Gut microbiome in sickle cell disease patients, Bronx, NY
Cross-sectional study of 144 gut microbiome samples from sickle cell disease patients in Bronx, NY, examining links between microbiome changes and immune system activation. machine-written summary
144 samples · 144 runs · US · Age unknown · 2025 · 6.42 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 576 sample values (collection date, country, location locality, location region) |
| ✓ Abstract / description | 288 sample values (health condition, health condition detail) |
| – 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 · share metadata |
| – Human verified | not yet checked by a person · I checked this project — verify it |
Genera, mean relative abundance over 142 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 | 144 | 100% | 144 | |||
| health_condition | 144 | 100% | 144 | |||
| subject_id | 0 | 0% | ||||
| collection_date | 144 | 100% | 144 | |||
| detailed_location | 144 | 100% | ||||
| health_condition_detail | 144 | 100% | 144 | |||
| location_locality | 144 | 100% | 144 | |||
| location_region | 144 | 100% | 144 |
- Bacterial and viral gut microbiome alterations characterize microbiome-immune-pathophysiology axes in sickle cell disease 2026 own_data
Archive description
A study to characterize gut microbiome changes in patients with sickle cell disease and understand the relationship between changes and immune system activation.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by sonnet_x2 with confidence 0.82. Assay shotgun_dna.
- host run.host_tax_id · “9606”
- host run.scientific_name · “human gut metagenome”
- body site run.scientific_name · “human gut metagenome”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN51164399 | collection_date | 2018-11-08 | R1 | 0.90 | biosample.attribute:collection_date | 2018-11-08 |
| SAMN51164399 | country | US | R1 | 0.90 | sample.attr.geo_loc_name | USA: Bronx, NY |
| SAMN51164399 | health_condition | other_disease | R4 | 0.50 | study.title | Sickle cell disease patient gut microbiome |
| SAMN51164399 | health_condition_detail | sickle cell disease | R4 | 0.50 | study.title | Sickle cell disease patient gut microbiome |
| SAMN51164399 | location_locality | Bronx | R1 | 0.85 | biosample.attribute:geo_loc_name | USA: Bronx, NY |
| SAMN51164399 | location_region | New York | R1 | 0.75 | biosample.attribute:geo_loc_name | USA: Bronx, NY |
Sequencing
144 runs over 144 samples · mean 7.04 Gbp per run (median 6.42 Gbp, total 1,013.87 Gbp; 144 runs with a base count) · layout PAIRED 144 · platform ILLUMINA 144 · models Illumina NovaSeq 6000 (144) · 99% of runs with a Sandpiper profile · first public 2025-09-10
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
PRJNA1320713.csv.gz (4.5 KB) · parquet (75.3 KB) — all 144 samples, every field with route and confidence · PRJNA1320713_determinations.csv.gz (5.2 KB) — 864 evidence rows