SRP023166

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

49/100 · F

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

What this means

claude:haiku

Vanilla planifolia (vanilla orchid) RNA-seq via 454 GS FLX Titanium generating 369 million bases (86.3% Q20), capturing expressed genes for this commercially important plant; 454 technology and lower quality (67.3% Q30) limit complex transcript assembly.

Data type / assay

bulk-RNA-seq

Organism

Vanilla planifolia

Instrument

454 GS FLX Titanium

Platform

LS454

Files available

FASTQ (raw reads)

N numbers (samples, groups)

1 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 369432973 reported

total reads 655799 reported

n content pct 0.055 measured

pct q20 bases 86.3 measured

pct q30 bases 67.3 measured

gc content pct 44.1 measured

mean read length 329.6 measured

mean base quality 31.7 measured

adapter content pct 0 measured

duplication rate pct 18.69 measured

How this grade was computed

Weighted mean of 4 scored metric(s) → 49/100

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 67.3 measured ×1 0%

mean base quality 31.7 measured ×0.6 62%

adapter content pct 0 measured ×0.4 100%

duplication rate pct 18.69 measured ×0.4 100%

QC cost 27 s compute

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