SRR504904

ENA first seen 2017

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

74/100 · C

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

What this means

claude:haiku

Giant panda WGS with C-grade quality limited by Q30 at 80.1%, below the >85% threshold preferred for variant calling. Despite excellent duplication control (5.51%), the lower Q30 increases false-positive SNP rate and makes this risky for sensitive genetic applications.

Data type / assay

WGS

Organism

Ailuropoda melanoleuca

Instrument

Illumina HiSeq 2000

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 11615185400 reported

total reads 58075927 reported

n content pct 0.016 measured

pct q20 bases 88.1 measured

pct q30 bases 80.1 measured

gc content pct 42.6 measured

mean read length 100 measured

mean base quality 31.4 measured

adapter content pct 0.01 measured

duplication rate pct 5.51 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 74/100

The C 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.

pct q30 bases 80.1 measured ×1 51%

duplication rate pct 5.51 measured ×0.5 100%

adapter content pct 0.01 measured ×0.4 100%

QC cost 30 s compute

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