Corpus 1,272 assessed · 1,173 scored · 643 reproduced ≥75 · 168 flagged ·∅ 74.1/100
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PRJNA477449

BioProject

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

100/100 · 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 human bulk RNA-seq dataset (Illumina NextSeq 500, ~811M reads / 61 Gb) that earns a clean A: every metric feeding the score was directly measured (evidence_strength = 1.0), so the grade is fully substantiated rather than provisional. The grade is driven chiefly by base-call quality — 93.5% of bases at Q30 and a mean base quality of 34.3 — which means individual base calls are highly reliable and should support sensitive, low-error alignment and expression quantification, while a measured 0% adapter content indicates the reads are clean and need no further trimming before reuse. The one metric worth a researcher's eye is the 22.47% duplication rate; this did not lower the grade and is unremarkable for RNA-seq, where highly expressed transcripts naturally generate duplicate fragments, but for any analysis sensitive to library complexity (e.g., low-input or allele-specific work) it is worth confirming whether duplicates are biological rather than PCR artifacts. Overall these are trustworthy, high-quality data suitable for standard differential-expression and transcript-quantification reuse.

Data type / assay
bulk-RNA-seq
Organism
Homo sapiens
Instrument
NextSeq 500
Platform
ILLUMINA
N numbers (samples, groups)
33 runs
Metrics (value · how obtained)
checksum ok yes reported
total bases 61257522511 reported
total reads 811205017 reported
n content pct 0.006 measured
pct q20 bases 95.6 measured
pct q30 bases 93.5 measured
gc content pct 49.9 measured
mean read length 75.5 measured
mean base quality 34.3 measured
adapter content pct 0 measured
duplication rate pct 22.47 measured
How this grade was computed
Weighted mean of 4 scored metric(s) → 100/100

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 93.5 measured ×1 100%
mean base quality 34.3 measured ×0.6 100%
adapter content pct 0 measured ×0.4 100%
duplication rate pct 22.47 measured ×0.4 100%
QC cost 14 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 mean score 66