Gut microbiota in AML patients vs controls, Belgium
60 fecal samples from a case-control study in Belgium, comparing gut microbiota composition and function between untreated acute myeloid leukemia patients at diagnosis and matched healthy volunteers. machine-written summary
60 samples · 60 runs · BE · Adult · 2024 · 20.25 Gbp / sample
One study deposited as 2 BioProjects (80 catalog samples together): PRJNA813705 · PRJNA875377 · show together
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 450 sample values (antibiotic exposure, collection date, country, health condition, health condition detail, latitude, location region, longitude) |
| ✓ Abstract / description | 60 sample values (subject id) |
| ✓ Full text | 30 sample values (antibiotic exposure) · PMC11443375 |
| ○ 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 |
Genera, mean relative abundance over 56 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 | 60 | 100% | ||||
| country | 60 | 100% | 60 | |||
| health_condition | 60 | 100% | 60 | |||
| subject_id | 60 | 100% | 60 | |||
| antibiotic_exposure | 60 | 100% | 30 | 30 | ||
| collection_date | 60 | 100% | 60 | |||
| detailed_location | 60 | 100% | ||||
| health_condition_detail | 60 | 100% | 60 | |||
| latitude | 60 | 100% | 60 | |||
| location_region | 60 | 100% | 60 | |||
| longitude | 60 | 100% | 60 |
- Gut microbiome alterations at acute myeloid leukemia diagnosis are associated with muscle weakness and anorexia. 2024 PMID 38546675 PMC11443375 own_data
Archive description
Evaluation of gut microbiota composition and functional potential in patients with acute myeloid leukemia at diagnostic and comparison to healthy matched volunteers. MicroAML clinical study. Study design available on ClinicalTrials.gov (NCT03881826). Data published and discussed in Potgens et al, Haematologica 2024. 16S and metagenomics raw data are shared.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of adult 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 · “Evaluation of gut microbiota composition in”
- body site study.description · “Evaluation of gut microbiota composition and”
- life stage external_curation.infant_catalog · “infant triage reason_code age_adult_only”
- life stage study.description · “to healthy matched volunteers . MicroAML clinical”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN26515440 | antibiotic_exposure | no | R1 | 0.85 | biosample.attribute:host_disease | AML |
| SAMN26515470 | antibiotic_exposure | no | R3 | 0.70 | paper.fulltext.methods | antibiotic consumption within the preceding 30 days |
| SAMN26515440 | collection_date | 2016-04-24 | R1 | 0.90 | biosample.attribute:collection_date | 2016-04-24 |
| SAMN26515440 | country | BE | R1 | 0.90 | sample.attr.geo_loc_name | Belgium |
| SAMN26515440 | health_condition | other_cancer | R1 | 0.85 | biosample_attr | AML |
| SAMN26515470 | health_condition | healthy_control | R1 | 0.85 | biosample.attribute:host_disease | CT |
| SAMN26515440 | health_condition_detail | AML | R1 | 0.90 | sample.attr.host_disease | AML |
| SAMN26515440 | latitude | 50.8500 | R1 | 0.90 | biosample.attribute:lat_lon | 50.85 N 4.46 E |
| SAMN26515440 | location_region | Flanders | R1 | 0.60 | biosample.attribute:lat_lon | 50.85 N 4.46 E |
| SAMN26515440 | longitude | 4.4600 | R1 | 0.90 | biosample.attribute:lat_lon | 50.85 N 4.46 E |
| SAMN26515440 | subject_id | SAMN26515440 | R4 | 0.65 | design.one_sample_per_subject:abstract | collected from 30 antibiotic- free AML patients at diagnosis and matched volunteers (1:1) in a multicenter, cross-sectional, prospective study |
Sequencing
60 runs over 60 samples · mean 19.96 Gbp per run (median 20.25 Gbp, total 1,197.89 Gbp; 60 runs with a base count) · layout PAIRED 60 · platform ILLUMINA 60 · models Illumina NovaSeq 6000 (60) · 93% of runs with a Sandpiper profile · first public 2024-04-28
Authors (15)
Pötgens SA first · Havelange V · Lecop S · Li F · Neyrinck AM · Bindels F · Neveux N · Demoulin JB · Moors I · Kerre T · Maertens J · Walter J · Schoemans H · Delzenne NM · Bindels LB last
Downloads
PRJNA813705.csv.gz (2.7 KB) · parquet (72.8 KB) — all 60 samples, every field with route and confidence · PRJNA813705_determinations.csv.gz (4.6 KB) — 540 evidence rows