SRR27892116 · Gut microbiome
YM54
complete
Gut analysis is paused. Unfinished samples are not negative results. This is a mixed-host collection, not a curated human-only cohort.
Open interactive sample report
Taxonomic abundances
| Species | Genus | Abundance (%) |
|---|---|---|
| Faecalibacterium prausnitzii | Faecalibacterium | 12.1891 |
| Dorea longicatena | Dorea | 10.1894 |
| Dorea formicigenerans | Dorea | 9.2666 |
| Collinsella aerofaciens | Collinsella | 7.9255 |
| Olsenella uli | Olsenella | 6.7519 |
| Subdoligranulum variabile | Subdoligranulum | 5.9609 |
| Bacteroides thetaiotaomicron | Bacteroides | 5.1263 |
| Gemmiger formicilis | Gemmiger | 4.7793 |
| Enterococcus faecium | Enterococcus | 4.3952 |
| Bifidobacterium longum | Bifidobacterium | 3.6877 |
| Collinsella stercoris | Collinsella | 3.5327 |
| Allocoprococcus comes | Allocoprococcus | 3.4609 |
| Senegalimassilia anaerobia | Senegalimassilia | 2.9513 |
| Collinsella intestinalis | Collinsella | 1.4681 |
| Bacteroides zoogleoformans | Bacteroides | 1.3009 |
| Bacteroides uniformis | Bacteroides | 1.2646 |
| Bifidobacterium bohemicum | Bifidobacterium | 1.2375 |
| Tractidigestivibacter scatoligenes | Tractidigestivibacter | 1.2328 |
| Bifidobacterium adolescentis | Bifidobacterium | 1.1514 |
| Phocaeicola vulgatus | Phocaeicola | 1.0912 |
| Bacteroides ovatus | Bacteroides | 0.9615 |
| Bacteroides timonensis | Bacteroides | 0.7401 |
| Bifidobacterium animalis | Bifidobacterium | 0.7325 |
| Bacteroides fragilis | Bacteroides | 0.7205 |
| Bacteroides caccae | Bacteroides | 0.6835 |
| Collinsella tanakaei | Collinsella | 0.6657 |
| Olsenella timonensis | Olsenella | 0.6294 |
| Bacteroides faecis | Bacteroides | 0.5994 |
| Eshraghiella crossota | Eshraghiella | 0.5448 |
| Bacteroides acidifaciens | Bacteroides | 0.4989 |
| Peptoniphilus indolicus | Peptoniphilus | 0.4952 |
| Bifidobacterium actinocoloniiforme | Bifidobacterium | 0.4584 |
| Phocaeicola sartorii | Phocaeicola | 0.4458 |
| Olsenella profusa | Olsenella | 0.4284 |
| Flavonifractor plautii | Flavonifractor | 0.3714 |
| Bacteroides stercoris | Bacteroides | 0.3531 |
| Collinsella bouchesdurhonensis | Collinsella | 0.3397 |
| Prevotella nigrescens | Prevotella | 0.3160 |
| Pseudocoprococcus catus | Pseudocoprococcus | 0.3095 |
| Enterococcus columbae | Enterococcus | 0.2848 |
| Bifidobacterium bifidum | Bifidobacterium | 0.2848 |
| Escherichia coli | Escherichia | 0.1733 |
Saved public metadata
{
"run_accession": "SRR27892116",
"study_accession": "PRJNA1073957",
"sample_accession": "SAMN39846405",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "MinION",
"library_strategy": "AMPLICON",
"library_source": "GENOMIC",
"library_selection": "PCR",
"read_count": "13432",
"base_count": "20525753",
"fastq_bytes": "17425277",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/SRR278/016/SRR27892116/SRR27892116_1.fastq.gz",
"sample_title": "YM54",
"scientific_name": "gut metagenome"
}Public files
Analysis provenance
{
"marker": "16S",
"pipeline": "Archaions v18.8",
"cohort": "Gut, mixed hosts; not curated as a human-only cohort",
"execution_state": "paused_by_user",
"sample_state": "complete",
"read_sampling": "First available reads; not random subsampling",
"input_sha256": "b491a869c2a5765b5e173fbf1086c998418417d4152b748f4324458025ca6d4c",
"length_window_bp": [
1200,
2000
],
"median_read_length": 1532.0,
"quality_scores": "No measured quality scores in fetched FASTA",
"classifier_stats": {
"marker": "16s",
"pipeline": "v18.8",
"gpu": "RTX-PRO-6000",
"input_path": "volume-fastq-gz",
"reads_in": 13432,
"reads_skipped": 5099,
"elapsed_seconds": 1.1154503199995816,
"reads_submitted": 13432,
"reads_after_filter": 13432,
"adapter_scan": {
"sampled": 200,
"matched": 2,
"fraction": 0.01,
"adapters_found": {
"27F": 2
},
"should_trim": false
},
"porechop_ran": false,
"porechop_reason": "fast-path: no adapter trimming required"
},
"metadata_coverage": "Saved ENA run fields only. BioSample attributes, study abstracts and file MD5s have not been fetched for this panel."
}