PRJNA383416

BioProject first seen 2020

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

78/100 · C

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

What this means

claude:haiku

Short-read RNA-seq of maize (NextSeq 500). Moderate grade driven by lower Q30 bases (83.2%, score 66/100) and mean quality (32.1, score 68/100). Adapter and duplication acceptable. All metrics measured. Borderline for stringent expression applications.

Data type / assay

bulk-RNA-seq

Organism

Zea mays

Instrument

NextSeq 500

Platform

ILLUMINA

Read type

short-read

Files available

FASTQ (raw reads)

N numbers (samples, groups)

1,960 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 933088050760 reported

total reads 10770412192 reported

n content pct 0.002 measured

pct q20 bases 86.4 measured

pct q30 bases 83.2 measured

gc content pct 41.1 measured

mean read length 90 measured

mean base quality 32.1 measured

adapter content pct 0.15 measured

duplication rate pct 18.2 measured

How this grade was computed

Weighted mean of 4 scored metric(s) → 78/100

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 83.2 measured ×1 66%

mean base quality 32.1 measured ×0.6 68%

adapter content pct 0.15 measured ×0.4 100%

duplication rate pct 18.2 measured ×0.4 100%

QC cost 40 s compute

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