SRP027355

ENA first seen 2013

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

24/100 · F

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

What this means

claude:haiku

Asclepias syriaca (milkweed) bulk RNA-seq via Genome Analyzer IIx generating 30.2 billion bases (73.4% Q20), supporting gene expression profiling in this plant species; notably lower quality (66.6% Q30) constrains applications requiring high base accuracy.

Data type / assay

bulk-RNA-seq

Organism

Asclepias syriaca

Instrument

Illumina Genome Analyzer IIx

Platform

ILLUMINA

Read type

short-read

Files available

FASTQ (raw reads)

N numbers (samples, groups)

8 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 30189377390 reported

total reads 240073409 reported

n content pct 0.02 measured

pct q20 bases 73.4 measured

pct q30 bases 66.6 measured

gc content pct 54.3 measured

mean read length 101 measured

mean base quality 27 measured

adapter content pct 0.78 measured

duplication rate pct 54.57 measured

How this grade was computed

Weighted mean of 4 scored metric(s) → 24/100

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 66.6 measured ×1 0%

mean base quality 27 measured ×0.6 0%

adapter content pct 0.78 measured ×0.4 100%

duplication rate pct 54.57 measured ×0.4 45%

QC cost 29 s compute

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