Corpus 1,277 assessed · 1,178 scored · 644 reproduced ≥75 · 170 flagged ·∅ 74/100
← Dataset search

PRJNA412963

BioProject first seen 2018

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

84/100 · B

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

What this means
claude:haiku

This bulk RNA-seq dataset from Brassica rapa uses Illumina HiSeq 4000 short-read sequencing, yielding ~10 billion bases across 430 million reads with exceptional quality (98% Q30 bases). The high sequence quality and substantial depth support robust transcript quantification and differential expression analysis in this crop species; these metrics are well-suited for both splice variant detection and non-model plant genome annotation.

Data type / assay
bulk-RNA-seq
Organism
Brassica rapa
Instrument
Illumina HiSeq 4000
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 9977007144 reported
total reads 429990248 reported
n content pct 0 measured
pct q20 bases 99.7 measured
pct q30 bases 98 measured
gc content pct 47.9 measured
mean read length 23.7 measured
mean base quality 39.1 measured
adapter content pct 0.01 measured
duplication rate pct 73.32 measured
How this grade was computed
Weighted mean of 4 scored metric(s) → 84/100

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 98 measured ×1 100%
mean base quality 39.1 measured ×0.6 100%
adapter content pct 0.01 measured ×0.4 100%
duplication rate pct 73.32 measured ×0.4 4%
QC cost 11 s compute

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