Gut microbiome in craniopharyngioma patients
Cross-sectional study of 56 gut microbiome samples (mostly adults) from patients with craniopharyngioma, using 16S rRNA gene sequencing and metagenomics. machine-written summary
56 samples · 56 runs · CN · Adult · 2022 · 6.50 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 112 sample values (age, sex) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 56 sample values (antibiotic exposure) · PMC11497089 |
| ○ Supplementary tables | files read; no table could be matched to the samples |
| ✓ External resources | 168 sample values (country, 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 52 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 | 56 | 100% | ||||
| country | 56 | 100% | 56 | |||
| health_condition | 56 | 100% | 56 | |||
| subject_id | 0 | 0% | ||||
| age_at_collection_days | 56 | 100% | 56 | |||
| antibiotic_exposure | 56 | 100% | 56 | |||
| health_condition_detail | 56 | 100% | 56 | |||
| sex | 56 | 100% | 56 |
- Integrated Microbiome and Metabolome Analysis Reveals Hypothalamic-Comorbidities Related Signatures in Craniopharyngioma. 2024 PMID 39225628 PMC11497089 own_data
Archive description
This study explored the alterations of gut microbiome in a cohort of adult patients with craniopharyngioma using the high-throughput sequencing of 16S rRNA gene sequencing and metagenomics approaches.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of adult by sonnet_x2 with confidence 0.75. Assay shotgun_dna.
- host run.scientific_name · “Homo sapiens”
- body site study.title · “gut microbiota in patients with craniopharyngioma”
- life stage study.description · “cohort of adult patients with craniopharyngioma”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN27964261 | age_at_collection_days | 18614.0 | R1 | 0.85 | sample.attr.age | 51 |
| SAMN27964261 | antibiotic_exposure | no | R3 | 0.70 | paper.body.methods | Exclusion criteria encompassed: 1) antibiotic and/or probiotic usage within the preceding 6 months |
| SAMN27964261 | country | CN | R2 | 0.75 | external.gmrepo source | country: China |
| SAMN27964261 | health_condition | other_cancer | R2 | 0.75 | external.gmrepo source | phenotype: Craniopharyngioma |
| SAMN27964261 | health_condition_detail | Craniopharyngioma | R2 | 0.75 | external.gmrepo source | phenotype: Craniopharyngioma |
| SAMN27964261 | sex | male | R1 | 0.90 | sample.attr.sex | male |
Sequencing
56 runs over 56 samples · mean 6.75 Gbp per run (median 6.50 Gbp, total 377.98 Gbp; 56 runs with a base count) · layout PAIRED 56 · platform ILLUMINA 56 · models Illumina HiSeq 1500 (56) · 93% of runs with a Sandpiper profile · first public 2022-09-01
Authors (0)
No author record.
Downloads
PRJNA833034.csv.gz (2.5 KB) · parquet (71.5 KB) — all 56 samples, every field with route and confidence · PRJNA833034_determinations.csv.gz (3.3 KB) — 336 evidence rows