ERX1413367

ENA first seen 2016

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

Illumina HiSeq X Ten WGS of Homo sapiens at 40.8× coverage produces 126.6 billion bases but with severely degraded Q-scores (11.3% Q20, only 8.7% Q30). Data quality severely compromised—likely degraded or chimeric library—making SNP calling unreliable despite deep coverage; caution advised for any downstream analysis.

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)

1 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 126563859807 reported

total reads 419874298 reported

mean coverage 40.8 extrapolated

n content pct 0.112 measured

pct q20 bases 11.3 measured

pct q30 bases 8.7 measured

gc content pct 52.4 measured

mean read length 151 measured

mean base quality 6 measured

adapter content pct 0.14 measured

duplication rate pct 1.59 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 40.8 extrapolated ×1.2 100%

pct q30 bases 8.7 measured ×1 0%

duplication rate pct 1.59 measured ×0.5 100%

adapter content pct 0.14 measured ×0.4 100%

QC cost 32 s compute

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