SRR27205845 · Gut microbiome

Post-Sham HY15

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 (%)
Phocaeicola dorei	Phocaeicola	17.5400
Collinsella aerofaciens	Collinsella	14.4080
Blautia producta	Blautia	8.6833
Blautia glucerasea	Blautia	7.8111
Klebsiella pneumoniae	Klebsiella	6.2316
Bacteroides uniformis	Bacteroides	5.8908
Shigella dysenteriae	Shigella	3.5891
Faecalibacterium prausnitzii	Faecalibacterium	3.4149
Dorea formicigenerans	Dorea	3.1727
Anaerobutyricum hallii	Anaerobutyricum	2.5663
Anaerostipes hadrus	Anaerostipes	2.5126
Hungatella hathewayi	Hungatella	2.1839
Blautia hansenii	Blautia	1.9059
Bacteroides ovatus	Bacteroides	1.8906
Ruminococcus callidus	Ruminococcus	1.6928
Ruminococcus bromii	Ruminococcus	1.4879
Bacteroides fragilis	Bacteroides	1.3381
Gibbsiella quercinecans	Gibbsiella	1.2948
Ruthenibacterium lactatiformans	Ruthenibacterium	1.2695
Ruminococcus champanellensis	Ruminococcus	1.0494
Bacteroides xylanisolvens	Bacteroides	0.8582
Phocaeicola vulgatus	Phocaeicola	0.7468
Shigella sonnei	Shigella	0.7298
Bacteroides cellulosilyticus	Bacteroides	0.7038
Bacteroides zoogleoformans	Bacteroides	0.6192
Eshraghiella crossota	Eshraghiella	0.5671
Fusicatenibacter saccharivorans	Fusicatenibacter	0.5367
Bacteroides thetaiotaomicron	Bacteroides	0.5261
Alistipes putredinis	Alistipes	0.5220
Limosilactobacillus mucosae	Limosilactobacillus	0.4949
Alistipes finegoldii	Alistipes	0.4339
Streptococcus salivarius	Streptococcus	0.4000
Klebsiella aerogenes	Klebsiella	0.3477
Collinsella intestinalis	Collinsella	0.3470
Blautia luti	Blautia	0.3461
Bacteroides rodentium	Bacteroides	0.2933
Collinsella stercoris	Collinsella	0.2610
Anaerotignum lactatifermentans	Anaerotignum	0.2576
Blautia marasmi	Blautia	0.2402
Butyricicoccus pullicaecorum	Butyricicoccus	0.1966
Anaerostipes rhamnosivorans	Anaerostipes	0.1957
Klebsiella quasipneumoniae	Klebsiella	0.1925
Anaerotignum faecicola	Anaerotignum	0.1491
Streptococcus parasanguinis	Streptococcus	0.1017

Saved public metadata

{
  "run_accession": "SRR27205845",
  "study_accession": "PRJNA1052613",
  "sample_accession": "SAMN38838672",
  "instrument_platform": "OXFORD_NANOPORE",
  "instrument_model": "GridION",
  "library_strategy": "AMPLICON",
  "library_source": "METAGENOMIC",
  "library_selection": "RT-PCR",
  "read_count": "51184",
  "base_count": "75983160",
  "fastq_bytes": "61215191",
  "fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/SRR272/045/SRR27205845/SRR27205845_1.fastq.gz",
  "sample_title": "Post-Sham HY15",
  "scientific_name": "gut metagenome"
}

Public files

SRR27205845_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": "dca15f3002e748ab89f9263b9fcf06b6486176f4edd26a74760b123e841fd0d2",
  "length_window_bp": [
    1200,
    2000
  ],
  "median_read_length": 1492.0,
  "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": 5136,
    "elapsed_seconds": 2.057422043000088,
    "reads_submitted": 20000,
    "reads_after_filter": 20000,
    "adapter_scan": {
      "sampled": 200,
      "matched": 99,
      "fraction": 0.495,
      "adapters_found": {
        "27F": 90,
        "BC_FLANK": 6,
        "1492R_rc": 3
      },
      "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."
}