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

PRJNA328865

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

94/100 · 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 a bulk RNA-seq dataset from the firefly Photinus pyralis (Illumina HiSeq 2500, 100 bp reads), and it earns a solid grade-A verdict that you can trust at face value: the evidence strength is 1, meaning every contributing metric was directly measured rather than extrapolated, so the reading is definitive, not provisional. The grade is driven upward by excellent sequence quality — 93.7% of bases at Q30 and a mean base quality of 36.4 both scored a perfect 100 — which means base calls are reliable and variant or expression estimates won't be limited by sequencing error. The single largest drag is a duplication rate of 42.96% (scored 71), which pulls the most weight; for RNA-seq this is partly expected from highly expressed transcripts rather than pure PCR artifact, but it does reduce effective library complexity, so for quantitative reuse you should deduplicate cautiously and check whether low-abundance transcripts are well represented. Adapter content (3.79%) is a minor secondary deduction and is trivially handled by standard trimming, leaving this a strong, reusable dataset.

Data type / assay
bulk-RNA-seq
Organism
Photinus pyralis
Instrument
Illumina HiSeq 2500
Platform
ILLUMINA
N numbers (samples, groups)
18 runs
Metrics (value · how obtained)
checksum ok yes reported
total bases 34623365200 reported
total reads 173116826 reported
n content pct 0.072 measured
pct q20 bases 97 measured
pct q30 bases 93.7 measured
gc content pct 42.6 measured
mean read length 100 measured
mean base quality 36.4 measured
adapter content pct 3.79 measured
duplication rate pct 42.96 measured
How this grade was computed
Weighted mean of 4 scored metric(s) → 94/100

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

pct q30 bases 93.7 measured ×1 100%
mean base quality 36.4 measured ×0.6 100%
adapter content pct 3.79 measured ×0.4 90%
duplication rate pct 42.96 measured ×0.4 71%

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 93