Gut microbiome in children with ALL vs healthy controls
Shotgun metagenomics of 246 gut microbiome samples comparing children with acute lymphoblastic leukemia (B-ALL and T-ALL) at diagnosis to healthy controls, in a case-control design. machine-written summary
246 samples · 246 runs · US · Child · 2017 · 6.3 Mbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 2,397 sample values (age, collection date, country, health condition, health condition detail, latitude, longitude, sex) |
| ✓ Abstract / description | 39 sample values (health condition) |
| ○ Full text | read; no usable statement or table · PMC12675574 |
| ○ 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 |
| – Human verified | not yet checked by a person · I checked this project — verify it |
longitudinal — not resolved
34 of 52 people sampled more than once (228 samples; median 6, up to 13 per person). Schedule stated by the source: “Samples at Diagnosis and post-chemotherapy timepoints PC-1M through PC-12M (monthly), plus separate Healthy Control samples.” (time origin: diagnosis).
No Sandpiper profile for this project's samples yet.
| field | samples | coverage | R1 | R2 | R3 | R4 |
|---|---|---|---|---|---|---|
| age_category | 246 | 100% | ||||
| country | 246 | 100% | 246 | |||
| health_condition | 246 | 100% | 207 | 39 | ||
| subject_id | 246 | 100% | 246 | |||
| collection_date | 246 | 100% | 246 | |||
| health_condition_detail | 246 | 100% | 246 | |||
| latitude | 246 | 100% | 246 | |||
| longitude | 246 | 100% | 246 | |||
| sex | 246 | 100% | 246 | |||
| age_at_collection_days | 245 | 100% | 245 | |||
| timepoint_label | 223 | 91% | 223 |
- Distinct functional and compositional properties in the gut microbiome of children with acute lymphoblastic leukaemia identified by shotgun metagenomics. 2025 PMID 41339392 PMC12675574 unsure
Archive description
This study provides a unique gut microbiome dataset for childhood leukemia patients undergoing chemotherapy.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of child and adolescent 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 · “Gut microbiome in Children”
- body site study.description · “provides a unique gut microbiome dataset for”
- life stage external_curation.infant_catalog · “infant triage reason_code age_child_over_36m”
- life stage study.title · “Gut microbiome in Children with Acute Lymphoblastic”
- life stage sample.attr.age · “13 (n=36/246)”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN08140764 | age_at_collection_days | 1095.8 | R1 | 0.70 | sample.attr.age | 3 |
| SAMN08140764 | collection_date | 2014 | R1 | 0.90 | biosample.attribute:collection_date | 2014 |
| SAMN08140764 | country | US | R1 | 0.90 | sample.attr.geo_loc_name | USA: Orange County |
| SAMN08140764 | health_condition | other_cancer | R1 | 0.85 | biosample.attribute:Condition | Condition: Diagnosis |
| SAMN08140767 | health_condition | other_cancer | R1 | 0.70 | biosample_attr | PC-3M |
| SAMN08140773 | health_condition | other_cancer | R4 | 0.30 | paper.abstract | 30 ALL patients at diagnosis |
| SAMN08140764 | health_condition_detail | Diagnosis | R1 | 0.90 | sample.attr.condition | Diagnosis |
| SAMN08140764 | latitude | 33.4800 | R1 | 0.90 | biosample.attribute:lat_lon | 33.48 N 117.49 W |
| SAMN08140764 | longitude | -117.4900 | R1 | 0.90 | biosample.attribute:lat_lon | 33.48 N 117.49 W |
| SAMN08140764 | sex | female | R1 | 0.90 | sample.attr.gender | female |
| SAMN08140764 | subject_id | ALL-13 | R1 | 0.85 | biosample.attribute:Sample ID | Sample ID=13; Condition=Diagnosis |
| SAMN08140764 | timepoint_label | Diagnosis | R1 | 0.85 | biosample.attribute:Condition | Condition: Diagnosis |
Sequencing
246 runs over 246 samples · mean 6.6 Mbp per run (median 6.3 Mbp, total 1.63 Gbp; 246 runs with a base count) · layout PAIRED 246 · platform ILLUMINA 246 · models Illumina MiSeq (246) · 0% of runs with a Sandpiper profile · first public 2017-12-20 – 2018-01-04
Authors (15)
Muratore E first · Conti G · Fabbrini M · Zama D · Decembrino N · Muggeo P · Mura R · Perruccio K · Leardini D · Barone M · Zecca M · Cesaro S · Brigidi P · Turroni S · Masetti R last
Downloads
PRJNA421352.csv.gz (7.1 KB) · parquet (79.4 KB) — all 246 samples, every field with route and confidence · PRJNA421352_determinations.csv.gz (19.5 KB) — 2,436 evidence rows