Gut metagenomes of healthy adolescents in Moscow, Russia
Cross-sectional study of 7 gut metagenome samples from healthy adolescents in Moscow, Russia. machine-written summary
7 samples · 7 runs · RU · Child · 2017 · 8.97 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 42 sample values (collection date, country, latitude, location locality, location region, longitude) |
| – 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 | 28 sample values (age, health condition, health condition detail, sex) · from GMrepo v3 |
| – User contribution | nothing uploaded yet |
| – Human verified | not yet checked by a person · I checked this project — verify it |
Genera, mean relative abundance over 7 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 | 7 | 100% | ||||
| country | 7 | 100% | 7 | |||
| health_condition | 7 | 100% | 7 | |||
| subject_id | 0 | 0% | ||||
| age_at_collection_days | 7 | 100% | 7 | |||
| collection_date | 7 | 100% | 7 | |||
| detailed_location | 7 | 100% | ||||
| health_condition_detail | 7 | 100% | 7 | |||
| latitude | 7 | 100% | 7 | |||
| location_locality | 7 | 100% | 7 | |||
| location_region | 7 | 100% | 7 | |||
| longitude | 7 | 100% | 7 | |||
| sex | 7 | 100% | 7 |
Archive description
Gut metagenomes were isolated from healthy Russian teenagers living in Moscow, Russia
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of child and adolescent by deterministic_prior with confidence 0.90. Assay shotgun_dna.
- host external_curation.infant_catalog · “infant triage reason_code age_child_over_36m”
- body site study.title · “human gut metagenome Raw sequence”
- body site study.description · “Gut metagenomes were isolated”
- life stage external_curation.infant_catalog · “infant triage reason_code age_child_over_36m”
- life stage study.description · “from healthy Russian teenagers living in Moscow,”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN06624499 | age_at_collection_days | 5478.75 | R2 | 0.75 | external.gmrepo source | host_age: 15.0 |
| SAMN06624499 | collection_date | 2016 | R1 | 0.90 | biosample.attribute:collection_date | 2016 |
| SAMN06624499 | country | RU | R1 | 0.90 | sample.attr.geo_loc_name | Russia: Moscow |
| SAMN06624499 | health_condition | healthy_control | R2 | 0.75 | external.gmrepo source | phenotype: Health |
| SAMN06624499 | health_condition_detail | Health | R2 | 0.75 | external.gmrepo source | phenotype: Health |
| SAMN06624499 | latitude | 55.4500 | R1 | 0.90 | biosample.attribute:lat_lon | 55.45 N 37.37 E |
| SAMN06624499 | location_locality | Moscow | R1 | 0.85 | biosample.attribute:geo_loc_name | Russia: Moscow |
| SAMN06624499 | location_region | Moscow | R1 | 0.85 | biosample.attribute:geo_loc_name | Russia: Moscow |
| SAMN06624499 | longitude | 37.3700 | R1 | 0.90 | biosample.attribute:lat_lon | 55.45 N 37.37 E |
| SAMN06624499 | sex | male | R2 | 0.75 | external.gmrepo source | sex: Male |
Sequencing
7 runs over 7 samples · mean 9.06 Gbp per run (median 8.97 Gbp, total 63.42 Gbp; 7 runs with a base count) · layout PAIRED 7 · platform ILLUMINA 7 · models Illumina HiSeq 4000 (7) · 100% of runs with a Sandpiper profile · first public 2017-03-30
Authors (21)
Ormaasen I first · Rudi K · Diep DB · Snipen L last · Mancabelli L first · Milani C · De Biase R · Bocchio F · Fontana F · Lugli GA · Alessandri G · Tarracchini C · Viappiani A · De Conto F · Nouvenne A · Ticinesi A · Bussolati O · Meschi T · Cecchi R · Turroni F · Ventura M last
Downloads
PRJNA380118.csv.gz (1.1 KB) · parquet (70.4 KB) — all 7 samples, every field with route and confidence · PRJNA380118_determinations.csv.gz (1.2 KB) — 70 evidence rows