SRP052697

ENA first seen 2015

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

77/100 · C

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

What this means

claude:haiku

Zea mays bulk RNA-seq (HiSeq 2000); grade C—borderline; needs quality control before use. Q30 of 81.7% means ~18% of bases fall below the stringency threshold, introducing noise into transcript quantification and differential expression estimates. Mean quality (32.7) is also low-normal, suggesting early-cycle or downstream quality degradation.

Data type / assay

bulk-RNA-seq

Organism

Zea mays

Instrument

Illumina HiSeq 2000

Platform

ILLUMINA

Read type

short-read

Files available

FASTQ (raw reads)

N numbers (samples, groups)

32 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 167815539282 reported

total reads 1568369526 reported

n content pct 0.002 measured

pct q20 bases 91.2 measured

pct q30 bases 81.7 measured

gc content pct 49.4 measured

mean read length 107 measured

mean base quality 32.7 measured

adapter content pct 0.3 measured

duplication rate pct 10.91 measured

How this grade was computed

Weighted mean of 4 scored metric(s) → 77/100

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 81.7 measured ×1 59%

mean base quality 32.7 measured ×0.6 78%

adapter content pct 0.3 measured ×0.4 100%

duplication rate pct 10.91 measured ×0.4 100%

QC cost 34 s compute

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