Corpus 1,272 assessed · 1,173 scored · 643 reproduced ≥75 · 168 flagged ·∅ 74.1/100
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PRJNA248792

BioProject first seen 2016

Provenance — who produced it, who reused it

Linked to 10 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

10 further papers cite this accession but reuse could not be confirmed.

Deep data QC

95/100 · A

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

What this means
claude:haiku

WGS (Escherichia coli). A grade (95/100), but evidence_strength is low (0.61). Excellent base quality (Q30=96.1%) supports variant analysis, but reported coverage (10M×) is extrapolated and implausible; verify actual depth-of-coverage post-mapping to confirm usability.

Data type / assay
WGS
Organism
Escherichia coli
Instrument
Illumina HiSeq 2500
Platform
ILLUMINA
N numbers (samples, groups)
110,388 runs
Metrics (value · how obtained)
checksum ok yes reported
total bases 46295609667948 reported
total reads 238958174762 reported
mean coverage 10064263 extrapolated
n content pct 0.003 measured
pct q20 bases 97.9 measured
pct q30 bases 96.1 measured
gc content pct 51.9 measured
mean read length 100.3 measured
mean base quality 38 measured
adapter content pct 0 measured
duplication rate pct 18.59 measured
How this grade was computed
Weighted mean of 4 scored metric(s) → 95/100

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

mean coverage 10064263 extrapolated ×1.2 100%
pct q30 bases 96.1 measured ×1 100%
duplication rate pct 18.59 measured ×0.5 67%
adapter content pct 0 measured ×0.4 100%
QC cost 15 s compute

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

Scientific quality

Based on hands-on reproduction of the papers that use this dataset. A reproducible paper that stands on this data is positive evidence; a flagged one is a prompt to look closer — never a verdict on the dataset itself without the evidence.

1 studies use it 1 reproduced mean score 100