Colorectal cancer tissue microbiota by tissue type & site
57 tissue samples from 19 colorectal cancer patients, covering cancerous tissue, paracancerous tissue, and normal mucosa from right colon, left colon, and rectum, analyzed cross-sectionally via metagenomic sequencing. machine-written summary
57 samples · 57 runs · CN · Age unknown · 2025 · 12.85 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 342 sample values (collection date, country, latitude, location locality, location region, longitude) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 114 sample values (health condition, health condition detail) · PMC12172456 |
| ○ 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 |
Genera, mean relative abundance over 49 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 | 57 | 100% | 57 | |||
| health_condition | 57 | 100% | 57 | |||
| subject_id | 0 | 0% | ||||
| collection_date | 57 | 100% | 57 | |||
| detailed_location | 57 | 100% | ||||
| health_condition_detail | 57 | 100% | 57 | |||
| latitude | 57 | 100% | 57 | |||
| location_locality | 57 | 100% | 57 | |||
| location_region | 57 | 100% | 57 | |||
| longitude | 57 | 100% | 57 |
- The characteristics of tissue microbiota in different anatomical locations and different tissue types of the colorectum in patients with colorectal cancer. 2025 PMID 40422085 PMC12172456 own_data
Archive description
The gut microbiota is intricately associated with the onset and progression of colorectal cancer (CRC), leading to significant interest in the development of prevention and treatment strategies that leverage gut microbiota. In this study, we collected a total of 57 samples from 19 CRC patients, comprising cancerous tissue, paracancerous tissue, and normal mucosa. Utilising metagenomic sequencing and bioinformatics analysis, we identified differences in the microbiomes and their functional characteristics across the various tissue types. The results indicated that species such as Alistipes putredinis were predominantly found in normal tissues, while Pseudomonas putida was enriched in paracancerous tissue and Malassezia restricta was prevalent in cancerous tissues. Furthermore, the microbial functions exhibited variability among the different tissue types. Random forest analysis suggested that Moraxella osloensis may be implicated in the onset and progression of colorectal cancer. We also classified the patients into three subgroups based on the anatomical location of the colorectum: right-sided colon, left-sided colon, and rectum. The subgroup analysis revealed that the microbiota enriched in normal mucosa and paracancerous tissue varied across different anatomical sites. These findings not only elucidate the characteristics of the microbiomes in the normal mucosa, paracancerous tissue, and cancerous tissues of CRC patients, thereby providing new potential targets for clinical diagnosis and treatment, but also contribute to the existing microbiome data pertinent to CRC research.
How this project entered the registry
Classified as human blood / tissue / internal fluids / gut / stool shotgun DNA metagenome of age unknown by opus_adjudicated with confidence 0.75. Assay shotgun_dna.
- host study.description · “57 samples from 19 CRC patients”
- body site study.description · “cancerous tissue, paracancerous tissue, and normal mucosa”
- body site sample.attr.isolation_source · “feces (n=57/57)”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN47760425 | collection_date | 2024-02-01 | R1 | 0.90 | biosample.attribute:collection_date | 2024-02-01 |
| SAMN47760425 | country | CN | R1 | 0.90 | sample.attr.geo_loc_name | China: Wuhan |
| SAMN47760425 | health_condition | colorectal_cancer | R3 | 0.70 | paper.fulltext.methods | 19 colorectal cancer (CRC) patients who underwent surgical treatment |
| SAMN47760425 | health_condition_detail | colorectal cancer (CRC) patients who underwent surgical treatment | R3 | 0.70 | paper.fulltext.methods | 19 colorectal cancer (CRC) patients who underwent surgical treatment |
| SAMN47760425 | latitude | 30.5800 | R1 | 0.90 | biosample.attribute:lat_lon | 30.58 N 114.26 E |
| SAMN47760425 | location_locality | Wuhan | R1 | 0.85 | biosample.attribute:geo_loc_name | China: Wuhan |
| SAMN47760425 | location_region | Hubei | R1 | 0.60 | biosample.attribute:lat_lon | 30.58 N 114.26 E |
| SAMN47760425 | longitude | 114.2600 | R1 | 0.90 | biosample.attribute:lat_lon | 30.58 N 114.26 E |
Sequencing
57 runs over 57 samples · mean 12.66 Gbp per run (median 12.85 Gbp, total 721.81 Gbp; 57 runs with a base count) · layout PAIRED 57 · platform ILLUMINA 57 · models Illumina NovaSeq 6000 (57) · 98% of runs with a Sandpiper profile · first public 2025-04-29
Authors (14)
Liu L first · Shi J · Wang H · Du H · Yang J · Wei K · Zhou Z · Li M · Huang S · Zhan L · Li G · Lv Y · Shen H · Cai W last
Help complete this project
2 of the 4 core fields are below 50% coverage: age_category, subject_id. Share metadata
Downloads
PRJNA1245618.csv.gz (2.4 KB) · parquet (72.2 KB) — all 57 samples, every field with route and confidence · PRJNA1245618_determinations.csv.gz (3.5 KB) — 456 evidence rows