PRJEB11543

BioProject first seen 2015

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

96/100 · 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 whole-genome sequencing via Illumina MiSeq with 323.4 million reads and 124.3 billion bases at excellent quality (98.5% Q20, 97.7% Q30). The 38.8% GC and 0.035% N-content reflect gram-positive composition. The substantial coverage and quality enable robust variant discovery, pangenome construction, and phylogenetic resolution of this clinically important foodborne pathogen.

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)

520 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 124383430400 reported

total reads 323473577 reported

n content pct 0.035 measured

pct q20 bases 98.5 measured

pct q30 bases 97.7 measured

gc content pct 38.8 measured

mean read length 199.5 measured

mean base quality 37.7 measured

adapter content pct 0 measured

duplication rate pct 12.89 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 96/100

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 97.7 measured ×1 100%

duplication rate pct 12.89 measured ×0.5 85%

adapter content pct 0 measured ×0.4 100%

QC cost 5 s compute

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