Gut microbiota in healthy, obese, and T2D adults, Malaysia
16 gut metagenome samples from adults in Malaysia, comparing healthy controls, obese, and type 2 diabetes groups in a case-control design. machine-written summary
16 samples · 16 runs · MY · Adult · 2016 · 0.18 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 96 sample values (collection date, country, health condition, health condition detail, latitude, longitude) |
| ○ Abstract / description | read; no usable statement |
| ○ Full text | read; no usable statement or table · PMC6563668 |
| ○ 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 |
| – Human verified | not yet checked by a person · I checked this project — verify it |
No Sandpiper profile for this project's samples yet.
| field | samples | coverage | R1 | R2 | R3 | R4 |
|---|---|---|---|---|---|---|
| age_category | 16 | 100% | ||||
| country | 16 | 100% | 16 | |||
| health_condition | 16 | 100% | 16 | |||
| subject_id | 0 | 0% | ||||
| collection_date | 16 | 100% | 16 | |||
| health_condition_detail | 16 | 100% | 16 | |||
| latitude | 16 | 100% | 16 | |||
| longitude | 16 | 100% | 16 |
- Enterotype Variations of the Healthy Human Gut Microbiome in Different Geographical Regions. 2018 PMID 31223215 PMC6563668 own_data
Archive description
TO COMPARE THE PERCENTAGE OF THE BACTERIA THAT DIFFERS IN THE THREE STUDY GROUP NAMELY HEALTHY, OBESE AND TYPE 2 DIABETES ADULTS AND TO DETERMINE IF THE DIFFERENCES IN THE MICROBIOTA INFLUENCES THE OCCURRENCE OF METABOLIC DISEASES NAMELY OBESITY AND TYPE 2 DIABETES AMONG HUMANS.
How this project entered the registry
Classified as human gut / stool mixed assays of adult by sonnet_x2 with confidence 0.60. Assay mixed.
- host study.title · “HUMAN GUTMICROBIOTA Metagenome”
- host run.host_tax_id · “9606”
- body site run.scientific_name · “gut metagenome”
- life stage study.description · “OBESE AND TYPE 2 DIABETES ADULTS”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN03763501 | collection_date | 2013-01-11 | R1 | 0.90 | biosample.attribute:collection_date | 2013-01-11 |
| SAMN03763501 | country | MY | R1 | 0.90 | sample.attr.geo_loc_name | Malaysia |
| SAMN03763501 | health_condition | type2_diabetes | R1 | 0.90 | biosample_attr | type_2_diabetes |
| SAMN03763501 | health_condition_detail | type_2_diabetes | R1 | 0.90 | sample.attr.host_disease | type_2_diabetes |
| SAMN03763501 | latitude | 2.3000 | R1 | 0.90 | biosample.attribute:lat_lon | 2.30 N 112.30 E |
| SAMN03763501 | longitude | 112.3000 | R1 | 0.90 | biosample.attribute:lat_lon | 2.30 N 112.30 E |
Sequencing
16 runs over 16 samples · mean 0.35 Gbp per run (median 0.18 Gbp, total 5.59 Gbp; 16 runs with a base count) · layout PAIRED 16 · platform ILLUMINA 16 · models Illumina MiSeq (16) · 0% of runs with a Sandpiper profile · first public 2016-08-10
Downloads
PRJNA275687.csv.gz (1.3 KB) · parquet (69.9 KB) — all 16 samples, every field with route and confidence · PRJNA275687_determinations.csv.gz (1.0 KB) — 96 evidence rows