Gut microbiome in MDD with suicide attempt, Baltimore
61 fecal samples from hospitalized patients with major depressive disorder in Baltimore, MD, comparing those with a recent suicide attempt with those without, using 16S rRNA and shotgun sequencing; case-control design. machine-written summary
61 samples · 61 runs · US · Age unknown · 2025 · 5.17 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 466 sample values (collection date, country, health condition, health condition detail, latitude, location locality, location region, longitude) |
| ✓ Abstract / description | 11 sample values (health condition detail) |
| ✓ Full text | 50 sample values (location site) · PMC12390952 |
| ○ 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 55 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 | 61 | 100% | 61 | |||
| health_condition | 50 | 82% | 50 | |||
| subject_id | 0 | 0% | ||||
| collection_date | 61 | 100% | 61 | |||
| detailed_location | 61 | 100% | ||||
| health_condition_detail | 61 | 100% | 50 | 11 | ||
| latitude | 61 | 100% | 61 | |||
| location_locality | 61 | 100% | 61 | |||
| location_region | 61 | 100% | 61 | |||
| longitude | 61 | 100% | 61 | |||
| location_site | 50 | 82% | 50 |
- Altered gut microbial diversity, composition, and metabolomic potential in patients with major depressive disorder and recent suicide attempt. 2025 PMID 40896414 PMC12390952 own_data
Archive description
This study investigates the role of the gut microbiome in suicidal behavior among individuals with major depressive disorder (MDD). Fecal samples from 50 hospitalized patients with MDD, including 35 with recent suicide attempts (60% female) and 15 without a history of suicide (73% female), were analyzed using 16S rRNA and shotgun sequencing.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by sonnet_x2 with confidence 0.70. Assay shotgun_dna.
- host study.description · “individuals with major depressive disorder”
- body site study.description · “Fecal samples from 50 hospitalized patients”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN51231077 | collection_date | 2020/2022 | R1 | 0.90 | biosample.attribute:collection_date | 2020/2022 |
| SAMN51231077 | country | US | R1 | 0.90 | sample.attr.geo_loc_name | USA: Baltimore, MD |
| SAMN51231077 | health_condition | neurological_psychiatric | R1 | 0.85 | biosample.attribute:DESCRIPTION | DESCRIPTION: recent suicide non-attempter |
| SAMN51231077 | health_condition_detail | recent suicide non-attempter | R1 | 0.85 | biosample.attribute:DESCRIPTION | DESCRIPTION: recent suicide non-attempter |
| SAMN51231127 | health_condition_detail | mixed_case_control: 35 with recent suicide attempts vs 15 without suicide history, all with major depressive disorder | R4 | 0.50 | study.description | patients with MDD, including 35 with recent suicide attempts |
| SAMN51231077 | latitude | 39.2905 | R1 | 0.90 | biosample.attribute:lat_lon | 39.2905 N 76.6104 W |
| SAMN51231077 | location_locality | Baltimore | R1 | 0.85 | biosample.attribute:geo_loc_name | USA: Baltimore, MD |
| SAMN51231077 | location_region | Maryland | R1 | 0.75 | biosample.attribute:geo_loc_name | USA: Baltimore, MD |
| SAMN51231077 | location_site | Sheppard Pratt | R3 | 0.70 | paper.body.methods | recruited at Sheppard Pratt, a large non-profit psychiatric health system in central Maryland, USA, between 2020 and 2022 |
| SAMN51231077 | longitude | -76.6104 | R1 | 0.90 | biosample.attribute:lat_lon | 39.2905 N 76.6104 W |
Sequencing
61 runs over 61 samples · mean 5.04 Gbp per run (median 5.17 Gbp, total 307.18 Gbp; 61 runs with a base count) · layout SINGLE 61 · platform ILLUMINA 61 · models Illumina NovaSeq X (61) · 90% of runs with a Sandpiper profile · first public 2025-09-14
Authors (0)
No author record.
Help complete this project
2 of the 4 core fields are below 50% coverage: age_category, subject_id. Share metadata
Downloads
PRJNA1321953.csv.gz (2.5 KB) · parquet (72.6 KB) — all 61 samples, every field with route and confidence · PRJNA1321953_determinations.csv.gz (4.5 KB) — 527 evidence rows