Infant gut microbiome and atopic dermatitis, South Korea cohort
338 gut microbiome samples from South Korean infants and young children, comparing atopic dermatitis (226 samples) versus healthy controls (112 samples) in a longitudinal cohort design. machine-written summary
338 samples · 338 runs · KR · Infant / toddler · 2021 · 3.51 Gbp / sample · cohort Seong 2025 South Korea AD infant cohort
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 676 sample values (collection date, country) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 676 sample values (location locality, location site) · PMC12122682, PMC9067516 |
| ✓ Supplementary tables | 169 sample values (delivery mode, feeding mode, health condition, sex) |
| ✓ External resources | 640 sample values (health condition, health condition detail) · from GMrepo v3 |
| – User contribution | nothing uploaded yet · share metadata |
| – Human verified | not yet checked by a person · I checked this project — verify it |
health condition: supplementary table and GMrepo disagree for 8 samples (e.g. allergy_or_atopy vs healthy_control) — withheld.
The sources disagree on 8 samples. Where two incompatible values exist for one sample (or one person's samples disagree on sex), neither value is published: the field is left empty here, in the sample sheet and in the downloads. Both sides, with their sources, are in gut_metadata_contradictions.parquet of the data package (what counts as a contradiction).
Contradicted values (8)
| sample | field | value | other value | handling |
|---|---|---|---|---|
| SAMEA8899364 | health condition | allergy_or_atopy (supplementary table) | healthy_control (GMrepo) | withheld: neither value published |
| SAMEA8899372 | health condition | allergy_or_atopy (supplementary table) | healthy_control (GMrepo) | withheld: neither value published |
| SAMEA8899374 | health condition | allergy_or_atopy (supplementary table) | healthy_control (GMrepo) | withheld: neither value published |
| SAMEA8899382 | health condition | allergy_or_atopy (supplementary table) | healthy_control (GMrepo) | withheld: neither value published |
| SAMEA8899478 | health condition | healthy_control (supplementary table) | allergy_or_atopy (GMrepo) | withheld: neither value published |
| SAMEA8899479 | health condition | healthy_control (supplementary table) | allergy_or_atopy (GMrepo) | withheld: neither value published |
| SAMEA8899481 | health condition | healthy_control (supplementary table) | allergy_or_atopy (GMrepo) | withheld: neither value published |
| SAMEA8899483 | health condition | healthy_control (supplementary table) | allergy_or_atopy (GMrepo) | withheld: neither value published |
longitudinal — not resolved
Schedule stated by the source: “COCOA cohort collects data/biological samples every year for all enrolled children from 6 months to 20 years old” (time origin: birth).
Genera, mean relative abundance over 293 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 | 338 | 100% | 338 | |||
| health_condition | 330 | 98% | 330 | |||
| subject_id | 0 | 0% | ||||
| collection_date | 338 | 100% | 338 | |||
| detailed_location | 338 | 100% | ||||
| health_condition_detail | 338 | 100% | 338 | |||
| location_locality | 338 | 100% | 338 | |||
| location_site | 338 | 100% | 338 | |||
| delivery_mode | 47 | 14% | 47 | |||
| feeding_mode | 47 | 14% | 47 | |||
| sex | 47 | 14% | 47 |
- Disordered development of gut microbiome interferes with the establishment of the gut ecosystem during early childhood with atopic dermatitis. PMID 35485368 PMC9067516 curated
- Integrated multi-omics reveals different host crosstalk of atopic dermatitis-enriched Bifidobacterium longum Strains. PMID 40442154 PMC12122682 curated
Archive description
Gut microbiome in early childhood can play important role in allergic diseases, but the comprehensive understanding of microbiome-human crosstalk is limited. We analyzed the development of gut microbiome during early life and compared them between infants with atopic dermatitis (AD) and without AD. The maturation of gut microbiome was higher at early ages (6-12 months) and lower at later ages (13-36 months) in childhood with AD. The influence of gut microbiome on the AD was not caused by single taxa throughout early life but caused by the development status. Dysregulated development of gut microbiome leaded to the dysbiosis of functional gene features and short-chain fatty acids profiles along age. Dysbiosis of gut microbiome in AD groups during early life could be causation or resultant of continuously symbiosis between gut microbiome and host. Our results advanced the hypothesis about the microbiome-host interactions in AD during early life.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of infant / toddler and child by deterministic_prior with confidence 0.90. Assay shotgun_dna.
- host external_curation.infant_catalog · “infant triage verdict include”
- body site study.title · “development status of gut microbiome link to”
- body site study.description · “Gut microbiome in early”
- life stage external_curation.infant_catalog · “infant triage verdict include (0-3 y scope)”
- life stage study.description · “gut microbiome during early life and compared them”
- life stage study.title · “ecosystem in early childhood with atopic dermatitis”
- life stage study.description · “microbiome in early childhood can play important”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMEA8899359 | collection_date | 2019-12-31 | R1 | 0.85 | biosample.attribute:collection_date | 2019-12-31 |
| SAMEA8899359 | country | KR | R1 | 0.90 | biosample_attr | South Korea |
| SAMEA8899359 | delivery_mode | c_section | R2 | 0.85 | paper.supp.table | Delivery mode=Cesarean section |
| SAMEA8899359 | feeding_mode | mixed | R2 | 0.85 | paper.supp.table | Feeding type=Mixed feeding |
| SAMEA8899359 | health_condition | healthy_control | R2 | 0.80 | paper.supp.table | AD=Healthy control |
| SAMEA8899366 | health_condition | healthy_control | R2 | 0.75 | external.gmrepo source | phenotype: Health |
| SAMEA8899359 | health_condition_detail | Health | R2 | 0.75 | external.gmrepo source | phenotype: Health |
| SAMEA8899359 | location_locality | Seoul | R3 | 0.70 | paper.fulltext.methods | Fecal samples were collected from five university hospitals in Seoul |
| SAMEA8899359 | location_site | Asan Medical Center | R3 | 0.70 | paper.fulltext.methods | Childhood Asthma Atopy Center at Asan Medical Center |
| SAMEA8899359 | sex | female | R2 | 0.85 | paper.supp.table | Sex (1=F, 2=M)=1 |
Sequencing
338 runs over 338 samples · mean 3.83 Gbp per run (median 3.51 Gbp, total 1,294.62 Gbp; 338 runs with a base count) · layout PAIRED 338 · platform ILLUMINA 338 · models Illumina HiSeq 2500 (338) · 87% of runs with a Sandpiper profile · first public 2021-11-10 – 2022-08-27
Authors (19)
Lee MJ first · Park YM · Kim B · Tae IH · Kim NE · Pranata M · Kim T · Won S · Kang NJ · Lee YK · Lee DW · Nam MH · Hong SJ · Kim BS last · Seong HJ first · Yoo HJ · Yoon SM · Kim JH · Lee SY
Help complete this project
2 of the 4 core fields are below 50% coverage: age_category, subject_id. Share metadata
Downloads
PRJEB45443.csv.gz (9.9 KB) · parquet (84.5 KB) — all 338 samples, every field with route and confidence · PRJEB45443_determinations.csv.gz (14.2 KB) — 2,161 evidence rows