Gut microbiome in Lynch syndrome mutation carriers, Israel
78 gut microbiome samples from adults and elderly individuals in Israel, most with another noted disease, examining links between Lynch syndrome gene mutations and colorectal cancer risk. machine-written summary
78 samples · 78 runs · IL · Adult · 2025 · 35.52 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 693 sample values (age, bmi, collection date, country, health condition, health condition detail, latitude, location region) |
| – Abstract / description | no abstract or project description |
| – 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 68 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 | 77 | 99% | ||||
| country | 78 | 100% | 78 | |||
| health_condition | 78 | 100% | 78 | |||
| subject_id | 0 | 0% | ||||
| collection_date | 78 | 100% | 78 | |||
| detailed_location | 78 | 100% | ||||
| health_condition_detail | 78 | 100% | 78 | |||
| latitude | 78 | 100% | 78 | |||
| location_region | 78 | 100% | 78 | |||
| longitude | 78 | 100% | 78 | |||
| age_at_collection_days | 77 | 99% | 77 | |||
| bmi | 70 | 90% | 70 |
Archive description
The interplay between Lynch syndrome (LS) mutations and the gut microbiome may hold critical insights into colorectal cancer (CRC) risk prediction. This study assesses microbiome variations linked to LS specific genes and explores their relationship with CRC prevalence.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of adult and elderly by sonnet_x2 with confidence 0.65. Assay shotgun_dna.
- host run.host_tax_id · “9606”
- body site study.title · “Gut Microbiome profile of Lynch”
- life stage sample.attr.host_age · “63 (n=53/78)”
- life stage sample.attr.host_age · “79 (n=18/78)”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN43074579 | age_at_collection_days | 18262.5 | R1 | 0.70 | sample.attr.host_age | 50 |
| SAMN43074580 | bmi | 26.8 | R1 | 0.90 | sample.attr.host_body_mass_index | 26.8 |
| SAMN43074579 | collection_date | 2020-10-20 | R1 | 0.90 | biosample.attribute:collection_date | 2020-10-20 |
| SAMN43074579 | country | IL | R1 | 0.90 | sample.attr.geo_loc_name | Israel |
| SAMN43074579 | health_condition | healthy_control | R1 | 0.85 | biosample.attribute:host_disease | no |
| SAMN43074580 | health_condition | other_disease | R1 | 0.60 | biosample_attr | Lynch syndrome |
| SAMN43074579 | health_condition_detail | no | R1 | 0.90 | sample.attr.host_disease | no |
| SAMN43074579 | latitude | 32.8330 | R1 | 0.90 | biosample.attribute:lat_lon | 32.833049 N 34.985710 E |
| SAMN43074579 | location_region | Haifa | R1 | 0.60 | biosample.attribute:lat_lon | 32.833049 N 34.985710 E |
| SAMN43074579 | longitude | 34.9857 | R1 | 0.90 | biosample.attribute:lat_lon | 32.833049 N 34.985710 E |
Sequencing
78 runs over 78 samples · mean 32.45 Gbp per run (median 35.52 Gbp, total 2,530.95 Gbp; 78 runs with a base count) · layout PAIRED 78 · platform ILLUMINA 78 · models Illumina MiSeq (78) · 87% of runs with a Sandpiper profile · first public 2025-07-27
Authors (0)
No author record.
Downloads
PRJNA1145581.csv.gz (3.6 KB) · parquet (74.4 KB) — all 78 samples, every field with route and confidence · PRJNA1145581_determinations.csv.gz (5.5 KB) — 693 evidence rows