Gut microbiome in MS and NMOSD, case-control, Japan
118 gut metagenome samples from Japanese adults (and 2 elderly) with relapsing-remitting or secondary progressive multiple sclerosis, atypical MS, neuromyelitis optica spectrum disorder, and healthy controls, in a case-control design. machine-written summary
118 samples · 118 runs · JP · Adult · 2020 · 1.74 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 472 sample values (age, country, sex, subject id) |
| ○ Abstract / description | read; no usable statement |
| ○ Full text | read; no usable statement or table · PMC7486801 |
| – Supplementary tables | no supplementary tables available (or none open access) |
| ✓ External resources | 236 sample values (health condition, health condition detail) · from GMrepo v3 |
| – User contribution | nothing uploaded yet |
| – 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 | 118 | 100% | ||||
| country | 118 | 100% | 118 | |||
| health_condition | 118 | 100% | 118 | |||
| subject_id | 118 | 100% | 118 | |||
| age_at_collection_days | 118 | 100% | 118 | |||
| health_condition_detail | 118 | 100% | 118 | |||
| sex | 118 | 100% | 118 |
- Multikingdom microbiome-based machine learning enables multiple sclerosis diagnosis. 2026 PMID 42218218 PMC13519030 cites_accession
- Alterations of the gut ecological and functional microenvironment in different stages of multiple sclerosis. 2020 PMID 32839304 PMC7486801 own_data
Archive description
We searched for specific bacterial species and gene functions involved in the pathogenesis of classical Western-type multiple sclerosis (CMS) by analyzing the gut microbial metagenomic gene sequence data of 62 relapsing-remitting CMS patients, 15 secondary progressive CMS patients, 21 atypical MS patients, 20 neuromyelitis optica spectrum disorder patients, and 55 age-matched healthy controls. We identified candidates of specific bacterial species and gene functions that are involved in the development and progression of MS.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of adult by opus_adjudicated with confidence 0.80. Assay shotgun_dna.
- host run.host_tax_id · “9606”
- host study.description · “62 relapsing-remitting CMS patients”
- body site study.description · “gut microbial metagenomic gene sequence data”
- life stage sample.attr.age · “42 (n=116/118)”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMD00154141 | age_at_collection_days | 16791.8 | R1 | 0.85 | sample.attr.age | 46 |
| SAMD00154141 | country | JP | R1 | 0.90 | sample.attr.geo_loc_name | Japan |
| SAMD00154141 | health_condition | neurological_psychiatric | R2 | 0.75 | external.gmrepo source | phenotype: Multiple Sclerosis |
| SAMD00154141 | health_condition_detail | Multiple Sclerosis | R2 | 0.75 | external.gmrepo source | phenotype: Multiple Sclerosis |
| SAMD00154141 | sex | female | R1 | 0.90 | sample.attr.sex | female |
| SAMD00154141 | subject_id | AtypicalMS001 | R1 | 0.85 | sample.attr.host_subject_id | AtypicalMS001 |
Sequencing
118 runs over 118 samples · mean 1.74 Gbp per run (median 1.74 Gbp, total 204.90 Gbp; 118 runs with a base count) · layout SINGLE 118 · platform ION_TORRENT 118 · models Ion Torrent Proton (118) · 0% of runs with a Sandpiper profile · first public 2020-08-14
Authors (0)
No author record.
Downloads
PRJDB7767.csv.gz (4.4 KB) · parquet (75.2 KB) — all 118 samples, every field with route and confidence · PRJDB7767_determinations.csv.gz (5.8 KB) — 708 evidence rows