Gut microbiome in obese vs healthy Mexican children
20 fecal samples from children in Mexico City, comparing 10 with obesity and 10 healthy controls, in a cross-sectional study design. machine-written summary
20 samples · 20 runs · MX · Child · 2017 · 5.86 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 160 sample values (collection date, country, health condition, health condition detail, latitude, location locality, location region, longitude) |
| ○ Abstract / description | read; no usable statement |
| ○ Full text | read; no usable statement or table · PMC12101585 |
| ○ Supplementary tables | files read; no table could be matched to the samples |
| ✓ External resources | 20 sample values (sex) · from Meta2DB (LLNL) |
| – User contribution | nothing uploaded yet |
| – Human verified | not yet checked by a person · I checked this project — verify it |
Genera, mean relative abundance over 18 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 | 20 | 100% | ||||
| country | 20 | 100% | 20 | |||
| health_condition | 20 | 100% | 20 | |||
| subject_id | 0 | 0% | ||||
| collection_date | 20 | 100% | 20 | |||
| detailed_location | 20 | 100% | ||||
| health_condition_detail | 20 | 100% | 20 | |||
| latitude | 20 | 100% | 20 | |||
| location_locality | 20 | 100% | 20 | |||
| location_region | 20 | 100% | 20 | |||
| longitude | 20 | 100% | 20 | |||
| sex | 20 | 100% | 20 |
- Meta-analysis of shotgun sequencing of gut microbiota in obese children with MASLD or MASH. 2025 PMID 40396204 PMC12101585 unsure
Archive description
Mexican childhood obesity
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of child by deterministic_prior with confidence 0.90. Assay shotgun_dna.
- host external_curation.infant_catalog · “infant triage reason_code age_unknown_no_evidence”
- body site external_curation.infant_catalog · “body_site_call stool”
- life stage study.title · “Mexican childhood obesity Raw sequence”
- life stage study.description · “Mexican childhood obesity”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN06885148 | collection_date | 2013-07-26 | R1 | 0.90 | biosample.attribute:collection_date | 2013-07-26 |
| SAMN06885148 | country | MX | R1 | 0.90 | sample.attr.geo_loc_name | Mexico: Mexico city |
| SAMN06885148 | health_condition | healthy_control | R1 | 0.70 | sample.name_rule:library_names | Meta_Normal01 |
| SAMN06885148 | health_condition_detail | Normal | R1 | 0.70 | sample.name_rule:library_names | Meta_Normal01 |
| SAMN06885148 | latitude | 19.3851 | R1 | 0.90 | biosample.attribute:lat_lon | 19.38508610 N 99.09375071 W |
| SAMN06885148 | location_locality | Mexico City | R1 | 0.85 | biosample.attribute:geo_loc_name | Mexico: Mexico city |
| SAMN06885148 | location_region | Mexico City | R1 | 0.60 | biosample.attribute:lat_lon | 19.38508610 N 99.09375071 W |
| SAMN06885148 | longitude | -99.0938 | R1 | 0.90 | biosample.attribute:lat_lon | 19.38508610 N 99.09375071 W |
| SAMN06885148 | sex | male | R2 | 0.70 | external.meta2db source | host_sex: male |
Sequencing
20 runs over 20 samples · mean 6.06 Gbp per run (median 5.86 Gbp, total 121.13 Gbp; 20 runs with a base count) · layout PAIRED 20 · platform ILLUMINA 20 · models Illumina HiSeq 2500 (20) · 90% of runs with a Sandpiper profile · first public 2017-11-09
Authors (8)
Zöggeler T first · Kavallar AM · Pollio AR · Aldrian D · Decristoforo C · Scholl-Bürgi S · Müller T · Vogel GF last
Downloads
PRJNA385215.csv.gz (1.4 KB) · parquet (70.7 KB) — all 20 samples, every field with route and confidence · PRJNA385215_determinations.csv.gz (2.1 KB) — 180 evidence rows