Gut microbiome in breast cancer and DCIS, cross-sectional
278 stool samples from patients with newly diagnosed ductal carcinoma in situ or early-stage invasive breast cancer, comparing baseline intestinal microbiome by cancer stage and subtype before treatment, in a cross-sectional design. machine-written summary
278 samples · 278 runs · US · Adult · 2026 · 11.17 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 3,010 sample values (age, bmi, collection date, country, health condition, health condition detail, latitude, location region) |
| ○ Abstract / description | read; no usable statement |
| ○ Full text | read; no usable statement or table · PMC13066469 |
| ○ 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 | 278 | 100% | ||||
| country | 278 | 100% | 278 | |||
| health_condition | 278 | 100% | 278 | |||
| subject_id | 278 | 100% | 278 | |||
| age_at_collection_days | 278 | 100% | 278 | |||
| collection_date | 278 | 100% | 278 | |||
| detailed_location | 278 | 100% | ||||
| health_condition_detail | 278 | 100% | 278 | |||
| latitude | 278 | 100% | 278 | |||
| location_region | 278 | 100% | 278 | |||
| longitude | 278 | 100% | 278 | |||
| sex | 278 | 100% | 278 | |||
| bmi | 230 | 83% | 230 |
- The landscape of the intestinal microbiome among patients with newly diagnosed invasive breast cancer and ductal carcinoma in situ (DCIS). 2026 PMID 41760690 PMC13066469 own_data
Archive description
This study used metagenomic sequencing on stool samples collected from 278 patients with pre-cancerous DCIS or early-stage invasive breast cancer. We compared the baseline stool microbiomes of subjects with early vs invasive breast cancer, and across invasive BC subtypes, prior to any cancer treatment.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of adult and elderly 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 · “The intestinal microbiome of patients”
- body site study.description · “metagenomic sequencing on stool samples collected from”
- life stage external_curation.infant_catalog · “infant triage reason_code age_adult_only”
- life stage sample.attr.host_age · “65 (n=72/278)”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN50178196 | age_at_collection_days | 11688.0 | R1 | 0.70 | sample.attr.host_age | 32 |
| SAMN50178197 | bmi | 19.0 | R1 | 0.90 | sample.attr.host_body_mass_index | 19 |
| SAMN50178196 | collection_date | 2023 | R1 | 0.90 | biosample.attribute:collection_date | 2023 |
| SAMN50178196 | country | US | R1 | 0.90 | sample.attr.geo_loc_name | USA |
| SAMN50178196 | health_condition | other_cancer | R1 | 0.85 | biosample_attr | breast.cancer |
| SAMN50178196 | health_condition_detail | breast.cancer | R1 | 0.90 | sample.attr.host_disease | breast.cancer |
| SAMN50178196 | latitude | 41.8246 | R1 | 0.90 | biosample.attribute:lat_lon | 41.8246 N 71.4142 W |
| SAMN50178196 | location_region | Rhode Island | R1 | 0.60 | biosample.attribute:lat_lon | 41.8246 N 71.4142 W |
| SAMN50178196 | longitude | -71.4142 | R1 | 0.90 | biosample.attribute:lat_lon | 41.8246 N 71.4142 W |
| SAMN50178196 | sex | female | R1 | 0.90 | sample.attr.host_sex | female |
| SAMN50178196 | subject_id | 18-617_0001 | R1 | 0.85 | sample.attr.person_id | 18-617_0001 |
Sequencing
278 runs over 278 samples · mean 11.60 Gbp per run (median 11.17 Gbp, total 3,224.55 Gbp; 278 runs with a base count) · layout SINGLE 278 · platform ILLUMINA 278 · models Illumina NovaSeq 6000 (278) · 0% of runs with a Sandpiper profile · first public 2026-05-15
Authors (18)
Sammons SL first · Kuntz TM · DiLullo M · Morgan XC · Martin A · Hughes ME · Rahman T · Barroso-Sousa R · Ogayo ER · Giordano J · Ryan S · Waks AG · Schlam I · Ligibel J · Lin NU · Garrido-Castro AC · Mittendorf EA · Tolaney SM last
Downloads
PRJNA1295573.csv.gz (10.1 KB) · parquet (85.0 KB) — all 278 samples, every field with route and confidence · PRJNA1295573_determinations.csv.gz (21.4 KB) — 3,010 evidence rows