Gut metagenome in children with ASD vs typical development, China
74 fecal metagenome samples from children in China (43 with autism spectrum disorder, 31 typically developing), studied in a case-control design examining gut microbiota and glutamate-related metabolites. machine-written summary
74 samples · 74 runs · CN · Adult · 2018 · 5.91 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 148 sample values (collection date, country) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 148 sample values (location site, subject id) · PMC11334437, PMC12866134, PMC12911356, PMC13151442, PMC6351726, PMC7809157, PMC8620312, PMC9958793 |
| ✓ Supplementary tables | 148 sample values (age, sex) |
| ✓ External resources | 148 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 67 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 | 74 | 100% | ||||
| country | 74 | 100% | 74 | |||
| health_condition | 74 | 100% | 74 | |||
| subject_id | 74 | 100% | 74 | |||
| age_at_collection_days | 74 | 100% | 74 | |||
| collection_date | 74 | 100% | 74 | |||
| detailed_location | 74 | 100% | ||||
| health_condition_detail | 74 | 100% | 74 | |||
| location_site | 74 | 100% | 74 | |||
| sex | 74 | 100% | 74 |
- Alterations in Gut Glutamate Metabolism Associated with Changes in Gut Microbiota Composition in Children with Autism Spectrum Disorder. 2019 PMID 30701194 PMC6351726 own_data
- Machine learning and causal inference applied to the gut metagenome-metabolome axis reveals a link between neonatal jaundice and autism spectrum disorder. 2026 PMID 41511111 PMC12911356 own_data
- Virulence factor-related gut microbiota genes and immunoglobulin A levels as novel markers for machine learning-based classification of autism spectrum disorder. 2021 PMID 33510860 PMC7809157 unsure
- Lacticaseibacillus paracasei: Occurrence in the Human Gut Microbiota and K-Mer-Based Assessment of Intraspecies Diversity. 2021 PMID 34833122 PMC8620312 unsure
- Gut Microbiota Analysis and In Silico Biomarker Detection of Children with Autism Spectrum Disorder across Cohorts. 2023 PMID 36838256 PMC9958793 unsure
3 more
- Meta-analysis of the human gut microbiome uncovers shared and distinct microbial signatures between diseases. 2024 PMID 39078158 PMC11334437
- Integrative multi-omics reveals microbial genomic variants driving altered host-microbe interactions in autism spectrum disorder. 2026 PMID 41421350 PMC12866134
- Bacterial genomic structural variations in children with autism serve as diagnostic biomarkers. 2026 PMID 41748159 PMC13151442
Archive description
The composition of the gut microbiota has been linked to many central nervoussystem disorders, including neuropsychiatric disorders such as autism spectrumdisorders (ASDs). Several studies have shown that changes in the microbiomemay contribute to the symptoms of ASD, and a recently published study showedthat fecal microbiota transfer therapy significantly improved autism symptoms.We performed shotgun metagenome sequencing of ASD patients (n = 43) and TD children (n = 31).
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of adult and child by deterministic_prior with confidence 0.90. Assay shotgun_dna.
- host external_curation.infant_catalog · “infant triage reason_code age_adult_only”
- body site study.title · “gut metagenome of ASD”
- body site study.description · “composition of the gut microbiota has been”
- life stage external_curation.infant_catalog · “infant triage reason_code age_adult_only”
- life stage study.description · “43) and TD children (n = 31).”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMEA4702339 | age_at_collection_days | 730.5 | R2 | 0.80 | paper.supp.msystems.01405-25-s0002.xlsx[ST3][Age] | 2 |
| SAMEA4702339 | collection_date | 2015-07-25 | R1 | 0.90 | biosample.attribute:collection_date | 2015-07-25 |
| SAMEA4702339 | country | CN | R1 | 0.90 | sample.attr.geographic_location_country_and_or_sea | China |
| SAMEA4702339 | health_condition | healthy_control | R2 | 0.75 | external.gmrepo source | phenotype: Health |
| SAMEA4702339 | health_condition_detail | Health | R2 | 0.75 | external.gmrepo source | phenotype: Health |
| SAMEA4702339 | location_site | Longgang District Maternity and Child Healthcare Hospital | R3 | 0.70 | paper.fulltext.methods | Longgang District Maternity and Child Healthcare Hospital |
| SAMEA4702339 | sex | male | R2 | 0.80 | paper.supp.msystems.01405-25-s0002.xlsx[ST3][Gender] | M |
| SAMEA4702339 | subject_id | SAMEA4702339 | R3 | 0.65 | design.one_sample_per_subject:fulltext | Shotgun metagenome sequencing and metabolome analyses were performed on fecal samples of 43 children with ASD and 31 children with TD |
Sequencing
74 runs over 74 samples · mean 5.75 Gbp per run (median 5.91 Gbp, total 425.25 Gbp; 74 runs with a base count) · layout PAIRED 74 · platform ILLUMINA 74 · models Illumina HiSeq 4000 (74) · 91% of runs with a Sandpiper profile · first public 2018-06-01
Authors (50)
Doenyas C · Wan J · Cai C · Zhou J · Liu Y · Yin Z · Wang W first · Fu P last · Jin DM first · Morton JT · Bonneau R last · 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 · Chen X first · Chen C · Lan X · Zhang X · Li T · Zhang P · Cheng G · Zhou W · Wang Z · Xie Y · Zeng S · Wang M last · Liu W first · Lu Y · Ng SC · Chan FK · Sung JJ · Yu J last
Downloads
PRJEB23052.csv.gz (3.1 KB) · parquet (74.2 KB) — all 74 samples, every field with route and confidence · PRJEB23052_determinations.csv.gz (4.7 KB) — 592 evidence rows