SRR27205856 · Gut microbiome
Pre-Sham HY13
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 (%) |
|---|---|---|
| Limosilactobacillus reuteri | Limosilactobacillus | 31.5750 |
| Clostridium perfringens | Clostridium | 7.9108 |
| Blautia glucerasea | Blautia | 7.0228 |
| Enterococcus faecium | Enterococcus | 6.4324 |
| Blautia producta | Blautia | 6.3904 |
| Faecalibacterium prausnitzii | Faecalibacterium | 4.4266 |
| Collinsella aerofaciens | Collinsella | 4.3187 |
| Clostridium phytofermentans | Clostridium | 3.2731 |
| Anaerobutyricum hallii | Anaerobutyricum | 3.0069 |
| Escherichia coli | Escherichia | 2.5889 |
| Bacteroides uniformis | Bacteroides | 2.3711 |
| Anaerostipes hadrus | Anaerostipes | 2.1343 |
| Akkermansia muciniphila | Akkermansia | 1.8645 |
| Ruminococcus callidus | Ruminococcus | 1.7874 |
| Massilistercora timonensis | Massilistercora | 1.3761 |
| Ruminococcus champanellensis | Ruminococcus | 1.3278 |
| Phocaeicola dorei | Phocaeicola | 1.2676 |
| Blautia hansenii | Blautia | 1.2310 |
| Bacteroides cellulosilyticus | Bacteroides | 1.0679 |
| Ruminococcus bromii | Ruminococcus | 1.0513 |
| Enterococcus durans | Enterococcus | 0.7489 |
| Bacteroides clarus | Bacteroides | 0.7242 |
| Streptococcus salivarius | Streptococcus | 0.6640 |
| Phocaeicola vulgatus | Phocaeicola | 0.6571 |
| Clostridium botulinum | Clostridium | 0.6096 |
| Streptococcus parasanguinis | Streptococcus | 0.3823 |
| Bacteroides fragilis | Bacteroides | 0.3629 |
| Alistipes putredinis | Alistipes | 0.3555 |
| Eshraghiella crossota | Eshraghiella | 0.3151 |
| Negativibacillus massiliensis | Negativibacillus | 0.2732 |
| Collinsella intestinalis | Collinsella | 0.2621 |
| Dorea formicigenerans | Dorea | 0.2616 |
| Bacteroides ovatus | Bacteroides | 0.2544 |
| Fusicatenibacter saccharivorans | Fusicatenibacter | 0.2414 |
| Blautia luti | Blautia | 0.2407 |
| Parabacteroides merdae | Parabacteroides | 0.2347 |
| Bacteroides thetaiotaomicron | Bacteroides | 0.2082 |
| Bacteroides intestinalis | Bacteroides | 0.2026 |
| Parabacteroides distasonis | Parabacteroides | 0.2012 |
| Ruminococcus flavefaciens | Ruminococcus | 0.1948 |
| Lactobacillus delbrueckii | Lactobacillus | 0.1811 |
Saved public metadata
{
"run_accession": "SRR27205856",
"study_accession": "PRJNA1052613",
"sample_accession": "SAMN38838661",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "GridION",
"library_strategy": "AMPLICON",
"library_source": "METAGENOMIC",
"library_selection": "RT-PCR",
"read_count": "131067",
"base_count": "196111898",
"fastq_bytes": "157587961",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/SRR272/056/SRR27205856/SRR27205856_1.fastq.gz",
"sample_title": "Pre-Sham HY13",
"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": "e2cfe23694da3362c854849a4eabf96e716a2360a479a9f3074604cb5e2c2acd",
"length_window_bp": [
1200,
2000
],
"median_read_length": 1496.0,
"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": 20000,
"reads_skipped": 4869,
"elapsed_seconds": 2.4809498800000256,
"reads_submitted": 20000,
"reads_after_filter": 20000,
"adapter_scan": {
"sampled": 200,
"matched": 107,
"fraction": 0.535,
"adapters_found": {
"27F": 94,
"BC_FLANK": 4,
"1492R_rc": 9
},
"should_trim": true
},
"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."
}