Gut metagenome, children with ASD, Hong Kong
Case-control study of 2089 fecal metagenome samples from children with autism spectrum disorder and neurotypical children in Hong Kong, examining links between diet, food additives, and gut microbiome. machine-written summary
2,089 samples · 2,089 runs · HK · Child · 2024 · 6.96 Gbp / sample · cohort Variation in the metagenomic analysis of fecal mic
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 8,356 sample values (collection date, country, latitude, longitude) |
| ✓ Abstract / description | 2,089 sample values (health condition detail) |
| ✓ Full text | 4,178 sample values (antibiotic exposure, location region) · PMC11540074, PMC11619352, PMC12866134, PMC13039903 |
| ○ 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 · share metadata |
| – Human verified | not yet checked by a person · I checked this project — verify it |
Genera, mean relative abundance over 1,886 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 | 2,089 | 100% | ||||
| country | 2,089 | 100% | 2,089 | |||
| health_condition | 0 | 0% | ||||
| subject_id | 0 | 0% | ||||
| antibiotic_exposure | 2,089 | 100% | 2,089 | |||
| collection_date | 2,089 | 100% | 2,089 | |||
| detailed_location | 2,089 | 100% | ||||
| health_condition_detail | 2,089 | 100% | 2,089 | |||
| latitude | 2,089 | 100% | 2,089 | |||
| location_region | 2,089 | 100% | 2,089 | |||
| longitude | 2,089 | 100% | 2,089 |
- Fecal microbial marker panel for aiding diagnosis of autism spectrum disorders. 2024 PMID 39468837 PMC11540074 own_data
- Distinct diet-microbiome associations in autism spectrum disorder. 2025 PMID 41476057 PMC13039903 own_data
- Variation in the metagenomic analysis of fecal microbiome composition calls for a standardized operating approach. 2024 PMID 39475247 PMC11619352 unsure
- Integrative multi-omics reveals microbial genomic variants driving altered host-microbe interactions in autism spectrum disorder. 2026 PMID 41421350 PMC12866134 unsure
Archive description
This is a large metagenomic dataset of children with ASD and children that are neurotypical in Hong Kong. This dataset will continue to be updated as more metagenomic data are included.
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_child_over_36m”
- body site study.title · “Faecal metagenome of children”
- life stage external_curation.infant_catalog · “infant triage reason_code age_child_over_36m”
- life stage study.title · “Faecal metagenome of children with autism spectrum”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN39204024 | antibiotic_exposure | no | R3 | 0.70 | paper.fulltext.methods | exposure to antibiotics within one month before the study were excluded |
| SAMN39204024 | collection_date | 2023-03 | R1 | 0.90 | biosample.attribute:collection_date | 2023-03 |
| SAMN39204024 | country | HK | R1 | 0.90 | sample.attr.geo_loc_name | Hong Kong |
| SAMN39204024 | health_condition_detail | mixed_case_control: children with autism spectrum disorder vs typically developing peers | R4 | 0.50 | paper.abstract | children with ASD from age |
| SAMN39204024 | latitude | 22.3000 | R1 | 0.90 | biosample.attribute:lat_lon | 22.30 N 114.17 E |
| SAMN39204024 | location_region | Hong Kong | R3 | 0.70 | paper.fulltext.methods | Hong Kong), which serve a catchment area of 1.5 million people |
| SAMN39204024 | longitude | 114.1700 | R1 | 0.90 | biosample.attribute:lat_lon | 22.30 N 114.17 E |
Sequencing
2,089 runs over 2,089 samples · mean 7.57 Gbp per run (median 6.96 Gbp, total 15,821.04 Gbp; 2,089 runs with a base count) · layout PAIRED 2,089 · platform ILLUMINA 2,089 · models Illumina NovaSeq 6000 (2,089) · 90% of runs with a Sandpiper profile · first public 2024-01-01 – 2024-09-29
Authors (46)
Wan Y first · Wong OWH · Tun HM · Su Q · Xu Z · Tang W · Ma SL · Chan S · Chan FKL · Ng SC last · Yeoh YK · Fei N · Zhang J · Morrison M · Kamm MA · Yu J · Chen W first · Wang X · Zhu R · Gao W · Tao L · Yang R · Wei Q · Zhang Y · Gong Y · Zhong H · Huang L · Zhu X · Yang Y · Zhang L · Wan L · Yang G · Li Y · Jiao N · Wang J · Qin H · Zhu L last · Wu Y first · Wong O · Chen S · Wang Y · Lu W · Cheung CP · Ching JYL · Cheong PK · Leung P
Help complete this project
2 of the 4 core fields are below 50% coverage: health_condition, subject_id. Share metadata
Downloads
PRJNA943687.csv.gz (47.8 KB) · parquet (142.7 KB) — all 2,089 samples, every field with route and confidence · PRJNA943687_determinations.csv.gz (69.7 KB) — 14,623 evidence rows