Fecal microbiome in pancreatic cancer survivors, Ohio, USA
Cross-sectional study of 24 fecal samples from adults in Ohio, USA, comparing 16 samples from other-cancer patients and 8 healthy controls to examine microbiome features linked to long-term pancreatic cancer survival. machine-written summary
24 samples · 24 runs · US · Adult · 2023 · 1.35 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 120 sample values (collection date, country, health condition, health condition detail, location region) |
| ✓ Abstract / description | 24 sample values (subject id) |
| – Full text | no open-access full text linked |
| – Supplementary tables | no supplementary tables available (or none open access) |
| – 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 21 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 | 24 | 100% | ||||
| country | 24 | 100% | 24 | |||
| health_condition | 24 | 100% | 24 | |||
| subject_id | 24 | 100% | 24 | |||
| collection_date | 24 | 100% | 24 | |||
| detailed_location | 24 | 100% | ||||
| health_condition_detail | 24 | 100% | 24 | |||
| location_region | 24 | 100% | 24 |
- Analysis of the fecal metagenome in long-term survivors of pancreas cancer. 2023 PMID 36943918 own_data
Archive description
Analysis of pancreatic cancer survivors to identify microbiome features associated with long term survival .
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 · “Analysis of the Fecal Metagenome in Long”
- body site external_curation.infant_catalog · “body_site_call gut”
- life stage external_curation.infant_catalog · “infant triage reason_code age_adult_only”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN31537919 | collection_date | 2021-05-05 | R1 | 0.90 | biosample.attribute:collection_date | 2021-05-05 |
| SAMN31537919 | country | US | R1 | 0.90 | sample.attr.geo_loc_name | USA: Ohio |
| SAMN31537919 | health_condition | other_cancer | R1 | 0.85 | biosample.attribute:DESCRIPTION | DESCRIPTION: LTS |
| SAMN31537919 | health_condition_detail | LTS | R1 | 0.85 | biosample.attribute:DESCRIPTION | DESCRIPTION: LTS |
| SAMN31537919 | location_region | Ohio | R1 | 0.85 | biosample.attribute:geo_loc_name | USA: Ohio |
| SAMN31537919 | subject_id | SAMN31537919 | R4 | 0.65 | design.one_sample_per_subject:abstract | In this cross-sectional study, comprehensive shotgun metagenomics was performed on stool from PCa patients |
Sequencing
24 runs over 24 samples · mean 1.94 Gbp per run (median 1.35 Gbp, total 46.53 Gbp; 24 runs with a base count) · layout PAIRED 24 · platform ILLUMINA 24 · models Illumina NovaSeq 6000 (24) · 88% of runs with a Sandpiper profile · first public 2023-11-02
Authors (0)
No author record.
Downloads
PRJNA896226.csv.gz (1.6 KB) · parquet (70.5 KB) — all 24 samples, every field with route and confidence · PRJNA896226_determinations.csv.gz (1.8 KB) — 144 evidence rows