Gut microbiome in head and neck cancer patients
57 samples from individuals with head and neck squamous cell carcinoma (country not reported), examining links between gut microbiome, tumor microbiome, and chemotherapy response. machine-written summary
57 samples · 57 runs · Age unknown · 2025 · 13.80 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 217 sample values (collection date, health condition, health condition detail, subject id, timepoint) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 57 sample values (location site) · PMC13202295 |
| ○ 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 · share metadata |
| – 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 | 0 | 0% | ||||
| country | 0 | 0% | ||||
| health_condition | 57 | 100% | 57 | |||
| subject_id | 37 | 65% | 37 | |||
| collection_date | 57 | 100% | 57 | |||
| detailed_location | 57 | 100% | ||||
| health_condition_detail | 57 | 100% | 57 | |||
| location_site | 57 | 100% | 57 | |||
| timepoint_label | 9 | 16% | 9 |
- MMP1 Modulates Head and Neck Squamous Cell Carcinoma Progression and Therapeutic Response Via Tumour Microenvironment. 2026 PMID 42134193 PMC13202295 own_data
Archive description
The aim of this study is to explore the interactions between the microbiome and head and neck squamous cell carcinoma (HNSCC) and their influence on chemotherapy response. The study seeks to uncover the potential pathogenic mechanisms of the microbiome in HNSCC and evaluate the anti-tumor effects of probiotics in combination with chemotherapy.
How this project entered the registry
Classified as human gut / stool / oral cavity shotgun DNA metagenome of age unknown by sonnet_x2 with confidence 0.53. Assay shotgun_dna.
- host run.scientific_name · “human gut metagenome”
- body site run.scientific_name · “human gut metagenome”
- body site sample.attr.isolation_source · “oral (n=57/57)”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN44301214 | collection_date | 2023-11-01 | R1 | 0.90 | biosample.attribute:collection_date | 2023-11-01 |
| SAMN44301214 | health_condition | other_cancer | R1 | 0.85 | biosample_attr | oral squamous cell carcinoma |
| SAMN44301214 | health_condition_detail | oral squamous cell carcinoma | R1 | 0.90 | sample.attr.host_disease | oral squamous cell carcinoma |
| SAMN44301214 | location_site | Union Hospital, Fujian Medical University | R3 | 0.70 | paper.fulltext.methods | obtained from five patients with newly diagnosed HNSCC at Union Hospital |
| SAMN44301214 | subject_id | IFCA1 | R1 | 0.70 | sample.name_rule:biosample.alias | IFCA1 |
| SAMN44301216 | subject_id | IFCA11 | R1 | 0.70 | sample.name_rule:alias | IFCA11 |
| SAMN44301220 | timepoint_label | AC | R1 | 0.70 | sample.name_rule:alias | IFCA15AC |
Sequencing
57 runs over 57 samples · mean 14.18 Gbp per run (median 13.80 Gbp, total 808.51 Gbp; 57 runs with a base count) · layout PAIRED 57 · platform ILLUMINA 57 · models Illumina NovaSeq 6000 (57) · 89% of runs with a Sandpiper profile · first public 2025-02-23
Help complete this project
2 of the 4 core fields are below 50% coverage: age_category, country. Share metadata
Downloads
PRJNA1173329.csv.gz (2.6 KB) · parquet (72.0 KB) — all 57 samples, every field with route and confidence · PRJNA1173329_determinations.csv.gz (3.0 KB) — 274 evidence rows