Corpus 1,272 assessed · 1,173 scored · 643 reproduced ≥75 · 168 flagged ·∅ 74.1/100
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PRJNA279654

BioProject first seen 2016

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

68/100 · D

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

What this means
claude:haiku

Hybrid short and long-read whole-genome sequencing of Escherichia coli via MiSeq with ~4.3M reads, but showing zero Q20 and Q30 bases, indicating potential data quality issues or unconventional quality encoding. This dataset combines different read lengths for genome assembly but the zero-quality metrics require clarification before confident reuse. Researchers should contact data providers to verify quality metrics or examine raw sequencing data directly.

Data type / assay
WGS
Organism
Escherichia coli
Instrument
Illumina MiSeq
Platform
ILLUMINA
Read type
hybrid (short+long)
Files available
FASTQ (raw reads)
N numbers (samples, groups)
3 runs
Metrics (value · how obtained)
checksum ok yes reported
total bases 4028517110 reported
total reads 4326964 reported
mean coverage 875.8 extrapolated
n content pct 0 measured
pct q20 bases 0 measured
pct q30 bases 0 measured
gc content pct 47.9 measured
mean read length 3765.2 measured
mean base quality 7.5 measured
adapter content pct 0.01 measured
duplication rate pct 0.03 measured
How this grade was computed
Weighted mean of 4 scored metric(s) → 68/100

The D 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 875.8 extrapolated ×1.2 100%
pct q30 bases 0 measured ×1 0%
duplication rate pct 0.03 measured ×0.5 100%
adapter content pct 0.01 measured ×0.4 100%
QC cost 18 s compute

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