SRR13258425

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

55/100 · F

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

What this means

claude:haiku

NextSeq 550 short-read RNA-seq of Hormaphis cornu (aphid) yielding 12.9 million reads at lower quality (Q30=77.1%) across 3.9 billion bases. While base quality is below optimal, the dataset can address gene expression questions in this hemipteran model, particularly for transcript abundance estimation with appropriate quality filtering and normalization.

Data type / assay

bulk-RNA-seq

Organism

Hormaphis cornu

Instrument

NextSeq 550

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 3874440600 reported

total reads 12914802 reported

n content pct 0.001 measured

pct q20 bases 82.6 measured

pct q30 bases 77.1 measured

gc content pct 42.2 measured

mean read length 150 measured

mean base quality 31 measured

adapter content pct 5.96 measured

duplication rate pct 36.02 measured

How this grade was computed

Weighted mean of 4 scored metric(s) → 55/100

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 77.1 measured ×1 36%

mean base quality 31 measured ×0.6 50%

adapter content pct 5.96 measured ×0.4 78%

duplication rate pct 36.02 measured ×0.4 87%

QC cost 19 s compute

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