SRX857684

ENA first seen 2015

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

72/100 · C

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

What this means

claude:haiku

Short-read WES (human, HiSeq 2500); grade-C (score=72/100) with measured duplication (49.46%) severely penalized (scored zero) and moderate Q30 (82.8%, scored 64/100). Extrapolated high target coverage (194.5×) rescues the score numerically, but duplication inflates PCR-artifact noise—evidence_strength=0.61 warrants a measured re-pass before confidently calling structural variants.

Data type / assay

WES

Organism

Homo sapiens

Instrument

Illumina HiSeq 2500

Platform

ILLUMINA

Read type

short-read

Files available

FASTQ (raw reads)

N numbers (samples, groups)

1 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 12059608768 reported

total reads 86150493 reported

n content pct 0.012 measured

pct q20 bases 90.6 measured

pct q30 bases 82.8 measured

gc content pct 53.7 measured

mean read length 76 measured

mean base quality 33.3 measured

adapter content pct 0.92 measured

duplication rate pct 49.46 measured

mean target coverage 194.5 extrapolated

How this grade was computed

Weighted mean of 4 scored metric(s) → 72/100

The C grade is a transparent weighted average. Each metric below scored from 0–100% against the published WES thresholds, weighted by its importance; nothing is hidden or subjective.

mean target coverage 194.5 extrapolated ×1.2 100%

pct q30 bases 82.8 measured ×1 64%

duplication rate pct 49.46 measured ×0.5 0%

adapter content pct 0.92 measured ×0.4 100%

QC cost 6 s compute

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