Corpus 1,275 assessed · 1,176 scored · 644 reproduced ≥75 · 170 flagged ·∅ 74.1/100
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PRJNA475142

BioProject first seen 2020

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

87/100 · B

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

What this means
claude:haiku

Escherichia coli whole-genome sequencing on Illumina Genome Analyzer IIx produces 119 billion bases (590 million reads) with extrapolated coverage of ~25,000x and good quality (82% Q30 bases). This ultra-deep bacterial genome dataset enables discovery of extremely rare variants, assessment of mutation rates, and detection of sub-clonal populations in laboratory or clinical strains.

Data type / assay
WGS
Organism
Escherichia coli
Instrument
Illumina Genome Analyzer IIx
Platform
ILLUMINA
Read type
short-read
Files available
FASTQ (raw reads)
N numbers (samples, groups)
292 runs
Metrics (value · how obtained)
checksum ok yes reported
total bases 119397277103 reported
total reads 590084872 reported
mean coverage 25955.9 extrapolated
n content pct 0.036 measured
pct q20 bases 90 measured
pct q30 bases 82 measured
gc content pct 51.2 measured
mean read length 101 measured
mean base quality 33.1 measured
adapter content pct 0.11 measured
duplication rate pct 3.33 measured
How this grade was computed
Weighted mean of 4 scored metric(s) → 87/100

The B 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 25955.9 extrapolated ×1.2 100%
pct q30 bases 82 measured ×1 60%
duplication rate pct 3.33 measured ×0.5 100%
adapter content pct 0.11 measured ×0.4 100%
QC cost 30 s compute

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