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

SRX326767

SRA

Provenance — who produced it, who reused it

Linked to 0 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.

No linked papers found in the corpus yet.

Deep data QC

91/100 · A

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

What this means
claude:opus

This is whole-genome shotgun sequencing of the Asian longhorned beetle (Anoplophora glabripennis) on Illumina HiSeq 2000, and on balance it earns its A: base quality is excellent, with 91.1% of bases at Q30 and a mean base quality of ~36, meaning the per-base calls are reliable enough for confident variant detection, while adapter contamination (0.05%) and N-content (0.044%) are negligible. The single factor holding the score back is a duplication rate of 18.77%, which scored only 66/100; PCR/optical duplicates inflate apparent coverage and should be marked and removed before variant calling or assembly, since unaddressed they can bias allele-frequency and depth estimates. The 38.5% GC and uniform 101 bp reads are consistent with a clean insect WGS library, so the data are well suited for reuse in genome assembly or resequencing once deduplication is applied. One caveat on confidence: the quality-relevant metrics here (Q30, adapter, duplication) are genuinely measured, but the foundational throughput figures (total_bases, total_reads, checksum) are only reported rather than independently verified, so coverage-dependent claims rest partly on metadata you may want to confirm against the actual reads.

Data type / assay
WGS
Organism
Anoplophora glabripennis
Instrument
Illumina HiSeq 2000
Platform
ILLUMINA
N numbers (samples, groups)
1 runs
Metrics (value · how obtained)
checksum ok yes reported
total bases 8766532148 reported
total reads 43398674 reported
n content pct 0.044 measured
pct q20 bases 96.1 measured
pct q30 bases 91.1 measured
gc content pct 38.5 measured
mean read length 101 measured
mean base quality 35.9 measured
adapter content pct 0.05 measured
duplication rate pct 18.77 measured
How this grade was computed
Weighted mean of 3 scored metric(s) → 91/100

The A 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 91.1 measured ×1 100%
duplication rate pct 18.77 measured ×0.5 66%
adapter content pct 0.05 measured ×0.4 100%
QC cost 12 s compute

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

Scientific quality

Based on hands-on reproduction of the papers that use this dataset. A reproducible paper that stands on this data is positive evidence; a flagged one is a prompt to look closer — never a verdict on the dataset itself without the evidence.

1 studies use it 1 reproduced mean score 84