SRR900658

SRA first seen 2021

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

85/100 · B

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

What this means

claude:haiku

Butterfly bulk RNA-seq with high duplication despite good per-base quality. Grade B (85/100) shows 69.37% duplication (scored 12/100) as the dominant issue, though Q30 (90%) and quality (35.3 mean) are acceptable. The duplication will cause expression estimates to plateau at high abundance, losing linearity needed for fold-change estimates.

Data type / assay

bulk-RNA-seq

Organism

Melitaea cinxia

Instrument

Illumina HiSeq 2000

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 851300316 reported

total reads 4214358 reported

n content pct 0.006 measured

pct q20 bases 95.5 measured

pct q30 bases 90 measured

gc content pct 30.2 measured

mean read length 101 measured

mean base quality 35.3 measured

adapter content pct 0.15 measured

duplication rate pct 69.37 measured

How this grade was computed

Weighted mean of 4 scored metric(s) → 85/100

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 90 measured ×1 100%

mean base quality 35.3 measured ×0.6 100%

adapter content pct 0.15 measured ×0.4 100%

duplication rate pct 69.37 measured ×0.4 13%

QC cost 41 s compute

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