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

SRR3652860

ENA 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

82/100 · B

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 small-RNA (miRNA-Seq) library from mouse, with read lengths (~50 bp) and quality already typical of microRNA profiling. Overall it is a solid, fully measured assessment (evidence_strength=1) earning a B: base quality is excellent — pct_q30 of 89.3% and a mean base quality of 34 mean the reads are accurate enough to trust for confident miRNA quantification, and adapter content scored a clean 0%, which is reassuring for short-insert libraries where adapter read-through is a common failure. The grade was held back almost entirely by an 86.67% duplication rate, which zeroed out that metric; however, in a miRNA-Seq context very high duplication is largely expected and partly biological (a small repertoire of highly abundant mature miRNAs sequenced deeply), so it should be interpreted as a caution about library complexity rather than disqualifying contamination. For reuse, these data are dependable for relative miRNA abundance and differential-expression analysis, but the duplication level means you should rely on UMIs or collapsed-read counting if available and be cautious treating raw read depth as independent observations.

Data type / assay
bulk-RNA-seq
Organism
Mus musculus
Instrument
Illumina HiSeq 2000
Platform
ILLUMINA
N numbers (samples, groups)
1 runs
Metrics (value · how obtained)
checksum ok yes reported
total bases 618880050 reported
total reads 12377601 reported
n content pct 0.032 measured
pct q20 bases 92.9 measured
pct q30 bases 89.3 measured
gc content pct 45.5 measured
mean read length 50 measured
mean base quality 34 measured
adapter content pct 0 measured
duplication rate pct 86.67 measured
How this grade was computed
Weighted mean of 4 scored metric(s) → 82/100

The B 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 89.3 measured ×1 97%
mean base quality 34 measured ×0.6 100%
adapter content pct 0 measured ×0.4 100%
duplication rate pct 86.67 measured ×0.4 0%
QC cost 20 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 89