Corpus 1,273 assessed · 1,174 scored · 643 reproduced ≥75 · 169 flagged ·∅ 74.1/100
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PRJEB6449

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

45/100 · F

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 2000 whole-genome sequencing dataset from Homo sapiens comprises 184 million reads and 9.3 billion bases at low 3× mean coverage with good quality (96.4% Q20, 91.2% Q30), supporting shallow-sequencing population genetics and variant-discovery studies. The low coverage limits de novo assembly but is adequate for reference-guided variant genotyping and population structure inference. Researchers planning population cohorts should recognize that 3× coverage may miss heterozygous variants and phase information.

Data type / assay
WGS
Organism
Homo sapiens
Instrument
Illumina HiSeq 2000
Platform
ILLUMINA
Read type
short-read
Files available
FASTQ (raw reads), submitted files
N numbers (samples, groups)
1 runs
Metrics (value · how obtained)
checksum ok yes reported
total bases 9396805743 reported
total reads 184251093 reported
mean coverage 3 extrapolated
n content pct 0.002 measured
pct q20 bases 96.4 measured
pct q30 bases 91.2 measured
gc content pct 45.9 measured
mean read length 51 measured
mean base quality 35.9 measured
adapter content pct 0 measured
duplication rate pct 94.48 measured
How this grade was computed
Weighted mean of 4 scored metric(s) → 45/100

The F 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 3 extrapolated ×1.2 0%
pct q30 bases 91.2 measured ×1 100%
duplication rate pct 94.48 measured ×0.5 0%
adapter content pct 0 measured ×0.4 100%
QC cost 26 s compute

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