PRJEB5481

BioProject first seen 2014

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

90/100 · A

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

What this means

claude:haiku

Listeria monocytogenes WGS with very good measured quality (A grade, 90/100). Q30 at 97.2% and zero adapter contamination are excellent. Duplication at 20.57% is the limiting factor, slightly elevating artifact risk, but acceptable for genotyping and assembly with routine duplicate-aware filtering.

Data type / assay

WGS

Organism

Listeria monocytogenes

Instrument

Illumina MiSeq

Platform

ILLUMINA

Read type

short-read

Files available

FASTQ (raw reads), submitted files

N numbers (samples, groups)

21 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 5276746434 reported

total reads 21963633 reported

n content pct 0.019 measured

pct q20 bases 97.8 measured

pct q30 bases 97.2 measured

gc content pct 38.9 measured

mean read length 146.6 measured

mean base quality 37.4 measured

adapter content pct 0 measured

duplication rate pct 20.57 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 90/100

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.

pct q30 bases 97.2 measured ×1 100%

duplication rate pct 20.57 measured ×0.5 61%

adapter content pct 0 measured ×0.4 100%

QC cost 25 s compute

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