PRJNA151855

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

73/100 · C

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

What this means

claude:haiku

Rice bulk RNA-seq. Marginal reusability (grade C); two competing defects: mean base quality of 30 (scored 33/100) and extreme duplication at 51.61% (scored 52/100), suggesting PCR artifacts or read-complexity collapse. Q30 perfection (100%) is undermined by the low base quality floor and duplication load.

Data type / assay

bulk-RNA-seq

Organism

Oryza sativa Japonica Group

Instrument

Illumina Genome Analyzer II

Platform

ILLUMINA

Read type

short-read

Files available

FASTQ (raw reads)

N numbers (samples, groups)

21 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 7398876336 reported

total reads 97353636 reported

n content pct 0.075 measured

pct q20 bases 100 measured

pct q30 bases 100 measured

gc content pct 56.6 measured

mean read length 76 measured

mean base quality 30 measured

adapter content pct 4.4 measured

duplication rate pct 51.61 measured

How this grade was computed

Weighted mean of 4 scored metric(s) → 73/100

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 100 measured ×1 100%

mean base quality 30 measured ×0.6 33%

adapter content pct 4.4 measured ×0.4 87%

duplication rate pct 51.61 measured ×0.4 52%

QC cost 26 s compute

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