SRR042445

ENA first seen 2012

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

20/100 · 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 bulk RNA-seq from mouse. Grade F; catastrophic failures in Q30 (56.4%) and duplication rate (91.44%), indicating severe PCR over-amplification or library prep failure on Genome Analyzer II. Mean read length 30 bp further constrains utility. Not suitable for expression analysis even with cleanup; reuse not recommended.

Data type / assay

bulk-RNA-seq

Organism

Mus musculus

Instrument

Illumina Genome Analyzer II

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 148715340 reported

total reads 4957178 reported

n content pct 0.099 measured

pct q20 bases 70.8 measured

pct q30 bases 56.4 measured

gc content pct 43.9 measured

mean read length 30 measured

mean base quality 28.7 measured

adapter content pct 0 measured

duplication rate pct 91.44 measured

How this grade was computed

Weighted mean of 4 scored metric(s) → 20/100

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 56.4 measured ×1 0%

mean base quality 28.7 measured ×0.6 12%

adapter content pct 0 measured ×0.4 100%

duplication rate pct 91.44 measured ×0.4 0%

QC cost 36 s compute

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