Corpus 1,273 assessed · 1,174 scored · 643 reproduced ≥75 · 169 flagged ·∅ 74.1/100
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SRR1979118

ENA first seen 2017

Provenance — who produced it, who reused it

Linked to 3 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

3 further papers cite this accession but reuse could not be confirmed.

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

SRR1979118 is a bulk RNA-seq library from tea plant (Camellia sinensis) sequenced on the Illumina HiSeq 2000, and on the metrics actually measured it earns a clean A: this is high-quality, reusable data. The grade is driven up by excellent base quality (Q30 = 92.3%, mean Phred 36.2) and a complete absence of adapter contamination (0%), meaning reads can be trusted largely as-is for alignment and expression quantification with minimal trimming, while the moderate 20.8% duplication rate is entirely normal for RNA-seq — it reflects expression of highly transcribed genes rather than a library-complexity problem — and so did not penalize the score. One caveat for transparency: the evidence_strength is 1, but the foundational counts (total_reads ~133M, total_bases) are reported from the archive rather than independently measured, so the headline throughput should be treated as provisional until a measured pass confirms it; the per-base quality metrics that most matter for variant or expression work, however, were genuinely measured and are solid. In short, the sequence quality is strong enough to reuse with confidence, with the only soft spot being that read/base totals rest on reported rather than verified figures.

Data type / assay
bulk-RNA-seq
Organism
Camellia sinensis var. sinensis
Instrument
Illumina HiSeq 2000
Platform
ILLUMINA
N numbers (samples, groups)
1 runs
Metrics (value · how obtained)
checksum ok yes reported
total bases 23964381360 reported
total reads 133135452 reported
n content pct 0.001 measured
pct q20 bases 97.7 measured
pct q30 bases 92.3 measured
gc content pct 45.5 measured
mean read length 90 measured
mean base quality 36.2 measured
adapter content pct 0 measured
duplication rate pct 20.83 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 92.3 measured ×1 100%
mean base quality 36.2 measured ×0.6 100%
adapter content pct 0 measured ×0.4 100%
duplication rate pct 20.83 measured ×0.4 100%
QC cost 17 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 91