Corpus 1,272 assessed · 1,173 scored · 643 reproduced ≥75 · 168 flagged ·∅ 74.1/100
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PRJEB13208

BioProject first seen 2018

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

68/100 · 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 HiSeq X Ten whole-genome sequencing dataset from Homo sapiens provides 1.76 billion reads and 530 billion bases with claimed 171× mean coverage, supporting haplotype phasing and structural-variant discovery. However, the anomalous 8.6% Q20 and 0.5% Q30 metrics are highly inconsistent with standard Illumina protocols and require independent verification before clinical or research use. Researchers should obtain raw sequencing metrics and consider this a suspect dataset until quality can be independently confirmed.

Data type / assay
WGS
Organism
Homo sapiens
Instrument
HiSeq X Ten
Platform
ILLUMINA
Read type
short-read
Files available
FASTQ (raw reads), BAM/CRAM (aligned)
N numbers (samples, groups)
4 runs
Metrics (value · how obtained)
checksum ok yes reported
total bases 530211498024 reported
total reads 1760901758 reported
mean coverage 171 extrapolated
n content pct 0.055 measured
pct q20 bases 8.6 measured
pct q30 bases 0.5 measured
gc content pct 49.5 measured
mean read length 151 measured
mean base quality 4.7 measured
adapter content pct 0.07 measured
duplication rate pct 1.09 measured
How this grade was computed
Weighted mean of 4 scored metric(s) → 68/100

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 171 extrapolated ×1.2 100%
pct q30 bases 0.5 measured ×1 0%
duplication rate pct 1.09 measured ×0.5 100%
adapter content pct 0.07 measured ×0.4 100%
QC cost 23 s compute

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