Corpus 1,284 assessed · 1,185 scored · 647 reproduced ≥75 · 173 flagged ·∅ 73.9/100
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SRR3123380

SRA first seen 2021

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

37/100 · F

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

What this means
claude:haiku

Short-read RNA-seq on the HiSeq 2500 from Apis mellifera provides 20 million reads with moderate Q30 quality (57.9%) sufficient for abundance-level transcriptomics across developmental or behavioral contexts. The honeybee dataset supports gene expression profiling in this social insect. Lower Q30 rate compared to HiSeq 2000 runs suggests possible sequencing cycle degradation; filter low-quality bases before sensitive variant work.

Data type / assay
bulk-RNA-seq
Organism
Apis mellifera
Instrument
Illumina HiSeq 2500
Platform
ILLUMINA
Read type
short-read
Files available
FASTQ (raw reads)
N numbers (samples, groups)
1 runs
Metrics (value · how obtained)
checksum ok yes reported
total bases 4067537138 reported
total reads 20137877 reported
n content pct 0.004 measured
pct q20 bases 89.2 measured
pct q30 bases 57.9 measured
gc content pct 39.4 measured
mean read length 101 measured
mean base quality 28.9 measured
adapter content pct 0 measured
duplication rate pct 18.01 measured
How this grade was computed
Weighted mean of 4 scored metric(s) → 37/100

The F 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 57.9 measured ×1 0%
mean base quality 28.9 measured ×0.6 15%
adapter content pct 0 measured ×0.4 100%
duplication rate pct 18.01 measured ×0.4 100%
QC cost 35 s compute

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