Corpus 1,272 assessed · 1,173 scored · 643 reproduced ≥75 · 168 flagged ·∅ 74.1/100
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PRJEB39316

BioProject first seen 2021

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

62/100 · D

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

What this means
claude:haiku

This Illumina HiSeq 2500 whole-genome sequencing dataset from Homo sapiens comprises 675 million reads and 44.6 billion bases at 14.4× mean coverage with reported 100% Q20 and 99.8% Q30 metrics, providing deep short-read coverage for variant discovery. The perfect Q20 metric is extraordinary and requires independent verification; if accurate, the dataset represents exceptional library quality. Researchers can leverage this for population genetics and disease-association studies, assuming quality claims withstand validation.

Data type / assay
WGS
Organism
Homo sapiens
Instrument
Illumina HiSeq 2500
Platform
ILLUMINA
Read type
short-read
Files available
FASTQ (raw reads), BAM/CRAM (aligned)
N numbers (samples, groups)
22 runs
Metrics (value · how obtained)
checksum ok yes reported
total bases 44626103901 reported
total reads 675671309 reported
mean coverage 14.4 extrapolated
n content pct 0 measured
pct q20 bases 100 measured
pct q30 bases 99.8 measured
gc content pct 42.8 measured
mean read length 53 measured
mean base quality 59.8 measured
adapter content pct 0 measured
duplication rate pct 29.87 measured
How this grade was computed
Weighted mean of 4 scored metric(s) → 62/100

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 14.4 extrapolated ×1.2 29%
pct q30 bases 99.8 measured ×1 100%
duplication rate pct 29.87 measured ×0.5 32%
adapter content pct 0 measured ×0.4 100%
QC cost 23 s compute

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