Gut metagenome case-control study in breast cancer, China
133 gut metagenome samples from breast cancer patients and controls in Nanning, China, analyzed in a case-control design to study microbial and metabolite associations with breast cancer. machine-written summary
133 samples · 263 runs · CN · Age unknown · 2018 · 22.18 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 798 sample values (collection date, country, latitude, location locality, location region, longitude) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 133 sample values (sex) · PMC11417245, PMC12807719, PMC12817542, PMC12853649, PMC9426597 |
| ○ Supplementary tables | files read; no table could be matched to the samples |
| ✓ External resources | 266 sample values (health condition, health condition detail) · from GMrepo v3 |
| – User contribution | nothing uploaded yet · share metadata |
| – Human verified | not yet checked by a person · I checked this project — verify it |
Genera, mean relative abundance over 131 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 | 0 | 0% | ||||
| country | 133 | 100% | 133 | |||
| health_condition | 133 | 100% | 133 | |||
| subject_id | 0 | 0% | ||||
| collection_date | 133 | 100% | 133 | |||
| detailed_location | 133 | 100% | ||||
| health_condition_detail | 133 | 100% | 133 | |||
| latitude | 133 | 100% | 133 | |||
| location_locality | 133 | 100% | 133 | |||
| location_region | 133 | 100% | 133 | |||
| longitude | 133 | 100% | 133 | |||
| sex | 133 | 100% | 133 |
- MBCN: A novel reference database for Effcient Metagenomic analysis of human gut microbiome. 2024 PMID 39315152 PMC11417245 own_data
- Metagenomic analyses reveal E. coli-derived siderophores as potential signatures for breast cancer. 2025 PMID 41390654 PMC12817542 own_data
- Gut microbial and functional signatures in breast cancer: an integrated metagenomic and machine learning approach to non-invasive detection. 2025 PMID 41623622 PMC12853649 own_data
- Identification and Characterization of Major Bile Acid 7α-Dehydroxylating Bacteria in the Human Gut. 2022 PMID 35736002 PMC9426597 unsure
- gutMSNP: a comprehensive database for human gut microbial single-nucleotide polymorphisms. 2026 PMID 41359024 PMC12807719 unsure
Archive description
To explore the taxonomies and functional capacity of the gut microbiota in patients with breast cancer.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by opus_adjudicated with confidence 0.75. Assay shotgun_dna.
- host run.host_tax_id · “9606”
- host study.title · “breast cancer patients”
- body site study.description · “gut microbiota in patients with breast cancer”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN08993427 | collection_date | 2015-11-06 | R1 | 0.90 | biosample.attribute:collection_date | 2015-11-06 |
| SAMN08993427 | country | CN | R1 | 0.90 | sample.attr.geo_loc_name | China:Nanning |
| SAMN08993427 | health_condition | other_cancer | R2 | 0.75 | external.gmrepo source | phenotype: Breast Neoplasms |
| SAMN08993427 | health_condition_detail | Breast Neoplasms | R2 | 0.75 | external.gmrepo source | phenotype: Breast Neoplasms |
| SAMN08993427 | latitude | 22.7900 | R1 | 0.90 | biosample.attribute:lat_lon | 22.79 N 108.34 E |
| SAMN08993427 | location_locality | Nanning | R1 | 0.85 | biosample.attribute:geo_loc_name | China:Nanning |
| SAMN08993427 | location_region | Guangxi Zhuangzu Zizhiqu | R1 | 0.60 | biosample.attribute:lat_lon | 22.79 N 108.34 E |
| SAMN08993427 | longitude | 108.3400 | R1 | 0.90 | biosample.attribute:lat_lon | 22.79 N 108.34 E |
| SAMN08993427 | sex | female | R3 | 0.60 | paper.fulltext.results | breast cancer patients and healthy controls |
Sequencing
263 runs over 133 samples · mean 10.98 Gbp per run (median 11.11 Gbp, total 2,887.09 Gbp; 263 runs with a base count) · layout PAIRED 263 · platform ILLUMINA 263 · models HiSeq X Ten (263) · 91% of runs with a Sandpiper profile · first public 2018-05-15 – 2019-06-11
Authors (39)
Kim KH first · Park D · Jia B · Baek JH · Hahn Y · Jeon CO last · Zheng B first · Xu J · Zhang Y · Qin J · Yuan D · Fan T · Wu W · Chen Y · Jiang Y last · Qian K first · Du M · Tan S · Ding M · Song M · Lu M · Qi C · Cheng L · Zhang X last · Manzoor H first · Jabeen I · Saeed MT · Kayani MUR · Huang L last · Li Y first · Cheng Y · Liu W · Li J · Li S · Suriguga None · Ma T · Kwok LY · Cai Z · Sun Z last
Help complete this project
2 of the 4 core fields are below 50% coverage: age_category, subject_id. Share metadata
Downloads
PRJNA453965.csv.gz (4.3 KB) · parquet (75.8 KB) — all 133 samples, every field with route and confidence · PRJNA453965_determinations.csv.gz (9.1 KB) — 1,197 evidence rows