Gut microbiota in IgA deficiency, Stockholm case-control
130 fecal samples from individuals with IgA deficiency and IgA-sufficient household members in Stockholm, Sweden, analyzed by shotgun metagenomics in a case-control design assessing IgA-autoantibody status effects on gut microbiota. machine-written summary
130 samples · 130 runs · SE · Age unknown · 2021 · 6.19 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 609 sample values (collection date, country, health condition, health condition detail, location locality) |
| ○ Abstract / description | read; no usable statement |
| ○ Full text | read; no usable statement or table · PMC10709418 |
| ○ 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 |
households — not resolved
Paired design: IgAD individuals and IgA-sufficient household members (n=100 paired); 130 total fecal samples, Stockholm, Sweden..
No Sandpiper profile for this project's samples yet.
| field | samples | coverage | R1 | R2 | R3 | R4 |
|---|---|---|---|---|---|---|
| age_category | 0 | 0% | ||||
| country | 130 | 100% | 130 | |||
| health_condition | 130 | 100% | 130 | |||
| subject_id | 0 | 0% | ||||
| detailed_location | 130 | 100% | ||||
| health_condition_detail | 130 | 100% | 130 | |||
| location_locality | 130 | 100% | 130 | |||
| collection_date | 89 | 68% | 89 |
- Gut microbiota perturbation in IgA deficiency is influenced by IgA-autoantibody status 2021 PMID 33662387 own_data
- IgG and IgM cooperate in coating of intestinal bacteria in IgA deficiency. 2023 PMID 38065985 PMC10709418 unsure
Archive description
Gut microbiota perturbation in IgA deficiency is influenced by IgA-autoantibody status
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by sonnet_x2 with confidence 0.75. Assay shotgun_dna.
- host run.scientific_name · “human gut metagenome”
- host run.host_tax_id · “9606”
- body site run.scientific_name · “human gut metagenome”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN14943214 | collection_date | 2015-03-02 | R1 | 0.90 | biosample.attribute:collection_date | 2015-03-02 |
| SAMN14943213 | country | SE | R1 | 0.90 | sample.attr.geo_loc_name | Sweden: Stockholm |
| SAMN14943213 | health_condition | healthy_control | R1 | 0.85 | biosample.attribute:description | IgA+ |
| SAMN14943213 | health_condition_detail | IgA+ | R1 | 0.85 | biosample.attribute:description | IgA+ |
| SAMN14943213 | location_locality | Stockholm | R1 | 0.85 | biosample.attribute:geo_loc_name | Sweden: Stockholm |
Sequencing
130 runs over 130 samples · mean 6.48 Gbp per run (median 6.19 Gbp, total 842.53 Gbp; 130 runs with a base count) · layout SINGLE 130 · platform BGISEQ 130 · models BGISEQ-500 (130) · 0% of runs with a Sandpiper profile · first public 2021-06-08
Authors (24)
Moll JM first · Myers PN · Zhang C · Eriksen C · Wolf J · Appelberg KS · Lindberg G · Bahl MI · Zhao H · Pan-Hammarström Q · Cai K · Jia H · Borte S · Nielsen HB · Kristiansen K · Brix S · Hammarström L last · Pinto ARA · Danneskiold-Samsøe NB · Dehli RI · Rosholm LB · Dalgaard MD · Penders J · Jonkers DM
Help complete this project
2 of the 4 core fields are below 50% coverage: age_category, subject_id. Share metadata
Downloads
PRJNA633381.csv.gz (4.3 KB) · parquet (74.9 KB) — all 130 samples, every field with route and confidence · PRJNA633381_determinations.csv.gz (4.9 KB) — 609 evidence rows