SRR27205838 · Gut microbiome

Post-Hypoxia HY08

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 (%)
Megamonas hypermegale	Megamonas	27.1756
Faecalimonas umbilicata	Faecalimonas	14.3635
Blautia glucerasea	Blautia	9.1746
Mediterraneibacter glycyrrhizinilyticus	Mediterraneibacter	8.2855
Collinsella aerofaciens	Collinsella	7.6266
Blautia producta	Blautia	7.5048
Anaerobutyricum hallii	Anaerobutyricum	4.4731
Dorea formicigenerans	Dorea	1.9179
Bacteroides clarus	Bacteroides	1.3559
Escherichia coli	Escherichia	1.2740
Akkermansia muciniphila	Akkermansia	1.2610
Bacteroides uniformis	Bacteroides	1.2035
Bacteroides thetaiotaomicron	Bacteroides	1.1790
Phocaeicola vulgatus	Phocaeicola	1.1230
Blautia hansenii	Blautia	0.9494
Phocaeicola massiliensis	Phocaeicola	0.9414
Parabacteroides distasonis	Parabacteroides	0.8231
Dialister invisus	Dialister	0.7282
Bacteroides caccae	Bacteroides	0.6592
Streptococcus salivarius	Streptococcus	0.6383
Bacteroides ovatus	Bacteroides	0.6054
Ruminococcus bromii	Ruminococcus	0.5263
Bacteroides cellulosilyticus	Bacteroides	0.5246
Ruminococcus champanellensis	Ruminococcus	0.4728
Bacteroides intestinalis	Bacteroides	0.4557
Ruminococcus callidus	Ruminococcus	0.4374
Bacteroides fragilis	Bacteroides	0.4215
Faecalimonas nexilis	Faecalimonas	0.4162
Phocaeicola coprocola	Phocaeicola	0.3315
Blautia luti	Blautia	0.3183
Parabacteroides merdae	Parabacteroides	0.3120
Phocaeicola dorei	Phocaeicola	0.3085
Bacteroides xylanisolvens	Bacteroides	0.2719
Streptococcus equinus	Streptococcus	0.2522
Megamonas funiformis	Megamonas	0.2405
Bacteroides zoogleoformans	Bacteroides	0.2279
Dorea longicatena	Dorea	0.2210
Collinsella tanakaei	Collinsella	0.2145
Lacticaseibacillus paracasei	Lacticaseibacillus	0.1820
Megamonas rupellensis	Megamonas	0.1690
Eshraghiella crossota	Eshraghiella	0.1560
Collinsella stercoris	Collinsella	0.1407
Agathobacter ruminis	Agathobacter	0.1365

Saved public metadata

{
  "run_accession": "SRR27205838",
  "study_accession": "PRJNA1052613",
  "sample_accession": "SAMN38838686",
  "instrument_platform": "OXFORD_NANOPORE",
  "instrument_model": "GridION",
  "library_strategy": "AMPLICON",
  "library_source": "METAGENOMIC",
  "library_selection": "RT-PCR",
  "read_count": "52673",
  "base_count": "78514872",
  "fastq_bytes": "61969752",
  "fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/SRR272/038/SRR27205838/SRR27205838_1.fastq.gz",
  "sample_title": "Post-Hypoxia HY08",
  "scientific_name": "gut metagenome"
}

Public files

SRR27205838_1.fastq.gz

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": "33c3dd40e71cf03f970445e2704f042a4afcbfed3a194b93e91af2e7b6c892cd",
  "length_window_bp": [
    1200,
    2000
  ],
  "median_read_length": 1494.0,
  "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": 4493,
    "elapsed_seconds": 1.758996673999718,
    "reads_submitted": 20000,
    "reads_after_filter": 20000,
    "adapter_scan": {
      "sampled": 200,
      "matched": 93,
      "fraction": 0.465,
      "adapters_found": {
        "27F": 87,
        "BC_FLANK": 4,
        "1492R_rc": 2
      },
      "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."
}