Gut metagenomics in non-obstructive azoospermia, China
51 gut metagenome samples from adults in China, comparing non-obstructive azoospermia patients and controls in a case-control design to assess gut microbial diversity and composition differences. machine-written summary
51 samples · 51 runs · CN · Adult · 2024 · 11.43 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 204 sample values (collection date, country, health condition, health condition detail) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 204 sample values (antibiotic exposure, location site, sex, subject id) · PMC9861525 |
| ○ 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 |
No Sandpiper profile for this project's samples yet.
| field | samples | coverage | R1 | R2 | R3 | R4 |
|---|---|---|---|---|---|---|
| age_category | 51 | 100% | ||||
| country | 51 | 100% | 51 | |||
| health_condition | 51 | 100% | 51 | |||
| subject_id | 51 | 100% | 51 | |||
| antibiotic_exposure | 51 | 100% | 51 | |||
| collection_date | 51 | 100% | 51 | |||
| detailed_location | 51 | 100% | ||||
| health_condition_detail | 51 | 100% | 51 | |||
| location_site | 51 | 100% | 51 | |||
| sex | 51 | 100% | 51 |
- Characterization of Non-Obstructive Azoospermia in Men Using Gut Microbial Profiling. 2023 PMID 36675631 PMC9861525 own_data
Archive description
Non-obstructive azoospermia (NOA) is a complex multifactorial disease and the causes of most NOA remain unknown. Here, we performed comprehensive clinical and gut microbial profiling data through shotgun metagenomic sequencing in NOA patients and control individuals. A significant loss of alpha and beta diversity was identified in faecal specimens from NOA patients. These results highlight the utility of gut microbiota in understanding microbiota-related pathogenesis of male infertility and might be helpful to clinical management of NOA.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of adult by sonnet_x2 with confidence 0.82. Assay shotgun_dna.
- host study.description · “NOA patients and control individuals”
- body site study.description · “faecal specimens from NOA patients”
- life stage study.title · “Non-Obstructive Azoospermia Men”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN31883437 | antibiotic_exposure | no | R3 | 0.70 | paper.fulltext.methods | antibiotic within at least 3 months before the study |
| SAMN31883437 | collection_date | 2021 | R1 | 0.90 | biosample.attribute:collection_date | 2021 |
| SAMN31883437 | country | CN | R1 | 0.90 | sample.attr.geo_loc_name | China |
| SAMN31883437 | health_condition | healthy_control | R1 | 0.70 | sample.name_rule:alias | Control1 |
| SAMN31883437 | health_condition_detail | Control | R1 | 0.70 | sample.name_rule:alias | Control1 |
| SAMN31883437 | location_site | Peking University Third Hospital | R3 | 0.70 | paper.fulltext.methods | institutional review board of Peking University Third Hospital |
| SAMN31883437 | sex | male | R3 | 0.70 | paper.fulltext.methods | healthy males and patients with NOA |
| SAMN31883437 | subject_id | SAMN31883437 | R3 | 0.70 | design.one_sample_per_subject:fulltext | We recruited 21 patients with iNOA and 30 healthy subjects |
Sequencing
51 runs over 51 samples · mean 11.36 Gbp per run (median 11.43 Gbp, total 579.27 Gbp; 51 runs with a base count) · layout PAIRED 51 · platform ILLUMINA 51 · models Illumina NovaSeq 6000 (51) · 84% of runs with a Sandpiper profile · first public 2024-08-31
Downloads
PRJNA905731.csv.gz (2.2 KB) · parquet (72.0 KB) — all 51 samples, every field with route and confidence · PRJNA905731_determinations.csv.gz (3.7 KB) — 408 evidence rows