Corpus 1,276 assessed · 1,177 scored · 644 reproduced ≥75 · 170 flagged ·∅ 74/100
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PRJNA259224

BioProject first seen 2015

Provenance — who produced it, who reused it

Linked to 1 papers in the literature. Roles are inferred factual signals (who deposited the data vs who reused it), with counts — never a judgement about any author.

Reused by

1 further paper cites this accession but reuse could not be confirmed.

Deep data QC

100/100 · A

Standardized, field-standard QC computed by touching the data — every metric states how it was obtained · evidence: measured

What this means
claude:haiku

Human gut microbiome amplicon sequencing achieves perfect A-grade QC (100/100) with zero adapter contamination and acceptable base quality (Q30=90.5%). Duplication rate of 73.98% is extremely high and reflects amplicon assay design (constrained target diversity), not sequencing failure—expect limited ability to discriminate rare variants and OTU abundance estimates biased toward dominant taxa. Suitable for detection of major community members; reuse requires acknowledgment of duplication limitations.

Data type / assay
amplicon
Organism
human gut metagenome
Instrument
Illumina MiSeq
Platform
ILLUMINA
Read type
short-read
Files available
FASTQ (raw reads)
N numbers (samples, groups)
122 runs
Metrics (value · how obtained)
checksum ok yes reported
total bases 1926002050 reported
total reads 5502863 reported
n content pct 0.23 measured
pct q20 bases 92.4 measured
pct q30 bases 90.5 measured
gc content pct 50.3 measured
mean read length 175 measured
mean base quality 35.3 measured
adapter content pct 0 measured
duplication rate pct 73.98 measured
How this grade was computed
Weighted mean of 2 scored metric(s) → 100/100

The A grade is a transparent weighted average. Each metric below scored from 0–100% against the published amplicon thresholds, weighted by its importance; nothing is hidden or subjective.

pct q30 bases 90.5 measured ×1 100%
adapter content pct 0 measured ×0.5 100%
QC cost 1 s compute

measured = computed from the data · extrapolated/reported = derived or from the repository · dq-1.0