SRX674044

ENA first seen 2015

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

89/100 · B

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

What this means

claude:haiku

Illumina RNA-seq from Spinacia oleracea with below-average QC (89/100, B grade). Reduced Q30 (85.4%, scored 77/100, weight 1.0) and compromised base quality (Q-score: 33.6, scored 93/100) significantly limit transcript quantification confidence. Suitable only for exploratory expression work with aggressive quality-based read filtering.

Data type / assay

bulk-RNA-seq

Organism

Spinacia oleracea

Instrument

Illumina HiSeq 2000

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 10507026000 reported

total reads 105070260 reported

n content pct 1.71 measured

pct q20 bases 89 measured

pct q30 bases 85.4 measured

gc content pct 45.7 measured

mean read length 50 measured

mean base quality 33.6 measured

adapter content pct 0.06 measured

duplication rate pct 27.64 measured

How this grade was computed

Weighted mean of 4 scored metric(s) → 89/100

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 85.4 measured ×1 77%

mean base quality 33.6 measured ×0.6 93%

adapter content pct 0.06 measured ×0.4 100%

duplication rate pct 27.64 measured ×0.4 100%

QC cost 34 s compute

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