Gut metagenomes of Yi, Tibetan groups & hypertension, China
Cross-sectional study of 143 gut metagenome samples from Tibet, Liangshan, and Sichuan, China, comparing Yi and Tibetan populations, including 93 healthy controls and 50 with cardiometabolic conditions. machine-written summary
143 samples · 143 runs · CN · Age unknown · 2021 · 11.56 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 1,004 sample values (collection date, country, health condition, health condition detail, latitude, location locality, location region, longitude) |
| ○ Abstract / description | read; no usable statement |
| – Full text | no open-access full text linked |
| – Supplementary tables | no supplementary tables available (or none open access) |
| ✓ External resources | 186 sample values (health condition, health condition detail) · from GMrepo v3 |
| – User contribution | nothing uploaded yet |
| – Human verified | not yet checked by a person · I checked this project — verify it |
Genera, mean relative abundance over 135 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 | 143 | 100% | 143 | |||
| health_condition | 143 | 100% | 50 | 93 | ||
| subject_id | 143 | 100% | 143 | |||
| collection_date | 143 | 100% | 143 | |||
| detailed_location | 143 | 100% | ||||
| health_condition_detail | 143 | 100% | 50 | 93 | ||
| latitude | 143 | 100% | 143 | |||
| location_region | 143 | 100% | 143 | |||
| longitude | 143 | 100% | 143 | |||
| location_locality | 46 | 32% | 46 |
Archive description
The present study is to understand the gut metagenome between Yi and Tibetan population, and their relationship with hypertension patients in China.
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 run.host_tax_id · “9606”
- body site study.title · “Gut metagenomes of Yi and Tibetan population”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN10592349 | collection_date | 2016 | R1 | 0.90 | biosample.attribute:collection_date | 2016 |
| SAMN10592349 | country | CN | R1 | 0.90 | sample.attr.geo_loc_name | China:Sichuan |
| SAMN10592349 | health_condition | cardiometabolic_other | R1 | 0.85 | biosample.attribute:description | Hypertension |
| SAMN10592399 | health_condition | healthy_control | R2 | 0.75 | external.gmrepo source | phenotype: Health |
| SAMN10592349 | health_condition_detail | Hypertension | R1 | 0.85 | biosample.attribute:description | Hypertension |
| SAMN10592399 | health_condition_detail | Health | R2 | 0.75 | external.gmrepo source | phenotype: Health |
| SAMN10592349 | latitude | 30.6900 | R1 | 0.90 | biosample.attribute:lat_lon | 30.69 N 104.06 E |
| SAMN10592446 | location_locality | Liangshan | R1 | 0.85 | biosample.attribute:geo_loc_name | China:Liangshan |
| SAMN10592349 | location_region | Sichuan | R1 | 0.85 | biosample.attribute:geo_loc_name | China:Sichuan |
| SAMN10592446 | location_region | Sichuan | R1 | 0.60 | biosample.attribute:lat_lon | 27.88 N 102.27 E |
| SAMN10592349 | longitude | 104.0600 | R1 | 0.90 | biosample.attribute:lat_lon | 30.69 N 104.06 E |
| SAMN10592349 | subject_id | HBP01 | R1 | 0.85 | sample.attr.host_subject_id | HBP01 |
Sequencing
143 runs over 143 samples · mean 11.61 Gbp per run (median 11.56 Gbp, total 1,660.86 Gbp; 143 runs with a base count) · layout PAIRED 143 · platform ILLUMINA 143 · models Illumina HiSeq 3000 (143) · 94% of runs with a Sandpiper profile · first public 2021-01-10 – 2021-01-11
Authors (0)
No author record.
Downloads
PRJNA509999.csv.gz (4.6 KB) · parquet (76.4 KB) — all 143 samples, every field with route and confidence · PRJNA509999_determinations.csv.gz (8.9 KB) — 1,190 evidence rows