Gut microbiome in Thai liver cancer vs healthy controls
Case-control study of 120 fecal samples from Thai adults (healthy controls, liver disease, hepatocellular carcinoma/intrahepatic cholangiocarcinoma), comparing gut microbiome profiles in hepatocellular carcinoma and intrahepatic cholangiocarcinoma versus healthy controls via shotgun metagenomic sequencing. machine-written summary
120 samples · 120 runs · TH · Adult · 2023 · 5.18 Gbp / sample · cohort Two stable gut microbiome guilds predict liver tum
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 600 sample values (collection date, health condition, health condition detail, sex, subject id) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 120 sample values (location region) · PMC10349051, PMC12966491, PMC13147943 |
| ○ Supplementary tables | files read; no table could be matched to the samples |
| ✓ External resources | 120 sample values (country) · from GMrepo v3 |
| – User contribution | nothing uploaded yet |
| – Human verified | not yet checked by a person · I checked this project — verify it |
Genera, mean relative abundance over 112 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 | 120 | 100% | ||||
| country | 120 | 100% | 120 | |||
| health_condition | 120 | 100% | 120 | |||
| subject_id | 120 | 100% | 120 | |||
| collection_date | 120 | 100% | 120 | |||
| detailed_location | 120 | 100% | ||||
| health_condition_detail | 120 | 100% | 120 | |||
| location_region | 120 | 100% | 120 | |||
| sex | 120 | 100% | 120 |
- Gut dysbiosis in Thai intrahepatic cholangiocarcinoma and hepatocellular carcinoma. 2023 PMID 37452065 PMC10349051 own_data
- Modeling diet-gut microbiome interactions and prebiotic responses in Thai adults. 2026 PMID 41605932 PMC12966491 unsure
- Two stable gut microbiome guilds predict liver tumor class and treatment responses. 2026 PMID 42099457 PMC13147943 unsure
Archive description
This study goal is to describe the landscape of gut microbiome in Thai primary liver cancer, particularly HCC and iCCA patients, compared to healthy controls. The study subjects are from the Thailand Initiative in Genomics and Expression Research for Liver Cancer [TIGER-LC]
How this project entered the registry
Classified as human gut / stool / blood / tissue / internal fluids 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 · “Dysbiosys of the gut microbiota in Thai”
- body site study.description · “the landscape of gut microbiome in Thai”
- body site study.description · “in Thai primary liver cancer, particularly HCC”
- 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 |
|---|---|---|---|---|---|---|
| SAMN33215904 | collection_date | 2018-06-20 | R1 | 0.90 | biosample.attribute:collection_date | 2018-06-20 |
| SAMN33215904 | country | TH | R2 | 0.75 | external.gmrepo source | country: Thailand |
| SAMN33215904 | health_condition | liver_disease | R1 | 0.90 | biosample_attr | HCC |
| SAMN33215904 | health_condition_detail | HCC | R1 | 0.90 | sample.attr.disease_status | HCC |
| SAMN33215904 | location_region | northern, northeastern, and central Thailand | R3 | 0.70 | paper.fulltext.methods | 4 clinical centers in northern, northeastern, and central Thailand |
| SAMN33215904 | sex | male | R1 | 0.90 | sample.attr.sex | male |
| SAMN33215904 | subject_id | CRI_100 | R1 | 0.85 | biosample.attribute:source_material_id | CRI_100 |
Sequencing
120 runs over 120 samples · mean 5.37 Gbp per run (median 5.18 Gbp, total 644.18 Gbp; 120 runs with a base count) · layout PAIRED 120 · platform ILLUMINA 120 · models Illumina NovaSeq 6000 (120) · 93% of runs with a Sandpiper profile · first public 2023-07-30
Authors (43)
Pomyen Y first · Chaisaingmongkol J · Rabibhadana S · Pupacdi B · Sripan D · Chornkrathok C · Budhu A · Budhisawasdi V · Lertprasertsuke N · Chotirosniramit A · Pairojkul C · Auewarakul CU · Ungtrakul T · Sricharunrat T · Phornphutkul K · Sangrajang S · Loffredo CA · Harris CC · Mahidol C · Wang XW · Ruchirawat M · TIGER-LC Consortium last · Raethong N first · Patumcharoenpol P · Vongsangnak W last · Liu Y first · Zhang Z · Wu G · Li B · Wang L · Wang J · Wei Z · Wang Z · Yang J · Zhang K · Zhang T · Tao X · Chen T · Fan J · Zhou J · Yang X · Zhao L · Wei Y last
Downloads
PRJNA932948.csv.gz (4.5 KB) · parquet (75.7 KB) — all 120 samples, every field with route and confidence · PRJNA932948_determinations.csv.gz (7.1 KB) — 840 evidence rows