SRR3123389

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

38/100 · F

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

What this means

claude:haiku

HiSeq 2500 RNA-seq from Apis mellifera (16.5M reads, 3.3 billion bases, 42.5% GC, 60.3% ≥Q30) with suboptimal base quality (60.3% ≥Q30 despite 89.9% ≥Q20) indicates quality control issues. The dataset approximates expression for highly expressed genes only.

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 3331631940 reported

total reads 16494728 reported

n content pct 0.005 measured

pct q20 bases 89.9 measured

pct q30 bases 60.3 measured

gc content pct 42.5 measured

mean read length 101 measured

mean base quality 29.2 measured

adapter content pct 0 measured

duplication rate pct 21.36 measured

How this grade was computed

Weighted mean of 4 scored metric(s) → 38/100

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 60.3 measured ×1 0%

mean base quality 29.2 measured ×0.6 20%

adapter content pct 0 measured ×0.4 100%

duplication rate pct 21.36 measured ×0.4 100%

QC cost 13 s compute

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