PRJNA274890

BioProject first seen 2017

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

73/100 · C

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

What this means

claude:haiku

WGS with catastrophic duplicate enrichment (70.51%, measured) unrecoverable by standard deduplication, rendering dataset unsuitable for variant discovery. Duplication dominates despite acceptable Q30 bases (90.5%, measured); blocks most reuse.

Data type / assay

WGS

Organism

Brassica napus

Instrument

Illumina Genome Analyzer II

Platform

ILLUMINA

Read type

short-read

Files available

FASTQ (raw reads)

N numbers (samples, groups)

126 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 236791170188 reported

total reads 1168394857 reported

n content pct 0.005 measured

pct q20 bases 95.6 measured

pct q30 bases 90.5 measured

gc content pct 41.7 measured

mean read length 100 measured

mean base quality 35.6 measured

adapter content pct 1.24 measured

duplication rate pct 70.51 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 73/100

The C 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 90.5 measured ×1 100%

duplication rate pct 70.51 measured ×0.5 0%

adapter content pct 1.24 measured ×0.4 98%

QC cost 1 s compute

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