SRP041373

ENA first seen 2014

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

79/100 · C

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

What this means

claude:haiku

Solanum lycopersicum bulk RNA-seq with Q30 of 79.7% (well below 90%+ standard) as primary grade constraint, compounded by elevated duplication (16.7%); legacy 454 sequencing data usable for coarse expression profiles but not reliable for SNP calling or isoform-level quantification.

Data type / assay

bulk-RNA-seq

Organism

Solanum lycopersicum

Instrument

454 GS FLX Titanium

Platform

ILLUMINA

Read type

short-read

Files available

FASTQ (raw reads)

N numbers (samples, groups)

3 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 2049559013 reported

total reads 20062285 reported

n content pct 0.023 measured

pct q20 bases 92.5 measured

pct q30 bases 79.7 measured

gc content pct 40.5 measured

mean read length 393.5 measured

mean base quality 34.7 measured

adapter content pct 0 measured

duplication rate pct 16.72 measured

How this grade was computed

Weighted mean of 4 scored metric(s) → 79/100

The C 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 79.7 measured ×1 49%

mean base quality 34.7 measured ×0.6 100%

adapter content pct 0 measured ×0.4 100%

duplication rate pct 16.72 measured ×0.4 100%

QC cost 42 s compute

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