Gut metagenome in childhood type 1 diabetes, China
Shotgun metagenomic sequencing of fecal samples from 58 children in China (29 with new-onset type 1 diabetes, 29 healthy controls) collected in January 2018. machine-written summary
58 samples · 58 runs · CN · Age unknown · 2024 · 11.12 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 232 sample values (collection date, country, health condition, health condition detail) |
| ○ Abstract / description | read; no usable statement |
| ○ Full text | read; no usable statement or table · PMC9606127 |
| ○ 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 |
No Sandpiper profile for this project's samples yet.
| field | samples | coverage | R1 | R2 | R3 | R4 |
|---|---|---|---|---|---|---|
| age_category | 0 | 0% | ||||
| country | 58 | 100% | 58 | |||
| health_condition | 58 | 100% | 58 | |||
| subject_id | 0 | 0% | ||||
| collection_date | 58 | 100% | 58 | |||
| health_condition_detail | 58 | 100% | 58 |
- Functional and metabolic alterations of gut microbiota in children with new-onset type 1 diabetes. 2022 PMID 36289225 PMC9606127 own_data
Archive description
Metagenomics of gut microbiota
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by curator_audit with confidence 0.50. Assay shotgun_dna.
- host runs.scientific_name · “human gut metagenome (58)”
- host papers[0].abstract · “gut microbial functional and metabolic alterations”
- body site runs.scientific_name · “human gut metagenome (58)”
- body site papers[0].abstract · “gut microbial functional and metabolic alterations”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN30723751 | collection_date | 2018-01 | R1 | 0.85 | biosample.attribute:collection_date | collection_date: 2018-01 |
| SAMN30723751 | country | CN | R1 | 0.90 | sample.attr.geo_loc_name | China |
| SAMN30723751 | health_condition | healthy_control | R1 | 0.70 | sample.name_rule:experiment_title | experiment_title: Illumina NovaSeq 6000 sequencing: FJ_1_NC |
| SAMN30723751 | health_condition_detail | NC | R1 | 0.70 | sample.name_rule:experiment_title | experiment_title: Illumina NovaSeq 6000 sequencing: FJ_1_NC |
Sequencing
58 runs over 58 samples · mean 11.30 Gbp per run (median 11.12 Gbp, total 655.38 Gbp; 58 runs with a base count) · layout PAIRED 58 · platform ILLUMINA 58 · models Illumina NovaSeq 6000 (58) · 97% of runs with a Sandpiper profile · first public 2024-10-27
Authors (46)
Rampelli S first · Soverini M · D'Amico F · Barone M · Tavella T · Monti D · Capri M · Astolfi A · Brigidi P · Biagi E · Franceschi C · Turroni S · Candela M last · Yuan X first · Wang R · Han B · Sun C · Chen R · Wei H · Chen L · Du H · Li G · Yang Y · Chen X · Cui L · Xu Z · Fu J · Wu J · Gu W · Chen Z · Fang X · Yang H · Su Z · Li Q · Zhang M · Zhou Y · Zhang L · Ji G · Luo F last · Zhou J first · Zhang Q · Zhao Y · Zou Y · Chen M · Zhou S · Wang Z last
Help complete this project
2 of the 4 core fields are below 50% coverage: age_category, subject_id. Share metadata
Downloads
PRJNA877820.csv.gz (2.2 KB) · parquet (70.8 KB) — all 58 samples, every field with route and confidence · PRJNA877820_determinations.csv.gz (2.4 KB) — 232 evidence rows