Corpus 1,275 assessed · 1,176 scored · 644 reproduced ≥75 · 170 flagged ·∅ 74.1/100
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PRJNA273284

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

88/100 · B

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

What this means
claude:haiku

Hybrid short and long-read whole-genome sequencing of Shigella boydii (enteric pathogen) via MiSeq with ~125M reads and 94.8% Q30, combining read lengths for improved assembly. This dataset enables comprehensive genomic characterization of a diarrheal pathogen relevant to virulence and antibiotic resistance studies. The hybrid approach and high read count support telomere-to-telomere genome reconstruction with confident variant calling.

Data type / assay
WGS
Organism
Shigella boydii
Instrument
Illumina MiSeq
Platform
ILLUMINA
Read type
hybrid (short+long)
Files available
FASTQ (raw reads)
N numbers (samples, groups)
126 runs
Metrics (value · how obtained)
checksum ok yes reported
total bases 55114084788 reported
total reads 125280843 reported
n content pct 0.163 measured
pct q20 bases 96.3 measured
pct q30 bases 94.8 measured
gc content pct 50.8 measured
mean read length 134.6 measured
mean base quality 36.4 measured
adapter content pct 0 measured
duplication rate pct 22.53 measured
How this grade was computed
Weighted mean of 3 scored metric(s) → 88/100

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.

pct q30 bases 94.8 measured ×1 100%
duplication rate pct 22.53 measured ×0.5 55%
adapter content pct 0 measured ×0.4 100%
QC cost 12 s compute

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