | country | CN | R1 | 0.90 | sample.attr.geo_loc_name | China: Guangdong |
| SAMN37275017 | health_condition | healthy_control | R4 | 0.50 | study.description | Chinese healthy peri/post-menopausal women |
| SAMN37275017 | health_condition_detail | Healthy women | R4 | 0.50 | study.description | Chinese healthy peri/post-menopausal women |
| SAMN37275017 | latitude | 20.3800 | R1 | 0.90 | biosample.attribute:lat_lon | 20.38 N 113.14 E |
| SAMN37275017 | location_region | Guangdong | R1 | 0.85 | biosample.attribute:geo_loc_name | China: Guangdong |
| SAMN37275017 | longitude | 113.1400 | R1 | 0.90 | biosample.attribute:lat_lon | 20.38 N 113.14 E |
Sequencing
499 runs over 499 samples · mean 7.35 Gbp per run (median 7.01 Gbp, total 3,670.04 Gbp; 499 runs with a base count) · layout PAIRED 499 · platform ILLUMINA 499 · models Illumina HiSeq 4000 (499) · 91% of runs with a Sandpiper profile · first public 2023-09-08 – 2023-09-10
Authors (32)
Lin X first · Xiao HM · Liu HM · Lv WQ · Greenbaum J · Gong R · Zhang Q · Chen YC · Peng C · Xu XJ · Pan DY · Chen Z · Li ZF · Zhou R · Wang XF · Lu JM · Ao ZX · Song YQ · Zhang YH · Su KJ · Meng XH · Ge CL · Lv FY · Luo Z · Shi XM · Zhao Q · Guo BY · Yi NJ · Shen H · Papasian CJ · Shen J · Deng HW last
Downloads
PRJNA1011937.csv.gz (12.9 KB) · parquet (89.1 KB) — all 499 samples, every field with route and confidence · PRJNA1011937_determinations.csv.gz (18.7 KB) — 3,493 evidence rows