SRP035338

ENA first seen 2016

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

83/100 · B

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

What this means

claude:haiku

Escherichia coli RNA-seq, Illumina GA. Paradoxical: Q30 97.3% and base quality 38.2 (both measured, excellent) but 87.18% duplication (0/100 score, weight 0.4). High duplication from polymerase bias in 50bp reads; less critical for RNA-seq. Usable for quantification if normalized for duplication.

Data type / assay

bulk-RNA-seq

Organism

Escherichia coli str. K-12 substr. MG1655

Instrument

Illumina Genome Analyzer II

Platform

ILLUMINA

Read type

short-read

Files available

FASTQ (raw reads)

N numbers (samples, groups)

2 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 4599420750 reported

total reads 91988415 reported

n content pct 0.011 measured

pct q20 bases 99.2 measured

pct q30 bases 97.3 measured

gc content pct 54.5 measured

mean read length 50 measured

mean base quality 38.2 measured

adapter content pct 0 measured

duplication rate pct 87.18 measured

How this grade was computed

Weighted mean of 4 scored metric(s) → 83/100

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 97.3 measured ×1 100%

mean base quality 38.2 measured ×0.6 100%

adapter content pct 0 measured ×0.4 100%

duplication rate pct 87.18 measured ×0.4 0%

QC cost 41 s compute

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